Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/u/uncalled/uncalled_2.2+ds-3_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/uncalled-2.2+ds-34anvbegk/uncalled_2.2+ds-3_amd64.buildinfo Get source package info: uncalled=2.2+ds-3 Source URL: http://snapshot.notset.fr/mr/package/uncalled/2.2+ds-3/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.71-2 automake=1:1.16.5-1.1 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=12.2 base-passwd=3.5.52 bash=5.1-6 binutils=2.37.90.20220130-2 binutils-common=2.37.90.20220130-2 binutils-x86-64-linux-gnu=2.37.90.20220130-2 bsdextrautils=2.37.3-1+b1 bsdutils=1:2.37.3-1+b1 build-essential=12.9 bzip2=1.0.8-5 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.2.0-16 dash=0.5.11+git20210903+057cd650a4ed-3 debconf=1.5.79 debhelper=13.6 debianutils=5.7-0.1 dh-autoreconf=20 dh-python=5.20220119 dh-strip-nondeterminism=1.13.0-1 diffutils=1:3.7-5 dpkg=1.21.1 dpkg-dev=1.21.1 dwz=0.14-1 file=1:5.41-2 findutils=4.8.0-1 g++=4:11.2.0-2 g++-11=11.2.0-16 gcc=4:11.2.0-2 gcc-11=11.2.0-16 gcc-11-base=11.2.0-16 gettext=0.21-4 gettext-base=0.21-4 grep=3.7-1 groff-base=1.22.4-8 gzip=1.10-4 hdf5-helpers=1.10.7+repack-4 hostname=3.23 init-system-helpers=1.61 intltool-debian=0.35.0+20060710.5 libacl1=2.3.1-1 libaec-dev=1.0.6-1 libaec0=1.0.6-1 libarchive-zip-perl=1.68-1 libasan6=11.2.0-16 libatomic1=11.2.0-16 libattr1=1:2.5.1-1 libaudit-common=1:3.0.6-1 libaudit1=1:3.0.6-1+b1 libbinutils=2.37.90.20220130-2 libblas3=3.10.0-2 libblkid1=2.37.3-1+b1 libbrotli1=1.0.9-2+b3 libbsd0=0.11.5-1+b1 libbwa-dev=0.7.17-6+b1 libbz2-1.0=1.0.8-5 libc-bin=2.33-5 libc-dev-bin=2.33-5 libc6=2.33-5 libc6-dev=2.33-5 libcap-ng0=0.7.9-2.2+b1 libcap2=1:2.44-1 libcc1-0=11.2.0-16 libcom-err2=1.46.5-2 libcrypt-dev=1:4.4.27-1.1 libcrypt1=1:4.4.27-1.1 libctf-nobfd0=2.37.90.20220130-2 libctf0=2.37.90.20220130-2 libcurl4=7.81.0-1 libcurl4-openssl-dev=7.81.0-1 libdb5.3=5.3.28+dfsg1-0.8 libdebconfclient0=0.261 libdebhelper-perl=13.6 libdpkg-perl=1.21.1 libedit2=3.1-20210910-1 libelf1=0.186-1 libexpat1=2.4.4-1 libexpat1-dev=2.4.4-1 libfast5-dev=0.6.5-6 libffi8=3.4.2-4 libfile-stripnondeterminism-perl=1.13.0-1 libgcc-11-dev=11.2.0-16 libgcc-s1=11.2.0-16 libgcrypt20=1.9.4-5 libgdbm-compat4=1.22-1 libgdbm6=1.22-1 libgfortran5=11.2.0-16 libglib2.0-0=2.70.3-1 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.3-4+b1 libgomp1=11.2.0-16 libgpg-error0=1.43-3 libgssapi-krb5-2=1.18.3-7 libhdf5-103-1=1.10.7+repack-4 libhdf5-cpp-103-1=1.10.7+repack-4 libhdf5-dev=1.10.7+repack-4 libhdf5-fortran-102=1.10.7+repack-4 libhdf5-hl-100=1.10.7+repack-4 libhdf5-hl-cpp-100=1.10.7+repack-4 libhdf5-hl-fortran-100=1.10.7+repack-4 libhogweed6=3.7.3-1 libicu67=67.1-7 libidn2-0=2.3.2-2 libisl23=0.24-2 libitm1=11.2.0-16 libjpeg-dev=1:2.1.2-1 libjpeg62-turbo=1:2.1.2-1 libjpeg62-turbo-dev=1:2.1.2-1 libjs-jquery=3.5.1+dfsg+~3.5.5-8 libjs-sphinxdoc=4.3.2-1 libjs-underscore=1.13.2~dfsg-2 libk5crypto3=1.18.3-7 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-7 libkrb5support0=1.18.3-7 liblapack3=3.10.0-2 libldap-2.4-2=2.4.59+dfsg-1 liblsan0=11.2.0-16 liblz4-1=1.9.3-2 liblzma5=5.2.5-2 libmagic-mgc=1:5.41-2 libmagic1=1:5.41-2 libmd0=1.0.4-1 libmount1=2.37.3-1+b1 libmpc3=1.2.1-1 libmpdec3=2.5.1-2 libmpfr6=4.1.0-3 libncursesw6=6.3-2 libnettle8=3.7.3-1 libnghttp2-14=1.43.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libp11-kit0=0.24.0-6 libpam-modules=1.4.0-11 libpam-modules-bin=1.4.0-11 libpam-runtime=1.4.0-11 libpam0g=1.4.0-11 libpcre2-8-0=10.39-3 libpcre3=2:8.39-13 libperl5.32=5.32.1-6 libpipeline1=1.5.5-1 libpsl5=0.21.0-1.2 libpython3-all-dev=3.9.8-1 libpython3-dev=3.9.8-1 libpython3-stdlib=3.9.8-1 libpython3.10=3.10.2-1 libpython3.10-dev=3.10.2-1 libpython3.10-minimal=3.10.2-1 libpython3.10-stdlib=3.10.2-1 libpython3.9=3.9.10-1 libpython3.9-dev=3.9.10-1 libpython3.9-minimal=3.9.10-1 libpython3.9-stdlib=3.9.10-1 libquadmath0=11.2.0-16 libreadline8=8.1.2-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg2-3 libsasl2-modules-db=2.1.27+dfsg2-3 libseccomp2=2.5.3-2 libselinux1=3.3-1+b1 libsigsegv2=2.14-1 libsmartcols1=2.37.3-1+b1 libsqlite3-0=3.37.2-2 libssh2-1=1.10.0-2 libssl-dev=1.1.1m-1 libssl1.1=1.1.1m-1 libstdc++-11-dev=11.2.0-16 libstdc++6=11.2.0-16 libsub-override-perl=0.09-2 libsystemd0=250.3-2 libsz2=1.0.6-1 libtasn1-6=4.18.0-4 libtinfo6=6.3-2 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtool=2.4.6-15 