Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/p/pyranges/pyranges_0.0.85+ds-1_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/pyranges-0.0.85+ds-1th8bxj9p/pyranges_0.0.85+ds-1_all.buildinfo Get source package info: pyranges=0.0.85+ds-1 Source URL: http://snapshot.notset.fr/mr/package/pyranges/0.0.85+ds-1/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.69-11.1 automake=1:1.16.2-4 autopoint=0.19.8.1-10 autotools-dev=20180224.1 base-files=11 base-passwd=3.5.48 bash=5.1~rc1-2 bedtools=2.29.2+dfsg-3 binutils=2.35.1-2 binutils-common=2.35.1-2 binutils-x86-64-linux-gnu=2.35.1-2 bsdextrautils=2.36-3+b2 bsdutils=1:2.36-3+b1 build-essential=12.8 bzip2=1.0.8-4 coreutils=8.32-4+b1 cpp=4:10.2.0-1 cpp-10=10.2.0-16 cython3=0.29.21-3 dash=0.5.10.2-7 debconf=1.5.74 debhelper=13.2.1 debianutils=4.11.2 dh-autoreconf=19 dh-python=4.20200925 dh-strip-nondeterminism=1.9.0-1 diffutils=1:3.7-3 dpkg=1.20.5 dpkg-dev=1.20.5 dwz=0.13-5 file=1:5.38-5 findutils=4.7.0+git20201010-2 g++=4:10.2.0-1 g++-10=10.2.0-16 gcc=4:10.2.0-1 gcc-10=10.2.0-16 gcc-10-base=10.2.0-16 gettext=0.19.8.1-10 gettext-base=0.19.8.1-10 grep=3.4-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 init-system-helpers=1.58 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-8 libarchive-zip-perl=1.68-1 libasan6=10.2.0-16 libatomic1=10.2.0-16 libattr1=1:2.4.48-5 libaudit-common=1:2.8.5-3.1 libaudit1=1:2.8.5-3.1 libbinutils=2.35.1-2 libblas3=3.9.0-3 libblkid1=2.36-3+b1 libbrotli1=1.0.9-2+b1 libbz2-1.0=1.0.8-4 libc-bin=2.31-4 libc-dev-bin=2.31-4 libc6=2.31-4 libc6-dev=2.31-4 libcap-ng0=0.7.9-2.2 libcc1-0=10.2.0-16 libcom-err2=1.45.6-1 libcroco3=0.6.13-1 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libctf-nobfd0=2.35.1-2 libctf0=2.35.1-2 libcurl3-gnutls=7.72.0-1 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.255 libdebhelper-perl=13.2.1 libdeflate0=1.6-1 libdpkg-perl=1.20.5 libelf1=0.181-1 libexpat1=2.2.10-1 libffi7=3.3-4 libfile-stripnondeterminism-perl=1.9.0-1 libgcc-10-dev=10.2.0-16 libgcc-s1=10.2.0-16 libgcrypt20=1.8.7-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libgfortran5=10.2.0-16 libglib2.0-0=2.66.2-1 libgmp10=2:6.2.0+dfsg-6 libgnutls30=3.6.15-4 libgomp1=10.2.0-16 libgpg-error0=1.38-2 libgssapi-krb5-2=1.17-10 libhogweed6=3.6-2 libhts3=1.11-2 libicu67=67.1-4 libidn2-0=2.3.0-1 libisl22=0.22.1-1 libitm1=10.2.0-16 libk5crypto3=1.17-10 libkeyutils1=1.6.1-2 libkrb5-3=1.17-10 libkrb5support0=1.17-10 liblapack3=3.9.0-3 libldap-2.4-2=2.4.55+dfsg-1 liblsan0=10.2.0-16 liblz4-1=1.9.2-2 liblzma5=5.2.4-1+b1 libmagic-mgc=1:5.38-5 libmagic1=1:5.38-5 libmount1=2.36-3+b1 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libncurses6=6.2+20200918-1 libncursesw6=6.2+20200918-1 libnettle8=3.6-2 libnghttp2-14=1.41.0-3 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libnss-nis=3.1-4 libnss-nisplus=1.3-4 libp11-kit0=0.23.21-2 libpam-modules=1.3.1-5 libpam-modules-bin=1.3.1-5 libpam-runtime=1.3.1-5 libpam0g=1.3.1-5 libpcre2-8-0=10.34-7 libpcre3=2:8.39-13 libperl5.30=5.30.3-4 libpipeline1=1.5.3-1 libpsl5=0.21.0-1.1 libpython3-stdlib=3.8.6-1 libpython3.8-minimal=3.8.6-1 libpython3.8-stdlib=3.8.6-1 libpython3.9-minimal=3.9.0-5 libpython3.9-stdlib=3.9.0-5 libquadmath0=10.2.0-16 libreadline8=8.0-4 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg-2 libsasl2-modules-db=2.1.27+dfsg-2 libseccomp2=2.4.4-1+b1 libselinux1=3.1-2+b1 libsigsegv2=2.12-2 libsmartcols1=2.36-3+b1 libsqlite3-0=3.33.0-1 libssh2-1=1.8.0-2.1 libssl1.1=1.1.1h-1 libstdc++-10-dev=10.2.0-16 libstdc++6=10.2.0-16 libsub-override-perl=0.09-2 libsystemd0=246.6-2 libtasn1-6=4.16.0-2 libtinfo6=6.2+20200918-1 libtirpc-common=1.2.6-3 libtirpc-dev=1.2.6-3 libtirpc3=1.2.6-3 libtool=2.4.6-14 libtsan0=10.2.0-16 libubsan1=10.2.0-16 libuchardet0=0.0.7-1 libudev1=246.6-2 libunistring2=0.9.10-4 libuuid1=2.36-3+b1 libxml2=2.9.10+dfsg-6.2 libzstd1=1.4.5+dfsg-4 linux-libc-dev=5.9.1-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-4 make=4.3-4 man-db=2.9.3-2 mawk=1.3.4.20200120-2 mime-support=3.64 ncurses-base=6.2+20200918-1 ncurses-bin=6.2+20200918-1 patch=2.7.6-6 perl=5.30.3-4 perl-base=5.30.3-4 perl-modules-5.30=5.30.3-4 po-debconf=1.0.21 python3=3.8.6-1 python3-all=3.8.6-1 python3-atomicwrites=1.4.0-1 python3-attr=20.1.0-1 python3-dateutil=2.8.1-4 python3-distutils=3.8.6-1 python3-hypothesis=5.32.1-1 python3-importlib-metadata=1.6.0-2 python3-lib2to3=3.8.6-1 python3-minimal=3.8.6-1 python3-more-itertools=4.2.0-3 python3-natsort=7.0.1-1 python3-ncls=0.0.57+ds-1 python3-numpy=1:1.19.3-1 python3-packaging=20.4-1 python3-pandas=1.1.3+dfsg-2 python3-pandas-lib=1.1.3+dfsg-2 python3-pkg-resources=50.3.0-1 python3-pluggy=0.13.0-5 python3-py=1.9.0-1 python3-pyparsing=2.4.7-1 python3-pyrle=0.0.31-2+b1 python3-pytest=4.6.11-1 python3-setuptools=50.3.0-1 python3-six=1.15.0-1 python3-sorted-nearest=0.0+git20200319.8204815+ds-2+b1 python3-sortedcontainers=2.1.0-2 python3-tabulate=0.8.7-0.1 python3-tz=2020.1-2 python3-wcwidth=0.1.9+dfsg1-2 python3-zipp=1.0.0-3 python3.8=3.8.6-1 python3.8-minimal=3.8.6-1 python3.9=3.9.0-5 python3.9-minimal=3.9.0-5 readline-common=8.0-4 samtools=1.11-1 sed=4.7-1 sensible-utils=0.0.12+nmu1 sysvinit-utils=2.96-5 tar=1.30+dfsg-7 tzdata=2020d-1 util-linux=2.36-3+b1 xz-utils=5.2.4-1+b1 zlib1g=1:1.2.11.dfsg-2 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20201110T093021Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20201101T210343Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d pyranges=0.0.85+ds-1 && mkdir -p /build/pyranges-8fDRk5 && dpkg-source --no-check -x /*.dsc /build/pyranges-8fDRk5/pyranges-0.0.85+ds && chown -R builduser:builduser /build/pyranges-8fDRk5" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/pyranges-8fDRk5/pyranges-0.0.85+ds && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1604310973" dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/pyranges-8fDRk5 /tmp/pyranges-0.0.85+ds-1th8bxj9p bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20201101T210343Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: tar I: using /tmp/mmdebstrap.UaKhUGC2gs as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.UaKhUGC2gs Reading package lists... Building dependency tree... util-linux is already the newest version (2.36-3+b1). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 134 kB of archives. After this operation, 397 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20201101T210343Z unstable/main amd64 libfakeroot amd64 1.25.3-1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20201101T210343Z unstable/main amd64 fakeroot amd64 1.25.3-1 [87.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (551 kB/s) Selecting previously unselected package libfakeroot:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4664 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.25.3-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.25.3-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.25.3-1_amd64.deb ... Unpacking fakeroot (1.25.3-1) ... Setting up libfakeroot:amd64 (1.25.3-1) ... Setting up fakeroot (1.25.3-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.31-4) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20201110T093021Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20201101T210343Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.UaKhUGC2gs Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Get:2 http://snapshot.notset.fr/archive/debian/20201110T093021Z unstable InRelease [146 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20201101T210343Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20201110T093021Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20201110T093021Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20201110T093021Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20201110T093021Z unstable/main amd64 Packages [11.5 MB] Fetched 34.2 MB in 30s (1157 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.UaKhUGC2gs I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d pyranges=0.0.85+ds-1 && mkdir -p /build/pyranges-8fDRk5 && dpkg-source --no-check -x /*.dsc /build/pyranges-8fDRk5/pyranges-0.0.85+ds && chown -R builduser:builduser /build/pyranges-8fDRk5"' exec /tmp/mmdebstrap.UaKhUGC2gs Reading package lists... NOTICE: 'pyranges' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/pyranges.git Please use: git clone https://salsa.debian.org/med-team/pyranges.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 3364 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main pyranges 0.0.85+ds-1 (dsc) [2247 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main pyranges 0.0.85+ds-1 (tar) [3282 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main pyranges 0.0.85+ds-1 (diff) [79.9 kB] Fetched 3364 kB in 3s (1144 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'pyranges_0.0.85+ds-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting pyranges in /build/pyranges-8fDRk5/pyranges-0.0.85+ds dpkg-source: info: unpacking pyranges_0.0.85+ds.orig.tar.xz dpkg-source: info: unpacking pyranges_0.0.85+ds-1.debian.tar.xz I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/pyranges-8fDRk5/pyranges-0.0.85+ds && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1604310973" dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.UaKhUGC2gs dpkg-buildpackage: info: source package pyranges dpkg-buildpackage: info: source version 0.0.85+ds-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-source: info: using options from pyranges-0.0.85+ds/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:217: python3.9 setup.py clean running clean removing '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it I: pybuild base:217: python3.8 setup.py clean running clean removing '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.8' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary-indep dh binary-indep --with python3 --buildsystem=pybuild dh_update_autotools_config -i -O--buildsystem=pybuild dh_autoreconf -i -O--buildsystem=pybuild dh_auto_configure -i -O--buildsystem=pybuild I: pybuild base:217: python3.9 setup.py config running config I: pybuild base:217: python3.8 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/pyranges-8fDRk5/pyranges-0.0.85+ds' dh_auto_build I: pybuild base:217: /usr/bin/python3.9 setup.py build running build running build_py creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_getset_attr.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_pickle.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_io.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_change_chromosome_custom.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_binary.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/conftest.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_do_not_error.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/__init__.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_guessers.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/k_nearest.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/statistics.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_genomicfeatures.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/hypothesis_helper.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_stranded.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/helpers.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests copying tests/test_unary.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/data.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/version.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/readers.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/multithreaded.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/stats.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/multioverlap.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/out.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/tostring.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/__init__.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/genomicfeatures.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/tostring2.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/get_fasta.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/statistics.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/pyranges.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/helpers.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges copying pyranges/subset.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/windows copying tests/windows/__init__.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/windows copying tests/windows/test_windows.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/windows creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/attr.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/join.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/merge.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/drop.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/coverage.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/windows.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/to_rle.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/drop_duplicates.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/k_nearest_old.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/cluster.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/__init__.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/new_position.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/concat.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/init.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/split.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/intersection.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/sort.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/call.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/nearest.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/insert.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/k_nearest.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/summary.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/statistics.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/getitem.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/subtraction.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods copying pyranges/methods/itergrs.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/methods creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/aorta2.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/chipseq.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/f1.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/lamina.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/aorta.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/exons.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/chipseq_background.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/chromsizes.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/cpg.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/f2.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/ensembl.gtf -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/gencode_human.gtf.gz -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/ucsc_human.bed.gz -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/ensembl_human.gtf.gz -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data copying pyranges/example_data/bw.bw -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_py creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_getset_attr.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_pickle.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_io.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_change_chromosome_custom.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_binary.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/conftest.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_do_not_error.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/__init__.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_guessers.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/k_nearest.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/statistics.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_genomicfeatures.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/hypothesis_helper.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_stranded.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/helpers.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests copying tests/test_unary.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/data.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/version.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/readers.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/multithreaded.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/stats.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/multioverlap.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/out.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/tostring.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/__init__.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/genomicfeatures.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/tostring2.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/get_fasta.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/statistics.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/pyranges.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/helpers.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges copying pyranges/subset.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests/windows copying tests/windows/__init__.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests/windows copying tests/windows/test_windows.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/tests/windows creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/attr.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/join.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/merge.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/drop.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/coverage.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/windows.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/to_rle.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/drop_duplicates.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/k_nearest_old.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/cluster.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/__init__.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/new_position.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/concat.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/init.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/split.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/intersection.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/sort.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/call.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/nearest.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/insert.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/k_nearest.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/summary.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/statistics.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/getitem.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/subtraction.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods copying pyranges/methods/itergrs.py -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/methods creating /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/aorta2.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/chipseq.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/f1.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/lamina.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/aorta.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/exons.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/chipseq_background.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/chromsizes.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/cpg.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/f2.bed -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/ensembl.gtf -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/gencode_human.gtf.gz -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/ucsc_human.bed.gz -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/ensembl_human.gtf.gz -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data copying pyranges/example_data/bw.bw -> /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.8_pyranges/build/pyranges/example_data echo 'Generating corresponding files ...' Generating corresponding files ... cat debian/missing-sources/test_sorted.sam| samtools view -Sb - > tests/test_data/test_sorted.bam cat debian/missing-sources/control.sam| samtools view -Sb - > pyranges/example_data/control.bam samtools index tests/test_data/test_sorted.bam tests/test_data/test_sorted.bam.bai samtools index pyranges/example_data/control.bam pyranges/example_data/control.bam.bai make[1]: Leaving directory '/build/pyranges-8fDRk5/pyranges-0.0.85+ds' dh_auto_test -i -O--buildsystem=pybuild I: pybuild pybuild:284: cp -av /build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/*.bed /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests && cp -av /build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/test_data /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests && cp -av /build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/data /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests && cp -av /build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/chip_10.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/chip_10.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/f1.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/f1.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/f2.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/f2.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/test_data' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/test_data' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/test_data/ensembl.gtf' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/test_data/ensembl.gtf' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/test_data/gencode.gff3' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/test_data/gencode.gff3' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/test_data/ucsc_df_to_parse.txt' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/test_data/ucsc_df_to_parse.txt' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/test_data/test_sorted.bam' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/test_data/test_sorted.bam' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/test_data/test_sorted.bam.bai' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/test_data/test_sorted.bam.bai' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/data' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/data' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/tests/data/test_data.py' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/tests/data/test_data.py' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/aorta.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/aorta.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/aorta2.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/aorta2.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/bw.bw' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/bw.bw' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/chipseq.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/chipseq.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/chipseq_background.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/chipseq_background.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/chromsizes.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/chromsizes.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/cpg.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/cpg.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/ensembl.gtf' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/ensembl.gtf' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/ensembl_human.gtf.gz' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/ensembl_human.gtf.gz' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/exons.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/exons.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/f1.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/f1.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/f2.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/f2.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/gencode_human.gtf.gz' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/gencode_human.gtf.gz' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/lamina.bed' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/lamina.bed' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/ucsc_human.bed.gz' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/ucsc_human.bed.gz' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/control.bam' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/control.bam' '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/pyranges/example_data/control.bam.bai' -> '/build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build/pyranges/example_data/control.bam.bai' I: pybuild base:217: cd /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build; python3.9 -m pytest tests ============================= test session starts ============================== platform linux -- Python 3.9.0+, pytest-4.6.11, py-1.9.0, pluggy-0.13.0 rootdir: /build/pyranges-8fDRk5/pyranges-0.0.85+ds plugins: hypothesis-5.32.1 collected 526 items tests/test_binary.py ................................FF.....FFFFFFFFFFFF [ 9%] FFFFFFF [ 11%] tests/test_change_chromosome_custom.py . [ 11%] tests/test_do_not_error.py ............................................. [ 19%] ........................................................................ [ 33%] ........................................................................ [ 47%] ........................................................................ [ 60%] ........................................................................ [ 74%] ........................................................................ [ 88%] .................................... [ 95%] tests/test_genomicfeatures.py . [ 95%] tests/test_getset_attr.py ... [ 95%] tests/test_io.py ... [ 96%] tests/test_pickle.py . [ 96%] tests/test_stranded.py .. [ 96%] tests/test_unary.py FFFF....F.... [ 99%] tests/data/test_data.py . [ 99%] tests/windows/test_windows.py .. [100%] =================================== FAILURES =================================== _____________________ test_nearest[downstream-False-same] ______________________ nearest_how = 'downstream', overlap = False, strandedness = 'same' @pytest.mark.bedtools > @pytest.mark.parametrize("nearest_how,overlap,strandedness", product(nearest_hows, overlaps, strandedness)) @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:317: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:330: in test_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4dlafb9q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4dlafb9q/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4dlafb9q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4dlafb9q/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjvtaj5w8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjvtaj5w8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo1mgugre/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo1mgugre/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkvbnga9y/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkvbnga9y/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpys35zghx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpys35zghx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_1gdk0fo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_1gdk0fo/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgchswssl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgchswssl/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg7zpqwth/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg7zpqwth/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnfqgg4yq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnfqgg4yq/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 8028809 8031098 - 3374596 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8028809 | 8031098 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8028809 8031098 - 3374596 Expected Chromosome Start End Strand Distance 0 chr1 8028809 8031098 - 3374596 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq9zd93uj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq9zd93uj/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjafql1ld/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjafql1ld/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfapcdzvi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfapcdzvi/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb74t1r9a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb74t1r9a/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpku1uqtl7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpku1uqtl7/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcpvo9n44/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcpvo9n44/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3xhkga8b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3xhkga8b/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpckqtimda/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpckqtimda/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5_jocdks/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5_jocdks/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwikb7odw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwikb7odw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnsp2h9ey/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnsp2h9ey/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe2rbvmeh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe2rbvmeh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuk1k35us/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuk1k35us/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv8f7k2f5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv8f7k2f5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 3735812 3736326 + 3963125 2 chr1 3735812 3738872 + 3960579 3 chr1 3735812 3738872 + 3960579 4 chr1 3735812 3738872 + 3960579 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3735812 | 3736326 | a | 0 | ... | | chr1 | 3735812 | 3738872 | a | 0 | ... | | chr1 | 3735812 | 3738872 | a | 0 | ... | | chr1 | 3735812 | 3738872 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3735812 3736326 + 3963125 1 chr1 3735812 3738872 + 3960579 2 chr1 3735812 3738872 + 3960579 3 chr1 3735812 3738872 + 3960579 Expected Chromosome Start End Strand Distance 0 chr1 3735812 3736326 + 3963125 1 chr1 3735812 3738872 + 3960579 2 chr1 3735812 3738872 + 3960579 3 chr1 3735812 3738872 + 3960579 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2qfdusu9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2qfdusu9/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7699450 7703760 + 2018617 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7699450 | 7703760 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7699450 7703760 + 2018617 Expected Chromosome Start End Strand Distance 0 chr1 7699450 7703760 + 2018617 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpffvw77bx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpffvw77bx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprmchsjo7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprmchsjo7/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpui3oqliy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpui3oqliy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2yuwu5mh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2yuwu5mh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy81lax92/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy81lax92/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3y6n9vjj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3y6n9vjj/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpecc4engt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpecc4engt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpknolj4e9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpknolj4e9/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 248495 250049 + 471480 1 chr1 721528 723082 + 3250499 2 chr1 3973580 3975134 + 2134166 3 chr1 6109299 6110853 + 2013087 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 248495 | 250049 | a | 0 | ... | | chr1 | 721528 | 723082 | a | 0 | ... | | chr1 | 3973580 | 3975134 | a | 0 | ... | | chr1 | 6109299 | 6110853 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 248495 250049 + 471480 1 chr1 721528 723082 + 3250499 2 chr1 3973580 3975134 + 2134166 3 chr1 6109299 6110853 + 2013087 Expected Chromosome Start End Strand Distance 0 chr1 248495 250049 + 471480 1 chr1 721528 723082 + 3250499 2 chr1 3973580 3975134 + 2134166 3 chr1 6109299 6110853 + 2013087 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpiyelxznf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpiyelxznf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfv92tz6a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfv92tz6a/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvhct0p_h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvhct0p_h/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprtnm3s1s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprtnm3s1s/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwaz5qh4_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwaz5qh4_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkefoh1by/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkefoh1by/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcnnjtx6o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcnnjtx6o/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvrvtydaw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvrvtydaw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr10 1908915 1918636 + 2303292 1 chr10 4221927 4227705 + 1064809 2 chr10 5292513 5296054 + 183451 3 chr10 5479504 5480639 + 1714255 5 chr10 7194893 7198612 + 1900747 6 chr10 7194893 7201585 + 1897774 7 chr10 7194893 7203058 + 1896301 8 chr10 7194893 7204614 + 1894745 9 chr10 8525968 8535689 - 1328419 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr10 | 1908915 | 1918636 | a | 0 | ... | | chr10 | 4221927 | 4227705 | a | 0 | ... | | chr10 | 5292513 | 5296054 | a | 0 | ... | | chr10 | 5479504 | 5480639 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr10 | 7194893 | 7201585 | a | 0 | ... | | chr10 | 7194893 | 7203058 | a | 0 | ... | | chr10 | 7194893 | 7204614 | a | 0 | ... | | chr10 | 8525968 | 8535689 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr10 1908915 1918636 + 2303292 1 chr10 4221927 4227705 + 1064809 2 chr10 5292513 5296054 + 183451 3 chr10 5479504 5480639 + 1714255 4 chr10 7194893 7198612 + 1900747 5 chr10 7194893 7201585 + 1897774 6 chr10 7194893 7203058 + 1896301 7 chr10 7194893 7204614 + 1894745 8 chr10 8525968 8535689 - 1328419 Expected Chromosome Start End Strand Distance 0 chr10 1908915 1918636 + 2303292 1 chr10 4221927 4227705 + 1064809 2 chr10 5292513 5296054 + 183451 3 chr10 5479504 5480639 + 1714255 4 chr10 7194893 7198612 + 1900747 5 chr10 7194893 7201585 + 1897774 6 chr10 7194893 7203058 + 1896301 7 chr10 7194893 7204614 + 1894745 8 chr10 8525968 8535689 - 1328419 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprg7g_2_q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprg7g_2_q/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8pcsfm2c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8pcsfm2c/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpst9pwisp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpst9pwisp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5p5pg2vc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5p5pg2vc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3gx_0n58/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3gx_0n58/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4vwy95sn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4vwy95sn/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpiul08ohk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpiul08ohk/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr10 2990508 2991783 + 3348191 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr10 | 2990508 | 2991783 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr10 2990508 2991783 + 3348191 Expected Chromosome Start End Strand Distance 0 chr10 2990508 2991783 + 3348191 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa9zjvcjs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa9zjvcjs/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgonakrh1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgonakrh1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv_w4pz3o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv_w4pz3o/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9w5osiya/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9w5osiya/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc8lctgs_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc8lctgs_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnwhxafyu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnwhxafyu/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2_tq77zu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2_tq77zu/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbf17vyuf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbf17vyuf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzl0k3cff/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzl0k3cff/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp54yjyx14/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp54yjyx14/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3458522 3460676 + 2664002 1 chr1 5380013 5382167 + 742511 2 chr1 5380013 5382167 + 742511 3 chr1 5380013 5382167 + 742511 4 chr1 5380013 5382167 + 742511 5 chr1 5380013 5382167 + 742511 6 chr1 5380013 5382167 + 742511 7 chr1 5380013 5382167 - 120091 8 chr1 5380013 5383749 + 740929 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3458522 | 3460676 | a | 0 | ... | | chr1 | 5380013 | 5382167 | a | 0 | ... | | chr1 | 5380013 | 5382167 | a | 0 | ... | | chr1 | 5380013 | 5382167 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 5380013 | 5382167 | a | 0 | ... | | chr1 | 5380013 | 5382167 | a | 0 | ... | | chr1 | 5380013 | 5383749 | a | 0 | ... | | chr1 | 5380013 | 5382167 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3458522 3460676 + 2664002 1 chr1 5380013 5382167 + 742511 2 chr1 5380013 5382167 + 742511 3 chr1 5380013 5382167 + 742511 4 chr1 5380013 5382167 + 742511 5 chr1 5380013 5382167 + 742511 6 chr1 5380013 5382167 + 742511 7 chr1 5380013 5382167 - 120091 8 chr1 5380013 5383749 + 740929 Expected Chromosome Start End Strand Distance 0 chr1 3458522 3460676 + 2664002 1 chr1 5380013 5382167 + 742511 2 chr1 5380013 5382167 + 742511 3 chr1 5380013 5382167 + 742511 4 chr1 5380013 5382167 + 742511 5 chr1 5380013 5382167 + 742511 6 chr1 5380013 5382167 + 742511 7 chr1 5380013 5382167 - 120091 8 chr1 5380013 5383749 + 740929 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn18ovavk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn18ovavk/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfj4apxjw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfj4apxjw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb329tmd2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb329tmd2/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpthhhl0qg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpthhhl0qg/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 4 chr6 2550564 2557318 + 103683 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr6 | 2550564 | 2557318 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr6 2550564 2557318 + 103683 Expected Chromosome Start End Strand Distance 0 chr6 2550564 2557318 + 103683 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp64lhohiw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp64lhohiw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7m1mkn8s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7m1mkn8s/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2840316 2843632 + 2902213 1 chr1 5745844 5755272 + 4085223 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2840316 | 2843632 | a | 0 | ... | | chr1 | 5745844 | 5755272 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2840316 2843632 + 2902213 1 chr1 5745844 5755272 + 4085223 Expected Chromosome Start End Strand Distance 0 chr1 2840316 2843632 + 2902213 1 chr1 5745844 5755272 + 4085223 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa1svalq3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa1svalq3/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 649531 655542 + 4692997 1 chr1 1125944 1130564 + 4217975 2 chr1 1125944 1131955 + 4216584 3 chr1 1125944 1131955 + 4216584 4 chr1 1125944 1131955 + 4216584 5 chr1 1125944 1131955 + 4216584 6 chr1 1125944 1131955 - 1064156 7 chr1 1125944 1131955 - 1064156 8 chr1 2071490 2077501 - 2009702 9 chr1 3270096 3276107 - 3208308 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 649531 | 655542 | a | 0 | ... | | chr1 | 1125944 | 1130564 | a | 0 | ... | | chr1 | 1125944 | 1131955 | a | 0 | ... | | chr1 | 1125944 | 1131955 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 1125944 | 1131955 | a | 0 | ... | | chr1 | 1125944 | 1131955 | a | 0 | ... | | chr1 | 2071490 | 2077501 | a | 0 | ... | | chr1 | 3270096 | 3276107 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 10 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 649531 655542 + 4692997 1 chr1 1125944 1130564 + 4217975 2 chr1 1125944 1131955 + 4216584 3 chr1 1125944 1131955 + 4216584 4 chr1 1125944 1131955 + 4216584 5 chr1 1125944 1131955 + 4216584 6 chr1 1125944 1131955 - 1064156 7 chr1 1125944 1131955 - 1064156 8 chr1 2071490 2077501 - 2009702 9 chr1 3270096 3276107 - 3208308 Expected Chromosome Start End Strand Distance 0 chr1 649531 655542 + 4692997 1 chr1 1125944 1130564 + 4217975 2 chr1 1125944 1131955 + 4216584 3 chr1 1125944 1131955 + 4216584 4 chr1 1125944 1131955 + 4216584 5 chr1 1125944 1131955 + 4216584 6 chr1 1125944 1131955 - 1064156 7 chr1 1125944 1131955 - 1064156 8 chr1 2071490 2077501 - 2009702 9 chr1 3270096 3276107 - 3208308 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=10, step=1) Expected index RangeIndex(start=0, stop=10, step=1) index equal [ True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9unckas8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9unckas8/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 54150 59143 + 5289396 2 chr1 54150 62055 + 5286484 3 chr1 54150 62325 + 5286214 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 54150 | 59143 | a | 0 | ... | | chr1 | 54150 | 62055 | a | 0 | ... | | chr1 | 54150 | 62325 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 54150 59143 + 5289396 1 chr1 54150 62055 + 5286484 2 chr1 54150 62325 + 5286214 Expected Chromosome Start End Strand Distance 0 chr1 54150 59143 + 5289396 1 chr1 54150 62055 + 5286484 2 chr1 54150 62325 + 5286214 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9lan0d96/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9lan0d96/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 54150 59143 + 5289396 2 chr1 54150 62055 + 5286484 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 54150 | 59143 | a | 0 | ... | | chr1 | 54150 | 62055 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 54150 59143 + 5289396 1 chr1 54150 62055 + 5286484 Expected Chromosome Start End Strand Distance 0 chr1 54150 59143 + 5289396 1 chr1 54150 62055 + 5286484 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcd8msn3x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcd8msn3x/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 54150 59143 + 5289396 2 chr1 54150 62055 + 5286484 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 54150 | 59143 | a | 0 | ... | | chr1 | 54150 | 62055 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 54150 59143 + 5289396 1 chr1 54150 62055 + 5286484 Expected Chromosome Start End Strand Distance 0 chr1 54150 59143 + 5289396 1 chr1 54150 62055 + 5286484 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2lv8za9t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2lv8za9t/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 8545651 8547132 + 48159 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8545651 | 8547132 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8545651 8547132 + 48159 Expected Chromosome Start End Strand Distance 0 chr1 8545651 8547132 + 48159 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfvxoqpkv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfvxoqpkv/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5981223 5981932 + 2613359 1 chr1 5981223 5988278 + 2607013 2 chr1 5981223 5990389 + 2604902 3 chr1 5981223 5990389 + 2604902 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5981223 | 5981932 | a | 0 | ... | | chr1 | 5981223 | 5988278 | a | 0 | ... | | chr1 | 5981223 | 5990389 | a | 0 | ... | | chr1 | 5981223 | 5990389 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5981223 5981932 + 2613359 1 chr1 5981223 5988278 + 2607013 2 chr1 5981223 5990389 + 2604902 3 chr1 5981223 5990389 + 2604902 Expected Chromosome Start End Strand Distance 0 chr1 5981223 5981932 + 2613359 1 chr1 5981223 5988278 + 2607013 2 chr1 5981223 5990389 + 2604902 3 chr1 5981223 5990389 + 2604902 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2f9bvc0l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2f9bvc0l/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz0747902/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz0747902/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chr7 7004708 7007022 - 6674132 4 chr7 7004708 7010537 - 6674132 5 chr7 7004708 7010537 - 6674132 6 chr7 7004708 7010537 - 6674132 7 chr7 7004708 7010537 - 6674132 8 chr7 7499044 7504873 - 488508 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr7 | 7004708 | 7007022 | a | 0 | ... | | chr7 | 7004708 | 7010537 | a | 0 | ... | | chr7 | 7004708 | 7010537 | a | 0 | ... | | chr7 | 7004708 | 7010537 | a | 0 | ... | | chr7 | 7004708 | 7010537 | a | 0 | ... | | chr7 | 7499044 | 7504873 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr7 7004708 7007022 - 6674132 1 chr7 7004708 7010537 - 6674132 2 chr7 7004708 7010537 - 6674132 3 chr7 7004708 7010537 - 6674132 4 chr7 7004708 7010537 - 6674132 5 chr7 7499044 7504873 - 488508 Expected Chromosome Start End Strand Distance 0 chr7 7004708 7007022 - 6674132 1 chr7 7004708 7010537 - 6674132 2 chr7 7004708 7010537 - 6674132 3 chr7 7004708 7010537 - 6674132 4 chr7 7004708 7010537 - 6674132 5 chr7 7499044 7504873 - 488508 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq639izzb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq639izzb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj5lburg3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj5lburg3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8eqwn99i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8eqwn99i/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphyt9iawe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphyt9iawe/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8pl1fweo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8pl1fweo/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppn2m8m1u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppn2m8m1u/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd0es0_bz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd0es0_bz/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeho0piuv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeho0piuv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj9vnilhb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj9vnilhb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy3h45mhv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy3h45mhv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnm7fumse/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnm7fumse/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2620472 2629075 + 3668707 2 chr1 5120831 5129434 - 600960 4 chr1 6297781 6301566 - 1168348 5 chr1 6297781 6306384 - 1168348 6 chr1 6297781 6306384 - 1168348 7 chr1 7184113 7192716 - 877730 8 chr1 7966362 7974965 - 773647 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2620472 | 2629075 | a | 0 | ... | | chr1 | 5120831 | 5129434 | a | 0 | ... | | chr1 | 6297781 | 6301566 | a | 0 | ... | | chr1 | 6297781 | 6306384 | a | 0 | ... | | chr1 | 6297781 | 6306384 | a | 0 | ... | | chr1 | 7184113 | 7192716 | a | 0 | ... | | chr1 | 7966362 | 7974965 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2620472 2629075 + 3668707 1 chr1 5120831 5129434 - 600960 2 chr1 6297781 6301566 - 1168348 3 chr1 6297781 6306384 - 1168348 4 chr1 6297781 6306384 - 1168348 5 chr1 7184113 7192716 - 877730 6 chr1 7966362 7974965 - 773647 Expected Chromosome Start End Strand Distance 0 chr1 2620472 2629075 + 3668707 1 chr1 5120831 5129434 - 600960 2 chr1 6297781 6301566 - 1168348 3 chr1 6297781 6306384 - 1168348 4 chr1 6297781 6306384 - 1168348 5 chr1 7184113 7192716 - 877730 6 chr1 7966362 7974965 - 773647 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5pgm2hz9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5pgm2hz9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwo8bjo38/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwo8bjo38/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpph8udy4j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpph8udy4j/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqm72lgyt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqm72lgyt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp78607rrq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp78607rrq/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 655618 658694 + 4379567 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 655618 | 658694 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 655618 658694 + 4379567 Expected Chromosome Start End Strand Distance 0 chr1 655618 658694 + 4379567 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv3rko5lb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv3rko5lb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprmeakyyg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprmeakyyg/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph9ppjkl4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph9ppjkl4/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp522pl20f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp522pl20f/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 6295189 6295446 - 6220759 2 chr1 6295189 6295446 - 6220759 3 chr1 6295189 6295446 - 6220759 4 chr1 6295189 6295446 - 6220759 5 chr1 6295189 6295446 - 6220759 6 chr1 6295189 6295446 - 6220759 7 chr1 6295189 6295446 - 6220759 8 chr1 6295189 6295446 - 6220759 9 chr1 6295189 6295446 - 6220759 10 chr1 6295189 6295446 - 6220759 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6295189 | 6295446 | a | 0 | ... | | chr1 | 6295189 | 6295446 | a | 0 | ... | | chr1 | 6295189 | 6295446 | a | 0 | ... | | chr1 | 6295189 | 6295446 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 6295189 | 6295446 | a | 0 | ... | | chr1 | 6295189 | 6295446 | a | 0 | ... | | chr1 | 6295189 | 6295446 | a | 0 | ... | | chr1 | 6295189 | 6295446 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 10 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6295189 6295446 - 6220759 1 chr1 6295189 6295446 - 6220759 2 chr1 6295189 6295446 - 6220759 3 chr1 6295189 6295446 - 6220759 4 chr1 6295189 6295446 - 6220759 5 chr1 6295189 6295446 - 6220759 6 chr1 6295189 6295446 - 6220759 7 chr1 6295189 6295446 - 6220759 8 chr1 6295189 6295446 - 6220759 9 chr1 6295189 6295446 - 6220759 Expected Chromosome Start End Strand Distance 0 chr1 6295189 6295446 - 6220759 1 chr1 6295189 6295446 - 6220759 2 chr1 6295189 6295446 - 6220759 3 chr1 6295189 6295446 - 6220759 4 chr1 6295189 6295446 - 6220759 5 chr1 6295189 6295446 - 6220759 6 chr1 6295189 6295446 - 6220759 7 chr1 6295189 6295446 - 6220759 8 chr1 6295189 6295446 - 6220759 9 chr1 6295189 6295446 - 6220759 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=10, step=1) Expected index RangeIndex(start=0, stop=10, step=1) index equal [ True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1ci8mlfp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1ci8mlfp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp66ciis5o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp66ciis5o/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2252760 2255814 + 2537251 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2252760 | 2255814 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2252760 2255814 + 2537251 Expected Chromosome Start End Strand Distance 0 chr1 2252760 2255814 + 2537251 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjwylj6b0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjwylj6b0/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7glwbajg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7glwbajg/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcvtodpzs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcvtodpzs/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_qj15qva/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_qj15qva/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 514458 514847 + 4859107 1 chr1 5373953 5375098 + 2293136 2 chr1 7668233 7668348 + 197858 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 514458 | 514847 | a | 0 | ... | | chr1 | 5373953 | 5375098 | a | 0 | ... | | chr1 | 7668233 | 7668348 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 514458 514847 + 4859107 1 chr1 5373953 5375098 + 2293136 2 chr1 7668233 7668348 + 197858 Expected Chromosome Start End Strand Distance 0 chr1 514458 514847 + 4859107 1 chr1 5373953 5375098 + 2293136 2 chr1 7668233 7668348 + 197858 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpde0z2d8n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpde0z2d8n/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxxj49ewe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxxj49ewe/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg3f6k75y/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg3f6k75y/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa8f6j21o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa8f6j21o/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5gpzngwy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5gpzngwy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj4vpplpf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj4vpplpf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn8y9kr7r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn8y9kr7r/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpce_c3xek/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpce_c3xek/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chrY 3033361 3039347 - 2265371 4 chrY 9523996 9525568 - 6484650 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chrY | 3033361 | 3039347 | a | 0 | ... | | chrY | 9523996 | 9525568 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chrY 3033361 3039347 - 2265371 1 chrY 9523996 9525568 - 6484650 Expected Chromosome Start End Strand Distance 0 chrY 3033361 3039347 - 2265371 1 chrY 9523996 9525568 - 6484650 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmcat6spb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmcat6spb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvhafbs3d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvhafbs3d/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr20 6052868 6057214 - 697489 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr20 | 6052868 | 6057214 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr20 6052868 6057214 - 697489 Expected Chromosome Start End Strand Distance 0 chr20 6052868 6057214 - 697489 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1do_zllg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1do_zllg/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjd1uo6ob/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjd1uo6ob/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmponm5cg0a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmponm5cg0a/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2txzzvnw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2txzzvnw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu9lbk7aa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu9lbk7aa/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 9025353 9026772 - 4822154 2 chr1 9025353 9028505 - 4822154 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9025353 | 9026772 | a | 0 | ... | | chr1 | 9025353 | 9028505 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9025353 9026772 - 4822154 1 chr1 9025353 9028505 - 4822154 Expected Chromosome Start End Strand Distance 0 chr1 9025353 9026772 - 4822154 1 chr1 9025353 9028505 - 4822154 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpppzd546b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpppzd546b/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv8sgzgqd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv8sgzgqd/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 6238818 6243284 - 1957937 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6238818 | 6243284 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6238818 6243284 - 1957937 Expected Chromosome Start End Strand Distance 0 chr1 6238818 6243284 - 1957937 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9h77xncc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9h77xncc/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 7169240 7178390 - 359834 2 chr1 8184023 8193677 - 1374617 3 chr1 9960392 9961095 - 3150986 4 chr1 9960392 9963414 - 3150986 5 chr1 9960392 9964686 - 3150986 6 chr1 9960392 9964686 - 3150986 7 chr1 9960392 9964686 - 3150986 8 chr1 9960392 9964686 - 3150986 9 chr1 9960392 9964686 - 3150986 10 chr1 9960392 9970103 - 3150986 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7169240 | 7178390 | a | 0 | ... | | chr1 | 8184023 | 8193677 | a | 0 | ... | | chr1 | 9960392 | 9961095 | a | 0 | ... | | chr1 | 9960392 | 9963414 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 9960392 | 9964686 | a | 0 | ... | | chr1 | 9960392 | 9964686 | a | 0 | ... | | chr1 | 9960392 | 9964686 | a | 0 | ... | | chr1 | 9960392 | 9970103 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 10 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7169240 7178390 - 359834 1 chr1 8184023 8193677 - 1374617 2 chr1 9960392 9961095 - 3150986 3 chr1 9960392 9963414 - 3150986 4 chr1 9960392 9964686 - 3150986 5 chr1 9960392 9964686 - 3150986 6 chr1 9960392 9964686 - 3150986 7 chr1 9960392 9964686 - 3150986 8 chr1 9960392 9964686 - 3150986 9 chr1 9960392 9970103 - 3150986 Expected Chromosome Start End Strand Distance 0 chr1 7169240 7178390 - 359834 1 chr1 8184023 8193677 - 1374617 2 chr1 9960392 9961095 - 3150986 3 chr1 9960392 9963414 - 3150986 4 chr1 9960392 9964686 - 3150986 5 chr1 9960392 9964686 - 3150986 6 chr1 9960392 9964686 - 3150986 7 chr1 9960392 9964686 - 3150986 8 chr1 9960392 9964686 - 3150986 9 chr1 9960392 9970103 - 3150986 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=10, step=1) Expected index RangeIndex(start=0, stop=10, step=1) index equal [ True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpaj4heny2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpaj4heny2/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chr8 6804275 6809407 - 2847919 4 chr8 6804275 6809407 - 2847919 5 chr8 6804275 6809407 - 2847919 6 chr8 6804275 6809407 - 2847919 7 chr8 6804275 6809407 - 2847919 8 chr8 6804275 6809407 - 2847919 9 chr8 6804275 6809407 - 2847919 10 chr8 6804275 6812393 - 2847919 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr8 | 6804275 | 6809407 | a | 0 | ... | | chr8 | 6804275 | 6809407 | a | 0 | ... | | chr8 | 6804275 | 6809407 | a | 0 | ... | | chr8 | 6804275 | 6809407 | a | 0 | ... | | chr8 | 6804275 | 6809407 | a | 0 | ... | | chr8 | 6804275 | 6809407 | a | 0 | ... | | chr8 | 6804275 | 6809407 | a | 0 | ... | | chr8 | 6804275 | 6812393 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 8 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr8 6804275 6809407 - 2847919 1 chr8 6804275 6809407 - 2847919 2 chr8 6804275 6809407 - 2847919 3 chr8 6804275 6809407 - 2847919 4 chr8 6804275 6809407 - 2847919 5 chr8 6804275 6809407 - 2847919 6 chr8 6804275 6809407 - 2847919 7 chr8 6804275 6812393 - 2847919 Expected Chromosome Start End Strand Distance 0 chr8 6804275 6809407 - 2847919 1 chr8 6804275 6809407 - 2847919 2 chr8 6804275 6809407 - 2847919 3 chr8 6804275 6809407 - 2847919 4 chr8 6804275 6809407 - 2847919 5 chr8 6804275 6809407 - 2847919 6 chr8 6804275 6809407 - 2847919 7 chr8 6804275 6812393 - 2847919 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=8, step=1) Expected index RangeIndex(start=0, stop=8, step=1) index equal [ True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsbfii2nj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsbfii2nj/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4bnmk164/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4bnmk164/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 6034773 6038552 - 2041170 2 chr1 6053584 6057363 - 15033 3 chr1 6352200 6355979 - 294838 4 chr1 6352200 6355979 - 294838 5 chr1 6352200 6355979 - 294838 6 chr1 6616128 6619907 - 260150 7 chr1 7711638 7715417 - 1091732 8 chr1 8532663 8540138 - 817247 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6034773 | 6038552 | a | 0 | ... | | chr1 | 6053584 | 6057363 | a | 0 | ... | | chr1 | 6352200 | 6355979 | a | 0 | ... | | chr1 | 6352200 | 6355979 | a | 0 | ... | | chr1 | 6352200 | 6355979 | a | 0 | ... | | chr1 | 6616128 | 6619907 | a | 0 | ... | | chr1 | 7711638 | 7715417 | a | 0 | ... | | chr1 | 8532663 | 8540138 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 8 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6034773 6038552 - 2041170 1 chr1 6053584 6057363 - 15033 2 chr1 6352200 6355979 - 294838 