libtsan0=11.2.0-16 libubsan1=11.2.0-16 libuchardet0=0.0.7-1 libudev1=250.3-2 libunistring2=0.9.10-6 libuuid1=2.37.3-1+b1 libxml2=2.9.12+dfsg-5+b1 libzstd1=1.4.8+dfsg-3 linux-libc-dev=5.15.15-2 login=1:4.11.1+dfsg1-1 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.9.4-4 mawk=1.3.4.20200120-3+b1 media-types=5.0.0 ncurses-base=6.3-2 ncurses-bin=6.3-2 patch=2.7.6-7 pdqsort-dev=0.0.0+git20180419-2.1 perl=5.32.1-6 perl-base=5.32.1-6 perl-modules-5.32=5.32.1-6 pkg-config=0.29.2-1 po-debconf=1.0.21+nmu1 pybind11-dev=2.9.0-1 python3=3.9.8-1 python3-all=3.9.8-1 python3-all-dev=3.9.8-1 python3-dev=3.9.8-1 python3-distutils=3.9.10-1 python3-lib2to3=3.9.10-1 python3-minimal=3.9.8-1 python3-numpy=1:1.21.5-1 python3-pkg-resources=59.6.0-1.2 python3-pybind11=2.9.0-1 python3-setuptools=59.6.0-1.2 python3.10=3.10.2-1 python3.10-dev=3.10.2-1 python3.10-minimal=3.10.2-1 python3.9=3.9.10-1 python3.9-dev=3.9.10-1 python3.9-minimal=3.9.10-1 readline-common=8.1.2-1 rpcsvc-proto=1.4.2-4 sed=4.8-1 sensible-utils=0.0.17 sysvinit-utils=3.01-1 tar=1.34+dfsg-1 tzdata=2021e-1 util-linux=2.37.3-1+b1 xz-utils=5.2.5-2 zlib1g=1:1.2.11.dfsg-2 zlib1g-dev=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/20220205T030322Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20220205T030322Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220204T152143Z/ 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 uncalled=2.2+ds-3 && mkdir -p /build/uncalled-6mRonr && dpkg-source --no-check -x /*.dsc /build/uncalled-6mRonr/uncalled-2.2+ds && chown -R builduser:builduser /build/uncalled-6mRonr" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/uncalled-6mRonr/uncalled-2.2+ds && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1643879628" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/uncalled-6mRonr /tmp/uncalled-2.2+ds-34anvbegk bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20220204T152143Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: null I: using /tmp/mmdebstrap.Y0Kc6Pu6hq 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.Y0Kc6Pu6hq Reading package lists... Building dependency tree... util-linux is already the newest version (2.37.3-1+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 136 kB of archives. After this operation, 406 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20220204T152143Z unstable/main amd64 libfakeroot amd64 1.27-1 [48.5 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220204T152143Z unstable/main amd64 fakeroot amd64 1.27-1 [87.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 136 kB in 0s (1024 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 ... 4697 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.27-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.27-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.27-1_amd64.deb ... Unpacking fakeroot (1.27-1) ... Setting up libfakeroot:amd64 (1.27-1) ... Setting up fakeroot (1.27-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.33-5) ... 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/20220205T030322Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20220205T030322Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220204T152143Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.Y0Kc6Pu6hq Get:1 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm InRelease [129 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20220204T152143Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main Sources [11.8 MB] Get:4 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main amd64 Packages [11.2 MB] Fetched 23.1 MB in 19s (1186 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.Y0Kc6Pu6hq I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d uncalled=2.2+ds-3 && mkdir -p /build/uncalled-6mRonr && dpkg-source --no-check -x /*.dsc /build/uncalled-6mRonr/uncalled-2.2+ds && chown -R builduser:builduser /build/uncalled-6mRonr"' exec /tmp/mmdebstrap.Y0Kc6Pu6hq Reading package lists... NOTICE: 'uncalled' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/uncalled.git Please use: git clone https://salsa.debian.org/med-team/uncalled.