3 chr1 6352200 6355979 - 294838 4 chr1 6352200 6355979 - 294838 5 chr1 6616128 6619907 - 260150 6 chr1 7711638 7715417 - 1091732 7 chr1 8532663 8540138 - 817247 Expected Chromosome Start End Strand Distance 0 chr1 6034773 6038552 - 2041170 1 chr1 6053584 6057363 - 15033 2 chr1 6352200 6355979 - 294838 3 chr1 6352200 6355979 - 294838 4 chr1 6352200 6355979 - 294838 5 chr1 6616128 6619907 - 260150 6 chr1 7711638 7715417 - 1091732 7 chr1 8532663 8540138 - 817247 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=8, step=1) Expected index RangeIndex(start=0, stop=8, step=1) index equal [ True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjssjtw57/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjssjtw57/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpks75bh7j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpks75bh7j/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr6 7052740 7055259 - 4917737 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr6 | 7052740 | 7055259 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr6 7052740 7055259 - 4917737 Expected Chromosome Start End Strand Distance 0 chr6 7052740 7055259 - 4917737 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3lkkvmel/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3lkkvmel/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz8z6uaaw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz8z6uaaw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwajxvfkv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwajxvfkv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxjgajlpn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxjgajlpn/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0enh43mc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0enh43mc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpctm5dqxn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpctm5dqxn/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv8b8q1cg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv8b8q1cg/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf9x04iwp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf9x04iwp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0kak_1uh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0kak_1uh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf8c245t7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf8c245t7/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1z0kx6rt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1z0kx6rt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_ndrzelu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_ndrzelu/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwpoewhgz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwpoewhgz/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplsbbda9m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplsbbda9m/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc1uzoifu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc1uzoifu/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0clw85zr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0clw85zr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqv59swke/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqv59swke/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5379 5398 + 4620477 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5379 | 5398 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5379 5398 + 4620477 Expected Chromosome Start End Strand Distance 0 chr1 5379 5398 + 4620477 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeitp_6cu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeitp_6cu/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chr22 196868 198666 + 6120488 8 chr22 196868 201736 + 6117418 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr22 | 196868 | 198666 | a | 0 | ... | | chr22 | 196868 | 201736 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr22 196868 198666 + 6120488 1 chr22 196868 201736 + 6117418 Expected Chromosome Start End Strand Distance 0 chr22 196868 198666 + 6120488 1 chr22 196868 201736 + 6117418 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzr4wrlmg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzr4wrlmg/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 6319153 6320117 - 3178376 2 chr1 6319153 6322568 - 3178376 3 chr1 6319153 6322568 - 3178376 4 chr1 6319153 6322568 - 3178376 5 chr1 6319153 6322568 - 3178376 6 chr1 6319153 6322568 - 3178376 7 chr1 6319153 6322568 - 3178376 8 chr1 6319153 6322568 - 3178376 9 chr1 6319153 6324574 - 3178376 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6319153 | 6320117 | a | 0 | ... | | chr1 | 6319153 | 6322568 | a | 0 | ... | | chr1 | 6319153 | 6322568 | a | 0 | ... | | chr1 | 6319153 | 6322568 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 6319153 | 6322568 | a | 0 | ... | | chr1 | 6319153 | 6322568 | a | 0 | ... | | chr1 | 6319153 | 6322568 | a | 0 | ... | | chr1 | 6319153 | 6324574 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6319153 6320117 - 3178376 1 chr1 6319153 6322568 - 3178376 2 chr1 6319153 6322568 - 3178376 3 chr1 6319153 6322568 - 3178376 4 chr1 6319153 6322568 - 3178376 5 chr1 6319153 6322568 - 3178376 6 chr1 6319153 6322568 - 3178376 7 chr1 6319153 6322568 - 3178376 8 chr1 6319153 6324574 - 3178376 Expected Chromosome Start End Strand Distance 0 chr1 6319153 6320117 - 3178376 1 chr1 6319153 6322568 - 3178376 2 chr1 6319153 6322568 - 3178376 3 chr1 6319153 6322568 - 3178376 4 chr1 6319153 6322568 - 3178376 5 chr1 6319153 6322568 - 3178376 6 chr1 6319153 6322568 - 3178376 7 chr1 6319153 6322568 - 3178376 8 chr1 6319153 6324574 - 3178376 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvry98czr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvry98czr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnq4slrjk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnq4slrjk/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppfemoric/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppfemoric/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa63ze45f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa63ze45f/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqehr84j5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqehr84j5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5096789 5101527 - 1392831 1 chr20 2570494 2576565 + 1119861 2 chr20 2570494 2578760 + 1117666 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5096789 | 5101527 | a | 0 | ... | | chr20 | 2570494 | 2576565 | a | 0 | ... | | chr20 | 2570494 | 2578760 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5096789 5101527 - 1392831 1 chr20 2570494 2576565 + 1119861 2 chr20 2570494 2578760 + 1117666 Expected Chromosome Start End Strand Distance 0 chr1 5096789 5101527 - 1392831 1 chr20 2570494 2576565 + 1119861 2 chr20 2570494 2578760 + 1117666 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd70dtger/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd70dtger/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3696425 3701153 + 1949624 1 chr1 3696425 3701153 + 1949624 2 chr1 3696425 3701153 + 1949624 3 chr1 3696425 3701153 + 1949624 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3696425 | 3701153 | a | 0 | ... | | chr1 | 3696425 | 3701153 | a | 0 | ... | | chr1 | 3696425 | 3701153 | a | 0 | ... | | chr1 | 3696425 | 3701153 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3696425 3701153 + 1949624 1 chr1 3696425 3701153 + 1949624 2 chr1 3696425 3701153 + 1949624 3 chr1 3696425 3701153 + 1949624 Expected Chromosome Start End Strand Distance 0 chr1 3696425 3701153 + 1949624 1 chr1 3696425 3701153 + 1949624 2 chr1 3696425 3701153 + 1949624 3 chr1 3696425 3701153 + 1949624 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpegljzc5x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpegljzc5x/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpejcrc3ky/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpejcrc3ky/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 4 chr1 4469216 4476893 - 190621 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4469216 | 4476893 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4469216 4476893 - 190621 Expected Chromosome Start End Strand Distance 0 chr1 4469216 4476893 - 190621 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqgssq_6l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqgssq_6l/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 10 chr1 8749702 8753771 - 4471107 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8749702 | 8753771 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8749702 8753771 - 4471107 Expected Chromosome Start End Strand Distance 0 chr1 8749702 8753771 - 4471107 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplxeb1i3z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplxeb1i3z/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chr1 4299314 4300445 - 3926808 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4299314 | 4300445 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4299314 4300445 - 3926808 Expected Chromosome Start End Strand Distance 0 chr1 4299314 4300445 - 3926808 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv3zrn0xr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv3zrn0xr/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 4 chr1 3372805 3372807 - 1021608 5 chr1 3372805 3372807 - 1021608 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3372805 | 3372807 | a | 0 | ... | | chr1 | 3372805 | 3372807 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3372805 3372807 - 1021608 1 chr1 3372805 3372807 - 1021608 Expected Chromosome Start End Strand Distance 0 chr1 3372805 3372807 - 1021608 1 chr1 3372805 3372807 - 1021608 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoqrxjwef/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoqrxjwef/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7259016 7265873 - 1128379 1 chr1 8816830 8823687 - 2686193 2 chr1 8816830 8823687 - 2686193 3 chr1 8816830 8823687 - 2686193 4 chr1 8816830 8823687 - 2686193 5 chr1 8816830 8823687 - 2686193 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7259016 | 7265873 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7259016 7265873 - 1128379 1 chr1 8816830 8823687 - 2686193 2 chr1 8816830 8823687 - 2686193 3 chr1 8816830 8823687 - 2686193 4 chr1 8816830 8823687 - 2686193 5 chr1 8816830 8823687 - 2686193 Expected Chromosome Start End Strand Distance 0 chr1 7259016 7265873 - 1128379 1 chr1 8816830 8823687 - 2686193 2 chr1 8816830 8823687 - 2686193 3 chr1 8816830 8823687 - 2686193 4 chr1 8816830 8823687 - 2686193 5 chr1 8816830 8823687 - 2686193 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzivcic4l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzivcic4l/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7259016 7265873 - 1128379 1 chr1 8816830 8823687 - 2686193 2 chr1 8816830 8823687 - 2686193 3 chr1 8816830 8823687 - 2686193 4 chr1 8816830 8823687 - 2686193 5 chr1 8816830 8823687 - 2686193 6 chr1 8816830 8823687 - 2686193 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7259016 | 7265873 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | | chr1 | 8816830 | 8823687 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7259016 7265873 - 1128379 1 chr1 8816830 8823687 - 2686193 2 chr1 8816830 8823687 - 2686193 3 chr1 8816830 8823687 - 2686193 4 chr1 8816830 8823687 - 2686193 5 chr1 8816830 8823687 - 2686193 6 chr1 8816830 8823687 - 2686193 Expected Chromosome Start End Strand Distance 0 chr1 7259016 7265873 - 1128379 1 chr1 8816830 8823687 - 2686193 2 chr1 8816830 8823687 - 2686193 3 chr1 8816830 8823687 - 2686193 4 chr1 8816830 8823687 - 2686193 5 chr1 8816830 8823687 - 2686193 6 chr1 8816830 8823687 - 2686193 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7fjw4lm2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7fjw4lm2/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 452459 460873 + 3377759 9 chr1 6126028 6130638 - 2278984 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 452459 | 460873 | a | 0 | ... | | chr1 | 6126028 | 6130638 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 452459 460873 + 3377759 1 chr1 6126028 6130638 - 2278984 Expected Chromosome Start End Strand Distance 0 chr1 452459 460873 + 3377759 1 chr1 6126028 6130638 - 2278984 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_gikxzut/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_gikxzut/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9bm_czln/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9bm_czln/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 9145075 9151444 - 4225719 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9145075 | 9151444 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9145075 9151444 - 4225719 Expected Chromosome Start End Strand Distance 0 chr1 9145075 9151444 - 4225719 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfb5vsy3b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfb5vsy3b/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 133124 137615 + 5798073 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 133124 | 137615 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 133124 137615 + 5798073 Expected Chromosome Start End Strand Distance 0 chr1 133124 137615 + 5798073 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3yfrnb9n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3yfrnb9n/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4t6cj9de/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4t6cj9de/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg825duoh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg825duoh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpab1md8h3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpab1md8h3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5d4sbqtv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5d4sbqtv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp30ql1cnv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp30ql1cnv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4bwvnpqh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4bwvnpqh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpymu3dfq3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpymu3dfq3/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4437487 4445729 - 3532435 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4437487 | 4445729 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4437487 4445729 - 3532435 Expected Chromosome Start End Strand Distance 0 chr1 4437487 4445729 - 3532435 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcg0d1gwv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcg0d1gwv/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 8505125 8510500 - 7420981 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8505125 | 8510500 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8505125 8510500 - 7420981 Expected Chromosome Start End Strand Distance 0 chr1 8505125 8510500 - 7420981 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo07wazra/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo07wazra/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr1 9005311 9009383 - 7921167 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9005311 | 9009383 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9005311 9009383 - 7921167 Expected Chromosome Start End Strand Distance 0 chr1 9005311 9009383 - 7921167 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3doatgyt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3doatgyt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8e6f6o9j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8e6f6o9j/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 7 chr1 8491295 8496212 - 7050099 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8491295 | 8496212 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8491295 8496212 - 7050099 Expected Chromosome Start End Strand Distance 0 chr1 8491295 8496212 - 7050099 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpp2s_9_tr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp2s_9_tr/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr11 7157265 7162163 - 5879803 3 chr11 7753884 7754123 - 591722 4 chr11 8258531 8258770 - 504409 5 chr11 8871308 8871547 - 612539 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr11 | 7157265 | 7162163 | a | 0 | ... | | chr11 | 7753884 | 7754123 | a | 0 | ... | | chr11 | 8258531 | 8258770 | a | 0 | ... | | chr11 | 8871308 | 8871547 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr11 7157265 7162163 - 5879803 1 chr11 7753884 7754123 - 591722 2 chr11 8258531 8258770 - 504409 3 chr11 8871308 8871547 - 612539 Expected Chromosome Start End Strand Distance 0 chr11 7157265 7162163 - 5879803 1 chr11 7753884 7754123 - 591722 2 chr11 8258531 8258770 - 504409 3 chr11 8871308 8871547 - 612539 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwuyr4y1p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwuyr4y1p/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqbv9yz68/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqbv9yz68/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbgggwfsx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbgggwfsx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkwthr2iq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkwthr2iq/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr6 1609306 1616848 + 3940732 1 chr6 5557579 5562730 + 1540420 2 chr6 7103149 7111628 + 216686 3 chr6 7328313 7331946 + 1339235 4 chr6 8671180 8673838 + 114619 5 chr6 8671180 8676331 + 112126 6 chr6 8671180 8676331 + 112126 7 chr6 8788456 8788714 + 712424 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr6 | 1609306 | 1616848 | a | 0 | ... | | chr6 | 5557579 | 5562730 | a | 0 | ... | | chr6 | 7103149 | 7111628 | a | 0 | ... | | chr6 | 7328313 | 7331946 | a | 0 | ... | | chr6 | 8671180 | 8673838 | a | 0 | ... | | chr6 | 8671180 | 8676331 | a | 0 | ... | | chr6 | 8671180 | 8676331 | a | 0 | ... | | chr6 | 8788456 | 8788714 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 8 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr6 1609306 1616848 + 3940732 1 chr6 5557579 5562730 + 1540420 2 chr6 7103149 7111628 + 216686 3 chr6 7328313 7331946 + 1339235 4 chr6 8671180 8673838 + 114619 5 chr6 8671180 8676331 + 112126 6 chr6 8671180 8676331 + 112126 7 chr6 8788456 8788714 + 712424 Expected Chromosome Start End Strand Distance 0 chr6 1609306 1616848 + 3940732 1 chr6 5557579 5562730 + 1540420 2 chr6 7103149 7111628 + 216686 3 chr6 7328313 7331946 + 1339235 4 chr6 8671180 8673838 + 114619 5 chr6 8671180 8676331 + 112126 6 chr6 8671180 8676331 + 112126 7 chr6 8788456 8788714 + 712424 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=8, step=1) Expected index RangeIndex(start=0, stop=8, step=1) index equal [ True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb0oekb3f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb0oekb3f/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 9025516 9032926 + 819843 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9025516 | 9032926 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9025516 9032926 + 819843 Expected Chromosome Start End Strand Distance 0 chr1 9025516 9032926 + 819843 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpioyt66md/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpioyt66md/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5177049 5186905 + 1692784 1 chr1 6879688 6881449 + 2971320 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5177049 | 5186905 | a | 0 | ... | | chr1 | 6879688 | 6881449 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5177049 5186905 + 1692784 1 chr1 6879688 6881449 + 2971320 Expected Chromosome Start End Strand Distance 0 chr1 5177049 5186905 + 1692784 1 chr1 6879688 6881449 + 2971320 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpau4ifzwy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpau4ifzwy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp73nm4qh5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp73nm4qh5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 1129696 1132907 - 900392 2 chr1 1161777 1167386 - 28871 3 chr1 1239393 1245002 - 72008 4 chr1 1676250 1681859 - 431249 5 chr1 1676250 1681859 - 431249 6 chr1 1676250 1681859 - 431249 7 chr1 1676250 1681859 - 431249 8 chr1 1676250 1681859 - 431249 9 chr1 3916537 3919404 - 2234679 10 chr1 6749183 6754792 - 2829780 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1129696 | 1132907 | a | 0 | ... | | chr1 | 1161777 | 1167386 | a | 0 | ... | | chr1 | 1239393 | 1245002 | a | 0 | ... | | chr1 | 1676250 | 1681859 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 1676250 | 1681859 | a | 0 | ... | | chr1 | 1676250 | 1681859 | a | 0 | ... | | chr1 | 3916537 | 3919404 | a | 0 | ... | | chr1 | 6749183 | 6754792 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 10 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1129696 1132907 - 900392 1 chr1 1161777 1167386 - 28871 2 chr1 1239393 1245002 - 72008 3 chr1 1676250 1681859 - 431249 4 chr1 1676250 1681859 - 431249 5 chr1 1676250 1681859 - 431249 6 chr1 1676250 1681859 - 431249 7 chr1 1676250 1681859 - 431249 8 chr1 3916537 3919404 - 2234679 9 chr1 6749183 6754792 - 2829780 Expected Chromosome Start End Strand Distance 0 chr1 1129696 1132907 - 900392 1 chr1 1161777 1167386 - 28871 2 chr1 1239393 1245002 - 72008 3 chr1 1676250 1681859 - 431249 4 chr1 1676250 1681859 - 431249 5 chr1 1676250 1681859 - 431249 6 chr1 1676250 1681859 - 431249 7 chr1 1676250 1681859 - 431249 8 chr1 3916537 3919404 - 2234679 9 chr1 6749183 6754792 - 2829780 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=10, step=1) Expected index RangeIndex(start=0, stop=10, step=1) index equal [ True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpec8tb0yl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpec8tb0yl/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 4030950 4033516 + 4176998 2 chr1 4030950 4038910 + 4171604 3 chr1 4030950 4040732 + 4169782 4 chr1 4030950 4040732 + 4169782 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4030950 | 4033516 | a | 0 | ... | | chr1 | 4030950 | 4038910 | a | 0 | ... | | chr1 | 4030950 | 4040732 | a | 0 | ... | | chr1 | 4030950 | 4040732 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4030950 4033516 + 4176998 1 chr1 4030950 4038910 + 4171604 2 chr1 4030950 4040732 + 4169782 3 chr1 4030950 4040732 + 4169782 Expected Chromosome Start End Strand Distance 0 chr1 4030950 4033516 + 4176998 1 chr1 4030950 4038910 + 4171604 2 chr1 4030950 4040732 + 4169782 3 chr1 4030950 4040732 + 4169782 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa0qjzpqf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa0qjzpqf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpywvx3al3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpywvx3al3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4cvfvv26/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4cvfvv26/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_q97xwfd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_q97xwfd/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4ju9w4n6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4ju9w4n6/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplh88ujag/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplh88ujag/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfz9qwcqm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfz9qwcqm/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2145955 2155698 + 3024400 1 chr1 5180097 5189840 + 3524077 4 chr5 3418491 3428234 + 1181673 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2145955 | 2155698 | a | 0 | ... | | chr1 | 5180097 | 5189840 | a | 0 | ... | | chr5 | 3418491 | 3428234 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2145955 2155698 + 3024400 1 chr1 5180097 5189840 + 3524077 2 chr5 3418491 3428234 + 1181673 Expected Chromosome Start End Strand Distance 0 chr1 2145955 2155698 + 3024400 1 chr1 5180097 5189840 + 3524077 2 chr5 3418491 3428234 + 1181673 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp60hjyxuh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp60hjyxuh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvcs_p8zi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvcs_p8zi/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chrX 5006113 5006682 - 2884357 3 chrX 5433607 5434019 - 426926 4 chrX 5433607 5440646 - 426926 5 chrX 5433607 5443468 - 426926 6 chrX 7971152 7978914 - 2527685 7 chrX 8537851 8547712 - 558938 8 chrX 8595322 8596185 - 47611 9 chrX 9383393 9393254 - 787209 10 chrX 9417794 9426113 - 24541 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chrX | 5006113 | 5006682 | a | 0 | ... | | chrX | 5433607 | 5434019 | a | 0 | ... | | chrX | 5433607 | 5440646 | a | 0 | ... | | chrX | 5433607 | 5443468 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chrX | 8537851 | 8547712 | a | 0 | ... | | chrX | 8595322 | 8596185 | a | 0 | ... | | chrX | 9383393 | 9393254 | a | 0 | ... | | chrX | 9417794 | 9426113 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chrX 5006113 5006682 - 2884357 1 chrX 5433607 5434019 - 426926 2 chrX 5433607 5440646 - 426926 3 chrX 5433607 5443468 - 426926 4 chrX 7971152 7978914 - 2527685 5 chrX 8537851 8547712 - 558938 6 chrX 8595322 8596185 - 47611 7 chrX 9383393 9393254 - 787209 8 chrX 9417794 9426113 - 24541 Expected Chromosome Start End Strand Distance 0 chrX 5006113 5006682 - 2884357 1 chrX 5433607 5434019 - 426926 2 chrX 5433607 5440646 - 426926 3 chrX 5433607 5443468 - 426926 4 chrX 7971152 7978914 - 2527685 5 chrX 8537851 8547712 - 558938 6 chrX 8595322 8596185 - 47611 7 chrX 9383393 9393254 - 787209 8 chrX 9417794 9426113 - 24541 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp33_wt0lx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp33_wt0lx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx_5k1bod/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx_5k1bod/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3i39x5af/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3i39x5af/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3jaba1a5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3jaba1a5/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbykcha5t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbykcha5t/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 5482223 5482618 - 2412992 2 chr1 5482223 5491015 - 2412992 3 chr1 9627712 9628107 - 4136698 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5482223 | 5482618 | a | 0 | ... | | chr1 | 5482223 | 5491015 | a | 0 | ... | | chr1 | 9627712 | 9628107 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5482223 5482618 - 2412992 1 chr1 5482223 5491015 - 2412992 2 chr1 9627712 9628107 - 4136698 Expected Chromosome Start End Strand Distance 0 chr1 5482223 5482618 - 2412992 1 chr1 5482223 5491015 - 2412992 2 chr1 9627712 9628107 - 4136698 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmps02mxvm8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps02mxvm8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphfremgmi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphfremgmi/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1ldid98n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1ldid98n/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpun43q3tw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpun43q3tw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1552796 1552951 + 2570890 1 chr1 3878037 3880052 + 243789 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1552796 | 1552951 | a | 0 | ... | | chr1 | 3878037 | 3880052 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1552796 1552951 + 2570890 1 chr1 3878037 3880052 + 243789 Expected Chromosome Start End Strand Distance 0 chr1 1552796 1552951 + 2570890 1 chr1 3878037 3880052 + 243789 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9_w5d9he/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9_w5d9he/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1552796 1552951 + 2570890 1 chr1 3878037 3880052 + 243789 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1552796 | 1552951 | a | 0 | ... | | chr1 | 3878037 | 3880052 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1552796 1552951 + 2570890 1 chr1 3878037 3880052 + 243789 Expected Chromosome Start End Strand Distance 0 chr1 1552796 1552951 + 2570890 1 chr1 3878037 3880052 + 243789 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxfj0fxz5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxfj0fxz5/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp56wq1r8n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp56wq1r8n/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp69xottaw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp69xottaw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 65538 65605 + 21401 1 chr1 87005 87072 + 44472 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 65538 | 65605 | a | 0 | ... | | chr1 | 87005 | 87072 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 65538 65605 + 21401 1 chr1 87005 87072 + 44472 Expected Chromosome Start End Strand Distance 0 chr1 65538 65605 + 21401 1 chr1 87005 87072 + 44472 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr_a52m55/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr_a52m55/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7744858 7754366 - 2808830 1 chr1 7744858 7754366 - 2808830 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7744858 | 7754366 | a | 0 | ... | | chr1 | 7744858 | 7754366 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7744858 7754366 - 2808830 1 chr1 7744858 7754366 - 2808830 Expected Chromosome Start End Strand Distance 0 chr1 7744858 7754366 - 2808830 1 chr1 7744858 7754366 - 2808830 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsusy32dc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsusy32dc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8j7ahzzp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8j7ahzzp/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 529123 532534 + 1450205 3 chr1 605410 608821 + 1373918 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 529123 | 532534 | a | 0 | ... | | chr1 | 605410 | 608821 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 529123 532534 + 1450205 1 chr1 605410 608821 + 1373918 Expected Chromosome Start End Strand Distance 0 chr1 529123 532534 + 1450205 1 chr1 605410 608821 + 1373918 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8ezycsmi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8ezycsmi/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 5512166 5521766 - 86918 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5512166 | 5521766 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5512166 5521766 - 86918 Expected Chromosome Start End Strand Distance 0 chr1 5512166 5521766 - 86918 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpksv95xmr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpksv95xmr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpudfgrszq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpudfgrszq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc01vwob_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc01vwob_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdmhtgf01/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdmhtgf01/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3210717 3220570 + 3281805 1 chr1 3772919 3774482 + 2727893 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3210717 | 3220570 | a | 0 | ... | | chr1 | 3772919 | 3774482 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3210717 3220570 + 3281805 1 chr1 3772919 3774482 + 2727893 Expected Chromosome Start End Strand Distance 0 chr1 3210717 3220570 + 3281805 1 chr1 3772919 3774482 + 2727893 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmheu9kcg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmheu9kcg/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_hqdak1d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_hqdak1d/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2136953 2140476 + 4724102 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2136953 | 2140476 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2136953 2140476 + 4724102 Expected Chromosome Start End Strand Distance 0 chr1 2136953 2140476 + 4724102 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcb9qmt2q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcb9qmt2q/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgx_jh2mv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgx_jh2mv/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 154375 155970 + 1590753 1 chr1 154375 156807 + 1589916 2 chr1 154375 157128 + 1589595 3 chr1 154375 157128 + 1589595 4 chr1 154375 157128 + 1589595 5 chr1 154375 159603 + 1587120 6 chr1 154375 161068 + 1585655 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 154375 | 155970 | a | 0 | ... | | chr1 | 154375 | 156807 | a | 0 | ... | | chr1 | 154375 | 157128 | a | 0 | ... | | chr1 | 154375 | 157128 | a | 0 | ... | | chr1 | 154375 | 157128 | a | 0 | ... | | chr1 | 154375 | 159603 | a | 0 | ... | | chr1 | 154375 | 161068 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 154375 155970 + 1590753 1 chr1 154375 156807 + 1589916 2 chr1 154375 157128 + 1589595 3 chr1 154375 157128 + 1589595 4 chr1 154375 157128 + 1589595 5 chr1 154375 159603 + 1587120 6 chr1 154375 161068 + 1585655 Expected Chromosome Start End Strand Distance 0 chr1 154375 155970 + 1590753 1 chr1 154375 156807 + 1589916 2 chr1 154375 157128 + 1589595 3 chr1 154375 157128 + 1589595 4 chr1 154375 157128 + 1589595 5 chr1 154375 159603 + 1587120 6 chr1 154375 161068 + 1585655 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpube1283z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpube1283z/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_nllrb55/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_nllrb55/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm1k0gutz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm1k0gutz/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr12 6543311 6549639 + 2089951 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr12 | 6543311 | 6549639 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr12 6543311 6549639 + 2089951 Expected Chromosome Start End Strand Distance 0 chr12 6543311 6549639 + 2089951 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo4_p75fp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo4_p75fp/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr12 6543311 6549639 + 2089951 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr12 | 6543311 | 6549639 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr12 6543311 6549639 + 2089951 Expected Chromosome Start End Strand Distance 0 chr12 6543311 6549639 + 2089951 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy7j0f_k4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy7j0f_k4/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2533124 2539039 + 4167385 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2533124 | 2539039 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2533124 2539039 + 4167385 Expected Chromosome Start End Strand Distance 0 chr1 2533124 2539039 + 4167385 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmepnbbwy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmepnbbwy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp61a775n1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp61a775n1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp688zbbrf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp688zbbrf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpweof_3_i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpweof_3_i/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 6658047 6661904 + 413183 1 chr1 6658047 6661904 + 413183 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6658047 | 6661904 | a | 0 | ... | | chr1 | 6658047 | 6661904 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6658047 6661904 + 413183 1 chr1 6658047 6661904 + 413183 Expected Chromosome Start End Strand Distance 0 chr1 6658047 6661904 + 413183 1 chr1 6658047 6661904 + 413183 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdlhyeqll/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdlhyeqll/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpowztmh48/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpowztmh48/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_6gfngng/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_6gfngng/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz5axyoip/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz5axyoip/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptobts37e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptobts37e/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw6o73kr8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw6o73kr8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyt_4bnuc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyt_4bnuc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpaqt49pd_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpaqt49pd_/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1525220 1526148 + 6449686 1 chr1 1525220 1533173 - 1404742 2 chr1 1525220 1534640 + 6441194 3 chr1 1525220 1534640 + 6441194 4 chr1 1525220 1534640 + 6441194 5 chr1 1525220 1534640 + 6441194 6 chr1 1525220 1534640 + 6441194 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1525220 | 1526148 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1533173 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1525220 1526148 + 6449686 1 chr1 1525220 1533173 - 1404742 2 chr1 1525220 1534640 + 6441194 3 chr1 1525220 1534640 + 6441194 4 chr1 1525220 1534640 + 6441194 5 chr1 1525220 1534640 + 6441194 6 chr1 1525220 1534640 + 6441194 Expected Chromosome Start End Strand Distance 0 chr1 1525220 1526148 + 6449686 1 chr1 1525220 1533173 - 1404742 2 chr1 1525220 1534640 + 6441194 3 chr1 1525220 1534640 + 6441194 4 chr1 1525220 1534640 + 6441194 5 chr1 1525220 1534640 + 6441194 6 chr1 1525220 1534640 + 6441194 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5bkmvg3s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5bkmvg3s/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1525220 1526148 + 6449686 1 chr1 1525220 1533173 - 1404742 2 chr1 1525220 1534640 + 6441194 3 chr1 1525220 1534640 + 6441194 4 chr1 1525220 1534640 + 6441194 5 chr1 1525220 1534640 + 6441194 6 chr1 1525220 1534640 + 6441194 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1525220 | 1526148 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1534640 | a | 0 | ... | | chr1 | 1525220 | 1533173 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1525220 1526148 + 6449686 1 chr1 1525220 1533173 - 1404742 2 chr1 1525220 1534640 + 6441194 3 chr1 1525220 1534640 + 6441194 4 chr1 1525220 1534640 + 6441194 5 chr1 1525220 1534640 + 6441194 6 chr1 1525220 1534640 + 6441194 Expected Chromosome Start End Strand Distance 0 chr1 1525220 1526148 + 6449686 1 chr1 1525220 1533173 - 1404742 2 chr1 1525220 1534640 + 6441194 3 chr1 1525220 1534640 + 6441194 4 chr1 1525220 1534640 + 6441194 5 chr1 1525220 1534640 + 6441194 6 chr1 1525220 1534640 + 6441194 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpp7zmtupu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp7zmtupu/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr1 7975833 7981180 - 7855355 3 chr1 7975833 7981180 - 7855355 4 chr1 7975833 7981180 - 7855355 5 chr1 7975833 7981180 - 7855355 6 chr1 7975833 7981180 - 7855355 7 chr1 7975833 7981180 - 7855355 8 chr1 7975833 7982069 - 7855355 9 chr1 7975833 7982120 - 7855355 10 chr1 7975833 7985815 - 7855355 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7975833 | 7981180 | a | 0 | ... | | chr1 | 7975833 | 7981180 | a | 0 | ... | | chr1 | 7975833 | 7981180 | a | 0 | ... | | chr1 | 7975833 | 7981180 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 7975833 | 7981180 | a | 0 | ... | | chr1 | 7975833 | 7982069 | a | 0 | ... | | chr1 | 7975833 | 7982120 | a | 0 | ... | | chr1 | 7975833 | 7985815 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7975833 7981180 - 7855355 1 chr1 7975833 7981180 - 7855355 2 chr1 7975833 7981180 - 7855355 3 chr1 7975833 7981180 - 7855355 4 chr1 7975833 7981180 - 7855355 5 chr1 7975833 7981180 - 7855355 6 chr1 7975833 7982069 - 7855355 7 chr1 7975833 7982120 - 7855355 8 chr1 7975833 7985815 - 7855355 Expected Chromosome Start End Strand Distance 0 chr1 7975833 7981180 - 7855355 1 chr1 7975833 7981180 - 7855355 2 chr1 7975833 7981180 - 7855355 3 chr1 7975833 7981180 - 7855355 4 chr1 7975833 7981180 - 7855355 5 chr1 7975833 7981180 - 7855355 6 chr1 7975833 7982069 - 7855355 7 chr1 7975833 7982120 - 7855355 8 chr1 7975833 7985815 - 7855355 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdy78hho5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdy78hho5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5911810 5912993 - 5198681 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5911810 | 5912993 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5911810 5912993 - 5198681 Expected Chromosome Start End Strand Distance 0 chr1 5911810 5912993 - 5198681 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpft4fe_d5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpft4fe_d5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1780860 1789256 + 1493283 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1780860 | 1789256 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1780860 1789256 + 1493283 Expected Chromosome Start End Strand Distance 0 chr1 1780860 1789256 + 1493283 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5mbsxbpz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5mbsxbpz/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 128251 136647 + 3145892 1 chr1 131332 139728 + 3142811 2 chr1 459590 467986 + 2814553 3 chr1 2865278 2873674 + 408865 4 chr1 2865278 2873674 + 408865 5 chr1 2865278 2873674 + 408865 6 chr1 2865278 2873674 + 408865 7 chr1 2865278 2873674 - 2341121 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 128251 | 136647 | a | 0 | ... | | chr1 | 131332 | 139728 | a | 0 | ... | | chr1 | 459590 | 467986 | a | 0 | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 8 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 128251 136647 + 3145892 1 chr1 131332 139728 + 3142811 2 chr1 459590 467986 + 2814553 3 chr1 2865278 2873674 + 408865 4 chr1 2865278 2873674 + 408865 5 chr1 2865278 2873674 + 408865 6 chr1 2865278 2873674 + 408865 7 chr1 2865278 2873674 - 2341121 Expected Chromosome Start End Strand Distance 0 chr1 128251 136647 + 3145892 1 chr1 131332 139728 + 3142811 2 chr1 459590 467986 + 2814553 3 chr1 2865278 2873674 + 408865 4 chr1 2865278 2873674 + 408865 5 chr1 2865278 2873674 + 408865 6 chr1 2865278 2873674 + 408865 7 chr1 2865278 2873674 - 2341121 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=8, step=1) Expected index RangeIndex(start=0, stop=8, step=1) index equal [ True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1i2upsmd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1i2upsmd/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 128251 136647 + 3145892 1 chr1 131332 139728 + 3142811 2 chr1 459590 467986 + 2814553 3 chr1 2865278 2873674 + 408865 4 chr1 2865278 2873674 + 408865 5 chr1 2865278 2873674 + 408865 6 chr1 2865278 2873674 + 408865 7 chr1 2865278 2873674 + 408865 8 chr1 2865278 2873674 - 2341121 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 128251 | 136647 | a | 0 | ... | | chr1 | 131332 | 139728 | a | 0 | ... | | chr1 | 459590 | 467986 | a | 0 | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | | chr1 | 2865278 | 2873674 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 128251 136647 + 3145892 1 chr1 131332 139728 + 3142811 2 chr1 459590 467986 + 2814553 3 chr1 2865278 2873674 + 408865 4 chr1 2865278 2873674 + 408865 5 chr1 2865278 2873674 + 408865 6 chr1 2865278 2873674 + 408865 7 chr1 2865278 2873674 + 408865 8 chr1 2865278 2873674 - 2341121 Expected Chromosome Start End Strand Distance 0 chr1 128251 136647 + 3145892 1 chr1 131332 139728 + 3142811 2 chr1 459590 467986 + 2814553 3 chr1 2865278 2873674 + 408865 4 chr1 2865278 2873674 + 408865 5 chr1 2865278 2873674 + 408865 6 chr1 2865278 2873674 + 408865 7 chr1 2865278 2873674 + 408865 8 chr1 2865278 2873674 - 2341121 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpasgk7xmq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpasgk7xmq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfxyz3vf9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfxyz3vf9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppa_gs8yy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppa_gs8yy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6h_87bvv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6h_87bvv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0zrzx1d9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0zrzx1d9/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chrX 7523475 7523543 + 1191399 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chrX | 7523475 | 7523543 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chrX 7523475 7523543 + 1191399 Expected Chromosome Start End Strand Distance 0 chrX 7523475 7523543 + 1191399 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwrd60_d_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwrd60_d_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg8aum9n7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg8aum9n7/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpab5nwpn8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpab5nwpn8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvcvfyxjl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvcvfyxjl/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1256369 1262599 + 1851626 1 chr1 1256369 1262599 + 1851626 2 chr1 1256369 1262599 + 1851626 4 chr10 1256369 1262599 + 2633984 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1256369 | 1262599 | a | 0 | ... | | chr1 | 1256369 | 1262599 | a | 0 | ... | | chr1 | 1256369 | 1262599 | a | 0 | ... | | chr10 | 1256369 | 1262599 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1256369 1262599 + 1851626 1 chr1 1256369 1262599 + 1851626 2 chr1 1256369 1262599 + 1851626 3 chr10 1256369 1262599 + 2633984 Expected Chromosome Start End Strand Distance 0 chr1 1256369 1262599 + 1851626 1 chr1 1256369 1262599 + 1851626 2 chr1 1256369 1262599 + 1851626 3 chr10 1256369 1262599 + 2633984 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu9x3dvg7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu9x3dvg7/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 5 chr1 5123182 5131859 + 3807999 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5123182 | 5131859 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5123182 5131859 + 3807999 Expected Chromosome Start End Strand Distance 0 chr1 5123182 5131859 + 3807999 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd69mslaf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd69mslaf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1036615 1037630 + 1000420 1 chr1 2038049 2038871 + 1727562 2 chr1 3766432 3767254 + 5172604 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1036615 | 1037630 | a | 0 | ... | | chr1 | 2038049 | 2038871 | a | 0 | ... | | chr1 | 3766432 | 3767254 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1036615 1037630 + 1000420 1 chr1 2038049 2038871 + 1727562 2 chr1 3766432 3767254 + 5172604 Expected Chromosome Start End Strand Distance 0 chr1 1036615 1037630 + 1000420 1 chr1 2038049 2038871 + 1727562 2 chr1 3766432 3767254 + 5172604 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplyrhxvin/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplyrhxvin/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptrq28mu1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptrq28mu1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpayq0tdrv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpayq0tdrv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp59f_ag6k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp59f_ag6k/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc_oflqqd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc_oflqqd/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 8275150 8284351 + 765875 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8275150 | 8284351 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8275150 8284351 + 765875 Expected Chromosome Start End Strand Distance 0 chr1 8275150 8284351 + 765875 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpas0s_r4_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpas0s_r4_/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3518012 3519754 + 3676232 1 chr1 3736918 3737818 + 3458168 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3518012 | 3519754 | a | 0 | ... | | chr1 | 3736918 | 3737818 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3518012 3519754 + 3676232 1 chr1 3736918 3737818 + 3458168 Expected Chromosome Start End Strand Distance 0 chr1 3518012 3519754 + 3676232 1 chr1 3736918 3737818 + 3458168 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkmk1xxqb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkmk1xxqb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6e3snync/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6e3snync/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjxgtyz68/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjxgtyz68/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3576232 3576597 + 683880 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3576232 | 3576597 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3576232 3576597 + 683880 Expected Chromosome Start End Strand Distance 0 chr1 3576232 3576597 + 683880 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpp4cr2zbf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp4cr2zbf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4260476 4269743 + 3669663 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4260476 | 4269743 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4260476 4269743 + 3669663 Expected Chromosome Start End Strand Distance 0 chr1 4260476 4269743 + 3669663 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0vzqlh35/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0vzqlh35/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx5meuchx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx5meuchx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfilqf13k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfilqf13k/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 9056600 9061804 - 3845752 4 chr22 4120443 4120823 - 2188955 5 chr22 4217959 4221270 - 97137 6 chr22 5202033 5206813 - 980764 7 chr22 5202033 5208277 - 980764 8 chr22 5202033 5211386 - 980764 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9056600 | 9061804 | a | 0 | ... | | chr22 | 4120443 | 4120823 | a | 0 | ... | | chr22 | 4217959 | 4221270 | a | 0 | ... | | chr22 | 5202033 | 5206813 | a | 0 | ... | | chr22 | 5202033 | 5208277 | a | 0 | ... | | chr22 | 5202033 | 5211386 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9056600 9061804 - 3845752 1 chr22 4120443 4120823 - 2188955 2 chr22 4217959 4221270 - 97137 3 chr22 5202033 5206813 - 980764 4 chr22 5202033 5208277 - 980764 5 chr22 5202033 5211386 - 980764 Expected Chromosome Start End Strand Distance 0 chr1 9056600 9061804 - 3845752 1 chr22 4120443 4120823 - 2188955 2 chr22 4217959 4221270 - 97137 3 chr22 5202033 5206813 - 980764 4 chr22 5202033 5208277 - 980764 5 chr22 5202033 5211386 - 980764 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpevidyclg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpevidyclg/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1113574 1119338 + 964597 1 chr1 1304601 1304983 + 778952 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1113574 | 1119338 | a | 0 | ... | | chr1 | 1304601 | 1304983 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1113574 1119338 + 964597 1 chr1 1304601 1304983 + 778952 Expected Chromosome Start End Strand Distance 0 chr1 1113574 1119338 + 964597 1 chr1 1304601 1304983 + 778952 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprn68_i3g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprn68_i3g/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1113574 1119338 + 964597 1 chr1 1304601 1304983 + 778952 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1113574 | 1119338 | a | 0 | ... | | chr1 | 1304601 | 1304983 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1113574 1119338 + 964597 1 chr1 1304601 1304983 + 778952 Expected Chromosome Start End Strand Distance 0 chr1 1113574 1119338 + 964597 1 chr1 1304601 1304983 + 778952 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzovg0p60/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzovg0p60/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 9802359 9802650 - 7654784 1 chr1 9802359 9802859 - 7654784 2 chr1 9802359 9806140 - 7654784 7 chr1 9802359 9808636 - 7654784 8 chr1 9802359 9808636 - 7654784 9 chr1 9802359 9809147 - 7654784 10 chr1 9802359 9810146 - 7654784 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9802359 | 9802650 | a | 0 | ... | | chr1 | 9802359 | 9802859 | a | 0 | ... | | chr1 | 9802359 | 9806140 | a | 0 | ... | | chr1 | 9802359 | 9808636 | a | 0 | ... | | chr1 | 9802359 | 9808636 | a | 0 | ... | | chr1 | 9802359 | 9809147 | a | 0 | ... | | chr1 | 9802359 | 9810146 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9802359 9802650 - 7654784 1 chr1 9802359 9802859 - 7654784 2 chr1 9802359 9806140 - 7654784 3 chr1 9802359 9808636 - 7654784 4 chr1 9802359 9808636 - 7654784 5 chr1 9802359 9809147 - 7654784 6 chr1 9802359 9810146 - 7654784 Expected Chromosome Start End Strand Distance 0 chr1 9802359 9802650 - 7654784 1 chr1 9802359 9802859 - 7654784 2 chr1 9802359 9806140 - 7654784 3 chr1 9802359 9808636 - 7654784 4 chr1 9802359 9808636 - 7654784 5 chr1 9802359 9809147 - 7654784 6 chr1 9802359 9810146 - 7654784 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2fjlggla/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2fjlggla/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7jttc0ii/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7jttc0ii/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp20_glvwf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp20_glvwf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1r9pz__2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1r9pz__2/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1458454 1461006 + 395026 1 chr1 1856031 1858779 + 5711902 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1458454 | 1461006 | a | 0 | ... | | chr1 | 1856031 | 1858779 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1458454 1461006 + 395026 1 chr1 1856031 1858779 + 5711902 Expected Chromosome Start End Strand Distance 0 chr1 1458454 1461006 + 395026 1 chr1 1856031 1858779 + 5711902 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv3kceabx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv3kceabx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9t5gy7ao/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9t5gy7ao/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc3992xfa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc3992xfa/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1652292 1654249 - 941497 5 chr1 1652292 1659336 - 941497 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1652292 | 1654249 | a | 0 | ... | | chr1 | 1652292 | 1659336 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1652292 1654249 - 941497 1 chr1 1652292 1659336 - 941497 Expected Chromosome Start End Strand Distance 0 chr1 1652292 1654249 - 941497 1 chr1 1652292 1659336 - 941497 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzgm147g5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzgm147g5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 631537 636518 + 3777052 2 chr1 817520 822501 + 3591069 3 chr1 817520 826244 + 3587326 4 chr1 2813151 2818132 + 1595438 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 631537 | 636518 | a | 0 | ... | | chr1 | 817520 | 822501 | a | 0 | ... | | chr1 | 817520 | 826244 | a | 0 | ... | | chr1 | 2813151 | 2818132 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 631537 636518 + 3777052 1 chr1 817520 822501 + 3591069 2 chr1 817520 826244 + 3587326 3 chr1 2813151 2818132 + 1595438 Expected Chromosome Start End Strand Distance 0 chr1 631537 636518 + 3777052 1 chr1 817520 822501 + 3591069 2 chr1 817520 826244 + 3587326 3 chr1 2813151 2818132 + 1595438 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyya18vkl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyya18vkl/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxj14mai5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxj14mai5/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9879nv9g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9879nv9g/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp894gtkvv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp894gtkvv/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4131172 4131936 - 257335 1 chr1 4131172 4133715 - 257335 2 chr1 4131172 4133715 - 257335 3 chr1 4131172 4133972 - 257335 4 chr1 4131172 4139817 - 257335 5 chr1 4131172 4140215 + 1754593 6 chr1 4131172 4141170 + 1753638 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4131172 | 4140215 | a | 0 | ... | | chr1 | 4131172 | 4141170 | a | 0 | ... | | chr1 | 4131172 | 4131936 | a | 0 | ... | | chr1 | 4131172 | 4133715 | a | 0 | ... | | chr1 | 4131172 | 4133715 | a | 0 | ... | | chr1 | 4131172 | 4133972 | a | 0 | ... | | chr1 | 4131172 | 4139817 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4131172 4131936 - 257335 1 chr1 4131172 4133715 - 257335 2 chr1 4131172 4133715 - 257335 3 chr1 4131172 4133972 - 257335 4 chr1 4131172 4139817 - 257335 5 chr1 4131172 4140215 + 1754593 6 chr1 4131172 4141170 + 1753638 Expected Chromosome Start End Strand Distance 0 chr1 4131172 4131936 - 257335 1 chr1 4131172 4133715 - 257335 2 chr1 4131172 4133715 - 257335 3 chr1 4131172 4133972 - 257335 4 chr1 4131172 4139817 - 257335 5 chr1 4131172 4140215 + 1754593 6 chr1 4131172 4141170 + 1753638 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphngr36in/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphngr36in/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 3871018 3873838 - 3397123 2 chr1 5894807 5896784 + 2126519 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5894807 | 5896784 | a | 0 | ... | | chr1 | 3871018 | 3873838 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3871018 3873838 - 3397123 1 chr1 5894807 5896784 + 2126519 Expected Chromosome Start End Strand Distance 0 chr1 3871018 3873838 - 3397123 1 chr1 5894807 5896784 + 2126519 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprbbk_08y/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprbbk_08y/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 464507 473896 + 1558182 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 464507 | 473896 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 464507 473896 + 1558182 Expected Chromosome Start End Strand Distance 0 chr1 464507 473896 + 1558182 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4ddrgfzh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4ddrgfzh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_0tgs5lh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_0tgs5lh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpam6wsv4h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpam6wsv4h/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1xljfocf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1xljfocf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 257 514 + 2184860 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 257 | 514 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 257 514 + 2184860 Expected Chromosome Start End Strand Distance 0 chr1 257 514 + 2184860 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp526vjauv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp526vjauv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmjady61i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmjady61i/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphg7__3pc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphg7__3pc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1_6i1j7o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1_6i1j7o/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgjg4vcov/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgjg4vcov/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1581986 1584318 - 1267840 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1581986 | 1584318 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1581986 1584318 - 1267840 Expected Chromosome Start End Strand Distance 0 chr1 1581986 1584318 - 1267840 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7qgvx24_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7qgvx24_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf_52nfau/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf_52nfau/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqbu4ccom/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqbu4ccom/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxlcqjx2i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxlcqjx2i/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chr1 9038064 9044764 - 1274858 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9038064 | 9044764 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9038064 9044764 - 1274858 Expected Chromosome Start End Strand Distance 0 chr1 9038064 9044764 - 1274858 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbuvvn4o5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbuvvn4o5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3179451 3184382 + 6540809 1 chr1 3696869 3701547 + 6023644 2 chr1 3696869 3701800 + 6023391 3 chr1 3696869 3701800 + 6023391 4 chr1 3696869 3701800 + 6023391 5 chr1 3696869 3701800 + 6023391 6 chr1 3696869 3701800 + 6023391 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3179451 | 3184382 | a | 0 | ... | | chr1 | 3696869 | 3701547 | a | 0 | ... | | chr1 | 3696869 | 3701800 | a | 0 | ... | | chr1 | 3696869 | 3701800 | a | 0 | ... | | chr1 | 3696869 | 3701800 | a | 0 | ... | | chr1 | 3696869 | 3701800 | a | 0 | ... | | chr1 | 3696869 | 3701800 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3179451 3184382 + 6540809 1 chr1 3696869 3701547 + 6023644 2 chr1 3696869 3701800 + 6023391 3 chr1 3696869 3701800 + 6023391 4 chr1 3696869 3701800 + 6023391 5 chr1 3696869 3701800 + 6023391 6 chr1 3696869 3701800 + 6023391 Expected Chromosome Start End Strand Distance 0 chr1 3179451 3184382 + 6540809 1 chr1 3696869 3701547 + 6023644 2 chr1 3696869 3701800 + 6023391 3 chr1 3696869 3701800 + 6023391 4 chr1 3696869 3701800 + 6023391 5 chr1 3696869 3701800 + 6023391 6 chr1 3696869 3701800 + 6023391 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcy3lw5yl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcy3lw5yl/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5763075 5765693 + 986774 1 chr1 5763075 5765693 + 986774 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5763075 | 5765693 | a | 0 | ... | | chr1 | 5763075 | 5765693 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5763075 5765693 + 986774 1 chr1 5763075 5765693 + 986774 Expected Chromosome Start End Strand Distance 0 chr1 5763075 5765693 + 986774 1 chr1 5763075 5765693 + 986774 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcuka1f83/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcuka1f83/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa4do4ld4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa4do4ld4/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpic3reg9d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpic3reg9d/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvdyppbsc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvdyppbsc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmporthphkx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmporthphkx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo2hz82xd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo2hz82xd/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgpcnqikl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgpcnqikl/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph1zo7wv3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph1zo7wv3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4h9dhs3e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4h9dhs3e/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2_l8vi6w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2_l8vi6w/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprh4uvqve/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprh4uvqve/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu_dbbxl8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu_dbbxl8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp34y6ep0x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp34y6ep0x/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 65592 65645 + 8688682 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 65592 | 65645 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 65592 65645 + 8688682 Expected Chromosome Start End Strand Distance 0 chr1 65592 65645 + 8688682 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpluh0qq12/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpluh0qq12/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2 259 + 8754068 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2 | 259 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2 259 + 8754068 Expected Chromosome Start End Strand Distance 0 chr1 2 259 + 8754068 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf1fvezx_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf1fvezx_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8jfcfk_f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8jfcfk_f/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc8v9pw9l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc8v9pw9l/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl7jwsvs0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl7jwsvs0/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 369014 369610 + 6419741 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 369014 | 369610 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 369014 369610 + 6419741 Expected Chromosome Start End Strand Distance 0 chr1 369014 369610 + 6419741 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0v0dcto_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0v0dcto_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoejjiie4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoejjiie4/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr13 1694176 1700780 + 3759419 1 chr13 1694176 1701903 + 3758296 2 chr13 3098556 3106283 + 2353916 3 chr13 3422773 3426582 + 2033617 4 chr13 3906169 3913896 + 1546303 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr13 | 1694176 | 1700780 | a | 0 | ... | | chr13 | 1694176 | 1701903 | a | 0 | ... | | chr13 | 3098556 | 3106283 | a | 0 | ... | | chr13 | 3422773 | 3426582 | a | 0 | ... | | chr13 | 3906169 | 3913896 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 5 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr13 1694176 1700780 + 3759419 1 chr13 1694176 1701903 + 3758296 2 chr13 3098556 3106283 + 2353916 3 chr13 3422773 3426582 + 2033617 4 chr13 3906169 3913896 + 1546303 Expected Chromosome Start End Strand Distance 0 chr13 1694176 1700780 + 3759419 1 chr13 1694176 1701903 + 3758296 2 chr13 3098556 3106283 + 2353916 3 chr13 3422773 3426582 + 2033617 4 chr13 3906169 3913896 + 1546303 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=5, step=1) Expected index RangeIndex(start=0, stop=5, step=1) index equal [ True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx0penjqp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx0penjqp/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 906555 909983 + 4550216 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 906555 | 909983 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 906555 909983 + 4550216 Expected Chromosome Start End Strand Distance 0 chr1 906555 909983 + 4550216 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj4zp150t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj4zp150t/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd9anh179/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd9anh179/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp08obtp0v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp08obtp0v/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx9k1for6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx9k1for6/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp34lskfmk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp34lskfmk/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 6242878 6243082 + 3535273 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6242878 | 6243082 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6242878 6243082 + 3535273 Expected Chromosome Start End Strand Distance 0 chr1 6242878 6243082 + 3535273 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptwq82z_j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptwq82z_j/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp98umnq_a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp98umnq_a/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbm5xpmkq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbm5xpmkq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp204ltvqt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp204ltvqt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8mteae0r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8mteae0r/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6m55dxuw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6m55dxuw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 6070273 6076131 - 2382910 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6070273 | 6076131 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6070273 6076131 - 2382910 Expected Chromosome Start End Strand Distance 0 chr1 6070273 6076131 - 2382910 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8qcogpwu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8qcogpwu/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzdgett63/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzdgett63/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzsg3b7ts/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzsg3b7ts/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4443046 4450995 - 1097865 1 chr1 8520677 8528626 - 5175496 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4443046 | 4450995 | a | 0 | ... | | chr1 | 8520677 | 8528626 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4443046 4450995 - 1097865 1 chr1 8520677 8528626 - 5175496 Expected Chromosome Start End Strand Distance 0 chr1 4443046 4450995 - 1097865 1 chr1 8520677 8528626 - 5175496 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpax31cnt_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpax31cnt_/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4443046 4450995 - 1097865 1 chr1 8520677 8528626 - 5175496 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4443046 | 4450995 | a | 0 | ... | | chr1 | 8520677 | 8528626 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4443046 4450995 - 1097865 1 chr1 8520677 8528626 - 5175496 Expected Chromosome Start End Strand Distance 0 chr1 4443046 4450995 - 1097865 1 chr1 8520677 8528626 - 5175496 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm9my7z2j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm9my7z2j/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 3339390 3341941 - 1607192 2 chr1 3339390 3341941 - 1607192 3 chr1 3339390 3341941 - 1607192 4 chr1 3339390 3341941 - 1607192 5 chr1 3339390 3341941 - 1607192 6 chr1 3339390 3341941 - 1607192 7 chr1 3339390 3341941 - 1607192 8 chr1 3339390 3341941 - 1607192 9 chr1 3339390 3345182 - 1607192 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3339390 | 3341941 | a | 0 | ... | | chr1 | 3339390 | 3341941 | a | 0 | ... | | chr1 | 3339390 | 3341941 | a | 0 | ... | | chr1 | 3339390 | 3341941 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 3339390 | 3341941 | a | 0 | ... | | chr1 | 3339390 | 3341941 | a | 0 | ... | | chr1 | 3339390 | 3341941 | a | 0 | ... | | chr1 | 3339390 | 3345182 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3339390 3341941 - 1607192 1 chr1 3339390 3341941 - 1607192 2 chr1 3339390 3341941 - 1607192 3 chr1 3339390 3341941 - 1607192 4 chr1 3339390 3341941 - 1607192 5 chr1 3339390 3341941 - 1607192 6 chr1 3339390 3341941 - 1607192 7 chr1 3339390 3341941 - 1607192 8 chr1 3339390 3345182 - 1607192 Expected Chromosome Start End Strand Distance 0 chr1 3339390 3341941 - 1607192 1 chr1 3339390 3341941 - 1607192 2 chr1 3339390 3341941 - 1607192 3 chr1 3339390 3341941 - 1607192 4 chr1 3339390 3341941 - 1607192 5 chr1 3339390 3341941 - 1607192 6 chr1 3339390 3341941 - 1607192 7 chr1 3339390 3341941 - 1607192 8 chr1 3339390 3345182 - 1607192 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9dr72a3g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9dr72a3g/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3536940 3541139 - 2670732 2 chr1 6551566 6556467 - 307298 3 chr1 6551566 6556692 - 307298 4 chr1 6551566 6559273 - 307298 5 chr1 7619460 7621346 - 1375192 6 chr1 8626476 8628362 - 98462 7 chr1 9180854 9182740 - 652840 8 chr1 9474213 9477083 - 946199 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3536940 | 3541139 | a | 0 | ... | | chr1 | 6551566 | 6556467 | a | 0 | ... | | chr1 | 6551566 | 6556692 | a | 0 | ... | | chr1 | 6551566 | 6559273 | a | 0 | ... | | chr1 | 7619460 | 7621346 | a | 0 | ... | | chr1 | 8626476 | 8628362 | a | 0 | ... | | chr1 | 9180854 | 9182740 | a | 0 | ... | | chr1 | 9474213 | 9477083 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 8 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3536940 3541139 - 2670732 1 chr1 6551566 6556467 - 307298 2 chr1 6551566 6556692 - 307298 3 chr1 6551566 6559273 - 307298 4 chr1 7619460 7621346 - 1375192 5 chr1 8626476 8628362 - 98462 6 chr1 9180854 9182740 - 652840 7 chr1 9474213 9477083 - 946199 Expected Chromosome Start End Strand Distance 0 chr1 3536940 3541139 - 2670732 1 chr1 6551566 6556467 - 307298 2 chr1 6551566 6556692 - 307298 3 chr1 6551566 6559273 - 307298 4 chr1 7619460 7621346 - 1375192 5 chr1 8626476 8628362 - 98462 6 chr1 9180854 9182740 - 652840 7 chr1 9474213 9477083 - 946199 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=8, step=1) Expected index RangeIndex(start=0, stop=8, step=1) index equal [ True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphhcy4cij/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphhcy4cij/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3536940 3541139 - 2670732 2 chr1 6551566 6556467 - 307298 3 chr1 6551566 6556692 - 307298 4 chr1 6551566 6559273 - 307298 5 chr1 7619460 7621346 - 1375192 6 chr1 8626476 8628362 - 98462 7 chr1 9180854 9182740 - 652840 8 chr1 9474213 9477083 - 946199 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3536940 | 3541139 | a | 0 | ... | | chr1 | 6551566 | 6556467 | a | 0 | ... | | chr1 | 6551566 | 6556692 | a | 0 | ... | | chr1 | 6551566 | 6559273 | a | 0 | ... | | chr1 | 7619460 | 7621346 | a | 0 | ... | | chr1 | 8626476 | 8628362 | a | 0 | ... | | chr1 | 9180854 | 9182740 | a | 0 | ... | | chr1 | 9474213 | 9477083 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 8 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3536940 3541139 - 2670732 1 chr1 6551566 6556467 - 307298 2 chr1 6551566 6556692 - 307298 3 chr1 6551566 6559273 - 307298 4 chr1 7619460 7621346 - 1375192 5 chr1 8626476 8628362 - 98462 6 chr1 9180854 9182740 - 652840 7 chr1 9474213 9477083 - 946199 Expected Chromosome Start End Strand Distance 0 chr1 3536940 3541139 - 2670732 1 chr1 6551566 6556467 - 307298 2 chr1 6551566 6556692 - 307298 3 chr1 6551566 6559273 - 307298 4 chr1 7619460 7621346 - 1375192 5 chr1 8626476 8628362 - 98462 6 chr1 9180854 9182740 - 652840 7 chr1 9474213 9477083 - 946199 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=8, step=1) Expected index RangeIndex(start=0, stop=8, step=1) index equal [ True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppfni7qg1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppfni7qg1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3av_xckd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3av_xckd/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 66216 66218 + 2663 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 66216 | 66218 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 66216 66218 + 2663 Expected Chromosome Start End Strand Distance 0 chr1 66216 66218 + 2663 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp890jwiuc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp890jwiuc/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 66216 66218 + 2663 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 66216 | 66218 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 66216 66218 + 2663 Expected Chromosome Start End Strand Distance 0 chr1 66216 66218 + 2663 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx8d5vql9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx8d5vql9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpus31m210/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpus31m210/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy9qspqbp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy9qspqbp/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7350395 7353629 - 2207055 1 chr1 7350395 7353629 - 2207055 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7350395 | 7353629 | a | 0 | ... | | chr1 | 7350395 | 7353629 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7350395 7353629 - 2207055 1 chr1 7350395 7353629 - 2207055 Expected Chromosome Start End Strand Distance 0 chr1 7350395 7353629 - 2207055 1 chr1 7350395 7353629 - 2207055 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0sylxkp3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0sylxkp3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbohgy4fr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbohgy4fr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvro87005/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvro87005/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp55pbp8gd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp55pbp8gd/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr22 1555977 1556997 - 1084879 3 chr22 7363740 7371408 - 5806744 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr22 | 1555977 | 1556997 | a | 0 | ... | | chr22 | 7363740 | 7371408 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr22 1555977 1556997 - 1084879 1 chr22 7363740 7371408 - 5806744 Expected Chromosome Start End Strand Distance 0 chr22 1555977 1556997 - 1084879 1 chr22 7363740 7371408 - 5806744 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0vmslyqj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0vmslyqj/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn4y8zrpq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn4y8zrpq/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 234644 239525 + 1681236 1 chr1 2145666 2150333 + 5606855 2 chr1 6011629 6014984 + 1742204 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 234644 | 239525 | a | 0 | ... | | chr1 | 2145666 | 2150333 | a | 0 | ... | | chr1 | 6011629 | 6014984 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 234644 239525 + 1681236 1 chr1 2145666 2150333 + 5606855 2 chr1 6011629 6014984 + 1742204 Expected Chromosome Start End Strand Distance 0 chr1 234644 239525 + 1681236 1 chr1 2145666 2150333 + 5606855 2 chr1 6011629 6014984 + 1742204 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw7dxinnh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw7dxinnh/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1920760 1921528 + 5835660 5 chr9 870580 871348 + 1869361 6 chr9 2740708 2741476 + 5015712 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1920760 | 1921528 | a | 0 | ... | | chr9 | 870580 | 871348 | a | 0 | ... | | chr9 | 2740708 | 2741476 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1920760 1921528 + 5835660 1 chr9 870580 871348 + 1869361 2 chr9 2740708 2741476 + 5015712 Expected Chromosome Start End Strand Distance 0 chr1 1920760 1921528 + 5835660 1 chr9 870580 871348 + 1869361 2 chr9 2740708 2741476 + 5015712 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbba1uew4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbba1uew4/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1936422 1945822 + 2597600 1 chr1 2232621 2242021 + 2301401 2 chr1 2232621 2242021 + 2301401 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1936422 | 1945822 | a | 0 | ... | | chr1 | 2232621 | 2242021 | a | 0 | ... | | chr1 | 2232621 | 2242021 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1936422 1945822 + 2597600 1 chr1 2232621 2242021 + 2301401 2 chr1 2232621 2242021 + 2301401 Expected Chromosome Start End Strand Distance 0 chr1 1936422 1945822 + 2597600 1 chr1 2232621 2242021 + 2301401 2 chr1 2232621 2242021 + 2301401 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7e5rfufq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7e5rfufq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgx8yn6od/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgx8yn6od/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6gxl1lp9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6gxl1lp9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpasr9i1zo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpasr9i1zo/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbh7fns5x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbh7fns5x/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfznnw08z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfznnw08z/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi3ua828_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi3ua828_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph98gubk_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph98gubk_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9nf9sx0i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9nf9sx0i/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_3y8f326/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_3y8f326/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 8717057 8717314 - 8716799 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8717057 | 8717314 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8717057 8717314 - 8716799 Expected Chromosome Start End Strand Distance 0 chr1 8717057 8717314 - 8716799 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfcd8c1sq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfcd8c1sq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcv57baq3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcv57baq3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3n93u1aw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3n93u1aw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 9840756 9843609 - 244489 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9840756 | 9843609 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9840756 9843609 - 244489 Expected Chromosome Start End Strand Distance 0 chr1 9840756 9843609 - 244489 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuf6ob8ax/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuf6ob8ax/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9g03bk6o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9g03bk6o/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz99_dnl0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz99_dnl0/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm5tytiu1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm5tytiu1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfm8tppo_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfm8tppo_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx3gtuqgx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx3gtuqgx/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7674516 7683601 - 1924419 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7674516 | 7683601 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7674516 7683601 - 1924419 Expected Chromosome Start End Strand Distance 0 chr1 7674516 7683601 - 1924419 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe4gte6vf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe4gte6vf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 4 chr9 1085427 1092676 + 3988816 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr9 | 1085427 | 1092676 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr9 1085427 1092676 + 3988816 Expected Chromosome Start End Strand Distance 0 chr9 1085427 1092676 + 3988816 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpaucfapd4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpaucfapd4/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr9 540100 542822 + 4538670 1 chr9 5081491 5084213 + 3665753 2 chr9 5081491 5084213 + 3665753 3 chr9 5081491 5084213 + 3665753 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr9 | 540100 | 542822 | a | 0 | ... | | chr9 | 5081491 | 5084213 | a | 0 | ... | | chr9 | 5081491 | 5084213 | a | 0 | ... | | chr9 | 5081491 | 5084213 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr9 540100 542822 + 4538670 1 chr9 5081491 5084213 + 3665753 2 chr9 5081491 5084213 + 3665753 3 chr9 5081491 5084213 + 3665753 Expected Chromosome Start End Strand Distance 0 chr9 540100 542822 + 4538670 1 chr9 5081491 5084213 + 3665753 2 chr9 5081491 5084213 + 3665753 3 chr9 5081491 5084213 + 3665753 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwxb_04as/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwxb_04as/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplzkv_j1f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplzkv_j1f/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxud0z1du/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxud0z1du/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp23wj_hpc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp23wj_hpc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkm1uz96n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkm1uz96n/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 9074098 9079938 - 6652541 1 chr1 9074098 9079938 - 6652541 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9074098 | 9079938 | a | 0 | ... | | chr1 | 9074098 | 9079938 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9074098 9079938 - 6652541 1 chr1 9074098 9079938 - 6652541 Expected Chromosome Start End Strand Distance 0 chr1 9074098 9079938 - 6652541 1 chr1 9074098 9079938 - 6652541 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvn2i_uf9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvn2i_uf9/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2104717 2112963 - 1274105 1 chr1 2213223 2221438 - 1382611 2 chr1 2213223 2221469 - 1382611 3 chr1 2213223 2221469 - 1382611 4 chr1 2213223 2221469 - 1382611 5 chr1 6888176 6896422 - 1787549 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2104717 | 2112963 | a | 0 | ... | | chr1 | 2213223 | 2221438 | a | 0 | ... | | chr1 | 2213223 | 2221469 | a | 0 | ... | | chr1 | 2213223 | 2221469 | a | 0 | ... | | chr1 | 2213223 | 2221469 | a | 0 | ... | | chr1 | 6888176 | 6896422 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2104717 2112963 - 1274105 1 chr1 2213223 2221438 - 1382611 2 chr1 2213223 2221469 - 1382611 3 chr1 2213223 2221469 - 1382611 4 chr1 2213223 2221469 - 1382611 5 chr1 6888176 6896422 - 1787549 Expected Chromosome Start End Strand Distance 0 chr1 2104717 2112963 - 1274105 1 chr1 2213223 2221438 - 1382611 2 chr1 2213223 2221469 - 1382611 3 chr1 2213223 2221469 - 1382611 4 chr1 2213223 2221469 - 1382611 5 chr1 6888176 6896422 - 1787549 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplbat0qrr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplbat0qrr/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 824368 830613 - 447118 2 chr1 2241854 2248099 - 1411242 3 chr1 5094926 5100628 - 2846828 4 chr1 6896200 6897311 - 1795573 5 chr1 6896200 6898188 - 1795573 6 chr1 6896200 6901214 - 1795573 7 chr1 6896200 6902445 - 1795573 8 chr1 6896200 6902445 - 1795573 9 chr1 6896200 6902445 - 1795573 10 chr1 6896200 6904268 - 1795573 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 824368 | 830613 | a | 0 | ... | | chr1 | 2241854 | 2248099 | a | 0 | ... | | chr1 | 5094926 | 5100628 | a | 0 | ... | | chr1 | 6896200 | 6897311 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 6896200 | 6902445 | a | 0 | ... | | chr1 | 6896200 | 6902445 | a | 0 | ... | | chr1 | 6896200 | 6902445 | a | 0 | ... | | chr1 | 6896200 | 6904268 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 10 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 824368 830613 - 447118 1 chr1 2241854 2248099 - 1411242 2 chr1 5094926 5100628 - 2846828 3 chr1 6896200 6897311 - 1795573 4 chr1 6896200 6898188 - 1795573 5 chr1 6896200 6901214 - 1795573 6 chr1 6896200 6902445 - 1795573 7 chr1 6896200 6902445 - 1795573 8 chr1 6896200 6902445 - 1795573 9 chr1 6896200 6904268 - 1795573 Expected Chromosome Start End Strand Distance 0 chr1 824368 830613 - 447118 1 chr1 2241854 2248099 - 1411242 2 chr1 5094926 5100628 - 2846828 3 chr1 6896200 6897311 - 1795573 4 chr1 6896200 6898188 - 1795573 5 chr1 6896200 6901214 - 1795573 6 chr1 6896200 6902445 - 1795573 7 chr1 6896200 6902445 - 1795573 8 chr1 6896200 6902445 - 1795573 9 chr1 6896200 6904268 - 1795573 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=10, step=1) Expected index RangeIndex(start=0, stop=10, step=1) index equal [ True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkzp5nndf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkzp5nndf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkx5a1dfy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkx5a1dfy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzv8_onfy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzv8_onfy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp60wgocu5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp60wgocu5/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwy0lwec8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwy0lwec8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpaiz9tw1g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpaiz9tw1g/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg262cblj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg262cblj/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb7qx_0uf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb7qx_0uf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7899330 7903539 - 6398803 1 chr1 7899330 7904569 - 6398803 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7899330 | 7903539 | a | 0 | ... | | chr1 | 7899330 | 7904569 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7899330 7903539 - 6398803 1 chr1 7899330 7904569 - 6398803 Expected Chromosome Start End Strand Distance 0 chr1 7899330 7903539 - 6398803 1 chr1 7899330 7904569 - 6398803 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpt1rs0wok/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt1rs0wok/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw_qoxj4i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw_qoxj4i/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz29f95bh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz29f95bh/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr1 7140250 7146319 + 1564464 10 chr1 9513342 9519411 - 795666 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7140250 | 7146319 | a | 0 | ... | | chr1 | 9513342 | 9519411 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7140250 7146319 + 1564464 1 chr1 9513342 9519411 - 795666 Expected Chromosome Start End Strand Distance 0 chr1 7140250 7146319 + 1564464 1 chr1 9513342 9519411 - 795666 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8wo8c0lt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8wo8c0lt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9g7j9cst/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9g7j9cst/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9t06vvvf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9t06vvvf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa84f2ouw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa84f2ouw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdb8p2hri/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdb8p2hri/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpip47b6q9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpip47b6q9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptntx0i75/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptntx0i75/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi2_4jpqj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi2_4jpqj/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqlyhqrps/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqlyhqrps/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxfbk1p4j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxfbk1p4j/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeg0_v06t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeg0_v06t/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3589024 3590464 - 947773 1 chr1 3589024 3590751 + 2293130 2 chr1 3589024 3597369 + 2286512 3 chr1 3589024 3597369 - 947773 4 chr1 3589024 3597369 - 947773 5 chr1 3589024 3597369 - 947773 6 chr1 3589024 3597369 - 947773 7 chr1 3589024 3597369 - 947773 8 chr1 3589024 3597369 - 947773 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3589024 | 3590751 | a | 0 | ... | | chr1 | 3589024 | 3597369 | a | 0 | ... | | chr1 | 3589024 | 3590464 | a | 0 | ... | | chr1 | 3589024 | 3597369 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 3589024 | 3597369 | a | 0 | ... | | chr1 | 3589024 | 3597369 | a | 0 | ... | | chr1 | 3589024 | 3597369 | a | 0 | ... | | chr1 | 3589024 | 3597369 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3589024 3590464 - 947773 1 chr1 3589024 3590751 + 2293130 2 chr1 3589024 3597369 + 2286512 3 chr1 3589024 3597369 - 947773 4 chr1 3589024 3597369 - 947773 5 chr1 3589024 3597369 - 947773 6 chr1 3589024 3597369 - 947773 7 chr1 3589024 3597369 - 947773 8 chr1 3589024 3597369 - 947773 Expected Chromosome Start End Strand Distance 0 chr1 3589024 3590464 - 947773 1 chr1 3589024 3590751 + 2293130 2 chr1 3589024 3597369 + 2286512 3 chr1 3589024 3597369 - 947773 4 chr1 3589024 3597369 - 947773 5 chr1 3589024 3597369 - 947773 6 chr1 3589024 3597369 - 947773 7 chr1 3589024 3597369 - 947773 8 chr1 3589024 3597369 - 947773 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3xzio8ih/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3xzio8ih/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1641257 1641303 + 4242578 9 chr1 5883880 5893587 - 3242629 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1641257 | 1641303 | a | 0 | ... | | chr1 | 5883880 | 5893587 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1641257 1641303 + 4242578 1 chr1 5883880 5893587 - 3242629 Expected Chromosome Start End Strand Distance 0 chr1 1641257 1641303 + 4242578 1 chr1 5883880 5893587 - 3242629 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7t9upgi1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7t9upgi1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo4elbdcf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo4elbdcf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 301257 304742 + 2221571 1 chr1 2526312 2529797 + 4490896 2 chr1 2526312 2529797 + 4490896 3 chr1 2526312 2529797 + 4490896 4 chr1 2526312 2529797 + 4490896 5 chr1 7020692 7024177 + 1915713 6 chr1 8939889 8943374 + 122637 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 301257 | 304742 | a | 0 | ... | | chr1 | 2526312 | 2529797 | a | 0 | ... | | chr1 | 2526312 | 2529797 | a | 0 | ... | | chr1 | 2526312 | 2529797 | a | 0 | ... | | chr1 | 2526312 | 2529797 | a | 0 | ... | | chr1 | 7020692 | 7024177 | a | 0 | ... | | chr1 | 8939889 | 8943374 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 301257 304742 + 2221571 1 chr1 2526312 2529797 + 4490896 2 chr1 2526312 2529797 + 4490896 3 chr1 2526312 2529797 + 4490896 4 chr1 2526312 2529797 + 4490896 5 chr1 7020692 7024177 + 1915713 6 chr1 8939889 8943374 + 122637 Expected Chromosome Start End Strand Distance 0 chr1 301257 304742 + 2221571 1 chr1 2526312 2529797 + 4490896 2 chr1 2526312 2529797 + 4490896 3 chr1 2526312 2529797 + 4490896 4 chr1 2526312 2529797 + 4490896 5 chr1 7020692 7024177 + 1915713 6 chr1 8939889 8943374 + 122637 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpztzw_cti/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpztzw_cti/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr1 9451574 9455393 - 557919 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9451574 | 9455393 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9451574 9455393 - 557919 Expected Chromosome Start End Strand Distance 0 chr1 9451574 9455393 - 557919 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcar80e90/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcar80e90/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcrtiwgwe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcrtiwgwe/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 557264 564173 - 87922 1 chr1 1067935 1076406 - 598593 2 chr1 4262976 4268113 - 3793634 3 chr1 4461931 4470512 - 3992589 4 chr1 4953240 4961711 - 4483898 6 chr1 8387558 8393478 - 3111309 7 chr1 8387558 8396029 - 3111309 8 chr1 8387558 8396029 - 3111309 9 chr1 8387558 8396029 - 3111309 10 chr1 8715814 8717824 - 3439565 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 557264 | 564173 | a | 0 | ... | | chr1 | 1067935 | 1076406 | a | 0 | ... | | chr1 | 4262976 | 4268113 | a | 0 | ... | | chr1 | 4461931 | 4470512 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 8387558 | 8396029 | a | 0 | ... | | chr1 | 8387558 | 8396029 | a | 0 | ... | | chr1 | 8387558 | 8396029 | a | 0 | ... | | chr1 | 8715814 | 8717824 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 10 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 557264 564173 - 87922 1 chr1 1067935 1076406 - 598593 2 chr1 4262976 4268113 - 3793634 3 chr1 4461931 4470512 - 3992589 4 chr1 4953240 4961711 - 4483898 5 chr1 8387558 8393478 - 3111309 6 chr1 8387558 8396029 - 3111309 7 chr1 8387558 8396029 - 3111309 8 chr1 8387558 8396029 - 3111309 9 chr1 8715814 8717824 - 3439565 Expected Chromosome Start End Strand Distance 0 chr1 557264 564173 - 87922 1 chr1 1067935 1076406 - 598593 2 chr1 4262976 4268113 - 3793634 3 chr1 4461931 4470512 - 3992589 4 chr1 4953240 4961711 - 4483898 5 chr1 8387558 8393478 - 3111309 6 chr1 8387558 8396029 - 3111309 7 chr1 8387558 8396029 - 3111309 8 chr1 8387558 8396029 - 3111309 9 chr1 8715814 8717824 - 3439565 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=10, step=1) Expected index RangeIndex(start=0, stop=10, step=1) index equal [ True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn14l0wjb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn14l0wjb/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 9 chr1 5269547 5276250 - 4800205 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5269547 | 5276250 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5269547 5276250 - 4800205 Expected Chromosome Start End Strand Distance 0 chr1 5269547 5276250 - 4800205 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq0fk3s4g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq0fk3s4g/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1193760 1198207 + 5017019 1 chr1 2416705 2421152 + 3794074 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1193760 | 1198207 | a | 0 | ... | | chr1 | 2416705 | 2421152 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1193760 1198207 + 5017019 1 chr1 2416705 2421152 + 3794074 Expected Chromosome Start End Strand Distance 0 chr1 1193760 1198207 + 5017019 1 chr1 2416705 2421152 + 3794074 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxg_2450r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxg_2450r/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj_4mmdk7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj_4mmdk7/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa4jlw_ml/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa4jlw_ml/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgya3f45u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgya3f45u/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg7_d3d7a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg7_d3d7a/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpovxkeo1m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpovxkeo1m/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 13190 22191 + 2281811 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 13190 | 22191 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 13190 22191 + 2281811 Expected Chromosome Start End Strand Distance 0 chr1 13190 22191 + 2281811 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcaj_gki0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcaj_gki0/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmcwalmqi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmcwalmqi/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnl5gytrz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnl5gytrz/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1203983 1205111 + 1586395 1 chr1 1245039 1246167 + 1545339 2 chr1 1245039 1253297 + 1538209 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1203983 | 1205111 | a | 0 | ... | | chr1 | 1245039 | 1246167 | a | 0 | ... | | chr1 | 1245039 | 1253297 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1203983 1205111 + 1586395 1 chr1 1245039 1246167 + 1545339 2 chr1 1245039 1253297 + 1538209 Expected Chromosome Start End Strand Distance 0 chr1 1203983 1205111 + 1586395 1 chr1 1245039 1246167 + 1545339 2 chr1 1245039 1253297 + 1538209 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz50jnw5y/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz50jnw5y/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqwbx9yr3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqwbx9yr3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpurd3kdmt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpurd3kdmt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9teg9lgi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9teg9lgi/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpri_b1wbg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpri_b1wbg/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi12w6es8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi12w6es8/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3957092 3961640 + 5465361 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3957092 | 3961640 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3957092 3961640 + 5465361 Expected Chromosome Start End Strand Distance 0 chr1 3957092 3961640 + 5465361 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplvs81a1v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplvs81a1v/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5m_br2dr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5m_br2dr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbnt04unm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbnt04unm/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp__nk6248/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp__nk6248/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbubnzqn3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbubnzqn3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpshqhs23n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpshqhs23n/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph90p_407/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph90p_407/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc9fhc_8g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc9fhc_8g/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn_ij1zj_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn_ij1zj_/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 428572 435584 + 1450064 1 chr1 428572 435584 + 1450064 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 428572 | 435584 | a | 0 | ... | | chr1 | 428572 | 435584 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 428572 435584 + 1450064 1 chr1 428572 435584 + 1450064 Expected Chromosome Start End Strand Distance 0 chr1 428572 435584 + 1450064 1 chr1 428572 435584 + 1450064 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf8gi7j6u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf8gi7j6u/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph5285jdz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph5285jdz/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 698298 702252 + 277185 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 698298 | 702252 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 698298 702252 + 277185 Expected Chromosome Start End Strand Distance 0 chr1 698298 702252 + 277185 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9c_e6mcb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9c_e6mcb/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3955270 3959279 + 5145242 1 chr1 3955270 3964451 + 5140070 2 chr1 3955270 3964451 + 5140070 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3955270 | 3959279 | a | 0 | ... | | chr1 | 3955270 | 3964451 | a | 0 | ... | | chr1 | 3955270 | 3964451 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3955270 3959279 + 5145242 1 chr1 3955270 3964451 + 5140070 2 chr1 3955270 3964451 + 5140070 Expected Chromosome Start End Strand Distance 0 chr1 3955270 3959279 + 5145242 1 chr1 3955270 3964451 + 5140070 2 chr1 3955270 3964451 + 5140070 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnxu08gzf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnxu08gzf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2652116 2652502 - 1688540 1 chr1 2652116 2654139 - 1688540 2 chr1 2652116 2654556 - 1688540 3 chr1 2652116 2655710 - 1688540 4 chr1 2652116 2658755 - 1688540 5 chr1 2826554 2827354 - 1862978 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2652116 | 2652502 | a | 0 | ... | | chr1 | 2652116 | 2654139 | a | 0 | ... | | chr1 | 2652116 | 2654556 | a | 0 | ... | | chr1 | 2652116 | 2655710 | a | 0 | ... | | chr1 | 2652116 | 2658755 | a | 0 | ... | | chr1 | 2826554 | 2827354 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2652116 2652502 - 1688540 1 chr1 2652116 2654139 - 1688540 2 chr1 2652116 2654556 - 1688540 3 chr1 2652116 2655710 - 1688540 4 chr1 2652116 2658755 - 1688540 5 chr1 2826554 2827354 - 1862978 Expected Chromosome Start End Strand Distance 0 chr1 2652116 2652502 - 1688540 1 chr1 2652116 2654139 - 1688540 2 chr1 2652116 2654556 - 1688540 3 chr1 2652116 2655710 - 1688540 4 chr1 2652116 2658755 - 1688540 5 chr1 2826554 2827354 - 1862978 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_pl53mit/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_pl53mit/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 8041893 8043393 - 7078317 2 chr1 8041893 8043541 - 7078317 4 chr1 8041893 8048999 - 7078317 5 chr1 8041893 8048999 - 7078317 6 chr1 8041893 8048999 - 7078317 7 chr1 8041893 8048999 - 7078317 8 chr1 8041893 8048999 - 7078317 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8041893 | 8043393 | a | 0 | ... | | chr1 | 8041893 | 8043541 | a | 0 | ... | | chr1 | 8041893 | 8048999 | a | 0 | ... | | chr1 | 8041893 | 8048999 | a | 0 | ... | | chr1 | 8041893 | 8048999 | a | 0 | ... | | chr1 | 8041893 | 8048999 | a | 0 | ... | | chr1 | 8041893 | 8048999 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8041893 8043393 - 7078317 1 chr1 8041893 8043541 - 7078317 2 chr1 8041893 8048999 - 7078317 3 chr1 8041893 8048999 - 7078317 4 chr1 8041893 8048999 - 7078317 5 chr1 8041893 8048999 - 7078317 6 chr1 8041893 8048999 - 7078317 Expected Chromosome Start End Strand Distance 0 chr1 8041893 8043393 - 7078317 1 chr1 8041893 8043541 - 7078317 2 chr1 8041893 8048999 - 7078317 3 chr1 8041893 8048999 - 7078317 4 chr1 8041893 8048999 - 7078317 5 chr1 8041893 8048999 - 7078317 6 chr1 8041893 8048999 - 7078317 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbrl8ep3d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbrl8ep3d/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_z300vnw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_z300vnw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg_uua4an/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg_uua4an/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph0w792pq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph0w792pq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo781ed0a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo781ed0a/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm0cczs9q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm0cczs9q/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi9h8br9m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi9h8br9m/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3733498 3742130 - 254236 1 chr1 8489959 8490630 - 5010697 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3733498 | 3742130 | a | 0 | ... | | chr1 | 8489959 | 8490630 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3733498 3742130 - 254236 1 chr1 8489959 8490630 - 5010697 Expected Chromosome Start End Strand Distance 0 chr1 3733498 3742130 - 254236 1 chr1 8489959 8490630 - 5010697 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkc57qtob/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkc57qtob/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpknp0_2x5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpknp0_2x5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1574436 1580513 + 3592299 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1574436 | 1580513 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1574436 1580513 + 3592299 Expected Chromosome Start End Strand Distance 0 chr1 1574436 1580513 + 3592299 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyyea7trh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyyea7trh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqwb8wb_w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqwb8wb_w/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1282289 1285010 + 4902261 1 chr1 1282289 1285010 + 4902261 2 chr1 1282289 1285010 + 4902261 3 chr1 1282289 1285010 + 4902261 4 chr1 1282289 1285010 + 4902261 5 chr1 1282289 1285010 + 4902261 6 chr1 1282289 1285010 + 4902261 7 chr1 1282289 1285010 + 4902261 8 chr1 1282289 1285010 + 4902261 9 chr1 1282289 1285010 + 4902261 10 chr1 1282289 1285010 + 4902261 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1282289 | 1285010 | a | 0 | ... | | chr1 | 1282289 | 1285010 | a | 0 | ... | | chr1 | 1282289 | 1285010 | a | 0 | ... | | chr1 | 1282289 | 1285010 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 1282289 | 1285010 | a | 0 | ... | | chr1 | 1282289 | 1285010 | a | 0 | ... | | chr1 | 1282289 | 1285010 | a | 0 | ... | | chr1 | 1282289 | 1285010 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 11 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1282289 1285010 + 4902261 1 chr1 1282289 1285010 + 4902261 2 chr1 1282289 1285010 + 4902261 3 chr1 1282289 1285010 + 4902261 4 chr1 1282289 1285010 + 4902261 5 chr1 1282289 1285010 + 4902261 6 chr1 1282289 1285010 + 4902261 7 chr1 1282289 1285010 + 4902261 8 chr1 1282289 1285010 + 4902261 9 chr1 1282289 1285010 + 4902261 10 chr1 1282289 1285010 + 4902261 Expected Chromosome Start End Strand Distance 0 chr1 1282289 1285010 + 4902261 1 chr1 1282289 1285010 + 4902261 2 chr1 1282289 1285010 + 4902261 3 chr1 1282289 1285010 + 4902261 4 chr1 1282289 1285010 + 4902261 5 chr1 1282289 1285010 + 4902261 6 chr1 1282289 1285010 + 4902261 7 chr1 1282289 1285010 + 4902261 8 chr1 1282289 1285010 + 4902261 9 chr1 1282289 1285010 + 4902261 10 chr1 1282289 1285010 + 4902261 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=11, step=1) Expected index RangeIndex(start=0, stop=11, step=1) index equal [ True True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuald33tp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuald33tp/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2728659 2738158 + 91919 1 chr1 7234031 7243530 - 6330122 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2728659 | 2738158 | a | 0 | ... | | chr1 | 7234031 | 7243530 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2728659 2738158 + 91919 1 chr1 7234031 7243530 - 6330122 Expected Chromosome Start End Strand Distance 0 chr1 2728659 2738158 + 91919 1 chr1 7234031 7243530 - 6330122 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptyt37ffa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptyt37ffa/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcmc6299d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcmc6299d/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdl4s1ysl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdl4s1ysl/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7938090 7944661 - 6748404 1 chr1 7938090 7945384 - 6748404 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7938090 | 7944661 | a | 0 | ... | | chr1 | 7938090 | 7945384 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7938090 7944661 - 6748404 1 chr1 7938090 7945384 - 6748404 Expected Chromosome Start End Strand Distance 0 chr1 7938090 7944661 - 6748404 1 chr1 7938090 7945384 - 6748404 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy6x9xaws/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy6x9xaws/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7jt3kyu6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7jt3kyu6/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpva4tilgm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpva4tilgm/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 2335218 2341277 + 3051373 2 chr1 2335218 2343485 + 3049165 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2335218 | 2341277 | a | 0 | ... | | chr1 | 2335218 | 2343485 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2335218 2341277 + 3051373 1 chr1 2335218 2343485 + 3049165 Expected Chromosome Start End Strand Distance 0 chr1 2335218 2341277 + 3051373 1 chr1 2335218 2343485 + 3049165 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsfxg_tpn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsfxg_tpn/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxw_4uw53/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxw_4uw53/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo32cegku/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo32cegku/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_qzjfk_x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_qzjfk_x/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppkc0yo41/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppkc0yo41/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpntp9i9v0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpntp9i9v0/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 5 chr5 255458 261173 + 3684421 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr5 | 255458 | 261173 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr5 255458 261173 + 3684421 Expected Chromosome Start End Strand Distance 0 chr5 255458 261173 + 3684421 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd0rh4pwb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd0rh4pwb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnvax8hff/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnvax8hff/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6f6731g_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6f6731g_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkrfg2zhy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkrfg2zhy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1vw95kpf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1vw95kpf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4949647 4957131 + 1976220 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4949647 | 4957131 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4949647 4957131 + 1976220 Expected Chromosome Start End Strand Distance 0 chr1 4949647 4957131 + 1976220 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3b612cqj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3b612cqj/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn2g6c5ha/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn2g6c5ha/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo0_d64vr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo0_d64vr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpen5r316b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpen5r316b/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 8632339 8634563 - 2197438 5 chr18 8376078 8378302 - 1941177 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8632339 | 8634563 | a | 0 | ... | | chr18 | 8376078 | 8378302 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8632339 8634563 - 2197438 1 chr18 8376078 8378302 - 1941177 Expected Chromosome Start End Strand Distance 0 chr1 8632339 8634563 - 2197438 1 chr18 8376078 8378302 - 1941177 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpazrhfhlp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpazrhfhlp/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1897641 1901704 - 1273593 1 chr1 5102650 5106713 - 2298344 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1897641 | 1901704 | a | 0 | ... | | chr1 | 5102650 | 5106713 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1897641 1901704 - 1273593 1 chr1 5102650 5106713 - 2298344 Expected Chromosome Start End Strand Distance 0 chr1 1897641 1901704 - 1273593 1 chr1 5102650 5106713 - 2298344 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq1ch4f87/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq1ch4f87/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1023640 1026824 + 1880088 1 chr1 1023640 1027111 + 1879801 2 chr1 1023640 1027691 + 1879221 3 chr1 1023640 1027691 + 1879221 4 chr1 1023640 1027691 + 1879221 8 chr1 1023640 1033121 + 1873791 9 chr1 5217734 5221785 - 882528 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1023640 | 1026824 | a | 0 | ... | | chr1 | 1023640 | 1027111 | a | 0 | ... | | chr1 | 1023640 | 1027691 | a | 0 | ... | | chr1 | 1023640 | 1027691 | a | 0 | ... | | chr1 | 1023640 | 1027691 | a | 0 | ... | | chr1 | 1023640 | 1033121 | a | 0 | ... | | chr1 | 5217734 | 5221785 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1023640 1026824 + 1880088 1 chr1 1023640 1027111 + 1879801 2 chr1 1023640 1027691 + 1879221 3 chr1 1023640 1027691 + 1879221 4 chr1 1023640 1027691 + 1879221 5 chr1 1023640 1033121 + 1873791 6 chr1 5217734 5221785 - 882528 Expected Chromosome Start End Strand Distance 0 chr1 1023640 1026824 + 1880088 1 chr1 1023640 1027111 + 1879801 2 chr1 1023640 1027691 + 1879221 3 chr1 1023640 1027691 + 1879221 4 chr1 1023640 1027691 + 1879221 5 chr1 1023640 1033121 + 1873791 6 chr1 5217734 5221785 - 882528 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpelvqxljn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpelvqxljn/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1023640 1026824 + 1880088 1 chr1 1023640 1027111 + 1879801 2 chr1 1023640 1027691 + 1879221 3 chr1 1023640 1027691 + 1879221 4 chr1 1023640 1027691 + 1879221 8 chr1 1023640 1033121 + 1873791 9 chr1 5217734 5221785 - 882528 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1023640 | 1026824 | a | 0 | ... | | chr1 | 1023640 | 1027111 | a | 0 | ... | | chr1 | 1023640 | 1027691 | a | 0 | ... | | chr1 | 1023640 | 1027691 | a | 0 | ... | | chr1 | 1023640 | 1027691 | a | 0 | ... | | chr1 | 1023640 | 1033121 | a | 0 | ... | | chr1 | 5217734 | 5221785 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1023640 1026824 + 1880088 1 chr1 1023640 1027111 + 1879801 2 chr1 1023640 1027691 + 1879221 3 chr1 1023640 1027691 + 1879221 4 chr1 1023640 1027691 + 1879221 5 chr1 1023640 1033121 + 1873791 6 chr1 5217734 5221785 - 882528 Expected Chromosome Start End Strand Distance 0 chr1 1023640 1026824 + 1880088 1 chr1 1023640 1027111 + 1879801 2 chr1 1023640 1027691 + 1879221 3 chr1 1023640 1027691 + 1879221 4 chr1 1023640 1027691 + 1879221 5 chr1 1023640 1033121 + 1873791 6 chr1 5217734 5221785 - 882528 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpt2gjvc_c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt2gjvc_c/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2906911 2916337 + 1409445 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2906911 | 2916337 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2906911 2916337 + 1409445 Expected Chromosome Start End Strand Distance 0 chr1 2906911 2916337 + 1409445 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi_9gqhk1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi_9gqhk1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqj5_5z2w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqj5_5z2w/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp065cw_hi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp065cw_hi/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4ycs8uz4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4ycs8uz4/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq89uy47c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq89uy47c/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf1gpo3np/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf1gpo3np/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr18 4048188 4050392 + 421260 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr18 | 4048188 | 4050392 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr18 4048188 4050392 + 421260 Expected Chromosome Start End Strand Distance 0 chr18 4048188 4050392 + 421260 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpup60kpc2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpup60kpc2/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 883798 890755 + 854808 1 chr1 1745562 1752519 + 2719133 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 883798 | 890755 | a | 0 | ... | | chr1 | 1745562 | 1752519 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 883798 890755 + 854808 1 chr1 1745562 1752519 + 2719133 Expected Chromosome Start End Strand Distance 0 chr1 883798 890755 + 854808 1 chr1 1745562 1752519 + 2719133 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjufuaq0c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjufuaq0c/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_af0qgwh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_af0qgwh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxdks976f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxdks976f/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsvh52qxq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsvh52qxq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv00xyu6u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv00xyu6u/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7605757 7606543 - 4724049 1 chr1 7605757 7609952 - 4724049 2 chr1 7605757 7610403 - 4724049 3 chr1 7605757 7610403 - 4724049 4 chr1 8318935 8323581 - 477402 5 chr1 8693555 8698201 - 221650 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7605757 | 7606543 | a | 0 | ... | | chr1 | 7605757 | 7609952 | a | 0 | ... | | chr1 | 7605757 | 7610403 | a | 0 | ... | | chr1 | 7605757 | 7610403 | a | 0 | ... | | chr1 | 8318935 | 8323581 | a | 0 | ... | | chr1 | 8693555 | 8698201 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7605757 7606543 - 4724049 1 chr1 7605757 7609952 - 4724049 2 chr1 7605757 7610403 - 4724049 3 chr1 7605757 7610403 - 4724049 4 chr1 8318935 8323581 - 477402 5 chr1 8693555 8698201 - 221650 Expected Chromosome Start End Strand Distance 0 chr1 7605757 7606543 - 4724049 1 chr1 7605757 7609952 - 4724049 2 chr1 7605757 7610403 - 4724049 3 chr1 7605757 7610403 - 4724049 4 chr1 8318935 8323581 - 477402 5 chr1 8693555 8698201 - 221650 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9zn7mwn8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9zn7mwn8/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4039557 4040932 + 2894839 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4039557 | 4040932 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4039557 4040932 + 2894839 Expected Chromosome Start End Strand Distance 0 chr1 4039557 4040932 + 2894839 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprbx450u8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprbx450u8/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 9 chr1 9043800 9046541 - 4629891 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9043800 | 9046541 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9043800 9046541 - 4629891 Expected Chromosome Start End Strand Distance 0 chr1 9043800 9046541 - 4629891 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx06_csea/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx06_csea/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyahbu6j2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyahbu6j2/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2pic3z2z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2pic3z2z/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 7436654 7438750 - 293362 2 chr1 7436654 7438750 - 293362 3 chr1 8759016 8761112 - 1615724 4 chr1 9217055 9219151 - 2073763 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7436654 | 7438750 | a | 0 | ... | | chr1 | 7436654 | 7438750 | a | 0 | ... | | chr1 | 8759016 | 8761112 | a | 0 | ... | | chr1 | 9217055 | 9219151 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7436654 7438750 - 293362 1 chr1 7436654 7438750 - 293362 2 chr1 8759016 8761112 - 1615724 3 chr1 9217055 9219151 - 2073763 Expected Chromosome Start End Strand Distance 0 chr1 7436654 7438750 - 293362 1 chr1 7436654 7438750 - 293362 2 chr1 8759016 8761112 - 1615724 3 chr1 9217055 9219151 - 2073763 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8iycj_x4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8iycj_x4/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 131336 131596 + 5111601 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 131336 | 131596 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 131336 131596 + 5111601 Expected Chromosome Start End Strand Distance 0 chr1 131336 131596 + 5111601 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplovxgcxk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplovxgcxk/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppozhg_bi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppozhg_bi/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi31f9piv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi31f9piv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeml2s077/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeml2s077/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzajgs13q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzajgs13q/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2310627 2310856 - 153554 1 chr1 2310627 2316358 - 153554 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2310627 | 2310856 | a | 0 | ... | | chr1 | 2310627 | 2316358 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2310627 2310856 - 153554 1 chr1 2310627 2316358 - 153554 Expected Chromosome Start End Strand Distance 0 chr1 2310627 2310856 - 153554 1 chr1 2310627 2316358 - 153554 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp63x3y78c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp63x3y78c/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzn5m_k5c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzn5m_k5c/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6zc9m5yn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6zc9m5yn/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 9642460 9649944 - 3123621 2 chr1 9642460 9650089 - 3123621 3 chr1 9642460 9651466 - 3123621 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9642460 | 9649944 | a | 0 | ... | | chr1 | 9642460 | 9650089 | a | 0 | ... | | chr1 | 9642460 | 9651466 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9642460 9649944 - 3123621 1 chr1 9642460 9650089 - 3123621 2 chr1 9642460 9651466 - 3123621 Expected Chromosome Start End Strand Distance 0 chr1 9642460 9649944 - 3123621 1 chr1 9642460 9650089 - 3123621 2 chr1 9642460 9651466 - 3123621 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprx9e094p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprx9e094p/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwzb5zl5u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwzb5zl5u/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpydv4pnjx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpydv4pnjx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbdrn0cr6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbdrn0cr6/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp82dm4wyo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp82dm4wyo/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdci5zsss/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdci5zsss/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 630740 638306 + 2529018 1 chr1 3167323 3174889 + 3823001 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 630740 | 638306 | a | 0 | ... | | chr1 | 3167323 | 3174889 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 630740 638306 + 2529018 1 chr1 3167323 3174889 + 3823001 Expected Chromosome Start End Strand Distance 0 chr1 630740 638306 + 2529018 1 chr1 3167323 3174889 + 3823001 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0iogz9gi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0iogz9gi/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7539693 7540671 - 2130776 1 chr1 7539693 7540671 - 2130776 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7539693 | 7540671 | a | 0 | ... | | chr1 | 7539693 | 7540671 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7539693 7540671 - 2130776 1 chr1 7539693 7540671 - 2130776 Expected Chromosome Start End Strand Distance 0 chr1 7539693 7540671 - 2130776 1 chr1 7539693 7540671 - 2130776 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr5gnry8k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr5gnry8k/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 257 1235 + 1028295 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 257 | 1235 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 257 1235 + 1028295 Expected Chromosome Start End Strand Distance 0 chr1 257 1235 + 1028295 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8dar9qsr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8dar9qsr/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7077889 7078146 - 1668972 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7077889 | 7078146 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7077889 7078146 - 1668972 Expected Chromosome Start End Strand Distance 0 chr1 7077889 7078146 - 1668972 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwqzt82nn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwqzt82nn/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chr12 1029529 1037276 + 4363896 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr12 | 1029529 | 1037276 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr12 1029529 1037276 + 4363896 Expected Chromosome Start End Strand Distance 0 chr12 1029529 1037276 + 4363896 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpna25v_q7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpna25v_q7/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpk7nxr6p_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk7nxr6p_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb123ta5b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb123ta5b/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2l4hnao4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2l4hnao4/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyv_yqm13/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyv_yqm13/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzc9hch4o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzc9hch4o/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmt2oohfe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmt2oohfe/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmaxo8x28/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmaxo8x28/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi5d_1k12/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi5d_1k12/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpngsem6uf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpngsem6uf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3pa_vf_a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3pa_vf_a/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpopqp5upr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpopqp5upr/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr17 1984573 1985253 + 7859232 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr17 | 1984573 | 1985253 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr17 1984573 1985253 + 7859232 Expected Chromosome Start End Strand Distance 0 chr17 1984573 1985253 + 7859232 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgk81b_vk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgk81b_vk/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsin9u_z8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsin9u_z8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmu3lrldy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmu3lrldy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuy6kiv30/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuy6kiv30/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8jf1rma7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8jf1rma7/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz0x041rs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz0x041rs/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc27_stvr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc27_stvr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn4bbgyg_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn4bbgyg_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp76rdl7pk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp76rdl7pk/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5xlo0nua/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5xlo0nua/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1554933 1564748 + 1242787 1 chr1 2807534 2817349 + 47359 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1554933 | 1564748 | a | 0 | ... | | chr1 | 2807534 | 2817349 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1554933 1564748 + 1242787 1 chr1 2807534 2817349 + 47359 Expected Chromosome Start End Strand Distance 0 chr1 1554933 1564748 + 1242787 1 chr1 2807534 2817349 + 47359 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr78el3el/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr78el3el/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx8ujmv89/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx8ujmv89/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq2lixozw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq2lixozw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqjnpkbwb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqjnpkbwb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkx61_p4w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkx61_p4w/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc0iqtd95/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc0iqtd95/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr20 257 661 + 9317178 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr20 | 257 | 661 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr20 257 661 + 9317178 Expected Chromosome Start End Strand Distance 0 chr20 257 661 + 9317178 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp72by9cy2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp72by9cy2/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp50j3benh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp50j3benh/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 6420054 6421516 - 1001990 2 chr1 6420054 6421516 - 1001990 3 chr1 6420054 6421516 - 1001990 4 chr1 6420054 6421516 - 1001990 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6420054 | 6421516 | a | 0 | ... | | chr1 | 6420054 | 6421516 | a | 0 | ... | | chr1 | 6420054 | 6421516 | a | 0 | ... | | chr1 | 6420054 | 6421516 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6420054 6421516 - 1001990 1 chr1 6420054 6421516 - 1001990 2 chr1 6420054 6421516 - 1001990 3 chr1 6420054 6421516 - 1001990 Expected Chromosome Start End Strand Distance 0 chr1 6420054 6421516 - 1001990 1 chr1 6420054 6421516 - 1001990 2 chr1 6420054 6421516 - 1001990 3 chr1 6420054 6421516 - 1001990 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6o5k_9p1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6o5k_9p1/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 6420054 6421516 - 1001990 2 chr1 6420054 6421516 - 1001990 3 chr1 6420054 6421516 - 1001990 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6420054 | 6421516 | a | 0 | ... | | chr1 | 6420054 | 6421516 | a | 0 | ... | | chr1 | 6420054 | 6421516 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6420054 6421516 - 1001990 1 chr1 6420054 6421516 - 1001990 2 chr1 6420054 6421516 - 1001990 Expected Chromosome Start End Strand Distance 0 chr1 6420054 6421516 - 1001990 1 chr1 6420054 6421516 - 1001990 2 chr1 6420054 6421516 - 1001990 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptjekiwoo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptjekiwoo/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8bw2xdxe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8bw2xdxe/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_q7shabb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_q7shabb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbi7zbcmd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbi7zbcmd/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi36l3u84/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi36l3u84/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppktqjnur/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppktqjnur/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjbybt0_3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjbybt0_3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpofq4_8rt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpofq4_8rt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1n3v4vaz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1n3v4vaz/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0j78ig07/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0j78ig07/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 6301995 6302965 - 4578041 1 chr1 9749806 9750776 - 8025852 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6301995 | 6302965 | a | 0 | ... | | chr1 | 9749806 | 9750776 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6301995 6302965 - 4578041 1 chr1 9749806 9750776 - 8025852 Expected Chromosome Start End Strand Distance 0 chr1 6301995 6302965 - 4578041 1 chr1 9749806 9750776 - 8025852 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj9277ger/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj9277ger/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpiyvpol_v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpiyvpol_v/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj2hv2c2m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj2hv2c2m/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphnxfuvdv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphnxfuvdv/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 7481817 7486614 - 1151265 2 chr1 7481817 7486614 - 1151265 3 chr1 7481817 7486614 - 1151265 4 chr1 7481817 7486614 - 1151265 5 chr1 7481817 7486614 - 1151265 6 chr1 7481817 7486614 - 1151265 7 chr1 7481817 7486614 - 1151265 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7481817 | 7486614 | a | 0 | ... | | chr1 | 7481817 | 7486614 | a | 0 | ... | | chr1 | 7481817 | 7486614 | a | 0 | ... | | chr1 | 7481817 | 7486614 | a | 0 | ... | | chr1 | 7481817 | 7486614 | a | 0 | ... | | chr1 | 7481817 | 7486614 | a | 0 | ... | | chr1 | 7481817 | 7486614 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7481817 7486614 - 1151265 1 chr1 7481817 7486614 - 1151265 2 chr1 7481817 7486614 - 1151265 3 chr1 7481817 7486614 - 1151265 4 chr1 7481817 7486614 - 1151265 5 chr1 7481817 7486614 - 1151265 6 chr1 7481817 7486614 - 1151265 Expected Chromosome Start End Strand Distance 0 chr1 7481817 7486614 - 1151265 1 chr1 7481817 7486614 - 1151265 2 chr1 7481817 7486614 - 1151265 3 chr1 7481817 7486614 - 1151265 4 chr1 7481817 7486614 - 1151265 5 chr1 7481817 7486614 - 1151265 6 chr1 7481817 7486614 - 1151265 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4ymxazft/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4ymxazft/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjwgiio9l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjwgiio9l/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppo8qdb8j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppo8qdb8j/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjg4yeqkt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjg4yeqkt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx197d2ch/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx197d2ch/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmpa5z3hn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmpa5z3hn/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmlqfi2cq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmlqfi2cq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp76ukoc15/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp76ukoc15/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvuxci2at/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvuxci2at/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr16 4797081 4803018 + 1669536 2 chr16 6472553 6478490 + 437848 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr16 | 4797081 | 4803018 | a | 0 | ... | | chr16 | 6472553 | 6478490 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr16 4797081 4803018 + 1669536 1 chr16 6472553 6478490 + 437848 Expected Chromosome Start End Strand Distance 0 chr16 4797081 4803018 + 1669536 1 chr16 6472553 6478490 + 437848 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyc_82gu4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyc_82gu4/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppyfd7pvt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppyfd7pvt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_0z908i1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_0z908i1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvmrfqzml/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvmrfqzml/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx22afq9l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx22afq9l/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2e1xnsr1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2e1xnsr1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmchcaya0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmchcaya0/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsofpjlqo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsofpjlqo/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmqyiunhp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmqyiunhp/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4424436 4424447 - 2508194 1 chr1 6460228 6460239 - 4543986 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4424436 | 4424447 | a | 0 | ... | | chr1 | 6460228 | 6460239 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4424436 4424447 - 2508194 1 chr1 6460228 6460239 - 4543986 Expected Chromosome Start End Strand Distance 0 chr1 4424436 4424447 - 2508194 1 chr1 6460228 6460239 - 4543986 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3er86nm3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3er86nm3/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 169244 169674 + 2926444 1 chr1 169244 174017 + 2922101 2 chr1 169244 175673 + 2920445 3 chr1 169244 175673 + 2920445 5 chr1 3096117 3103709 + 1035830 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 169244 | 169674 | a | 0 | ... | | chr1 | 169244 | 174017 | a | 0 | ... | | chr1 | 169244 | 175673 | a | 0 | ... | | chr1 | 169244 | 175673 | a | 0 | ... | | chr1 | 3096117 | 3103709 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 5 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 169244 169674 + 2926444 1 chr1 169244 174017 + 2922101 2 chr1 169244 175673 + 2920445 3 chr1 169244 175673 + 2920445 4 chr1 3096117 3103709 + 1035830 Expected Chromosome Start End Strand Distance 0 chr1 169244 169674 + 2926444 1 chr1 169244 174017 + 2922101 2 chr1 169244 175673 + 2920445 3 chr1 169244 175673 + 2920445 4 chr1 3096117 3103709 + 1035830 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=5, step=1) Expected index RangeIndex(start=0, stop=5, step=1) index equal [ True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcl_bp8cq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcl_bp8cq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj6ki723f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj6ki723f/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcae5id8l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcae5id8l/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmpterxxr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmpterxxr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa8xztaka/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa8xztaka/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3ke_zvxn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3ke_zvxn/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfe7ve_vd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfe7ve_vd/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph5hp9zy6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph5hp9zy6/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr12 3053268 3062564 + 1290027 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr12 | 3053268 | 3062564 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr12 3053268 3062564 + 1290027 Expected Chromosome Start End Strand Distance 0 chr12 3053268 3062564 + 1290027 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphaxdb7fi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphaxdb7fi/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_z5721lu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_z5721lu/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf1_8q7at/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf1_8q7at/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1645031 1646293 + 2055513 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1645031 | 1646293 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1645031 1646293 + 2055513 Expected Chromosome Start End Strand Distance 0 chr1 1645031 1646293 + 2055513 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyd1yu870/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyd1yu870/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2kvjzmjj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2kvjzmjj/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu42i972i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu42i972i/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 66306 72453 + 22194 1 chr1 66306 72453 + 22194 2 chr1 66306 72453 + 22194 4 chr1 94646 100793 + 1871285 5 chr1 707847 716808 - 634838 6 chr1 1972077 1978224 + 3868276 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 66306 | 72453 | a | 0 | ... | | chr1 | 66306 | 72453 | a | 0 | ... | | chr1 | 66306 | 72453 | a | 0 | ... | | chr1 | 94646 | 100793 | a | 0 | ... | | chr1 | 1972077 | 1978224 | a | 0 | ... | | chr1 | 707847 | 716808 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 66306 72453 + 22194 1 chr1 66306 72453 + 22194 2 chr1 66306 72453 + 22194 3 chr1 94646 100793 + 1871285 4 chr1 707847 716808 - 634838 5 chr1 1972077 1978224 + 3868276 Expected Chromosome Start End Strand Distance 0 chr1 66306 72453 + 22194 1 chr1 66306 72453 + 22194 2 chr1 66306 72453 + 22194 3 chr1 94646 100793 + 1871285 4 chr1 707847 716808 - 634838 5 chr1 1972077 1978224 + 3868276 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnl8te102/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnl8te102/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7uymooss/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7uymooss/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr11 9996945 10000980 - 2213581 2 chr11 9996945 10001537 - 2213581 3 chr11 9996945 10004104 - 2213581 4 chr11 9996945 10005143 - 2213581 5 chr11 9996945 10005532 - 2213581 6 chr11 9996945 9998342 - 2213581 7 chr11 9996945 9998342 - 2213581 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr11 | 9996945 | 9998342 | a | 0 | ... | | chr11 | 9996945 | 9998342 | a | 0 | ... | | chr11 | 9996945 | 10000980 | a | 0 | ... | | chr11 | 9996945 | 10001537 | a | 0 | ... | | chr11 | 9996945 | 10004104 | a | 0 | ... | | chr11 | 9996945 | 10005143 | a | 0 | ... | | chr11 | 9996945 | 10005532 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr11 9996945 9998342 - 2213581 1 chr11 9996945 9998342 - 2213581 2 chr11 9996945 10000980 - 2213581 3 chr11 9996945 10001537 - 2213581 4 chr11 9996945 10004104 - 2213581 5 chr11 9996945 10005143 - 2213581 6 chr11 9996945 10005532 - 2213581 Expected Chromosome Start End Strand Distance 0 chr11 9996945 9998342 - 2213581 1 chr11 9996945 9998342 - 2213581 2 chr11 9996945 10000980 - 2213581 3 chr11 9996945 10001537 - 2213581 4 chr11 9996945 10004104 - 2213581 5 chr11 9996945 10005143 - 2213581 6 chr11 9996945 10005532 - 2213581 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0ktjqpn3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0ktjqpn3/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 7700255 7700970 - 615142 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7700255 | 7700970 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7700255 7700970 - 615142 Expected Chromosome Start End Strand Distance 0 chr1 7700255 7700970 - 615142 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_2b5jnzr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_2b5jnzr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4jsr8wax/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4jsr8wax/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb6oanf08/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb6oanf08/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp506ydlqn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp506ydlqn/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 1637869 1642727 - 625433 2 chr1 2999945 3000867 - 1987509 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1637869 | 1642727 | a | 0 | ... | | chr1 | 2999945 | 3000867 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1637869 1642727 - 625433 1 chr1 2999945 3000867 - 1987509 Expected Chromosome Start End Strand Distance 0 chr1 1637869 1642727 - 625433 1 chr1 2999945 3000867 - 1987509 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpire4f8b_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpire4f8b_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyuxb94o3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyuxb94o3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptby5al8c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptby5al8c/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb2hsapoc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb2hsapoc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpywnvflsu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpywnvflsu/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj0n4crx_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj0n4crx_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5azlc8k3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5azlc8k3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm278slze/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm278slze/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 6 chr1 7388807 7389930 - 5326970 7 chr1 7388807 7389930 - 5326970 8 chr1 7388807 7389930 - 5326970 9 chr1 7388807 7391491 - 5326970 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7388807 | 7389930 | a | 0 | ... | | chr1 | 7388807 | 7389930 | a | 0 | ... | | chr1 | 7388807 | 7389930 | a | 0 | ... | | chr1 | 7388807 | 7391491 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7388807 7389930 - 5326970 1 chr1 7388807 7389930 - 5326970 2 chr1 7388807 7389930 - 5326970 3 chr1 7388807 7391491 - 5326970 Expected Chromosome Start End Strand Distance 0 chr1 7388807 7389930 - 5326970 1 chr1 7388807 7389930 - 5326970 2 chr1 7388807 7389930 - 5326970 3 chr1 7388807 7391491 - 5326970 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgjh118hi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgjh118hi/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 9 chr1 7980310 7988305 - 5839322 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7980310 | 7988305 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7980310 7988305 - 5839322 Expected Chromosome Start End Strand Distance 0 chr1 7980310 7988305 - 5839322 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8m3mm0dq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8m3mm0dq/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4146161 4147359 + 2426106 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4146161 | 4147359 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4146161 4147359 + 2426106 Expected Chromosome Start End Strand Distance 0 chr1 4146161 4147359 + 2426106 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp58_mc1g_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp58_mc1g_/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwdkifuvh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwdkifuvh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa9n3n5s8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa9n3n5s8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvlflo5tz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvlflo5tz/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4s84x1aa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4s84x1aa/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 4257661 4259209 - 476405 2 chr1 6711422 6712970 - 2452214 3 chr1 6711422 6712970 - 2452214 4 chr1 6711422 6712970 - 2452214 5 chr1 7014693 7016241 - 301724 6 chr1 7527622 7529170 - 511382 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4257661 | 4259209 | a | 0 | ... | | chr1 | 6711422 | 6712970 | a | 0 | ... | | chr1 | 6711422 | 6712970 | a | 0 | ... | | chr1 | 6711422 | 6712970 | a | 0 | ... | | chr1 | 7014693 | 7016241 | a | 0 | ... | | chr1 | 7527622 | 7529170 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4257661 4259209 - 476405 1 chr1 6711422 6712970 - 2452214 2 chr1 6711422 6712970 - 2452214 3 chr1 6711422 6712970 - 2452214 4 chr1 7014693 7016241 - 301724 5 chr1 7527622 7529170 - 511382 Expected Chromosome Start End Strand Distance 0 chr1 4257661 4259209 - 476405 1 chr1 6711422 6712970 - 2452214 2 chr1 6711422 6712970 - 2452214 3 chr1 6711422 6712970 - 2452214 4 chr1 7014693 7016241 - 301724 5 chr1 7527622 7529170 - 511382 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpflxc_sbb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpflxc_sbb/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 4 chr12 433038 437561 + 7293281 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr12 | 433038 | 437561 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr12 433038 437561 + 7293281 Expected Chromosome Start End Strand Distance 0 chr12 433038 437561 + 7293281 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgn_m0qto/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgn_m0qto/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1094201 1094713 + 2923973 1 chr1 1094201 1096532 + 2922154 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1094201 | 1094713 | a | 0 | ... | | chr1 | 1094201 | 1096532 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1094201 1094713 + 2923973 1 chr1 1094201 1096532 + 2922154 Expected Chromosome Start End Strand Distance 0 chr1 1094201 1094713 + 2923973 1 chr1 1094201 1096532 + 2922154 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5_m728k_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5_m728k_/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 9 chr1 9718513 9719591 - 5690026 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9718513 | 9719591 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9718513 9719591 - 5690026 Expected Chromosome Start End Strand Distance 0 chr1 9718513 9719591 - 5690026 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6syu66ff/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6syu66ff/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwehkw82t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwehkw82t/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr11 208646 211378 + 7319574 3 chr11 7530951 7533683 + 251843 4 chr11 7785525 7788257 + 65723 5 chr11 7853979 7856711 + 1940406 6 chr11 9797116 9799848 + 78882 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr11 | 208646 | 211378 | a | 0 | ... | | chr11 | 7530951 | 7533683 | a | 0 | ... | | chr11 | 7785525 | 7788257 | a | 0 | ... | | chr11 | 7853979 | 7856711 | a | 0 | ... | | chr11 | 9797116 | 9799848 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 5 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr11 208646 211378 + 7319574 1 chr11 7530951 7533683 + 251843 2 chr11 7785525 7788257 + 65723 3 chr11 7853979 7856711 + 1940406 4 chr11 9797116 9799848 + 78882 Expected Chromosome Start End Strand Distance 0 chr11 208646 211378 + 7319574 1 chr11 7530951 7533683 + 251843 2 chr11 7785525 7788257 + 65723 3 chr11 7853979 7856711 + 1940406 4 chr11 9797116 9799848 + 78882 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=5, step=1) Expected index RangeIndex(start=0, stop=5, step=1) index equal [ True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsl_fnifr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsl_fnifr/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 6 chr1 6582529 6583409 - 941320 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6582529 | 6583409 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6582529 6583409 - 941320 Expected Chromosome Start End Strand Distance 0 chr1 6582529 6583409 - 941320 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprwmklcv3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprwmklcv3/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 5636123 5641210 - 3075647 2 chr1 5636123 5641210 - 3075647 3 chr1 5636123 5641210 - 3075647 4 chr1 5636123 5641210 - 3075647 5 chr1 5636123 5641210 - 3075647 6 chr1 5636123 5641210 - 3075647 7 chr1 5636123 5641210 - 3075647 8 chr1 5636123 5641210 - 3075647 9 chr1 5636123 5641210 - 3075647 10 chr1 5636123 5641210 - 3075647 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5636123 | 5641210 | a | 0 | ... | | chr1 | 5636123 | 5641210 | a | 0 | ... | | chr1 | 5636123 | 5641210 | a | 0 | ... | | chr1 | 5636123 | 5641210 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 5636123 | 5641210 | a | 0 | ... | | chr1 | 5636123 | 5641210 | a | 0 | ... | | chr1 | 5636123 | 5641210 | a | 0 | ... | | chr1 | 5636123 | 5641210 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 10 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5636123 5641210 - 3075647 1 chr1 5636123 5641210 - 3075647 2 chr1 5636123 5641210 - 3075647 3 chr1 5636123 5641210 - 3075647 4 chr1 5636123 5641210 - 3075647 5 chr1 5636123 5641210 - 3075647 6 chr1 5636123 5641210 - 3075647 7 chr1 5636123 5641210 - 3075647 8 chr1 5636123 5641210 - 3075647 9 chr1 5636123 5641210 - 3075647 Expected Chromosome Start End Strand Distance 0 chr1 5636123 5641210 - 3075647 1 chr1 5636123 5641210 - 3075647 2 chr1 5636123 5641210 - 3075647 3 chr1 5636123 5641210 - 3075647 4 chr1 5636123 5641210 - 3075647 5 chr1 5636123 5641210 - 3075647 6 chr1 5636123 5641210 - 3075647 7 chr1 5636123 5641210 - 3075647 8 chr1 5636123 5641210 - 3075647 9 chr1 5636123 5641210 - 3075647 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=10, step=1) Expected index RangeIndex(start=0, stop=10, step=1) index equal [ True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeyx3zr3w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeyx3zr3w/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5843937 5852194 + 405872 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5843937 | 5852194 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5843937 5852194 + 405872 Expected Chromosome Start End Strand Distance 0 chr1 5843937 5852194 + 405872 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpspuax58l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpspuax58l/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1194098 1199069 + 3635384 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1194098 | 1199069 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1194098 1199069 + 3635384 Expected Chromosome Start End Strand Distance 0 chr1 1194098 1199069 + 3635384 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcmpdguf0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcmpdguf0/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1lmg26gl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1lmg26gl/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg_20r4nc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg_20r4nc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3946gicy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3946gicy/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 22223 32209 + 27998 1 chr1 66034 66035 + 9421010 2 chr1 66034 76020 + 9411025 3 chr1 66034 76020 + 9411025 4 chr1 66034 76020 + 9411025 5 chr1 66034 76020 + 9411025 6 chr1 66034 76020 + 9411025 7 chr1 66034 76020 + 9411025 8 chr1 66034 76020 + 9411025 9 chr1 2035969 2039298 + 7447747 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 22223 | 32209 | a | 0 | ... | | chr1 | 66034 | 66035 | a | 0 | ... | | chr1 | 66034 | 76020 | a | 0 | ... | | chr1 | 66034 | 76020 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 66034 | 76020 | a | 0 | ... | | chr1 | 66034 | 76020 | a | 0 | ... | | chr1 | 66034 | 76020 | a | 0 | ... | | chr1 | 2035969 | 2039298 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 10 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 22223 32209 + 27998 1 chr1 66034 66035 + 9421010 2 chr1 66034 76020 + 9411025 3 chr1 66034 76020 + 9411025 4 chr1 66034 76020 + 9411025 5 chr1 66034 76020 + 9411025 6 chr1 66034 76020 + 9411025 7 chr1 66034 76020 + 9411025 8 chr1 66034 76020 + 9411025 9 chr1 2035969 2039298 + 7447747 Expected Chromosome Start End Strand Distance 0 chr1 22223 32209 + 27998 1 chr1 66034 66035 + 9421010 2 chr1 66034 76020 + 9411025 3 chr1 66034 76020 + 9411025 4 chr1 66034 76020 + 9411025 5 chr1 66034 76020 + 9411025 6 chr1 66034 76020 + 9411025 7 chr1 66034 76020 + 9411025 8 chr1 66034 76020 + 9411025 9 chr1 2035969 2039298 + 7447747 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=10, step=1) Expected index RangeIndex(start=0, stop=10, step=1) index equal [ True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprqanb39h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprqanb39h/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2385937 2391622 + 409353 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2385937 | 2391622 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2385937 2391622 + 409353 Expected Chromosome Start End Strand Distance 0 chr1 2385937 2391622 + 409353 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7f8zyt7z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7f8zyt7z/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsqny98kw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsqny98kw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chr1 3865926 3867341 - 2473899 4 chr1 8140409 8141824 - 4273069 5 chr1 9792207 9793622 - 1650384 6 chr1 9794218 9795633 - 597 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3865926 | 3867341 | a | 0 | ... | | chr1 | 8140409 | 8141824 | a | 0 | ... | | chr1 | 9792207 | 9793622 | a | 0 | ... | | chr1 | 9794218 | 9795633 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3865926 3867341 - 2473899 1 chr1 8140409 8141824 - 4273069 2 chr1 9792207 9793622 - 1650384 3 chr1 9794218 9795633 - 597 Expected Chromosome Start End Strand Distance 0 chr1 3865926 3867341 - 2473899 1 chr1 8140409 8141824 - 4273069 2 chr1 9792207 9793622 - 1650384 3 chr1 9794218 9795633 - 597 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6o96kcfj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6o96kcfj/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5203192 5207313 + 641544 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5203192 | 5207313 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5203192 5207313 + 641544 Expected Chromosome Start End Strand Distance 0 chr1 5203192 5207313 + 641544 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd1vphkwp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd1vphkwp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb2nbjsja/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb2nbjsja/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpipwznvhz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpipwznvhz/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp270mjy1e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp270mjy1e/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjgwi0_0c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjgwi0_0c/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 7 chr1 9622884 9624881 - 1221246 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9622884 | 9624881 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9622884 9624881 - 1221246 Expected Chromosome Start End Strand Distance 0 chr1 9622884 9624881 - 1221246 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0ipf9y8i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0ipf9y8i/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa6xboyzu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa6xboyzu/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxhgm8cct/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxhgm8cct/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5232513 5238155 - 2409805 1 chr1 5232513 5238155 - 2409805 2 chr1 5232513 5238155 - 2409805 3 chr1 5232513 5238155 - 2409805 4 chr1 5232513 5238155 - 2409805 5 chr1 5232513 5238155 - 2409805 6 chr1 5232513 5238155 - 2409805 7 chr1 7161842 7167484 - 4339134 8 chr1 8030967 8036609 - 5208259 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 7161842 | 7167484 | a | 0 | ... | | chr1 | 8030967 | 8036609 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5232513 5238155 - 2409805 1 chr1 5232513 5238155 - 2409805 2 chr1 5232513 5238155 - 2409805 3 chr1 5232513 5238155 - 2409805 4 chr1 5232513 5238155 - 2409805 5 chr1 5232513 5238155 - 2409805 6 chr1 5232513 5238155 - 2409805 7 chr1 7161842 7167484 - 4339134 8 chr1 8030967 8036609 - 5208259 Expected Chromosome Start End Strand Distance 0 chr1 5232513 5238155 - 2409805 1 chr1 5232513 5238155 - 2409805 2 chr1 5232513 5238155 - 2409805 3 chr1 5232513 5238155 - 2409805 4 chr1 5232513 5238155 - 2409805 5 chr1 5232513 5238155 - 2409805 6 chr1 5232513 5238155 - 2409805 7 chr1 7161842 7167484 - 4339134 8 chr1 8030967 8036609 - 5208259 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuvx284l_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuvx284l_/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5232513 5238155 - 2409805 1 chr1 5232513 5238155 - 2409805 2 chr1 5232513 5238155 - 2409805 3 chr1 5232513 5238155 - 2409805 4 chr1 5232513 5238155 - 2409805 5 chr1 5232513 5238155 - 2409805 6 chr1 7161842 7167484 - 4339134 7 chr1 8030967 8036609 - 5208259 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 5232513 | 5238155 | a | 0 | ... | | chr1 | 7161842 | 7167484 | a | 0 | ... | | chr1 | 8030967 | 8036609 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 8 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5232513 5238155 - 2409805 1 chr1 5232513 5238155 - 2409805 2 chr1 5232513 5238155 - 2409805 3 chr1 5232513 5238155 - 2409805 4 chr1 5232513 5238155 - 2409805 5 chr1 5232513 5238155 - 2409805 6 chr1 7161842 7167484 - 4339134 7 chr1 8030967 8036609 - 5208259 Expected Chromosome Start End Strand Distance 0 chr1 5232513 5238155 - 2409805 1 chr1 5232513 5238155 - 2409805 2 chr1 5232513 5238155 - 2409805 3 chr1 5232513 5238155 - 2409805 4 chr1 5232513 5238155 - 2409805 5 chr1 5232513 5238155 - 2409805 6 chr1 7161842 7167484 - 4339134 7 chr1 8030967 8036609 - 5208259 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=8, step=1) Expected index RangeIndex(start=0, stop=8, step=1) index equal [ True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpytzf7qdw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpytzf7qdw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjs2jo68j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjs2jo68j/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr1 8646048 8651778 - 6812114 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8646048 | 8651778 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8646048 8651778 - 6812114 Expected Chromosome Start End Strand Distance 0 chr1 8646048 8651778 - 6812114 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpt_37ts_4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt_37ts_4/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 1831895 1833935 - 1489367 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1831895 | 1833935 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1831895 1833935 - 1489367 Expected Chromosome Start End Strand Distance 0 chr1 1831895 1833935 - 1489367 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo3zjoqcx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo3zjoqcx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp394no64q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp394no64q/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 8529412 8536568 - 8528078 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8529412 | 8536568 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8529412 8536568 - 8528078 Expected Chromosome Start End Strand Distance 0 chr1 8529412 8536568 - 8528078 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpru3gu396/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpru3gu396/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1184403 1189165 + 805681 1 chr1 1184403 1189165 + 805681 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1184403 | 1189165 | a | 0 | ... | | chr1 | 1184403 | 1189165 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1184403 1189165 + 805681 1 chr1 1184403 1189165 + 805681 Expected Chromosome Start End Strand Distance 0 chr1 1184403 1189165 + 805681 1 chr1 1184403 1189165 + 805681 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx1ftku0n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx1ftku0n/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1994845 1997337 + 658139 1 chr1 1994845 1998077 + 657399 2 chr1 1994845 2003101 + 652375 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1994845 | 1997337 | a | 0 | ... | | chr1 | 1994845 | 1998077 | a | 0 | ... | | chr1 | 1994845 | 2003101 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1994845 1997337 + 658139 1 chr1 1994845 1998077 + 657399 2 chr1 1994845 2003101 + 652375 Expected Chromosome Start End Strand Distance 0 chr1 1994845 1997337 + 658139 1 chr1 1994845 1998077 + 657399 2 chr1 1994845 2003101 + 652375 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsnq76unc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsnq76unc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp39zi_qeh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp39zi_qeh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpedkqk0d5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpedkqk0d5/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa2kz1a0w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa2kz1a0w/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8datflzz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8datflzz/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyjb9k6wr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyjb9k6wr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpecz4cusb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpecz4cusb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg7bzsyda/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg7bzsyda/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1m67ckul/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1m67ckul/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3i0sbr8a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3i0sbr8a/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr6i7c1ac/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr6i7c1ac/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgem4kj5f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgem4kj5f/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr2 65977 66244 - 60846 3 chr2 1048554 1048821 - 982311 4 chr2 1048554 1048821 - 982311 5 chr2 1048554 1048821 - 982311 6 chr2 1048554 1048821 - 982311 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr2 | 65977 | 66244 | a | 0 | ... | | chr2 | 1048554 | 1048821 | a | 0 | ... | | chr2 | 1048554 | 1048821 | a | 0 | ... | | chr2 | 1048554 | 1048821 | a | 0 | ... | | chr2 | 1048554 | 1048821 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 5 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr2 65977 66244 - 60846 1 chr2 1048554 1048821 - 982311 2 chr2 1048554 1048821 - 982311 3 chr2 1048554 1048821 - 982311 4 chr2 1048554 1048821 - 982311 Expected Chromosome Start End Strand Distance 0 chr2 65977 66244 - 60846 1 chr2 1048554 1048821 - 982311 2 chr2 1048554 1048821 - 982311 3 chr2 1048554 1048821 - 982311 4 chr2 1048554 1048821 - 982311 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=5, step=1) Expected index RangeIndex(start=0, stop=5, step=1) index equal [ True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpglh1tnw9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpglh1tnw9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplfnpv78q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplfnpv78q/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsu20dli4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsu20dli4/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpesd3qpet/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpesd3qpet/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1640020 1645707 + 2906959 1 chr1 1640020 1645707 + 2906959 2 chr1 1640020 1645707 + 2906959 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1640020 | 1645707 | a | 0 | ... | | chr1 | 1640020 | 1645707 | a | 0 | ... | | chr1 | 1640020 | 1645707 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1640020 1645707 + 2906959 1 chr1 1640020 1645707 + 2906959 2 chr1 1640020 1645707 + 2906959 Expected Chromosome Start End Strand Distance 0 chr1 1640020 1645707 + 2906959 1 chr1 1640020 1645707 + 2906959 2 chr1 1640020 1645707 + 2906959 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj4sltlu9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj4sltlu9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0a7aw6cx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0a7aw6cx/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5844283 5845745 + 886629 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5844283 | 5845745 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5844283 5845745 + 886629 Expected Chromosome Start End Strand Distance 0 chr1 5844283 5845745 + 886629 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqgko2ri0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqgko2ri0/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5844283 5845745 + 886629 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5844283 | 5845745 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5844283 5845745 + 886629 Expected Chromosome Start End Strand Distance 0 chr1 5844283 5845745 + 886629 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphgp2yogf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphgp2yogf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3nhp39yr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3nhp39yr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwr2w_dms/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwr2w_dms/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 5944590 5946418 - 925944 2 chr1 5944590 5947488 - 925944 3 chr1 5944590 5948790 - 925944 4 chr1 5944590 5949516 - 925944 5 chr1 6164493 6170913 - 1145847 6 chr1 9877863 9884764 - 125400 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5944590 | 5946418 | a | 0 | ... | | chr1 | 5944590 | 5947488 | a | 0 | ... | | chr1 | 5944590 | 5948790 | a | 0 | ... | | chr1 | 5944590 | 5949516 | a | 0 | ... | | chr1 | 6164493 | 6170913 | a | 0 | ... | | chr1 | 9877863 | 9884764 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5944590 5946418 - 925944 1 chr1 5944590 5947488 - 925944 2 chr1 5944590 5948790 - 925944 3 chr1 5944590 5949516 - 925944 4 chr1 6164493 6170913 - 1145847 5 chr1 9877863 9884764 - 125400 Expected Chromosome Start End Strand Distance 0 chr1 5944590 5946418 - 925944 1 chr1 5944590 5947488 - 925944 2 chr1 5944590 5948790 - 925944 3 chr1 5944590 5949516 - 925944 4 chr1 6164493 6170913 - 1145847 5 chr1 9877863 9884764 - 125400 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3zv6k7a6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3zv6k7a6/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chr1 9745816 9752464 - 4727170 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9745816 | 9752464 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9745816 9752464 - 4727170 Expected Chromosome Start End Strand Distance 0 chr1 9745816 9752464 - 4727170 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp72lqa16c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp72lqa16c/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq3rnsi3g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq3rnsi3g/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxx3i5p19/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxx3i5p19/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkw21ti2_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkw21ti2_/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 9 chr1 8764569 8767936 - 7478036 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8764569 | 8767936 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8764569 8767936 - 7478036 Expected Chromosome Start End Strand Distance 0 chr1 8764569 8767936 - 7478036 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6mmi9rfc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6mmi9rfc/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr1 5552420 5560466 - 1781516 3 chr1 6997735 7005781 - 3226831 4 chr1 7938256 7946302 - 4167352 5 chr1 7938256 7946302 - 4167352 6 chr1 9643834 9651880 - 5872930 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5552420 | 5560466 | a | 0 | ... | | chr1 | 6997735 | 7005781 | a | 0 | ... | | chr1 | 7938256 | 7946302 | a | 0 | ... | | chr1 | 7938256 | 7946302 | a | 0 | ... | | chr1 | 9643834 | 9651880 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 5 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5552420 5560466 - 1781516 1 chr1 6997735 7005781 - 3226831 2 chr1 7938256 7946302 - 4167352 3 chr1 7938256 7946302 - 4167352 4 chr1 9643834 9651880 - 5872930 Expected Chromosome Start End Strand Distance 0 chr1 5552420 5560466 - 1781516 1 chr1 6997735 7005781 - 3226831 2 chr1 7938256 7946302 - 4167352 3 chr1 7938256 7946302 - 4167352 4 chr1 9643834 9651880 - 5872930 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=5, step=1) Expected index RangeIndex(start=0, stop=5, step=1) index equal [ True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppzhvi93k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppzhvi93k/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcrt8q85w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcrt8q85w/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr11 3973463 3979814 + 1729263 1 chr11 5709076 5715427 + 1324649 2 chr11 7040075 7046426 + 1286339 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr11 | 3973463 | 3979814 | a | 0 | ... | | chr11 | 5709076 | 5715427 | a | 0 | ... | | chr11 | 7040075 | 7046426 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr11 3973463 3979814 + 1729263 1 chr11 5709076 5715427 + 1324649 2 chr11 7040075 7046426 + 1286339 Expected Chromosome Start End Strand Distance 0 chr11 3973463 3979814 + 1729263 1 chr11 5709076 5715427 + 1324649 2 chr11 7040075 7046426 + 1286339 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsd11g8vh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsd11g8vh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe3ybn25i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe3ybn25i/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpijioz7vq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpijioz7vq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa8_cbacf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa8_cbacf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppb0jvteg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppb0jvteg/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw3pp0fdl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw3pp0fdl/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpklfrbyaz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpklfrbyaz/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgep816zh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgep816zh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpijvb441i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpijvb441i/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 5981062 5985387 + 1066365 1 chr1 5981062 5988436 + 1063316 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5981062 | 5985387 | a | 0 | ... | | chr1 | 5981062 | 5988436 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5981062 5985387 + 1066365 1 chr1 5981062 5988436 + 1063316 Expected Chromosome Start End Strand Distance 0 chr1 5981062 5985387 + 1066365 1 chr1 5981062 5988436 + 1063316 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyt9kynxo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyt9kynxo/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppfsc4pv4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppfsc4pv4/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr11 1179408 1180381 + 5406744 4 chr11 6769016 6769989 - 1647920 5 chr11 6769016 6769989 - 1647920 6 chr11 6769016 6769989 - 1647920 7 chr11 6769016 6769989 - 1647920 8 chr11 6769016 6769989 - 1647920 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr11 | 1179408 | 1180381 | a | 0 | ... | | chr11 | 6769016 | 6769989 | a | 0 | ... | | chr11 | 6769016 | 6769989 | a | 0 | ... | | chr11 | 6769016 | 6769989 | a | 0 | ... | | chr11 | 6769016 | 6769989 | a | 0 | ... | | chr11 | 6769016 | 6769989 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr11 1179408 1180381 + 5406744 1 chr11 6769016 6769989 - 1647920 2 chr11 6769016 6769989 - 1647920 3 chr11 6769016 6769989 - 1647920 4 chr11 6769016 6769989 - 1647920 5 chr11 6769016 6769989 - 1647920 Expected Chromosome Start End Strand Distance 0 chr11 1179408 1180381 + 5406744 1 chr11 6769016 6769989 - 1647920 2 chr11 6769016 6769989 - 1647920 3 chr11 6769016 6769989 - 1647920 4 chr11 6769016 6769989 - 1647920 5 chr11 6769016 6769989 - 1647920 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy6ka7dzk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy6ka7dzk/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp78nsh8b5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp78nsh8b5/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptcbwfhol/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptcbwfhol/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa_mv86pq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa_mv86pq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpt0d33jrd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt0d33jrd/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphbrf5_sz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphbrf5_sz/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc2iohiy1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc2iohiy1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq9s7rdza/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq9s7rdza/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 8239561 8242596 - 4579541 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8239561 | 8242596 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8239561 8242596 - 4579541 Expected Chromosome Start End Strand Distance 0 chr1 8239561 8242596 - 4579541 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7yvbzaol/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7yvbzaol/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8shzeaur/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8shzeaur/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoj9y7eow/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoj9y7eow/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5m2wjecy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5m2wjecy/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3785322 3787359 - 281844 1 chr1 3785322 3788951 - 281844 2 chr1 3785322 3788951 - 281844 3 chr1 3785322 3788951 - 281844 4 chr1 3785322 3794275 - 281844 5 chr1 3785322 3795276 - 281844 6 chr1 7321537 7325166 - 3818059 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3785322 | 3787359 | a | 0 | ... | | chr1 | 3785322 | 3788951 | a | 0 | ... | | chr1 | 3785322 | 3788951 | a | 0 | ... | | chr1 | 3785322 | 3788951 | a | 0 | ... | | chr1 | 3785322 | 3794275 | a | 0 | ... | | chr1 | 3785322 | 3795276 | a | 0 | ... | | chr1 | 7321537 | 7325166 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3785322 3787359 - 281844 1 chr1 3785322 3788951 - 281844 2 chr1 3785322 3788951 - 281844 3 chr1 3785322 3788951 - 281844 4 chr1 3785322 3794275 - 281844 5 chr1 3785322 3795276 - 281844 6 chr1 7321537 7325166 - 3818059 Expected Chromosome Start End Strand Distance 0 chr1 3785322 3787359 - 281844 1 chr1 3785322 3788951 - 281844 2 chr1 3785322 3788951 - 281844 3 chr1 3785322 3788951 - 281844 4 chr1 3785322 3794275 - 281844 5 chr1 3785322 3795276 - 281844 6 chr1 7321537 7325166 - 3818059 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpogvg5uyx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpogvg5uyx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuqld5k84/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuqld5k84/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkqw0l1ea/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkqw0l1ea/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 65538 65540 + 6049 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 65538 | 65540 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 65538 65540 + 6049 Expected Chromosome Start End Strand Distance 0 chr1 65538 65540 + 6049 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmps5r4uuwf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps5r4uuwf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2367805 2370696 + 4552798 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2367805 | 2370696 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2367805 2370696 + 4552798 Expected Chromosome Start End Strand Distance 0 chr1 2367805 2370696 + 4552798 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpczlax9zc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpczlax9zc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp05x2q_qh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp05x2q_qh/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 543462 552306 + 6289027 1 chr1 543462 552306 + 6289027 2 chr1 543462 552306 + 6289027 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 543462 | 552306 | a | 0 | ... | | chr1 | 543462 | 552306 | a | 0 | ... | | chr1 | 543462 | 552306 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 543462 552306 + 6289027 1 chr1 543462 552306 + 6289027 2 chr1 543462 552306 + 6289027 Expected Chromosome Start End Strand Distance 0 chr1 543462 552306 + 6289027 1 chr1 543462 552306 + 6289027 2 chr1 543462 552306 + 6289027 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6dc5z0y5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6dc5z0y5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 794500 798053 + 5101222 1 chr1 3398182 3401735 + 2497540 2 chr1 5764233 5767786 + 131489 3 chr1 5764233 5767786 + 131489 4 chr1 5764233 5767786 + 131489 5 chr1 5764233 5767786 + 131489 6 chr1 5764233 5767786 + 131489 7 chr1 5764233 5767786 + 131489 8 chr1 5764233 5767786 + 131489 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 794500 | 798053 | a | 0 | ... | | chr1 | 3398182 | 3401735 | a | 0 | ... | | chr1 | 5764233 | 5767786 | a | 0 | ... | | chr1 | 5764233 | 5767786 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 5764233 | 5767786 | a | 0 | ... | | chr1 | 5764233 | 5767786 | a | 0 | ... | | chr1 | 5764233 | 5767786 | a | 0 | ... | | chr1 | 5764233 | 5767786 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 794500 798053 + 5101222 1 chr1 3398182 3401735 + 2497540 2 chr1 5764233 5767786 + 131489 3 chr1 5764233 5767786 + 131489 4 chr1 5764233 5767786 + 131489 5 chr1 5764233 5767786 + 131489 6 chr1 5764233 5767786 + 131489 7 chr1 5764233 5767786 + 131489 8 chr1 5764233 5767786 + 131489 Expected Chromosome Start End Strand Distance 0 chr1 794500 798053 + 5101222 1 chr1 3398182 3401735 + 2497540 2 chr1 5764233 5767786 + 131489 3 chr1 5764233 5767786 + 131489 4 chr1 5764233 5767786 + 131489 5 chr1 5764233 5767786 + 131489 6 chr1 5764233 5767786 + 131489 7 chr1 5764233 5767786 + 131489 8 chr1 5764233 5767786 + 131489 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpptc4mtr6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpptc4mtr6/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpiq_lgoz8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpiq_lgoz8/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1828723 1831095 + 1173847 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1828723 | 1831095 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1828723 1831095 + 1173847 Expected Chromosome Start End Strand Distance 0 chr1 1828723 1831095 + 1173847 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0f3v3bow/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0f3v3bow/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3004941 3012600 + 3934938 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3004941 | 3012600 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3004941 3012600 + 3934938 Expected Chromosome Start End Strand Distance 0 chr1 3004941 3012600 + 3934938 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3crrzj06/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3crrzj06/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4168033 4170922 - 972328 1 chr1 4168033 4170922 - 972328 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4168033 | 4170922 | a | 0 | ... | | chr1 | 4168033 | 4170922 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4168033 4170922 - 972328 1 chr1 4168033 4170922 - 972328 Expected Chromosome Start End Strand Distance 0 chr1 4168033 4170922 - 972328 1 chr1 4168033 4170922 - 972328 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcd12yzrv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcd12yzrv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwjwx8emv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwjwx8emv/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqc7udtas/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqc7udtas/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpiq2dye99/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpiq2dye99/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq3h30huq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq3h30huq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqh5jsyvp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqh5jsyvp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptdor8ham/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptdor8ham/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3d6x0s8r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3d6x0s8r/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzt06j8c0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzt06j8c0/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 5901901 5907413 + 1112509 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5901901 | 5907413 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5901901 5907413 + 1112509 Expected Chromosome Start End Strand Distance 0 chr1 5901901 5907413 + 1112509 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpk29uiglw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk29uiglw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 6118505 6119337 + 1502012 1 chr1 6118505 6122328 + 1499021 2 chr1 6118505 6123772 + 1497577 3 chr1 6118505 6125151 + 1496198 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6118505 | 6119337 | a | 0 | ... | | chr1 | 6118505 | 6122328 | a | 0 | ... | | chr1 | 6118505 | 6123772 | a | 0 | ... | | chr1 | 6118505 | 6125151 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6118505 6119337 + 1502012 1 chr1 6118505 6122328 + 1499021 2 chr1 6118505 6123772 + 1497577 3 chr1 6118505 6125151 + 1496198 Expected Chromosome Start End Strand Distance 0 chr1 6118505 6119337 + 1502012 1 chr1 6118505 6122328 + 1499021 2 chr1 6118505 6123772 + 1497577 3 chr1 6118505 6125151 + 1496198 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq3b5b013/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq3b5b013/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 6118505 6118787 - 6114661 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6118505 | 6118787 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6118505 6118787 - 6114661 Expected Chromosome Start End Strand Distance 0 chr1 6118505 6118787 - 6114661 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpab7uyunm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpab7uyunm/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoqyhblwt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoqyhblwt/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 5 chr1 2103473 2104974 - 16407 6 chr1 4585206 4586707 - 2480233 7 chr1 6449719 6451220 - 1863013 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2103473 | 2104974 | a | 0 | ... | | chr1 | 4585206 | 4586707 | a | 0 | ... | | chr1 | 6449719 | 6451220 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2103473 2104974 - 16407 1 chr1 4585206 4586707 - 2480233 2 chr1 6449719 6451220 - 1863013 Expected Chromosome Start End Strand Distance 0 chr1 2103473 2104974 - 16407 1 chr1 4585206 4586707 - 2480233 2 chr1 6449719 6451220 - 1863013 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz9mgbsi9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz9mgbsi9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf3bue1ul/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf3bue1ul/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 621511 626564 + 314110 1 chr1 940673 944498 + 5727119 2 chr1 940673 945726 + 5725891 3 chr1 940673 945726 + 5725891 4 chr1 940673 945726 + 5725891 5 chr1 940673 945726 + 5725891 7 chr1 940673 947259 + 5724358 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 621511 | 626564 | a | 0 | ... | | chr1 | 940673 | 944498 | a | 0 | ... | | chr1 | 940673 | 945726 | a | 0 | ... | | chr1 | 940673 | 945726 | a | 0 | ... | | chr1 | 940673 | 945726 | a | 0 | ... | | chr1 | 940673 | 945726 | a | 0 | ... | | chr1 | 940673 | 947259 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 621511 626564 + 314110 1 chr1 940673 944498 + 5727119 2 chr1 940673 945726 + 5725891 3 chr1 940673 945726 + 5725891 4 chr1 940673 945726 + 5725891 5 chr1 940673 945726 + 5725891 6 chr1 940673 947259 + 5724358 Expected Chromosome Start End Strand Distance 0 chr1 621511 626564 + 314110 1 chr1 940673 944498 + 5727119 2 chr1 940673 945726 + 5725891 3 chr1 940673 945726 + 5725891 4 chr1 940673 945726 + 5725891 5 chr1 940673 945726 + 5725891 6 chr1 940673 947259 + 5724358 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5dt7nm6m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5dt7nm6m/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpul5c1x8m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpul5c1x8m/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7j8m_pe8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7j8m_pe8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpamgxojwa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpamgxojwa/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6gunr1nn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6gunr1nn/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chrM 3475864 3483258 + 5582201 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chrM | 3475864 | 3483258 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chrM 3475864 3483258 + 5582201 Expected Chromosome Start End Strand Distance 0 chrM 3475864 3483258 + 5582201 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuk425nl8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuk425nl8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9y7i17uw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9y7i17uw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 66050 66564 + 676335 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 66050 | 66564 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 66050 66564 + 676335 Expected Chromosome Start End Strand Distance 0 chr1 66050 66564 + 676335 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5sj0sqbi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5sj0sqbi/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 87 8805 + 2379 1 chr1 11183 13626 + 729273 2 chr1 742898 751616 + 4751838 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 87 | 8805 | a | 0 | ... | | chr1 | 11183 | 13626 | a | 0 | ... | | chr1 | 742898 | 751616 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 87 8805 + 2379 1 chr1 11183 13626 + 729273 2 chr1 742898 751616 + 4751838 Expected Chromosome Start End Strand Distance 0 chr1 87 8805 + 2379 1 chr1 11183 13626 + 729273 2 chr1 742898 751616 + 4751838 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpixo2cuqo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpixo2cuqo/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeo7owiyr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeo7owiyr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbuwttdk7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbuwttdk7/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1_m4kuky/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1_m4kuky/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwm4occ_l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwm4occ_l/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqt66py3w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqt66py3w/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxps8s2yd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxps8s2yd/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpifbuubhn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpifbuubhn/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyr0v12eq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyr0v12eq/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc9hqrgpm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc9hqrgpm/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9vgx36vk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9vgx36vk/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr2 7133779 7138819 + 1987086 1 chr2 7133779 7138819 + 1987086 2 chr2 7133779 7138819 + 1987086 3 chr2 7133779 7138819 + 1987086 5 chr2 9125904 9133313 + 136189 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr2 | 7133779 | 7138819 | a | 0 | ... | | chr2 | 7133779 | 7138819 | a | 0 | ... | | chr2 | 7133779 | 7138819 | a | 0 | ... | | chr2 | 7133779 | 7138819 | a | 0 | ... | | chr2 | 9125904 | 9133313 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 5 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr2 7133779 7138819 + 1987086 1 chr2 7133779 7138819 + 1987086 2 chr2 7133779 7138819 + 1987086 3 chr2 7133779 7138819 + 1987086 4 chr2 9125904 9133313 + 136189 Expected Chromosome Start End Strand Distance 0 chr2 7133779 7138819 + 1987086 1 chr2 7133779 7138819 + 1987086 2 chr2 7133779 7138819 + 1987086 3 chr2 7133779 7138819 + 1987086 4 chr2 9125904 9133313 + 136189 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=5, step=1) Expected index RangeIndex(start=0, stop=5, step=1) index equal [ True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzz49ug4m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzz49ug4m/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnhx22bz0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnhx22bz0/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3956732 3961688 + 1826178 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3956732 | 3961688 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3956732 3961688 + 1826178 Expected Chromosome Start End Strand Distance 0 chr1 3956732 3961688 + 1826178 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpir0nd80x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpir0nd80x/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1896372 1896783 + 2969776 1 chr1 1896372 1900892 + 2965667 2 chr1 1896372 1905756 + 2960803 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1896372 | 1896783 | a | 0 | ... | | chr1 | 1896372 | 1900892 | a | 0 | ... | | chr1 | 1896372 | 1905756 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1896372 1896783 + 2969776 1 chr1 1896372 1900892 + 2965667 2 chr1 1896372 1905756 + 2960803 Expected Chromosome Start End Strand Distance 0 chr1 1896372 1896783 + 2969776 1 chr1 1896372 1900892 + 2965667 2 chr1 1896372 1905756 + 2960803 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcpuy__9z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcpuy__9z/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb93sc1tp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb93sc1tp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsy6h95e3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsy6h95e3/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo09ugh1p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo09ugh1p/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 38677 38934 + 1796332 1 chr1 38677 38934 + 1796332 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 38677 | 38934 | a | 0 | ... | | chr1 | 38677 | 38934 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 38677 38934 + 1796332 1 chr1 38677 38934 + 1796332 Expected Chromosome Start End Strand Distance 0 chr1 38677 38934 + 1796332 1 chr1 38677 38934 + 1796332 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpikwulhys/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpikwulhys/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1451194 1454463 + 3051323 1 chr1 1451194 1454463 + 3051323 2 chr1 1451194 1454463 + 3051323 3 chr1 1451194 1454463 + 3051323 4 chr1 1451194 1454463 + 3051323 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1451194 | 1454463 | a | 0 | ... | | chr1 | 1451194 | 1454463 | a | 0 | ... | | chr1 | 1451194 | 1454463 | a | 0 | ... | | chr1 | 1451194 | 1454463 | a | 0 | ... | | chr1 | 1451194 | 1454463 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 5 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1451194 1454463 + 3051323 1 chr1 1451194 1454463 + 3051323 2 chr1 1451194 1454463 + 3051323 3 chr1 1451194 1454463 + 3051323 4 chr1 1451194 1454463 + 3051323 Expected Chromosome Start End Strand Distance 0 chr1 1451194 1454463 + 3051323 1 chr1 1451194 1454463 + 3051323 2 chr1 1451194 1454463 + 3051323 3 chr1 1451194 1454463 + 3051323 4 chr1 1451194 1454463 + 3051323 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=5, step=1) Expected index RangeIndex(start=0, stop=5, step=1) index equal [ True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2eczhki4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2eczhki4/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1846270 1847133 + 4601581 1 chr1 1846270 1847133 + 4601581 2 chr1 1846270 1847133 + 4601581 3 chr1 1846270 1847133 + 4601581 4 chr1 1846270 1847133 + 4601581 5 chr1 1846270 1847133 + 4601581 6 chr1 1846270 1847133 + 4601581 7 chr1 1846270 1847133 + 4601581 8 chr1 1846270 1847133 + 4601581 9 chr1 1846270 1847133 + 4601581 10 chr1 1846270 1853920 + 4594794 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1846270 | 1847133 | a | 0 | ... | | chr1 | 1846270 | 1847133 | a | 0 | ... | | chr1 | 1846270 | 1847133 | a | 0 | ... | | chr1 | 1846270 | 1847133 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 1846270 | 1847133 | a | 0 | ... | | chr1 | 1846270 | 1847133 | a | 0 | ... | | chr1 | 1846270 | 1847133 | a | 0 | ... | | chr1 | 1846270 | 1853920 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 11 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1846270 1847133 + 4601581 1 chr1 1846270 1847133 + 4601581 2 chr1 1846270 1847133 + 4601581 3 chr1 1846270 1847133 + 4601581 4 chr1 1846270 1847133 + 4601581 5 chr1 1846270 1847133 + 4601581 6 chr1 1846270 1847133 + 4601581 7 chr1 1846270 1847133 + 4601581 8 chr1 1846270 1847133 + 4601581 9 chr1 1846270 1847133 + 4601581 10 chr1 1846270 1853920 + 4594794 Expected Chromosome Start End Strand Distance 0 chr1 1846270 1847133 + 4601581 1 chr1 1846270 1847133 + 4601581 2 chr1 1846270 1847133 + 4601581 3 chr1 1846270 1847133 + 4601581 4 chr1 1846270 1847133 + 4601581 5 chr1 1846270 1847133 + 4601581 6 chr1 1846270 1847133 + 4601581 7 chr1 1846270 1847133 + 4601581 8 chr1 1846270 1847133 + 4601581 9 chr1 1846270 1847133 + 4601581 10 chr1 1846270 1853920 + 4594794 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=11, step=1) Expected index RangeIndex(start=0, stop=11, step=1) index equal [ True True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgqu0rp36/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgqu0rp36/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3175947 3176777 + 1542292 1 chr1 3745043 3747626 + 971443 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3175947 | 3176777 | a | 0 | ... | | chr1 | 3745043 | 3747626 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3175947 3176777 + 1542292 1 chr1 3745043 3747626 + 971443 Expected Chromosome Start End Strand Distance 0 chr1 3175947 3176777 + 1542292 1 chr1 3745043 3747626 + 971443 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpntbw0sc0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpntbw0sc0/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpssc3p58d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpssc3p58d/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 3144958 3147719 + 3340551 1 chr1 3144958 3148517 + 3339753 2 chr1 3144958 3150727 + 3337543 3 chr1 3144958 3152218 + 3336052 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3144958 | 3147719 | a | 0 | ... | | chr1 | 3144958 | 3148517 | a | 0 | ... | | chr1 | 3144958 | 3150727 | a | 0 | ... | | chr1 | 3144958 | 3152218 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3144958 3147719 + 3340551 1 chr1 3144958 3148517 + 3339753 2 chr1 3144958 3150727 + 3337543 3 chr1 3144958 3152218 + 3336052 Expected Chromosome Start End Strand Distance 0 chr1 3144958 3147719 + 3340551 1 chr1 3144958 3148517 + 3339753 2 chr1 3144958 3150727 + 3337543 3 chr1 3144958 3152218 + 3336052 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz0sjnb9u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz0sjnb9u/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 6488269 6497059 + 1425593 1 chr1 6488269 6497059 + 1425593 2 chr1 6488269 6497059 + 1425593 3 chr1 6488269 6497059 + 1425593 4 chr1 6488269 6497059 + 1425593 5 chr1 6488269 6497059 + 1425593 6 chr1 6488269 6497059 + 1425593 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 6488269 | 6497059 | a | 0 | ... | | chr1 | 6488269 | 6497059 | a | 0 | ... | | chr1 | 6488269 | 6497059 | a | 0 | ... | | chr1 | 6488269 | 6497059 | a | 0 | ... | | chr1 | 6488269 | 6497059 | a | 0 | ... | | chr1 | 6488269 | 6497059 | a | 0 | ... | | chr1 | 6488269 | 6497059 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 6488269 6497059 + 1425593 1 chr1 6488269 6497059 + 1425593 2 chr1 6488269 6497059 + 1425593 3 chr1 6488269 6497059 + 1425593 4 chr1 6488269 6497059 + 1425593 5 chr1 6488269 6497059 + 1425593 6 chr1 6488269 6497059 + 1425593 Expected Chromosome Start End Strand Distance 0 chr1 6488269 6497059 + 1425593 1 chr1 6488269 6497059 + 1425593 2 chr1 6488269 6497059 + 1425593 3 chr1 6488269 6497059 + 1425593 4 chr1 6488269 6497059 + 1425593 5 chr1 6488269 6497059 + 1425593 6 chr1 6488269 6497059 + 1425593 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmqqpr775/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmqqpr775/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1174884 1183594 + 3489971 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1174884 | 1183594 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1174884 1183594 + 3489971 Expected Chromosome Start End Strand Distance 0 chr1 1174884 1183594 + 3489971 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphz9l0o5b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphz9l0o5b/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4673564 4676041 + 1599885 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4673564 | 4676041 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4673564 4676041 + 1599885 Expected Chromosome Start End Strand Distance 0 chr1 4673564 4676041 + 1599885 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9foln4pt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9foln4pt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwy6hi0hc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwy6hi0hc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp66eatg4x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp66eatg4x/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr1 8193359 8197233 + 1516364 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8193359 | 8197233 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8193359 8197233 + 1516364 Expected Chromosome Start End Strand Distance 0 chr1 8193359 8197233 + 1516364 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7ej5deco/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7ej5deco/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmps7ip5_lw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps7ip5_lw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprijjf8hx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprijjf8hx/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmnogkgcf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmnogkgcf/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyrur_kdu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyrur_kdu/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr14 5536633 5545157 - 5328836 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr14 | 5536633 | 5545157 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr14 5536633 5545157 - 5328836 Expected Chromosome Start End Strand Distance 0 chr14 5536633 5545157 - 5328836 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyqvgz60q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyqvgz60q/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnvpcngsw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnvpcngsw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 3 chr4 2461268 2462013 - 1322298 4 chr4 3545644 3546389 - 1083632 5 chr4 3545644 3546389 - 1083632 6 chr4 3545644 3546389 - 1083632 7 chr4 3545644 3546389 - 1083632 8 chr4 3614227 3614972 - 67839 9 chr4 8064623 8065368 - 4449652 10 chr4 9622486 9623281 - 1557119 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr4 | 2461268 | 2462013 | a | 0 | ... | | chr4 | 3545644 | 3546389 | a | 0 | ... | | chr4 | 3545644 | 3546389 | a | 0 | ... | | chr4 | 3545644 | 3546389 | a | 0 | ... | | chr4 | 3545644 | 3546389 | a | 0 | ... | | chr4 | 3614227 | 3614972 | a | 0 | ... | | chr4 | 8064623 | 8065368 | a | 0 | ... | | chr4 | 9622486 | 9623281 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 8 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr4 2461268 2462013 - 1322298 1 chr4 3545644 3546389 - 1083632 2 chr4 3545644 3546389 - 1083632 3 chr4 3545644 3546389 - 1083632 4 chr4 3545644 3546389 - 1083632 5 chr4 3614227 3614972 - 67839 6 chr4 8064623 8065368 - 4449652 7 chr4 9622486 9623281 - 1557119 Expected Chromosome Start End Strand Distance 0 chr4 2461268 2462013 - 1322298 1 chr4 3545644 3546389 - 1083632 2 chr4 3545644 3546389 - 1083632 3 chr4 3545644 3546389 - 1083632 4 chr4 3545644 3546389 - 1083632 5 chr4 3614227 3614972 - 67839 6 chr4 8064623 8065368 - 4449652 7 chr4 9622486 9623281 - 1557119 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=8, step=1) Expected index RangeIndex(start=0, stop=8, step=1) index equal [ True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy2jz66hb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy2jz66hb/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpytcsp8zk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpytcsp8zk/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplzcz29ro/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplzcz29ro/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpurob6qgf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpurob6qgf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4147347 4149240 + 4922612 1 chr1 6318002 6319895 + 2751957 2 chr1 6318002 6325293 + 2746559 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4147347 | 4149240 | a | 0 | ... | | chr1 | 6318002 | 6319895 | a | 0 | ... | | chr1 | 6318002 | 6325293 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4147347 4149240 + 4922612 1 chr1 6318002 6319895 + 2751957 2 chr1 6318002 6325293 + 2746559 Expected Chromosome Start End Strand Distance 0 chr1 4147347 4149240 + 4922612 1 chr1 6318002 6319895 + 2751957 2 chr1 6318002 6325293 + 2746559 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7krq5y2a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7krq5y2a/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 7825981 7826765 - 6047404 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7825981 | 7826765 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7825981 7826765 - 6047404 Expected Chromosome Start End Strand Distance 0 chr1 7825981 7826765 - 6047404 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0tubwcqd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0tubwcqd/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 7825981 7826765 - 6047404 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 7825981 | 7826765 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 7825981 7826765 - 6047404 Expected Chromosome Start End Strand Distance 0 chr1 7825981 7826765 - 6047404 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpk_abj4av/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk_abj4av/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpejl87hvt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpejl87hvt/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpntq3f6_9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpntq3f6_9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp50itm8em/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp50itm8em/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcgsn6c_z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcgsn6c_z/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdm4w71vi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdm4w71vi/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp85ljmi9q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp85ljmi9q/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0njx5bke/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0njx5bke/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx4__vmav/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx4__vmav/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwn95jzvz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwn95jzvz/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 8 chr1 8001826 8002763 - 4963629 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8001826 | 8002763 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8001826 8002763 - 4963629 Expected Chromosome Start End Strand Distance 0 chr1 8001826 8002763 - 4963629 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1u28hrfm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1u28hrfm/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 7 chr1 8001826 8002763 - 4963629 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8001826 | 8002763 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8001826 8002763 - 4963629 Expected Chromosome Start End Strand Distance 0 chr1 8001826 8002763 - 4963629 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpk7y2r41m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk7y2r41m/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbscyuoye/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbscyuoye/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpghg2s41r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpghg2s41r/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1436820 1444078 + 5989629 1 chr1 7433706 7439834 + 1685014 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1436820 | 1444078 | a | 0 | ... | | chr1 | 7433706 | 7439834 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1436820 1444078 + 5989629 1 chr1 7433706 7439834 + 1685014 Expected Chromosome Start End Strand Distance 0 chr1 1436820 1444078 + 5989629 1 chr1 7433706 7439834 + 1685014 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplwtor9io/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplwtor9io/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4yvm1420/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4yvm1420/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4009343 4009664 + 5389978 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4009343 | 4009664 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4009343 4009664 + 5389978 Expected Chromosome Start End Strand Distance 0 chr1 4009343 4009664 + 5389978 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyt25j4py/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyt25j4py/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsxunl0pu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsxunl0pu/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbok1y_qp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbok1y_qp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3ya0djrr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3ya0djrr/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpowh9zb7w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpowh9zb7w/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmm6_np55/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmm6_np55/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkyjv6s44/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkyjv6s44/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq75oh9gt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq75oh9gt/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 136904 139703 + 1909405 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 136904 | 139703 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 136904 139703 + 1909405 Expected Chromosome Start End Strand Distance 0 chr1 136904 139703 + 1909405 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmps0mykvbw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps0mykvbw/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 136904 139703 + 1909405 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 136904 | 139703 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 136904 139703 + 1909405 Expected Chromosome Start End Strand Distance 0 chr1 136904 139703 + 1909405 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjx35gnzp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjx35gnzp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd7f45ya5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd7f45ya5/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 9628874 9631504 - 6740775 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9628874 | 9631504 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9628874 9631504 - 6740775 Expected Chromosome Start End Strand Distance 0 chr1 9628874 9631504 - 6740775 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz_wpte4d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz_wpte4d/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 2884661 2888100 - 523260 2 chr1 9728808 9734168 - 6840709 3 chr1 9728808 9734168 - 6840709 4 chr1 9728808 9734168 - 6840709 5 chr1 9728808 9734168 - 6840709 6 chr1 9728808 9734168 - 6840709 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2884661 | 2888100 | a | 0 | ... | | chr1 | 9728808 | 9734168 | a | 0 | ... | | chr1 | 9728808 | 9734168 | a | 0 | ... | | chr1 | 9728808 | 9734168 | a | 0 | ... | | chr1 | 9728808 | 9734168 | a | 0 | ... | | chr1 | 9728808 | 9734168 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 6 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2884661 2888100 - 523260 1 chr1 9728808 9734168 - 6840709 2 chr1 9728808 9734168 - 6840709 3 chr1 9728808 9734168 - 6840709 4 chr1 9728808 9734168 - 6840709 5 chr1 9728808 9734168 - 6840709 Expected Chromosome Start End Strand Distance 0 chr1 2884661 2888100 - 523260 1 chr1 9728808 9734168 - 6840709 2 chr1 9728808 9734168 - 6840709 3 chr1 9728808 9734168 - 6840709 4 chr1 9728808 9734168 - 6840709 5 chr1 9728808 9734168 - 6840709 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=6, step=1) Expected index RangeIndex(start=0, stop=6, step=1) index equal [ True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptyxm6gzd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptyxm6gzd/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 8413036 8414844 - 413803 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8413036 | 8414844 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8413036 8414844 - 413803 Expected Chromosome Start End Strand Distance 0 chr1 8413036 8414844 - 413803 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmply7ez030/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmply7ez030/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp36w4u1sr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp36w4u1sr/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 8319566 8321528 - 3306132 2 chr5 8319566 8320024 - 5187092 6 chr5 8319566 8326092 - 5187092 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 8319566 | 8321528 | a | 0 | ... | | chr5 | 8319566 | 8320024 | a | 0 | ... | | chr5 | 8319566 | 8326092 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 8319566 8321528 - 3306132 1 chr5 8319566 8320024 - 5187092 2 chr5 8319566 8326092 - 5187092 Expected Chromosome Start End Strand Distance 0 chr1 8319566 8321528 - 3306132 1 chr5 8319566 8320024 - 5187092 2 chr5 8319566 8326092 - 5187092 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpiekbjikf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpiekbjikf/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 5006965 5013435 - 1871702 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5006965 | 5013435 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5006965 5013435 - 1871702 Expected Chromosome Start End Strand Distance 0 chr1 5006965 5013435 - 1871702 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx01aeken/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx01aeken/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4zq821h1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4zq821h1/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5jy25hap/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5jy25hap/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0zrcs9vc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0zrcs9vc/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfe540ngz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfe540ngz/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_2k4mwwp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_2k4mwwp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9lycw936/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9lycw936/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1n6t6e9m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1n6t6e9m/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc7bp4k3u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc7bp4k3u/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqdyyjqsd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqdyyjqsd/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chrY 3807397 3813350 - 3435613 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chrY | 3807397 | 3813350 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chrY 3807397 3813350 - 3435613 Expected Chromosome Start End Strand Distance 0 chrY 3807397 3813350 - 3435613 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo0l5d_k4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo0l5d_k4/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyqjwnvfh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyqjwnvfh/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5gk4b13l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5gk4b13l/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcn1pac12/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcn1pac12/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2dw4u9fc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2dw4u9fc/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 5 chr1 9770426 9772408 - 3375071 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9770426 | 9772408 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9770426 9772408 - 3375071 Expected Chromosome Start End Strand Distance 0 chr1 9770426 9772408 - 3375071 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5qw076go/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5qw076go/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl07exhy9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl07exhy9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpas01no05/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpas01no05/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 749932 756947 + 1871714 1 chr1 749932 756947 + 1871714 2 chr1 749932 756947 + 1871714 3 chr1 749932 756947 + 1871714 4 chr1 749932 756947 + 1871714 5 chr1 749932 756947 + 1871714 6 chr1 749932 756947 + 1871714 7 chr1 749932 756947 + 1871714 8 chr1 749932 756947 + 1871714 9 chr1 749932 757502 + 1871159 10 chr1 749932 759184 + 1869477 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 749932 | 756947 | a | 0 | ... | | chr1 | 749932 | 756947 | a | 0 | ... | | chr1 | 749932 | 756947 | a | 0 | ... | | chr1 | 749932 | 756947 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 749932 | 756947 | a | 0 | ... | | chr1 | 749932 | 756947 | a | 0 | ... | | chr1 | 749932 | 757502 | a | 0 | ... | | chr1 | 749932 | 759184 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 11 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 749932 756947 + 1871714 1 chr1 749932 756947 + 1871714 2 chr1 749932 756947 + 1871714 3 chr1 749932 756947 + 1871714 4 chr1 749932 756947 + 1871714 5 chr1 749932 756947 + 1871714 6 chr1 749932 756947 + 1871714 7 chr1 749932 756947 + 1871714 8 chr1 749932 756947 + 1871714 9 chr1 749932 757502 + 1871159 10 chr1 749932 759184 + 1869477 Expected Chromosome Start End Strand Distance 0 chr1 749932 756947 + 1871714 1 chr1 749932 756947 + 1871714 2 chr1 749932 756947 + 1871714 3 chr1 749932 756947 + 1871714 4 chr1 749932 756947 + 1871714 5 chr1 749932 756947 + 1871714 6 chr1 749932 756947 + 1871714 7 chr1 749932 756947 + 1871714 8 chr1 749932 756947 + 1871714 9 chr1 749932 757502 + 1871159 10 chr1 749932 759184 + 1869477 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=11, step=1) Expected index RangeIndex(start=0, stop=11, step=1) index equal [ True True True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyp42ili8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyp42ili8/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9v_zwten/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9v_zwten/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr14 2284082 2286240 + 5997412 3 chr14 2284082 2286240 + 5997412 4 chr14 2284082 2286240 + 5997412 5 chr14 2284082 2286240 - 296511 6 chr14 2284082 2286240 - 296511 7 chr14 2284082 2286240 - 296511 8 chr14 3278413 3280571 - 992174 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr14 | 2284082 | 2286240 | a | 0 | ... | | chr14 | 2284082 | 2286240 | a | 0 | ... | | chr14 | 2284082 | 2286240 | a | 0 | ... | | chr14 | 2284082 | 2286240 | a | 0 | ... | | chr14 | 2284082 | 2286240 | a | 0 | ... | | chr14 | 2284082 | 2286240 | a | 0 | ... | | chr14 | 3278413 | 3280571 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 7 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr14 2284082 2286240 + 5997412 1 chr14 2284082 2286240 + 5997412 2 chr14 2284082 2286240 + 5997412 3 chr14 2284082 2286240 - 296511 4 chr14 2284082 2286240 - 296511 5 chr14 2284082 2286240 - 296511 6 chr14 3278413 3280571 - 992174 Expected Chromosome Start End Strand Distance 0 chr14 2284082 2286240 + 5997412 1 chr14 2284082 2286240 + 5997412 2 chr14 2284082 2286240 + 5997412 3 chr14 2284082 2286240 - 296511 4 chr14 2284082 2286240 - 296511 5 chr14 2284082 2286240 - 296511 6 chr14 3278413 3280571 - 992174 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=7, step=1) Expected index RangeIndex(start=0, stop=7, step=1) index equal [ True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmnsmu9t4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmnsmu9t4/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuox9tgeb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuox9tgeb/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 4160069 4163425 - 2028671 1 chr1 7068245 7071601 - 4936847 2 chr1 9113564 9116920 - 572150 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 4160069 | 4163425 | a | 0 | ... | | chr1 | 7068245 | 7071601 | a | 0 | ... | | chr1 | 9113564 | 9116920 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 3 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 4160069 4163425 - 2028671 1 chr1 7068245 7071601 - 4936847 2 chr1 9113564 9116920 - 572150 Expected Chromosome Start End Strand Distance 0 chr1 4160069 4163425 - 2028671 1 chr1 7068245 7071601 - 4936847 2 chr1 9113564 9116920 - 572150 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=3, step=1) Expected index RangeIndex(start=0, stop=3, step=1) index equal [ True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw83vwkfu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw83vwkfu/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 418160 427595 + 2805928 2 chr1 3233522 3240626 + 897724 3 chr1 4138349 4138718 + 1965211 4 chr1 6103928 6112438 + 352169 5 chr1 6464606 6465938 + 1127501 6 chr1 7508273 7508852 - 5376875 7 chr1 7508273 7517937 - 5376875 8 chr1 7593438 7602246 + 400576 10 chr1 8540083 8541415 - 1022147 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 418160 | 427595 | a | 0 | ... | | chr1 | 3233522 | 3240626 | a | 0 | ... | | chr1 | 4138349 | 4138718 | a | 0 | ... | | chr1 | 6103928 | 6112438 | a | 0 | ... | | ... | ... | ... | ... | ... | ... | | chr1 | 7593438 | 7602246 | a | 0 | ... | | chr1 | 7508273 | 7508852 | a | 0 | ... | | chr1 | 7508273 | 7517937 | a | 0 | ... | | chr1 | 8540083 | 8541415 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 9 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 418160 427595 + 2805928 1 chr1 3233522 3240626 + 897724 2 chr1 4138349 4138718 + 1965211 3 chr1 6103928 6112438 + 352169 4 chr1 6464606 6465938 + 1127501 5 chr1 7508273 7508852 - 5376875 6 chr1 7508273 7517937 - 5376875 7 chr1 7593438 7602246 + 400576 8 chr1 8540083 8541415 - 1022147 Expected Chromosome Start End Strand Distance 0 chr1 418160 427595 + 2805928 1 chr1 3233522 3240626 + 897724 2 chr1 4138349 4138718 + 1965211 3 chr1 6103928 6112438 + 352169 4 chr1 6464606 6465938 + 1127501 5 chr1 7508273 7508852 - 5376875 6 chr1 7508273 7517937 - 5376875 7 chr1 7593438 7602246 + 400576 8 chr1 8540083 8541415 - 1022147 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=9, step=1) Expected index RangeIndex(start=0, stop=9, step=1) index equal [ True True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbbau1lbp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbbau1lbp/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwy_weg2j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwy_weg2j/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbb76t7as/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbb76t7as/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmdpkzhls/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmdpkzhls/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn71x5ojy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn71x5ojy/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqtngrmwx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqtngrmwx/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 2 chr9 127676 128859 + 3096305 3 chr9 127676 128859 + 3096305 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr9 | 127676 | 128859 | a | 0 | ... | | chr9 | 127676 | 128859 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr9 127676 128859 + 3096305 1 chr9 127676 128859 + 3096305 Expected Chromosome Start End Strand Distance 0 chr9 127676 128859 + 3096305 1 chr9 127676 128859 + 3096305 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnmc9v2p6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnmc9v2p6/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1192352 1197611 + 278494 3 chr9 3225163 3233775 + 3504328 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1192352 | 1197611 | a | 0 | ... | | chr9 | 3225163 | 3233775 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1192352 1197611 + 278494 1 chr9 3225163 3233775 + 3504328 Expected Chromosome Start End Strand Distance 0 chr1 1192352 1197611 + 278494 1 chr9 3225163 3233775 + 3504328 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmlki_o62/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmlki_o62/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8nftjydw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8nftjydw/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpizhnuh1m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpizhnuh1m/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp82ui6dsc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp82ui6dsc/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 5565999 5566047 - 5559023 2 chr1 5565999 5566047 - 5559023 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 5565999 | 5566047 | a | 0 | ... | | chr1 | 5565999 | 5566047 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 5565999 5566047 - 5559023 1 chr1 5565999 5566047 - 5559023 Expected Chromosome Start End Strand Distance 0 chr1 5565999 5566047 - 5559023 1 chr1 5565999 5566047 - 5559023 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2w1wlqjm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2w1wlqjm/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr19 344 6977 + 129652 2 chr19 344 6977 + 129652 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr19 | 344 | 6977 | a | 0 | ... | | chr19 | 344 | 6977 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr19 344 6977 + 129652 1 chr19 344 6977 + 129652 Expected Chromosome Start End Strand Distance 0 chr19 344 6977 + 129652 1 chr19 344 6977 + 129652 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfunhdvop/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfunhdvop/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr19 344 6977 + 129652 2 chr19 344 6977 + 129652 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr19 | 344 | 6977 | a | 0 | ... | | chr19 | 344 | 6977 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr19 344 6977 + 129652 1 chr19 344 6977 + 129652 Expected Chromosome Start End Strand Distance 0 chr19 344 6977 + 129652 1 chr19 344 6977 + 129652 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc4tn97jx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc4tn97jx/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 9410996 9413572 - 4137302 2 chr11 284604 287180 + 9455668 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 9410996 | 9413572 | a | 0 | ... | | chr11 | 284604 | 287180 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 2 rows and 12 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 9410996 9413572 - 4137302 1 chr11 284604 287180 + 9455668 Expected Chromosome Start End Strand Distance 0 chr1 9410996 9413572 - 4137302 1 chr11 284604 287180 + 9455668 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=2, step=1) Expected index RangeIndex(start=0, stop=2, step=1) index equal [ True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv_e95v4d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv_e95v4d/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 2563 3987 + 1923956 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 2563 | 3987 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 2563 3987 + 1923956 Expected Chromosome Start End Strand Distance 0 chr1 2563 3987 + 1923956 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjpsdd_oo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjpsdd_oo/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5yromw48/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5yromw48/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpggqs1gp9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpggqs1gp9/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6ip5ek7p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6ip5ek7p/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr14 1233034 1238676 + 7037945 2 chr14 8276620 8277833 + 721387 3 chr14 8276620 8278025 + 721195 4 chr14 8276620 8282262 + 716958 5 chr14 8276620 8282860 + 716360 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr14 | 1233034 | 1238676 | a | 0 | ... | | chr14 | 8276620 | 8277833 | a | 0 | ... | | chr14 | 8276620 | 8278025 | a | 0 | ... | | chr14 | 8276620 | 8282262 | a | 0 | ... | | chr14 | 8276620 | 8282860 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 5 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr14 1233034 1238676 + 7037945 1 chr14 8276620 8277833 + 721387 2 chr14 8276620 8278025 + 721195 3 chr14 8276620 8282262 + 716958 4 chr14 8276620 8282860 + 716360 Expected Chromosome Start End Strand Distance 0 chr14 1233034 1238676 + 7037945 1 chr14 8276620 8277833 + 721387 2 chr14 8276620 8278025 + 721195 3 chr14 8276620 8282262 + 716958 4 chr14 8276620 8282860 + 716360 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=5, step=1) Expected index RangeIndex(start=0, stop=5, step=1) index equal [ True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpredhi8jb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpredhi8jb/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1723535 1725330 + 4247711 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1723535 | 1725330 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 1 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1723535 1725330 + 4247711 Expected Chromosome Start End Strand Distance 0 chr1 1723535 1725330 + 4247711 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=1, step=1) Expected index RangeIndex(start=0, stop=1, step=1) index equal [ True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxl5k1x9i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxl5k1x9i/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf_bmxh8n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf_bmxh8n/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl0hjwmh6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl0hjwmh6/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp47qu94og/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp47qu94og/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 0 chr1 1224597 1233808 + 2356195 1 chr1 3590002 3599213 + 5326387 7 chr1 8925599 8934810 - 3351319 8 chr1 8925599 8934810 - 3351319 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 1224597 | 1233808 | a | 0 | ... | | chr1 | 3590002 | 3599213 | a | 0 | ... | | chr1 | 8925599 | 8934810 | a | 0 | ... | | chr1 | 8925599 | 8934810 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 4 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 1224597 1233808 + 2356195 1 chr1 3590002 3599213 + 5326387 2 chr1 8925599 8934810 - 3351319 3 chr1 8925599 8934810 - 3351319 Expected Chromosome Start End Strand Distance 0 chr1 1224597 1233808 + 2356195 1 chr1 3590002 3599213 + 5326387 2 chr1 8925599 8934810 - 3351319 3 chr1 8925599 8934810 - 3351319 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=4, step=1) Expected index RangeIndex(start=0, stop=4, step=1) index equal [ True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp298e6ixs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp298e6ixs/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_n94as4c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_n94as4c/f2.bed) bedtools bedtools bedtools bedtools bedtools Chromosome Start End Strand Distance 1 chr1 3859375 3859447 - 774030 2 chr1 6543549 6543621 - 2684103 3 chr1 6543549 6543621 - 2684103 4 chr1 6543549 6543621 - 2684103 5 chr1 6543549 6543621 - 2684103 6 chr1 6543549 6543621 - 2684103 7 chr1 6543549 6543621 - 2684103 8 chr1 6543549 6548138 - 2684103 result result result result result +--------------+-----------+-----------+------------+-----------+-------+ | Chromosome | Start | End | Name | Score | +7 | | (category) | (int64) | (int64) | (object) | (int64) | ... | |--------------+-----------+-----------+------------+-----------+-------| | chr1 | 3859375 | 3859447 | a | 0 | ... | | chr1 | 6543549 | 6543621 | a | 0 | ... | | chr1 | 6543549 | 6543621 | a | 0 | ... | | chr1 | 6543549 | 6543621 | a | 0 | ... | | chr1 | 6543549 | 6543621 | a | 0 | ... | | chr1 | 6543549 | 6543621 | a | 0 | ... | | chr1 | 6543549 | 6543621 | a | 0 | ... | | chr1 | 6543549 | 6548138 | a | 0 | ... | +--------------+-----------+-----------+------------+-----------+-------+ Stranded PyRanges object has 8 rows and 12 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. 7 hidden columns: Strand, Start_b, End_b, Name_b, Score_b, Strand_b, Distance Actual Chromosome Start End Strand Distance 0 chr1 3859375 3859447 - 774030 1 chr1 6543549 6543621 - 2684103 2 chr1 6543549 6543621 - 2684103 3 chr1 6543549 6543621 - 2684103 4 chr1 6543549 6543621 - 2684103 5 chr1 6543549 6543621 - 2684103 6 chr1 6543549 6543621 - 2684103 7 chr1 6543549 6548138 - 2684103 Expected Chromosome Start End Strand Distance 0 chr1 3859375 3859447 - 774030 1 chr1 6543549 6543621 - 2684103 2 chr1 6543549 6543621 - 2684103 3 chr1 6543549 6543621 - 2684103 4 chr1 6543549 6543621 - 2684103 5 chr1 6543549 6543621 - 2684103 6 chr1 6543549 6543621 - 2684103 7 chr1 6543549 6548138 - 2684103 Actual dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Expected dtypes Chromosome object Start int64 End int64 Strand object Distance int64 dtype: object Actual index RangeIndex(start=0, stop=8, step=1) Expected index RangeIndex(start=0, stop=8, step=1) index equal [ True True True True True True True True] cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyfz8d_7e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyfz8d_7e/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpaafeuc5v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpaafeuc5v/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwnemrwo6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwnemrwo6/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppxtilqd4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppxtilqd4/f2.bed) bedtools bedtools bedtools bedtools bedtools Empty DataFrame Columns: [Chromosome, Start, End, Strand, Distance] Index: [] result result result result result Empty PyRanges cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd14k4zfr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd14k4zfr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb80myhbh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb80myhbh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj8pjgwuz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj8pjgwuz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_sg_5487/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_sg_5487/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp21577237/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp21577237/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxmqbdgb6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxmqbdgb6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe5wuvuk7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe5wuvuk7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyx0elvwy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyx0elvwy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnzhjbehx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnzhjbehx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplrmej78h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplrmej78h/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx05i1za8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx05i1za8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2fufrn1k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2fufrn1k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6ma2epgj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6ma2epgj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphcoccpg4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphcoccpg4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpizb5_u2v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpizb5_u2v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpup9x5d69/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpup9x5d69/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkl6cc_ua/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkl6cc_ua/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7j4lk2ab/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7j4lk2ab/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpydz6n7qx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpydz6n7qx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp36818379/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp36818379/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc85dph72/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc85dph72/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyn972k5u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyn972k5u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe3cvyitp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe3cvyitp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprbihs0fx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprbihs0fx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwlgvj019/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwlgvj019/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuy6owhfp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuy6owhfp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvj_xxy4t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvj_xxy4t/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpp6yom97f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp6yom97f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8k8veh0r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8k8veh0r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplu_49lcd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplu_49lcd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgsw_ucxt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgsw_ucxt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2rcm3mqg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2rcm3mqg/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5qnmfg99/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5qnmfg99/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq_5mb2xa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq_5mb2xa/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvorrrlym/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvorrrlym/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4npyarcd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4npyarcd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbajbvoip/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbajbvoip/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2v5i0uke/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2v5i0uke/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpk83o0koi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk83o0koi/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpez16vb31/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpez16vb31/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp889of0ur/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp889of0ur/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9mtva2xa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9mtva2xa/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjq4ilyvq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjq4ilyvq/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0fnjrxcw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0fnjrxcw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp51bez2z8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp51bez2z8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvi3vawok/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvi3vawok/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv36srfk7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv36srfk7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnr640aha/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnr640aha/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8jwo2ywv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8jwo2ywv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwh2_aqlf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwh2_aqlf/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphvghlts8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphvghlts8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplsvxrf8_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplsvxrf8_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjnhg0u1_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjnhg0u1_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphe4erbce/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphe4erbce/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu884gwi5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu884gwi5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwtfnwcm3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwtfnwcm3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn0j94g8u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn0j94g8u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5p14kl7b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5p14kl7b/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8bgiag1e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8bgiag1e/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwzgs5y8d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwzgs5y8d/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp55o8h_xb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp55o8h_xb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6m0i23dn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6m0i23dn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgsp7dyul/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgsp7dyul/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2d40vdfs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2d40vdfs/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0oxuuzna/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0oxuuzna/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe8j5di32/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe8j5di32/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp14zb8a18/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp14zb8a18/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzbamv_n1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzbamv_n1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvaol85mw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvaol85mw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplj675dny/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplj675dny/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbloa64cm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbloa64cm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9v3n60ap/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9v3n60ap/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb6qp5d0b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb6qp5d0b/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgps90skn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgps90skn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxjg_r28x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxjg_r28x/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvry52r9t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvry52r9t/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsuekioxc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsuekioxc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2bal_e7w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2bal_e7w/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprk8l7rlb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprk8l7rlb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp94kgvq3p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp94kgvq3p/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqnr19j1f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqnr19j1f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsdke5p_9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsdke5p_9/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2rsm1jha/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2rsm1jha/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmp4_uvxlet/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp50jla7m7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp50jla7m7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpt0spdgx7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt0spdgx7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpaxb2iuv7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpaxb2iuv7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzrg89lxb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzrg89lxb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn1r_mx2h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn1r_mx2h/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_kgc4e20/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_kgc4e20/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3b3z0qza/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3b3z0qza/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbmzhd4cz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbmzhd4cz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8j7ng9n_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8j7ng9n_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9lz423ax/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9lz423ax/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpit5rcduk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpit5rcduk/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpscao0g81/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpscao0g81/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg9twve1k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg9twve1k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdnlbd9f_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdnlbd9f_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmd_1lej5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmd_1lej5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplw3yyq9z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplw3yyq9z/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpezg875if/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpezg875if/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw_dp9g39/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw_dp9g39/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph0gsfsb_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph0gsfsb_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6xom34ol/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6xom34ol/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpznw096sz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpznw096sz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4ntixo8k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4ntixo8k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6n8ka1_f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6n8ka1_f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqwmf4r08/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqwmf4r08/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphla33mje/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphla33mje/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi1w97sui/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi1w97sui/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph1_vhk30/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph1_vhk30/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzo673emd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzo673emd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpursxcn8b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpursxcn8b/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb4ixz9ei/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb4ixz9ei/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfur3jp8l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfur3jp8l/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgetp0iy0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgetp0iy0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxny940x2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxny940x2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0_s4xup5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0_s4xup5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp62rtzvp6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp62rtzvp6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg2e6ydd1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg2e6ydd1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcmzhn4_o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcmzhn4_o/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxyajts36/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxyajts36/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu5p1wb8z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu5p1wb8z/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf_48m_no/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf_48m_no/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuxdsi6r0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuxdsi6r0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp85x94evx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp85x94evx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7jfy16t0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7jfy16t0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkmyv18_3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkmyv18_3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcv_31bpq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcv_31bpq/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvyfke8yx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvyfke8yx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6jbfy6k6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6jbfy6k6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5t757nfm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5t757nfm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpim5xgmtg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpim5xgmtg/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp51pkr_7v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp51pkr_7v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphspw1wvi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphspw1wvi/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg1oe3gbx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg1oe3gbx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu12gc8f0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu12gc8f0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpinmxemsx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpinmxemsx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4_o037kx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4_o037kx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfs3t_xx1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfs3t_xx1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprsiiphfl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprsiiphfl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy8pwpm84/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy8pwpm84/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuq3ackhd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuq3ackhd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7lsl6dyv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7lsl6dyv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgo2h2fmh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgo2h2fmh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmh_lhz5o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmh_lhz5o/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbmy0vmd8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbmy0vmd8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7fsyp3sm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7fsyp3sm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu8u41ln2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu8u41ln2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu0rp6s4k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu0rp6s4k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcpb4xmq6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcpb4xmq6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6htd022t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6htd022t/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7xfk3qa6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7xfk3qa6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkxzzi24y/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkxzzi24y/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnz5zq8bu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnz5zq8bu/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnhbenvvf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnhbenvvf/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg557djke/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg557djke/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2s7fikcj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2s7fikcj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8degt5xk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8degt5xk/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyxn3_428/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyxn3_428/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjr2ububm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjr2ububm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfb5ez3kd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfb5ez3kd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8eceeaee/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8eceeaee/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmps95mnszq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps95mnszq/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbikf67o6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbikf67o6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5whvd2nb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5whvd2nb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxep8j08w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxep8j08w/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqrouvfi_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqrouvfi_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5jh92_es/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5jh92_es/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpqog0kswo/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyai8wjxj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyai8wjxj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpliressks/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpliressks/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7j4f0gk1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7j4f0gk1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeoim85ho/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeoim85ho/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp92cpq6ro/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp92cpq6ro/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpokloqyrx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpokloqyrx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfpvsv6mp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfpvsv6mp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbfgf0lh9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbfgf0lh9/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj3806tg7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj3806tg7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6qyczmvd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6qyczmvd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnfv4w9w8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnfv4w9w8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd63u0snb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd63u0snb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpiepu_6_x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpiepu_6_x/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi7rqyi8x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi7rqyi8x/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi0s50lns/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi0s50lns/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqkuje878/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqkuje878/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpagdq167z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpagdq167z/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7uus3dnl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7uus3dnl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_d38sj9o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_d38sj9o/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0xv7yc0j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0xv7yc0j/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4lttmlhc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4lttmlhc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoir30jn4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoir30jn4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp163wvnz2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp163wvnz2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphzoowt0h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphzoowt0h/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx3mmh_3u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx3mmh_3u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq4hsfzrv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq4hsfzrv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp93u4oupo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp93u4oupo/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjbxjrnzo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjbxjrnzo/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplao3lt2z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplao3lt2z/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpigyipsh1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpigyipsh1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpw755cxmt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8wawkgj2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8wawkgj2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpt2r6zqi8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt2r6zqi8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc6k4k7iw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc6k4k7iw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpegc5ytcn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpegc5ytcn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr65beq0d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr65beq0d/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe8d4d_iv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe8d4d_iv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbtgp6kfy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbtgp6kfy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqk8tl7yd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqk8tl7yd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzvu8_zkd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzvu8_zkd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptkd1z_nr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptkd1z_nr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4q2kuge5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4q2kuge5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp58tm6mzc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp58tm6mzc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcdpl_7ef/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcdpl_7ef/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvta7uzdw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvta7uzdw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnu636nqs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnu636nqs/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4wt4phfz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4wt4phfz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8f1_2pjg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8f1_2pjg/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbg04et8i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbg04et8i/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkl5fi9on/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkl5fi9on/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0n11n3i_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0n11n3i_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3iz1uphw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3iz1uphw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3p06idai/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3p06idai/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4ln3zu7y/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4ln3zu7y/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9wgjkn6f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9wgjkn6f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe26vie79/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe26vie79/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd0zvtqvu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd0zvtqvu/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8cdc_4_a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8cdc_4_a/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm_xww5o_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm_xww5o_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqnpajk6_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqnpajk6_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn93wxa9k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn93wxa9k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpfq9zko2m/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvxyxnidy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvxyxnidy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzdcgznmo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzdcgznmo/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj9xqp4jv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj9xqp4jv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpiucthj8s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpiucthj8s/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpk32khud3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk32khud3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvps5ri3o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvps5ri3o/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpapfb2rp8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpapfb2rp8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpodf15n54/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpodf15n54/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpburxdgb2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpburxdgb2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpaqznncd4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpaqznncd4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1jnifs63/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1jnifs63/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfv9mu2mc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfv9mu2mc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp47pro7td/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp47pro7td/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4diw017b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4diw017b/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp82fyoa2w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp82fyoa2w/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdjr8x7nn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdjr8x7nn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjkry8i2_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjkry8i2_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9oa1qiij/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9oa1qiij/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy2b43p4r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy2b43p4r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuoahew27/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuoahew27/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0eq0y8r_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0eq0y8r_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppln0f9iz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppln0f9iz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqx486u71/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqx486u71/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgcri5gfu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgcri5gfu/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpehs1gy3a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpehs1gy3a/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptryell4v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptryell4v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj3rvazdc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj3rvazdc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqxibaxid/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqxibaxid/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprb752goz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprb752goz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgi8haoo4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgi8haoo4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpsc4tq738/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpepaxs81x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpepaxs81x/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy6gvq1_5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy6gvq1_5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe1co_xjc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe1co_xjc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq0n8c7aq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq0n8c7aq/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6b1lh_ig/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6b1lh_ig/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl6v1y_5s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl6v1y_5s/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd3ns0zky/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd3ns0zky/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp304wdba0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp304wdba0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmtp412dy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmtp412dy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5gxb_cvn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5gxb_cvn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3dj2jfdw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3dj2jfdw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphj0a2npb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphj0a2npb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpt6bt1v93/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt6bt1v93/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj39e094p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj39e094p/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmps1fo1imr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps1fo1imr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2s7ghdt2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2s7ghdt2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpky7rnncy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpky7rnncy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjq5o4jde/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjq5o4jde/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp51gu2ax3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp51gu2ax3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpohky5cth/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpohky5cth/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3ay6rqa4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3ay6rqa4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpukcbkz72/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpukcbkz72/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpidurk72x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpidurk72x/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpst0fsznl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpst0fsznl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf3nrc_jl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf3nrc_jl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7231suuk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7231suuk/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp47ygr3rp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp47ygr3rp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpew49s0va/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpew49s0va/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd0vabzoj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd0vabzoj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl6d_y0ih/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl6d_y0ih/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpdsq5le0r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7nri5cm7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7nri5cm7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbbiil0q1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbbiil0q1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc8asrkwj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc8asrkwj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx0in3_tx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx0in3_tx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb2125u30/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb2125u30/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxx2gp48l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxx2gp48l/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4cu4h6lt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4cu4h6lt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9v397iat/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9v397iat/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn_nqh2s8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn_nqh2s8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg4pdaahq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg4pdaahq/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwg0p5m01/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwg0p5m01/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpix9gq3ul/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpix9gq3ul/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2vdsdexo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2vdsdexo/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4x5xedzq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4x5xedzq/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy7eyap23/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy7eyap23/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnytupurc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnytupurc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1v52odwr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1v52odwr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpear4bodo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpear4bodo/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjczpvix1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjczpvix1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm1k2v606/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm1k2v606/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpytaegoxn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpytaegoxn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuyn3te9q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuyn3te9q/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyevkd4mk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyevkd4mk/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphzo1eu02/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphzo1eu02/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3wb5_p0w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3wb5_p0w/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwzcmryp8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwzcmryp8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp78pg5ysc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp78pg5ysc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1b993a47/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1b993a47/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpye35kn85/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpye35kn85/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9qmaj6t4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9qmaj6t4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphs7f3c9r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphs7f3c9r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpk2wq_fl_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk2wq_fl_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5k06e7yn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5k06e7yn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp450pw5i2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp450pw5i2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1q4jxvdy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1q4jxvdy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbmsq9e0f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbmsq9e0f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5_6hrevb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5_6hrevb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4zlfomri/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4zlfomri/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplmfeh10s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplmfeh10s/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl8xvawmi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl8xvawmi/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy2u414jv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy2u414jv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjaiw0d0c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjaiw0d0c/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe7use2_7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe7use2_7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm1pzj7wx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm1pzj7wx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa_gf1o7t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa_gf1o7t/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplppppk73/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplppppk73/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcxzg9lzw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcxzg9lzw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppttmtq8_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppttmtq8_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp28hd47hm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp28hd47hm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp489ktvdy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp489ktvdy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpded2uc2k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpded2uc2k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj89n3aa1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj89n3aa1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_i_d2kwd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_i_d2kwd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpap595g5s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpap595g5s/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpp1swdx68/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp1swdx68/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphnnskkk0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphnnskkk0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmple80kf50/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmple80kf50/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzdw1zkkg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzdw1zkkg/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphxqe6xu0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphxqe6xu0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptl8n0jij/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptl8n0jij/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv6f6yhlz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv6f6yhlz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv0d56tsy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv0d56tsy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf6ysvhen/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf6ysvhen/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfxxqx3t9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfxxqx3t9/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_zz646a8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_zz646a8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfd56vkn8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfd56vkn8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmproza12uf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmproza12uf/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpkm99jnd3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjzmfs0hl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjzmfs0hl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4c57a85q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4c57a85q/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp12w7xbq3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp12w7xbq3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgh2kft4w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgh2kft4w/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnb2vlk6t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnb2vlk6t/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxvmgu50o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxvmgu50o/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmu3mijvn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmu3mijvn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_zikohnd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_zikohnd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9nn2ufxh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9nn2ufxh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbuuezxw2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbuuezxw2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuftif2or/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuftif2or/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjvs3fvid/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjvs3fvid/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4_7g20ll/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4_7g20ll/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1t4n5bto/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1t4n5bto/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3s6ik3zb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3s6ik3zb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdpeja944/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdpeja944/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwatsg_ey/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwatsg_ey/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3eox530t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3eox530t/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvfp8qecw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvfp8qecw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg13g22zp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg13g22zp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgp5bhhtm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgp5bhhtm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph_3wrvut/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph_3wrvut/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg31x6vpz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg31x6vpz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphg7c4mmn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphg7c4mmn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpii8hh5kn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpii8hh5kn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi1m7z2r0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi1m7z2r0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl5r04kb1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl5r04kb1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf48sk3vc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf48sk3vc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprsz09viz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprsz09viz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfxt9ha8_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfxt9ha8_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmprmh9fmm5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqwarqqxe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqwarqqxe/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvlj8lygt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvlj8lygt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpknyrbaa3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpknyrbaa3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzj0pdg5d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzj0pdg5d/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4k_3yj7y/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4k_3yj7y/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4gge6pf7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4gge6pf7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb6n6r7hl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb6n6r7hl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpokojus6a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpokojus6a/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyb9hfus3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyb9hfus3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp319pw3oz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp319pw3oz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoc8_he3g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoc8_he3g/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfbh3p1zx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfbh3p1zx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpp4uahw0r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp4uahw0r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_wvlque8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_wvlque8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd104ohd9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd104ohd9/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpktos46r0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpktos46r0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptvhqidpg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptvhqidpg/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprcj_hwm4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprcj_hwm4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2ex_n2af/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2ex_n2af/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy68o5wtx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy68o5wtx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpuqqvhi2e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuqqvhi2e/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfo7i3sar/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfo7i3sar/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp53cdo4vb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp53cdo4vb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppz71xud7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppz71xud7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl6jneenl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl6jneenl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpufqca6xm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpufqca6xm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkj_k784l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkj_k784l/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpk3jju17u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk3jju17u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz09il5nm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz09il5nm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_4txin5k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_4txin5k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpggk5olax/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoc_a5l_1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoc_a5l_1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgrzqk99j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgrzqk99j/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi46tpu28/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi46tpu28/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbx3q277c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbx3q277c/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpko80e2du/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpko80e2du/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp33ogs12i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp33ogs12i/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcbarsqj5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcbarsqj5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphplged2t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphplged2t/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp15pi3hsh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp15pi3hsh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppobhebws/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppobhebws/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptj9uyxvc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptj9uyxvc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3scdz3lz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3scdz3lz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx15jlo4k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx15jlo4k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpio4n1iv0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpio4n1iv0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp13dg48ok/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp13dg48ok/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi3fa_sn4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi3fa_sn4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2jgjf_lq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2jgjf_lq/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptvcbm8sf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptvcbm8sf/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsujmrvrr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsujmrvrr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm_1af40b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm_1af40b/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpis0p2731/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpis0p2731/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqaxjj32_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqaxjj32_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj17xag0v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj17xag0v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5mh6k_en/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5mh6k_en/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0q31q4_v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0q31q4_v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3zrybgau/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3zrybgau/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbmu0k0ds/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbmu0k0ds/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpk9t8hi01/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk9t8hi01/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwbhufalp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwbhufalp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpazbnphfc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpazbnphfc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpmanh7q76/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr4fz0pxr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr4fz0pxr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1oqqoa23/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1oqqoa23/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg10md47c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg10md47c/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph2xi_o_h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph2xi_o_h/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyynfmd_g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyynfmd_g/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpydxsr7n0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpydxsr7n0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp09li36h5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp09li36h5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe76k75ep/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe76k75ep/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnosvfaxr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnosvfaxr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplsqjlvsk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplsqjlvsk/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeplwh2l_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeplwh2l_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbbjsoio2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbbjsoio2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpei9yupvw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpei9yupvw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp484fzlma/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp484fzlma/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3o0bsg8t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3o0bsg8t/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpchpda2h4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpchpda2h4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmps8b3sy9l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps8b3sy9l/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprov385cm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprov385cm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp72jz4nyx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp72jz4nyx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpu2zvum5e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu2zvum5e/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl4ftrv7n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl4ftrv7n/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy8ix3m5g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy8ix3m5g/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_vpv_apg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_vpv_apg/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptcmyzea_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptcmyzea_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeau_fqh0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeau_fqh0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw4_99b4s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw4_99b4s/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7sy8ic4o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7sy8ic4o/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnn01t9p4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnn01t9p4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp391b74vb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp391b74vb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsccuh6zl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsccuh6zl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpvezutipi/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_icyhx75/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_icyhx75/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo6o7el21/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo6o7el21/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkjt16lhy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkjt16lhy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp51un__k1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp51un__k1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3ywfxzwh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3ywfxzwh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq9d501c2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq9d501c2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq93kj8ml/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq93kj8ml/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm9rb5d94/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm9rb5d94/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprb2rl261/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprb2rl261/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpp_09cgfg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp_09cgfg/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptwgx5r25/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptwgx5r25/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl8e3ktrb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl8e3ktrb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmu579hvs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmu579hvs/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4r64e7xs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4r64e7xs/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp21jtfz_6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp21jtfz_6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_h629dh3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_h629dh3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr5zz41mr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr5zz41mr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprahzo9o1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprahzo9o1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2rjx_g5f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2rjx_g5f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwua3yfqp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwua3yfqp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1e24vw8k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1e24vw8k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb5orgtsh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb5orgtsh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzmpzwi4q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzmpzwi4q/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8dgnacnb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8dgnacnb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzv5f6et_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzv5f6et_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmps8_o4mij/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps8_o4mij/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_vp3zsil/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_vp3zsil/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5k7p5w2h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5k7p5w2h/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgki48zzm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgki48zzm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphon6y7dz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphon6y7dz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4co_0v0z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4co_0v0z/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3avydfcc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3avydfcc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplr0v696x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplr0v696x/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp31zlomsd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp31zlomsd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq3920wlu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq3920wlu/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8t4_s6t0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8t4_s6t0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1dyeba8s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1dyeba8s/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9of4ewjw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9of4ewjw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp59bmdpyd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp59bmdpyd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwjtri5ir/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwjtri5ir/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdyd49nsb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdyd49nsb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6mdhr1gl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6mdhr1gl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_io5umiv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_io5umiv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvzxaoaeh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvzxaoaeh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxnv4uwby/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxnv4uwby/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo52a4tk9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo52a4tk9/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7t9q6g0l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7t9q6g0l/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj4q96bgb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj4q96bgb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgc13ksw5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgc13ksw5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj7h5f511/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj7h5f511/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1jblry7x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1jblry7x/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkqygepr0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkqygepr0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvim13t_e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvim13t_e/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpj7pztadt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj7pztadt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvleo_w2p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvleo_w2p/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp51fcimb9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp51fcimb9/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptm8cz30q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptm8cz30q/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqu3hw4m5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqu3hw4m5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppmf5do8e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppmf5do8e/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp57ixn7x7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp57ixn7x7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi1yo3wmq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi1yo3wmq/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp69bd5re4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp69bd5re4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa48l6h4r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa48l6h4r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcu2_f2cx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcu2_f2cx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp44dkzl9b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp44dkzl9b/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptb4mauld/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptb4mauld/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqbnrda1e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqbnrda1e/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsl6qyq99/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsl6qyq99/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgck9_48c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgck9_48c/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3ps3yi_c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3ps3yi_c/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwh2nebx3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwh2nebx3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_gzk9euz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_gzk9euz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphba9d0ys/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphba9d0ys/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfpax4246/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfpax4246/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmxnznxfd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmxnznxfd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkt0neh93/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkt0neh93/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpebdwsxc6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpebdwsxc6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpaw2vuz4h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpaw2vuz4h/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbln1tbf4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbln1tbf4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp36f3ti3d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp36f3ti3d/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp55vgtd_4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp55vgtd_4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfl6z_qi3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfl6z_qi3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm2opz738/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm2opz738/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptl_mz6h2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptl_mz6h2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpeybhmzuy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeybhmzuy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpxafoj2az/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr24qxsxw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr24qxsxw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3bb99nay/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3bb99nay/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmt0xj6he/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmt0xj6he/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzwn2laky/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzwn2laky/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpraf78uro/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpraf78uro/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpodm_sjtd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpodm_sjtd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjk2wq773/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjk2wq773/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd38q_2ah/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd38q_2ah/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl2j6blby/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl2j6blby/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpst5tklrg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpst5tklrg/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwt33wu5c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwt33wu5c/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1maz7t28/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1maz7t28/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2p3t41rb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2p3t41rb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9yetcta7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9yetcta7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpggt_j0uc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpggt_j0uc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfn_lfzxu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfn_lfzxu/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2ye8dqf4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2ye8dqf4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjpja8_x3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjpja8_x3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5gjtkxid/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5gjtkxid/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfug5aie6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfug5aie6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpp238696_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp238696_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqygydsqb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqygydsqb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9x2vucna/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9x2vucna/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8eyqe050/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8eyqe050/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_p63dw07/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_p63dw07/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp918iht1t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp918iht1t/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8aizwsaw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8aizwsaw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpz_ytyyfv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz_ytyyfv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp41ks9hkv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp41ks9hkv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpott3ndkv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpott3ndkv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpwam6jz2h/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdkrmb560/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdkrmb560/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc7qfjw3u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc7qfjw3u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcmxdj9ve/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcmxdj9ve/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1nyutlak/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1nyutlak/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4gg52p84/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4gg52p84/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmmy7b736/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmmy7b736/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvtih9_6r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvtih9_6r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa9ot_qdf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa9ot_qdf/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3nkl5znr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3nkl5znr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp08ogw_k1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp08ogw_k1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpthw4fawt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpthw4fawt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_wki1meo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_wki1meo/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxz2k5d7u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxz2k5d7u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplof8ghz_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplof8ghz_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvmbfqscx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvmbfqscx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptphyfnor/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptphyfnor/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoirl_2ss/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoirl_2ss/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpborahqaw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpborahqaw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1p3hysqk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1p3hysqk/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpc3il0bmp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc3il0bmp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphv9_hu05/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphv9_hu05/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7nries04/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7nries04/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqxtsz5ik/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqxtsz5ik/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpil87i_ja/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpil87i_ja/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort 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cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2c05e_e6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2c05e_e6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprc8t4bn8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprc8t4bn8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoauxvjbf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoauxvjbf/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpurol90cw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpurol90cw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9b3oy_hz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9b3oy_hz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm48sy8w7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm48sy8w7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7ll1qdw7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7ll1qdw7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxk23a5ls/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxk23a5ls/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr4o54_dh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr4o54_dh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqolj0gyz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqolj0gyz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbpmat0ef/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbpmat0ef/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpixdeh962/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpixdeh962/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpacfguqef/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpacfguqef/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3n9dqyus/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3n9dqyus/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa_yjyqwb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa_yjyqwb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdyseiala/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdyseiala/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoghcgbr6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoghcgbr6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoguigqi9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoguigqi9/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpnjxgauz0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsv_1bdbt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsv_1bdbt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpivz446qk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpivz446qk/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxmq8t1y7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxmq8t1y7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvusgfik8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvusgfik8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw04mdqw_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw04mdqw_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwwhe90wd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwwhe90wd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplcbqvbsx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplcbqvbsx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3gzjysrm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3gzjysrm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy28xwjmz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy28xwjmz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptpctdnep/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptpctdnep/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7_ax9h5p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7_ax9h5p/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpol40syt_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpol40syt_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp606jwbv5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp606jwbv5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpng5o9vsn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpng5o9vsn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6d790rt_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6d790rt_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpbkn5nipl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbkn5nipl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptp5a9n73/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptp5a9n73/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplxapgqym/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplxapgqym/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw713dzjp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw713dzjp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4rzsv9x3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4rzsv9x3/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpq6x9eh2f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq6x9eh2f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_esm5a81/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_esm5a81/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_ufgy927/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_ufgy927/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_g1i78xz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_g1i78xz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr95cx33p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr95cx33p/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpedumw50j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpedumw50j/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp856e9xf6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp856e9xf6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp85k3z4mt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp85k3z4mt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkg4xx1rq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkg4xx1rq/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpmetncw7f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmetncw7f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmp8ixqyhqt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp683g8aj1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp683g8aj1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpip7eto18/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpip7eto18/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpm5or8njp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm5or8njp/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0sj113uy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0sj113uy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3pq89msr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3pq89msr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf3qshrb9/f1.bed) -b <(sort -k1,1 -k2,2n 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cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmps1onq687/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps1onq687/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzex6vp4u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzex6vp4u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfe1rkiry/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfe1rkiry/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph6v_sif4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph6v_sif4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg_90psxw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg_90psxw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp348cktnx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp348cktnx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp59ramlpd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp59ramlpd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp094se7n2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp094se7n2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp183ewr9p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp183ewr9p/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqs1uque8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqs1uque8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzumfluoh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzumfluoh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0gdmx84f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0gdmx84f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp74e_3sws/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp74e_3sws/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl3snwgke/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl3snwgke/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph5ayg_ux/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph5ayg_ux/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3hre52ei/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3hre52ei/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpnss6e_dl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnss6e_dl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx_4bprbj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx_4bprbj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsqme9xch/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsqme9xch/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo1lnj8wd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo1lnj8wd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi07s05hd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi07s05hd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp51ilaor_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp51ilaor_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3xojouw0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3xojouw0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9pvisysn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9pvisysn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdi0sh1_4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdi0sh1_4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8sl6rh7r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8sl6rh7r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8gjlr3n_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8gjlr3n_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6fytkqya/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6fytkqya/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3bzug4wl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3bzug4wl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphnc8nc1r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphnc8nc1r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8_xdpl4l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8_xdpl4l/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgmlqyydm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgmlqyydm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy3f3lsnk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy3f3lsnk/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdid2q7ul/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdid2q7ul/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp90brk06o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp90brk06o/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp36t_2wmh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp36t_2wmh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp0kobgmc7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0kobgmc7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkg0qwk61/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkg0qwk61/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr0o5l7pz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr0o5l7pz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmppov957u7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppov957u7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_xxpi6ja/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_xxpi6ja/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl6c_z8ne/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl6c_z8ne/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp53npdzy0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp53npdzy0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp966u32v6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp966u32v6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzhjyl9j7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzhjyl9j7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7pna8ru_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7pna8ru_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwwz4xyix/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwwz4xyix/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2e8oin2e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2e8oin2e/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpe5r2h9ie/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe5r2h9ie/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpipbhz8vm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpipbhz8vm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwd7euu4k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwd7euu4k/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1w1195rj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1w1195rj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpabesr466/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpabesr466/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp19a47nk7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp19a47nk7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpaz4htexh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpaz4htexh/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmp6lgppm7n/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8yc_8rka/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8yc_8rka/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4f_s4qlm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4f_s4qlm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6rzevrcz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6rzevrcz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmphjqdp9vu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphjqdp9vu/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptb37o2ek/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptb37o2ek/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpwmeatl03/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwmeatl03/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpfqsy6tun/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfqsy6tun/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcajn2oku/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcajn2oku/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpozvrhs9r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpozvrhs9r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp73vj7iaj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp73vj7iaj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplnoy17be/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplnoy17be/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpittpv53v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpittpv53v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4h2dfx_7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4h2dfx_7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprbbscp_x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprbbscp_x/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcjl1xo2v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcjl1xo2v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpv4hqpbp0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv4hqpbp0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpkm4m5bmn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkm4m5bmn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpggqqh8gn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpggqqh8gn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpi7so8k1_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi7so8k1_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsxh88en7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsxh88en7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjl7bq96q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjl7bq96q/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpopls358f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpopls358f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxmazbr6l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxmazbr6l/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9a346c9r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9a346c9r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpoehuuo53/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoehuuo53/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2ny5ycsi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2ny5ycsi/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpse1c95kl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpse1c95kl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpg32jyncw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg32jyncw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpikc4t3cb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpikc4t3cb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpl71u3tgx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpl71u3tgx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n 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-k1,1 -k2,2n /tmp/tmpv0mccg7f/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx100byhj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx100byhj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp62xvw66d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp62xvw66d/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpljrogxf8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpljrogxf8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3dol4qpk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3dol4qpk/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp01gqcbt4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp01gqcbt4/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplvww7vv_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplvww7vv_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdpn__5__/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdpn__5__/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqnx1c5zx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqnx1c5zx/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn2r5x4zt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn2r5x4zt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpomoccqu6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpomoccqu6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdw_w9h5v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdw_w9h5v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyphntdow/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyphntdow/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpod1nk24w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpod1nk24w/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2gg4asjc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2gg4asjc/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5l_gwn5j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5l_gwn5j/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsdmalazo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsdmalazo/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6v1mcpbn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6v1mcpbn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpb1tremet/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb1tremet/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpggouhy5o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpggouhy5o/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmph0vxvx5d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph0vxvx5d/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4kfz0drr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4kfz0drr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8z33h1ru/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8z33h1ru/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpztsoe6xb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpztsoe6xb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpigj97on2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpigj97on2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprlr644uy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprlr644uy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpsgp6impo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsgp6impo/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpupqj8759/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpupqj8759/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyih9c7by/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyih9c7by/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqrvr2r0b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqrvr2r0b/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpy8y66dbn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy8y66dbn/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpesu1xqsg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpesu1xqsg/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpematv61v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpematv61v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpf0y2m9mv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf0y2m9mv/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpzhyz5y77/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzhyz5y77/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdjjua7s1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdjjua7s1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2k4wv3fm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2k4wv3fm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpqo1wedd_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqo1wedd_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxh_22nr5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxh_22nr5/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdu1j4_pl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdu1j4_pl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8v5a67pz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8v5a67pz/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp46tva369/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp46tva369/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmplcd99fvt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplcd99fvt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp5spuj0cw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5spuj0cw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx83qcc0_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx83qcc0_/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdzxdgwrd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdzxdgwrd/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp2udq1jlm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2udq1jlm/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpgmz5l9i8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgmz5l9i8/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpx2yahvi2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx2yahvi2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpxkv45oo1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxkv45oo1/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3hffc0sj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3hffc0sj/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpn0mr2ijt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn0mr2ijt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp1tz68l9r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1tz68l9r/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp3kxtp4gs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3kxtp4gs/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmprenn6lc2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprenn6lc2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8jj90hbu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8jj90hbu/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpvyx4cpl6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvyx4cpl6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpjc7j7hu7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjc7j7hu7/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpo541ri8l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo541ri8l/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -s -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp4dlafb9q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4dlafb9q/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: 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/bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable 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unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: 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retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='downstream', overlap=False, strandedness='same', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE5TMCAAB1AAY=') as a decorator on your test case ___________________ test_nearest[downstream-False-opposite] ____________________ nearest_how = 'downstream', overlap = False, strandedness = 'opposite' @pytest.mark.bedtools > @pytest.mark.parametrize("nearest_how,overlap,strandedness", product(nearest_hows, overlaps, strandedness)) @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:317: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:330: in test_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9xd14vj7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9xd14vj7/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9xd14vj7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9xd14vj7/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmptir2nlkl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptir2nlkl/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp7mec4i_e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7mec4i_e/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpch1fwe8u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpch1fwe8u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp81pdx0ez/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp81pdx0ez/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9_i2yuhw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9_i2yuhw/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp74vavi1w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp74vavi1w/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpdk225fej/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdk225fej/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpcqcrr57u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcqcrr57u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9uk1zgcr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9uk1zgcr/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpd4ctsvpt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd4ctsvpt/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpa8khwqy0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa8khwqy0/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp524nc4h6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp524nc4h6/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp_oma1xex/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_oma1xex/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp8sb8krdb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8sb8krdb/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpyzth633b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyzth633b/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp74ar1o01/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp74ar1o01/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpr6qxwvmy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr6qxwvmy/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp60c9zc62/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp60c9zc62/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpymw6v0l2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpymw6v0l2/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp6oz9x_8u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6oz9x_8u/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmpw6axql5v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw6axql5v/f2.bed) cmd cmd cmd cmd cmd bedtools closest -iu -D a -S -io -t first -d -a <(sort -k1,1 -k2,2n /tmp/tmp9xd14vj7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9xd14vj7/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: 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Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='downstream', overlap=False, strandedness='opposite', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case _________________________________ test_reldist _________________________________ > ??? tests/test_binary.py:416: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:426: in test_reldist bedtools_result = run_bedtools(reldist_command, gr, gr2, False) tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpe172jajf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe172jajf/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpe172jajf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe172jajf/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp8stjifp9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8stjifp9/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpdh9n4pxz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdh9n4pxz/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpgruiw0zk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgruiw0zk/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp7cga4vjv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7cga4vjv/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpcykpya2z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcykpya2z/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpse3ohrj2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpse3ohrj2/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp8ptpxhex/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8ptpxhex/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpxnumhpc5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxnumhpc5/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpv99phmgh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv99phmgh/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp8rt_bdlq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8rt_bdlq/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp9t9ukxjc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9t9ukxjc/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpa7hwzcdq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa7hwzcdq/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpk_xu0zn2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpk_xu0zn2/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp6v7nfl8o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6v7nfl8o/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp0q4lgel3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0q4lgel3/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpj2y1gbsd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj2y1gbsd/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpwyxvfntz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwyxvfntz/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpmd3hjyc0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmd3hjyc0/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpb823dq4a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb823dq4a/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp0a382742/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0a382742/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp5k7n3486/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5k7n3486/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp_86hkk08/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_86hkk08/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp8ytgbkze/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8ytgbkze/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpzbf6ymcn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzbf6ymcn/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpz6_n7vs9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz6_n7vs9/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmp9ly0364w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9ly0364w/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpq9_fgtdo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq9_fgtdo/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpasfq0mxc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpasfq0mxc/f2.bed) cmd cmd cmd cmd cmd bedtools reldist -a <(sort -k1,1 -k2,2n /tmp/tmpe172jajf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe172jajf/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource 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retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- WARNING: Hypothesis has spent more than five minutes working to shrink a failing example, and stopped because it is making very slow progress. When you re-run your tests, shrinking will resume and may take this long before aborting again. PLEASE REPORT THIS if you can provide a reproducing example, so that we can improve shrinking performance for everyone. Falsifying example: test_reldist( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 2 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 2 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2RgYGAEIxhgxBABAACwAAc=') as a decorator on your test case ________________ test_k_nearest[downstream-False-opposite-last] ________________ nearest_how = 'downstream', overlap = False, strandedness = 'opposite' ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfuvqnpnh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfuvqnpnh/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfuvqnpnh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfuvqnpnh/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmphcw4nc81/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphcw4nc81/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmphhkyvni7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphhkyvni7/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbxd2rweq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbxd2rweq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp8ogupidj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8ogupidj/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp19_zby7r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp19_zby7r/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpyz68b29t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyz68b29t/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpc8rwj3nh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpc8rwj3nh/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7wvw70gj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7wvw70gj/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmplnri48sr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplnri48sr/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbcos7y89/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbcos7y89/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpzgwbfiag/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzgwbfiag/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpevm73vrl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpevm73vrl/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpq9fu0k9l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq9fu0k9l/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp8yw7mtaw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8yw7mtaw/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpz8d3xysb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz8d3xysb/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp4rz5biar/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4rz5biar/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmplot46qn3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplot46qn3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2x6bck4c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2x6bck4c/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpktjnfcs3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpktjnfcs3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpobz_8uo9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpobz_8uo9/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp6emmmt01/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6emmmt01/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfuvqnpnh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfuvqnpnh/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='downstream', overlap=False, strandedness='opposite', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case __________________ test_k_nearest[downstream-False-same-last] __________________ nearest_how = 'downstream', overlap = False, strandedness = 'same' ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpuqxh3x1b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuqxh3x1b/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpuqxh3x1b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuqxh3x1b/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp9csqo4ge/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9csqo4ge/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpniyd64d7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpniyd64d7/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0wmcjus5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0wmcjus5/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp_3pckatx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_3pckatx/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2j4uxj5a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2j4uxj5a/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpei04bclq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpei04bclq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2ygeipq0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2ygeipq0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpd31meat0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd31meat0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmper0lxu4s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmper0lxu4s/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1y42n36v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1y42n36v/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2awx0hxo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2awx0hxo/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpw47c7jik/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw47c7jik/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpnu5rmmou/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnu5rmmou/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpds0cya7b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpds0cya7b/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmps0b_ntbz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps0b_ntbz/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpx0ycb7gg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx0ycb7gg/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpggzcyh2v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpggzcyh2v/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7k0647dy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7k0647dy/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpo3vcrwke/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo3vcrwke/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpeselhuu_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeselhuu_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpgjjmdih5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgjjmdih5/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpuqxh3x1b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuqxh3x1b/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='downstream', overlap=False, strandedness='same', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case _________________ test_k_nearest[downstream-False-False-last] __________________ nearest_how = 'downstream', overlap = False, strandedness = False, ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmprja7phwx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprja7phwx/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmprja7phwx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprja7phwx/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpdnwe441y/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdnwe441y/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7g8dtxgg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7g8dtxgg/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmptm7kxkot/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptm7kxkot/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0sr1sa_y/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0sr1sa_y/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpengtfkk9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpengtfkk9/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbn4mlfbr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbn4mlfbr/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp82lvbnxq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp82lvbnxq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp5v78ubkq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5v78ubkq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbkv20ru3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbkv20ru3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpv7pztcig/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv7pztcig/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmph6tkm5g_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph6tkm5g_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpye00v63f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpye00v63f/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp9hfemqhy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9hfemqhy/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmplo0aclxm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplo0aclxm/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp97tcyoqt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp97tcyoqt/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2srcg8yb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2srcg8yb/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp32_jeywi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp32_jeywi/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmphwiqw0tp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphwiqw0tp/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmplcacd0tf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplcacd0tf/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpsabsuj3d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsabsuj3d/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbgq7mgxu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbgq7mgxu/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmprja7phwx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprja7phwx/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: 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retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='downstream', overlap=False, strandedness=False, ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case ________________ test_k_nearest[downstream-True-opposite-last] _________________ nearest_how = 'downstream', overlap = True, strandedness = 'opposite' ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0xsl09gx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0xsl09gx/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0xsl09gx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0xsl09gx/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpxnww1b7_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxnww1b7_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2yq6n1vg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2yq6n1vg/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp5i5th1g_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5i5th1g_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpjuiclnyl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjuiclnyl/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpdn9tsboy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdn9tsboy/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpatgur7qa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpatgur7qa/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmprtjf9op0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprtjf9op0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbbumvchg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbbumvchg/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp6hbkxj5k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6hbkxj5k/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp4qlzu75m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4qlzu75m/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpn1hccxza/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn1hccxza/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0611la6a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0611la6a/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp3qnf9b1i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3qnf9b1i/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp5syetw1t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5syetw1t/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpthrn8o31/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpthrn8o31/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfo_l_srv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfo_l_srv/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpv8pa40aw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv8pa40aw/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpy73u38o0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy73u38o0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfbagzqeh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfbagzqeh/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpnjw0v8cw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnjw0v8cw/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0y45m4dq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0y45m4dq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0xsl09gx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0xsl09gx/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='downstream', overlap=True, strandedness='opposite', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case __________________ test_k_nearest[downstream-True-same-last] ___________________ nearest_how = 'downstream', overlap = True, strandedness = 'same', ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp9r5p_1_x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9r5p_1_x/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp9r5p_1_x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9r5p_1_x/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpb5h4_yt3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb5h4_yt3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1htms637/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1htms637/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpkl7m4xtm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkl7m4xtm/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmplxnsgrdb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplxnsgrdb/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7gsekudf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7gsekudf/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpzxso78zw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzxso78zw/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmppflzyzj8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppflzyzj8/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpycj43p6j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpycj43p6j/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp9a62685k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9a62685k/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpszbc17ll/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpszbc17ll/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpa98gu7bf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa98gu7bf/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp6zqrh4sk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6zqrh4sk/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp13lmjbrg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp13lmjbrg/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmprwyixfxn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmprwyixfxn/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp_g4m702x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_g4m702x/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpimxdd9jk/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpimxdd9jk/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfrcymg_7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfrcymg_7/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpi5yzb8pu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi5yzb8pu/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpg7oy2e05/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg7oy2e05/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp_s62wyc6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_s62wyc6/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpeaubs1w8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeaubs1w8/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp9r5p_1_x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9r5p_1_x/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='downstream', overlap=True, strandedness='same', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case __________________ test_k_nearest[downstream-True-False-last] __________________ nearest_how = 'downstream', overlap = True, strandedness = False, ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvn5ebzuw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvn5ebzuw/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvn5ebzuw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvn5ebzuw/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp3azm1hll/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3azm1hll/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpghxj5kcd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpghxj5kcd/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp4rh_x576/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4rh_x576/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpwxw3ni5p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwxw3ni5p/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0u_iyx8a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0u_iyx8a/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpq259lnam/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq259lnam/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpi__4_ju3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi__4_ju3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp8apz5zc9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8apz5zc9/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpm3s7lrk7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm3s7lrk7/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpu69guq9j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu69guq9j/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbfnt77ae/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbfnt77ae/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpu5j5qpct/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu5j5qpct/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpnaiia_ys/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnaiia_ys/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpe3r_2mmt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpe3r_2mmt/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvvy861j_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvvy861j_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmptlqagzw0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptlqagzw0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpcz51j1cp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcz51j1cp/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpu9aj6nsm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu9aj6nsm/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpm2k3grqi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm2k3grqi/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpy1apned0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy1apned0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpyt78okin/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyt78okin/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -iu -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvn5ebzuw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvn5ebzuw/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='downstream', overlap=True, strandedness=False, ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case _________________ test_k_nearest[upstream-False-opposite-last] _________________ nearest_how = 'upstream', overlap = False, strandedness = 'opposite' ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp16sp2hv1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp16sp2hv1/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp16sp2hv1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp16sp2hv1/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp369uw2hm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp369uw2hm/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp07_yhlxu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp07_yhlxu/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpt3f4t5xr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt3f4t5xr/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp8e0klqq3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8e0klqq3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpcbrm2e9e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcbrm2e9e/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpmj3hol8z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmj3hol8z/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpv55xd5as/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv55xd5as/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpef9wxi22/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpef9wxi22/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbulw3fvr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbulw3fvr/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp4mgc5skg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4mgc5skg/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpt2j5plcj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt2j5plcj/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpitl0jz2t/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpitl0jz2t/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp083l8moe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp083l8moe/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7w4_yb1h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7w4_yb1h/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpojtnvwis/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpojtnvwis/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpz9cal73j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz9cal73j/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpqdbuhxfe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqdbuhxfe/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1iys24sm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1iys24sm/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpnnj8ah9c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnnj8ah9c/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp6n2zlh39/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6n2zlh39/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpf0gl3acw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf0gl3acw/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp16sp2hv1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp16sp2hv1/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='upstream', overlap=False, strandedness='opposite', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case ___________________ test_k_nearest[upstream-False-same-last] ___________________ nearest_how = 'upstream', overlap = False, strandedness = 'same', ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmptnwbp838/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptnwbp838/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmptnwbp838/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptnwbp838/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpx3frhfku/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx3frhfku/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpn1n11yms/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpn1n11yms/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2v167nq_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2v167nq_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp9rowaot6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9rowaot6/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpo1t9ysrc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo1t9ysrc/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpa9upn15r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa9upn15r/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp8pxzmtdu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8pxzmtdu/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvqykpal7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvqykpal7/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpzqv_z248/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzqv_z248/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpalv3_b_c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpalv3_b_c/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpngyxoccb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpngyxoccb/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmppyh37cmf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppyh37cmf/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpd4vyjk7l/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd4vyjk7l/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpsym0mshq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsym0mshq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpkbraploy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkbraploy/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp4hw4shi7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4hw4shi7/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmptwi_kcmn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptwi_kcmn/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmptzj_emao/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptzj_emao/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpds7frhsx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpds7frhsx/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp5ckdnyeq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5ckdnyeq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpam47x6oe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpam47x6oe/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmptnwbp838/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptnwbp838/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource 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Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='upstream', overlap=False, strandedness='same', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case __________________ test_k_nearest[upstream-False-False-last] ___________________ nearest_how = 'upstream', overlap = False, strandedness = False, ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpx442l7pj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx442l7pj/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpx442l7pj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx442l7pj/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp3rjufesj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3rjufesj/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpenqa0ucn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpenqa0ucn/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp18majuws/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp18majuws/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmptz70c9o9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptz70c9o9/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp356x0zx4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp356x0zx4/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpj2evp0_5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj2evp0_5/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp5oqz3_mi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5oqz3_mi/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp8q3m8hgf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8q3m8hgf/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpx7jt_l4f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx7jt_l4f/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpi4ke6vv0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi4ke6vv0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0b329nii/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0b329nii/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpjpf9rsd8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjpf9rsd8/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpz191htpu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz191htpu/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0fs2ruqz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0fs2ruqz/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpyy338si9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyy338si9/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpofb9ug5r/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpofb9ug5r/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpt6j9_wg5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpt6j9_wg5/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp114if6s5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp114if6s5/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpxn6dxdi4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxn6dxdi4/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpgena7v5n/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgena7v5n/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp027ks4xs/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp027ks4xs/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpx442l7pj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx442l7pj/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: 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retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='upstream', overlap=False, strandedness=False, ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case _________________ test_k_nearest[upstream-True-opposite-last] __________________ nearest_how = 'upstream', overlap = True, strandedness = 'opposite' ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmptnkchy6x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptnkchy6x/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmptnkchy6x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptnkchy6x/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpdw2bffey/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdw2bffey/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpmoing_ek/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmoing_ek/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpv0uixbpp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv0uixbpp/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp54fptokw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp54fptokw/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpmwh018yd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmwh018yd/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp31bipk5_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp31bipk5_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpba870yl3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpba870yl3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpeiz95_mp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeiz95_mp/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpm2iot2hd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpm2iot2hd/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpco5xtven/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpco5xtven/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbrwy6f1d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbrwy6f1d/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbubqqccf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbubqqccf/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpz3_uz2o8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz3_uz2o8/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2ss2wl_z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2ss2wl_z/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpf92j_coi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf92j_coi/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpeettzbns/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeettzbns/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmphxtji7lh/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphxtji7lh/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2lxin7wi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2lxin7wi/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1406x20f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1406x20f/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp6lbt9118/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6lbt9118/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmptcq8bimy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptcq8bimy/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmptnkchy6x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptnkchy6x/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='upstream', overlap=True, strandedness='opposite', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case ___________________ test_k_nearest[upstream-True-same-last] ____________________ nearest_how = 'upstream', overlap = True, strandedness = 'same', ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp662g1d5p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp662g1d5p/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp662g1d5p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp662g1d5p/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpioaox0ky/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpioaox0ky/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpxggcmgfn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxggcmgfn/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpxmmlsbyb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxmmlsbyb/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmphqjabtob/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphqjabtob/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpmqzr7uik/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmqzr7uik/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpkic7sajd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkic7sajd/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmph8s4_ear/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph8s4_ear/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmptio4gbxb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptio4gbxb/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfntfc2ji/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfntfc2ji/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1ml9nl7e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1ml9nl7e/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpboed4vwd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpboed4vwd/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpimrzc81v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpimrzc81v/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpygh5wr7z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpygh5wr7z/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpi_m5vako/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi_m5vako/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpgfg__rrm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpgfg__rrm/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpv8mgm85v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpv8mgm85v/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmped655cpj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmped655cpj/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpmm5dl2us/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmm5dl2us/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpob8vnols/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpob8vnols/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpz16f6qqo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz16f6qqo/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpq3y_8_f2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpq3y_8_f2/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp662g1d5p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp662g1d5p/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='upstream', overlap=True, strandedness='same', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case ___________________ test_k_nearest[upstream-True-False-last] ___________________ nearest_how = 'upstream', overlap = True, strandedness = False, ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp69kflx_j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp69kflx_j/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp69kflx_j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp69kflx_j/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpddpxvcdq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpddpxvcdq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0_qs4_gm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0_qs4_gm/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp6dxm4tfg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6dxm4tfg/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpir_vj0io/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpir_vj0io/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp_zg9kgfm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_zg9kgfm/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpqkpxtjmv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqkpxtjmv/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpy7748o0h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpy7748o0h/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpmo6y6xxy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmo6y6xxy/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpcprcxn3f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcprcxn3f/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmptbm4gflz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptbm4gflz/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbvfnaj_a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbvfnaj_a/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpz_m0ufe3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz_m0ufe3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpzos9cuw_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzos9cuw_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmphb9jmm40/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphb9jmm40/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfzna60_k/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfzna60_k/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmppmfxdlce/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppmfxdlce/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp81676in0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp81676in0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpli9sqd53/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpli9sqd53/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp98jydbtj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp98jydbtj/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpuepioej9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuepioej9/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp_t1rdad5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_t1rdad5/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -id -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp69kflx_j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp69kflx_j/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how='upstream', overlap=True, strandedness=False, ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case ___________________ test_k_nearest[None-False-opposite-last] ___________________ nearest_how = None, overlap = False, strandedness = 'opposite', ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpf9gv9et_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf9gv9et_/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpf9gv9et_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf9gv9et_/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpleb86jp2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpleb86jp2/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp5ook9o9x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp5ook9o9x/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpyfiufqpf/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyfiufqpf/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1a_tg7fq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1a_tg7fq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7_a2wz5v/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7_a2wz5v/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpo7e6dq1_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpo7e6dq1_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmppq_jt8f_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppq_jt8f_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpw_qxn5yt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpw_qxn5yt/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpr39xr5cr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr39xr5cr/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp4gd_egil/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4gd_egil/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfih0ws2a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfih0ws2a/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpzmvw9h_h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzmvw9h_h/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpeq6ava_7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeq6ava_7/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmphz_n2ncr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphz_n2ncr/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpeuk_ess5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpeuk_ess5/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpoxl8ebw0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpoxl8ebw0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmphrjhsn7m/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphrjhsn7m/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpsccu3c23/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsccu3c23/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp6a_ze2y5/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6a_ze2y5/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmppdqi0wmw/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppdqi0wmw/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvlb45boa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvlb45boa/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpf9gv9et_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpf9gv9et_/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource 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Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how=None, overlap=False, strandedness='opposite', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case _____________________ test_k_nearest[None-False-same-last] _____________________ nearest_how = None, overlap = False, strandedness = 'same', ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbbn4h9rd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbbn4h9rd/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbbn4h9rd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbbn4h9rd/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp_0dmxv2d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_0dmxv2d/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmptmeh93ds/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptmeh93ds/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpwa3rbndq/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwa3rbndq/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpg55laum1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpg55laum1/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbcbpknab/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbcbpknab/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpx0e5hfei/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpx0e5hfei/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpcw3byz6f/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcw3byz6f/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmph1gk_bib/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmph1gk_bib/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp8vnh44sl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8vnh44sl/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpcla2ohke/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcla2ohke/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmplguri83c/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplguri83c/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp74yftt3p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp74yftt3p/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpizz887gz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpizz887gz/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp8kwy9vc9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp8kwy9vc9/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp4wxo92mi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4wxo92mi/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp38jyj2t3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp38jyj2t3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpqvq0yed1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqvq0yed1/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpdu_q_6b2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpdu_q_6b2/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpev69dv95/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpev69dv95/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpp02snd4b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp02snd4b/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpz_e8jg8p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpz_e8jg8p/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbbn4h9rd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbbn4h9rd/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily 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Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how=None, overlap=False, strandedness='same', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case ____________________ test_k_nearest[None-False-False-last] _____________________ nearest_how = None, overlap = False, strandedness = False, ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpwn65_6cr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwn65_6cr/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpwn65_6cr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwn65_6cr/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp3de1ps8d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3de1ps8d/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpsn28jvib/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsn28jvib/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmporotztdl/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmporotztdl/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpkdn9gyok/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkdn9gyok/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpp5ppbho_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpp5ppbho_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpmir9iy1w/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpmir9iy1w/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfqhohskc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfqhohskc/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpknxt5o3p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpknxt5o3p/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmplvb7g1b4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplvb7g1b4/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbij2o2l6/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbij2o2l6/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpd9vmz9te/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpd9vmz9te/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp170zfhmc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp170zfhmc/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpjlva2tg0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjlva2tg0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvqolnuz7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvqolnuz7/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpwiqzm92q/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwiqzm92q/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmped17wlnv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmped17wlnv/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfoixuj0u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfoixuj0u/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpke1k5cpx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpke1k5cpx/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmp4jqcjhv_/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp4jqcjhv_/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvlmtmsju/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvlmtmsju/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpnqzzwfhy/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpnqzzwfhy/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -io -t last -a <(sort -k1,1 -k2,2n /tmp/tmpwn65_6cr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwn65_6cr/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how=None, overlap=False, strandedness=False, ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case ___________________ test_k_nearest[None-True-opposite-last] ____________________ nearest_how = None, overlap = True, strandedness = 'opposite', ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7oeqvotj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7oeqvotj/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7oeqvotj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7oeqvotj/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmppg5oxiik/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmppg5oxiik/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpjynbsgrt/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpjynbsgrt/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp281tx82d/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp281tx82d/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp3668j_n2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3668j_n2/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmptdnk0p1i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptdnk0p1i/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp85031_xe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp85031_xe/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7uj340_x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7uj340_x/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpghdti4ew/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpghdti4ew/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1dzlna6i/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1dzlna6i/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpkf6zxqxv/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpkf6zxqxv/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpquxgw72x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpquxgw72x/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpa14qez4h/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa14qez4h/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpwmoeonkd/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpwmoeonkd/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpa371c45z/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpa371c45z/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp29b6f_kx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp29b6f_kx/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmps9y0r1c7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmps9y0r1c7/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvv1bnt7s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvv1bnt7s/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpin92u_52/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpin92u_52/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp0jhd2kk2/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp0jhd2kk2/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp9ibvodgi/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9ibvodgi/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmpxw827dni/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxw827dni/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -S -t last -a <(sort -k1,1 -k2,2n /tmp/tmp7oeqvotj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp7oeqvotj/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily 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unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how=None, overlap=True, strandedness='opposite', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case _____________________ test_k_nearest[None-True-same-last] ______________________ nearest_how = None, overlap = True, strandedness = 'same', ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp17ahd6a7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp17ahd6a7/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp17ahd6a7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp17ahd6a7/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1d6q11fp/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1d6q11fp/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp3evzol8p/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3evzol8p/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpbyxgh5wa/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpbyxgh5wa/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpr_uer8nb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpr_uer8nb/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp9n1pkh5o/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp9n1pkh5o/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvm08tu6e/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvm08tu6e/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpystjcctr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpystjcctr/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmptev3ljgo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptev3ljgo/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpvn6w_3nb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpvn6w_3nb/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp3w476d1b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp3w476d1b/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2fpq7jpe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2fpq7jpe/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmptg29njjx/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmptg29njjx/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp042xyjtg/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp042xyjtg/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpzf956ljo/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpzf956ljo/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmphmmvc27u/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmphmmvc27u/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpxm6y_0jm/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpxm6y_0jm/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpi8lqu11j/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi8lqu11j/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpj2eywk8s/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpj2eywk8s/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpcmoib7nn/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcmoib7nn/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpiqzy2gx0/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpiqzy2gx0/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmpcf64p_c1/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcf64p_c1/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -s -t last -a <(sort -k1,1 -k2,2n /tmp/tmp17ahd6a7/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp17ahd6a7/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable 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temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how=None, overlap=True, strandedness='same', ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case _____________________ test_k_nearest[None-True-False-last] _____________________ nearest_how = None, overlap = True, strandedness = False, ties = 'last' @pytest.mark.bedtools > @pytest.mark.explore @pytest.mark.parametrize("nearest_how,overlap,strandedness,ties", k_nearest_params) # @settings( max_examples=max_examples, deadline=deadline, print_blob=True, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min(), gr2=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_binary.py:504: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_binary.py:525: in test_k_nearest bedtools_result = run_bedtools(nearest_command, gr, gr2, strandedness, tests/test_binary.py:57: in run_bedtools result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpu8vnzj6x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu8vnzj6x/f2.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpu8vnzj6x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu8vnzj6x/f2.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpb_fsq4jz/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpb_fsq4jz/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpsysn5wpb/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsysn5wpb/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpim3d4vyu/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpim3d4vyu/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpyyaqiue3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpyyaqiue3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpu8hdp43g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu8hdp43g/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpsu8lrj7g/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpsu8lrj7g/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1x3t0j69/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1x3t0j69/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpi24hk8jc/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpi24hk8jc/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2_hsk5n4/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2_hsk5n4/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp6yazzf0b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp6yazzf0b/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpqnjeq3mr/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpqnjeq3mr/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfc8vmnr8/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfc8vmnr8/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpfiwnm10b/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpfiwnm10b/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmplfla1bul/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmplfla1bul/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpka5k6nw9/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpka5k6nw9/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp_ycsy6_3/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp_ycsy6_3/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp1fyb8sbe/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp1fyb8sbe/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp268blo33/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp268blo33/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmp2k03gybj/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmp2k03gybj/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpuq4pi83a/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpuq4pi83a/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpcly00d25/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpcly00d25/f2.bed) ---------------------------------------------------------------------------------------------------- cmd cmd cmd cmd cmd bedtools closest -k 2 -D a -t last -a <(sort -k1,1 -k2,2n /tmp/tmpu8vnzj6x/f1.bed) -b <(sort -k1,1 -k2,2n /tmp/tmpu8vnzj6x/f2.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable 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/bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_k_nearest( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., gr2=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., nearest_how=None, overlap=True, strandedness=False, ties='last', ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGGBE4wMAAHQABQ==') as a decorator on your test case _______________________________ test_merge[True] _______________________________ strand = True @pytest.mark.bedtools > @pytest.mark.parametrize("strand", [True, False]) @settings( max_examples=max_examples, deadline=deadline, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_unary.py:31: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_unary.py:51: in test_merge result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmp5g6f9spe/f1.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmp5g6f9spe/f1.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpv140ln7l/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr5 | 9215686 | 9216728 | a | 0 | + | | chr7 | 3559353 | 3560395 | a | 0 | - | | chr17 | 3559353 | 3560395 | a | 0 | + | | chr17 | 3559353 | 3560395 | a | 0 | - | | chr17 | 3559353 | 3560395 | a | 0 | - | | chr17 | 3559353 | 3560395 | a | 0 | - | | chr17 | 3559353 | 3560395 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 7 rows and 6 columns from 3 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpm8lbn5od/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 896507 | 905125 | a | 0 | - | | chr1 | 896507 | 905125 | a | 0 | - | | chr1 | 896507 | 901085 | a | 0 | - | | chr1 | 896507 | 905125 | a | 0 | - | | ... | ... | ... | ... | ... | ... | | chr1 | 896507 | 905125 | a | 0 | - | | chr1 | 896507 | 905125 | a | 0 | - | | chr1 | 896507 | 905125 | a | 0 | - | | chr1 | 896507 | 905125 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 9 rows and 6 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpcczc4esb/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 9691657 | 9695195 | a | 0 | - | | chr6 | 4435015 | 4441457 | a | 0 | + | | chr6 | 323129 | 328772 | a | 0 | - | | chr6 | 8638796 | 8645238 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 4 rows and 6 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmp2h_jdv7d/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 7391151 | 7392347 | a | 0 | + | | chr1 | 7391151 | 7392347 | a | 0 | + | | chr1 | 7391151 | 7392347 | a | 0 | - | | chr1 | 7391151 | 7392347 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 4 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmp567q1y4v/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | ... | ... | ... | ... | ... | ... | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 832247 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 11 rows and 6 columns from 3 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmp0r4cyylr/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | ... | ... | ... | ... | ... | ... | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 824274 | a | 0 | - | | chr1 | 822888 | 832247 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 11 rows and 6 columns from 3 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpjcs0pq21/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 3296321 | 3299830 | a | 0 | + | | chr12 | 3296321 | 3298863 | a | 0 | + | | chr12 | 2149421 | 2152930 | a | 0 | + | | chr12 | 5524664 | 5525812 | a | 0 | + | | chr12 | 3296321 | 3299830 | a | 0 | + | | chr12 | 1990275 | 1993784 | a | 0 | - | | chr14 | 3296321 | 3299830 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 7 rows and 6 columns from 3 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpf7hrftzn/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr17 | 6168121 | 6176484 | a | 0 | - | | chr17 | 8956286 | 8959090 | a | 0 | - | | chr17 | 8956286 | 8964649 | a | 0 | - | | chrM | 8956286 | 8964649 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 4 rows and 6 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmp97wqocyx/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr17 | 6168121 | 6176484 | a | 0 | - | | chr17 | 8956286 | 8959090 | a | 0 | - | | chrM | 8956286 | 8964649 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 3 rows and 6 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpv777ax_l/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpj6pqblxf/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpg60_v2qe/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpymg1bgdh/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmpw6t3934p/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -s -i <(sort -k1,1 -k2,2n /tmp/tmp5g6f9spe/f1.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_merge( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., strand=True, ) ______________________________ test_merge[False] _______________________________ strand = False @pytest.mark.bedtools > @pytest.mark.parametrize("strand", [True, False]) @settings( max_examples=max_examples, deadline=deadline, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_unary.py:31: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_unary.py:51: in test_merge result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmpqtj7lqgt/f1.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmpqtj7lqgt/f1.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmp9o2gas9u/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 3637427 | 3638034 | a | 0 | + | | chr13 | 2388084 | 2388691 | a | 0 | + | | chr17 | 3637427 | 3638034 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 3 rows and 6 columns from 3 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmpofyj1zp_/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr18 | 5768194 | 5768197 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmp82t1js40/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr18 | 3950337 | 3950398 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmptuubm6c0/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr8 | 61 | 62 | a | 0 | + | | chr8 | 61 | 2905 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 2 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmp7kbm17l0/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr14 | 4353 | 6146 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmp7lyz79b7/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr14 | 4353 | 4354 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmpb7mi_fny/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr14 | 4353 | 4354 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmprzjwsxu7/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr21 | 1908897 | 1915296 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmp5l9d7gme/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr21 | 2138113 | 2138140 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmpfiboe61o/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmpkokazca6/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmp3fabkmk0/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmpwxn43gkr/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmpx8wzmb48/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools merge -o first,count -c 6,1 -i <(sort -k1,1 -k2,2n /tmp/tmpqtj7lqgt/f1.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_merge( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., strand=False, ) ______________________________ test_cluster[True] ______________________________ strand = True @pytest.mark.bedtools > @pytest.mark.parametrize("strand", [True, False]) @settings( max_examples=max_examples, deadline=deadline, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_unary.py:96: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_unary.py:116: in test_cluster result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpsf_brj6_/f1.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpsf_brj6_/f1.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpy58xjg73/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 3194297 | 3204154 | a | 0 | + | | chr1 | 7158868 | 7168725 | a | 0 | + | | chr1 | 8073572 | 8083429 | a | 0 | + | | chr1 | 8631984 | 8641841 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 4 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmp7lijsf6y/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 3194297 | 3204154 | a | 0 | + | | chr1 | 7158868 | 7168725 | a | 0 | + | | chr1 | 8073572 | 8083429 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 3 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmplyt7pjmh/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 3194297 | 3204154 | a | 0 | + | | chr1 | 7158868 | 7168725 | a | 0 | + | | chr1 | 8073572 | 8083429 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 3 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmposk5mfx5/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 3194297 | 3204154 | a | 0 | + | | chr1 | 7158868 | 7168725 | a | 0 | + | | chr1 | 8073572 | 8083429 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 3 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpefra02mh/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 3976311 | 3978882 | a | 0 | + | | chr1 | 5111847 | 5112638 | a | 0 | + | | chr1 | 6527820 | 6529754 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 3 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmp3v8gage_/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr4 | 6946849 | 6950773 | a | 0 | + | | chr4 | 6946849 | 6950773 | a | 0 | + | | chr4 | 5059785 | 5064220 | a | 0 | + | | chr4 | 7450780 | 7454704 | a | 0 | + | | ... | ... | ... | ... | ... | ... | | chr4 | 9182381 | 9186305 | a | 0 | - | | chr4 | 6946849 | 6950773 | a | 0 | - | | chr4 | 4320414 | 4324338 | a | 0 | - | | chr4 | 630679 | 634603 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 11 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmp6w1srfxs/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 327950 | 327951 | a | 0 | + | | chr1 | 3924 | 3925 | a | 0 | + | | chr1 | 68871 | 69139 | a | 0 | + | | chr1 | 393475 | 393733 | a | 0 | + | | ... | ... | ... | ... | ... | ... | | chr1 | 131340 | 131341 | a | 0 | + | | chr1 | 393475 | 393476 | a | 0 | + | | chr1 | 393483 | 393484 | a | 0 | + | | chr1 | 69382 | 69648 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 11 rows and 6 columns from 3 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpkbf_d9sb/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 8995939 | 8995984 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpzp0o77f0/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 11265 | 11310 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpvb3zx7n6/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpb6y1euq8/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpmce5y86r/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpucgsyxr6/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpgsyr1qby/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -s -i <(sort -k1,1 -k2,2n /tmp/tmpsf_brj6_/f1.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_cluster( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., strand=True, ) _____________________________ test_cluster[False] ______________________________ strand = False @pytest.mark.bedtools > @pytest.mark.parametrize("strand", [True, False]) @settings( max_examples=max_examples, deadline=deadline, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_unary.py:96: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_unary.py:116: in test_cluster result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpv5ni_i4_/f1.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpv5ni_i4_/f1.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmp7nmf5cgi/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 9576386 | 9583205 | a | 0 | + | | chr1 | 536120 | 542939 | a | 0 | - | | chr1 | 9576386 | 9583205 | a | 0 | - | | chr1 | 9576386 | 9583205 | a | 0 | - | | ... | ... | ... | ... | ... | ... | | chr1 | 3164600 | 3171419 | a | 0 | - | | chr1 | 9576386 | 9583205 | a | 0 | - | | chr1 | 6785799 | 6792618 | a | 0 | - | | chr1 | 9576386 | 9583205 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 11 rows and 6 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmppotte1q6/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 716119 | 722490 | a | 0 | - | | chr1 | 4952493 | 4955816 | a | 0 | - | | chr1 | 4952493 | 4955816 | a | 0 | - | | chr7 | 4952493 | 4957650 | a | 0 | - | | ... | ... | ... | ... | ... | ... | | chr7 | 4952493 | 4958425 | a | 0 | - | | chr7 | 4952493 | 4955816 | a | 0 | - | | chr7 | 4952493 | 4957365 | a | 0 | - | | chr7 | 4952493 | 4958724 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 11 rows and 6 columns from 5 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpcuh073zi/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 2362577 | 2369235 | a | 0 | + | | chr1 | 2362577 | 2369235 | a | 0 | + | | chr1 | 2673876 | 2675644 | a | 0 | + | | chr1 | 574325 | 580095 | a | 0 | + | | chr1 | 2771865 | 2773247 | a | 0 | + | | chr1 | 2362577 | 2365428 | a | 0 | + | | chr2 | 2362577 | 2371074 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 7 rows and 6 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpwer5ic7v/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 2362577 | 2369235 | a | 0 | + | | chr1 | 2362577 | 2369235 | a | 0 | + | | chr1 | 2673876 | 2675644 | a | 0 | + | | chr1 | 574325 | 580095 | a | 0 | + | | chr1 | 2771865 | 2773247 | a | 0 | + | | chr1 | 2362577 | 2365428 | a | 0 | + | | chr2 | 2362577 | 2371074 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 7 rows and 6 columns from 2 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpq6b8blhp/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 5073085 | 5074846 | a | 0 | + | | chr1 | 2073449 | 2073512 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 2 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmp1udxqf8r/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr17 | 258 | 8358 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpyazv5we1/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr17 | 2 | 259 | a | 0 | - | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpsz81fuhb/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr17 | 65793 | 65794 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpasewre3t/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr17 | 65793 | 65794 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpxnu5p14h/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmp6owfqq4y/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmps56hsuqa/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpeeqz061m/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpowubkzgy/f1.bed) +--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand. bedtools cluster -i <(sort -k1,1 -k2,2n /tmp/tmpv5ni_i4_/f1.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_cluster( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., strand=False, ) _________________________________ test_windows _________________________________ @pytest.mark.bedtools > @settings( max_examples=max_examples, print_blob=True, deadline=deadline, suppress_health_check=HealthCheck.all()) @given(gr=dfs_min()) # pylint: disable=no-value-for-parameter tests/test_unary.py:231: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_unary.py:248: in test_windows result = subprocess.check_output( # nosec /usr/lib/python3.9/subprocess.py:420: in check_output return run(*popenargs, stdout=PIPE, timeout=timeout, check=True, _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ input = None, capture_output = False, timeout = None, check = True popenargs = ('bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmpa8xjzjt3/f1.bed)',) kwargs = {'executable': '/bin/bash', 'shell': True, 'stdout': -1} process = stdout = b'', stderr = None, retcode = 254 def run(*popenargs, input=None, capture_output=False, timeout=None, check=False, **kwargs): """Run command with arguments and return a CompletedProcess instance. The returned instance will have attributes args, returncode, stdout and stderr. By default, stdout and stderr are not captured, and those attributes will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them. If check is True and the exit code was non-zero, it raises a CalledProcessError. The CalledProcessError object will have the return code in the returncode attribute, and output & stderr attributes if those streams were captured. If timeout is given, and the process takes too long, a TimeoutExpired exception will be raised. There is an optional argument "input", allowing you to pass bytes or a string to the subprocess's stdin. If you use this argument you may not also use the Popen constructor's "stdin" argument, as it will be used internally. By default, all communication is in bytes, and therefore any "input" should be bytes, and the stdout and stderr will be bytes. If in text mode, any "input" should be a string, and stdout and stderr will be strings decoded according to locale encoding, or by "encoding" if set. Text mode is triggered by setting any of text, encoding, errors or universal_newlines. The other arguments are the same as for the Popen constructor. """ if input is not None: if kwargs.get('stdin') is not None: raise ValueError('stdin and input arguments may not both be used.') kwargs['stdin'] = PIPE if capture_output: if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None: raise ValueError('stdout and stderr arguments may not be used ' 'with capture_output.') kwargs['stdout'] = PIPE kwargs['stderr'] = PIPE with Popen(*popenargs, **kwargs) as process: try: stdout, stderr = process.communicate(input, timeout=timeout) except TimeoutExpired as exc: process.kill() if _mswindows: # Windows accumulates the output in a single blocking # read() call run on child threads, with the timeout # being done in a join() on those threads. communicate() # _after_ kill() is required to collect that and add it # to the exception. exc.stdout, exc.stderr = process.communicate() else: # POSIX _communicate already populated the output so # far into the TimeoutExpired exception. process.wait() raise except: # Including KeyboardInterrupt, communicate handled that. process.kill() # We don't call process.wait() as .__exit__ does that for us. raise retcode = process.poll() if check and retcode: > raise CalledProcessError(retcode, process.args, output=stdout, stderr=stderr) E subprocess.CalledProcessError: Command 'bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmpa8xjzjt3/f1.bed)' returned non-zero exit status 254. /usr/lib/python3.9/subprocess.py:524: CalledProcessError ----------------------------- Captured stdout call ----------------------------- bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmp0jgb8mpw/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmpok_6o4v4/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmpxrr6lrgb/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmp9lt3_8kx/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmposb5092p/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmpzdofl75i/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmpd6w6q00f/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmp_m8f_x08/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmp8kg_az1a/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmpf6c42lbz/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmp60ghel6s/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmp6znvm5fx/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmp6uqryr42/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmp8amq4vje/f1.bed) bedtools makewindows -w 10 -b <(sort -k1,1 -k2,2n /tmp/tmpa8xjzjt3/f1.bed) ----------------------------- Captured stderr call ----------------------------- /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource 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Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: Resource temporarily unavailable ---------------------------------- Hypothesis ---------------------------------- Falsifying example: test_windows( gr=+--------------+-----------+-----------+------------+-----------+--------------+ | Chromosome | Start | End | Name | Score | Strand | | (category) | (int64) | (int64) | (object) | (int64) | (category) | |--------------+-----------+-----------+------------+-----------+--------------| | chr1 | 1 | 2 | a | 0 | + | +--------------+-----------+-----------+------------+-----------+--------------+ Stranded PyRanges object has 1 rows and 6 columns from 1 chromosomes. For printing, the PyRanges was sorted on Chromosome and Strand., ) You can reproduce this example by temporarily adding @reproduce_failure('5.32.1', b'AXicY2QAAUYGGAAAACoAAw==') as a decorator on your test case ================== 26 failed, 500 passed in 35874.27 seconds =================== E: pybuild pybuild:352: test: plugin distutils failed with: exit code=1: cd /build/pyranges-8fDRk5/pyranges-0.0.85+ds/.pybuild/cpython3_3.9_pyranges/build; python3.9 -m pytest tests dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.9 3.8" returned exit code 13 make: *** [debian/rules:14: binary-indep] Error 25 dpkg-buildpackage: error: debian/rules binary-indep subprocess returned exit status 2 E: run_chroot failed: E: command failed: chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/pyranges-8fDRk5/pyranges-0.0.85+ds && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1604310973" dpkg-buildpackage -uc -a amd64 --build=all" W: listening on child socket failed: I: removing tempdir /tmp/mmdebstrap.UaKhUGC2gs... mmdebstrap failed