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 250 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main uncalled 2.2+ds-3 (dsc) [2130 B] Get:2 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main uncalled 2.2+ds-3 (tar) [243 kB] Get:3 http://snapshot.notset.fr/archive/debian/20220205T030322Z bookworm/main uncalled 2.2+ds-3 (diff) [5032 B] Fetched 250 kB in 0s (820 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'uncalled_2.2+ds-3.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting uncalled in /build/uncalled-6mRonr/uncalled-2.2+ds dpkg-source: info: unpacking uncalled_2.2+ds.orig.tar.xz dpkg-source: info: unpacking uncalled_2.2+ds-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying debian_hdf5 dpkg-source: info: applying debian_bwa dpkg-source: info: applying debian_fast5 dpkg-source: info: applying debian_pybind11 dpkg-source: info: applying fix_debug dpkg-source: info: applying skip_read_until dpkg-source: info: applying debian_pdqsort dpkg-source: info: applying 32bit I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/uncalled-6mRonr/uncalled-2.2+ds && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1643879628" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.Y0Kc6Pu6hq dpkg-buildpackage: info: source package uncalled dpkg-buildpackage: info: source version 2.2+ds-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/uncalled-6mRonr/uncalled-2.2+ds' if dpkg -s python3-pybind11 >/dev/null 2>/dev/null ; then \ dh_auto_clean ; \ else \ echo "skip dh_auto_clean since python3-pybind11 is not installed on your local machine" ; \ fi I: pybuild base:237: python3.10 setup.py clean running clean removing '/build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.10' does not exist -- can't clean it I: pybuild base:237: python3.9 setup.py clean running clean removing '/build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/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 make[1]: Leaving directory '/build/uncalled-6mRonr/uncalled-2.2+ds' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary-arch dh binary-arch --with python3 --buildsystem=pybuild dh_update_autotools_config -a -O--buildsystem=pybuild dh_autoreconf -a -O--buildsystem=pybuild dh_auto_configure -a -O--buildsystem=pybuild I: pybuild base:237: python3.10 setup.py config running config I: pybuild base:237: python3.9 setup.py config running config dh_auto_build -a -O--buildsystem=pybuild I: pybuild base:237: /usr/bin/python3.10 setup.py build running build running build_py creating /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled copying uncalled/__init__.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled copying uncalled/index.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled copying uncalled/args.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled copying uncalled/minknow_client.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled copying uncalled/pafstats.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled copying uncalled/sim_utils.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled copying uncalled/debug.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled running egg_info creating uncalled.egg-info writing uncalled.egg-info/PKG-INFO writing dependency_links to uncalled.egg-info/dependency_links.txt writing top-level names to uncalled.egg-info/top_level.txt writing manifest file 'uncalled.egg-info/SOURCES.txt' reading manifest file 'uncalled.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENCE' writing manifest file 'uncalled.egg-info/SOURCES.txt' creating /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/conf copying uncalled/conf/defaults.toml -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/conf copying uncalled/conf/r94_5mers.txt -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/conf copying uncalled/conf/r94_5mers_threshs.txt -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/conf running build_ext All submodules present Found libbwa.a Found libhdf5.a building '_uncalled' extension creating build creating build/temp.linux-x86_64-3.10 creating build/temp.linux-x86_64-3.10/src x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/chunk.cpp -o build/temp.linux-x86_64-3.10/src/chunk.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/client_sim.cpp -o build/temp.linux-x86_64-3.10/src/client_sim.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/event_detector.cpp -o build/temp.linux-x86_64-3.10/src/event_detector.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/event_profiler.cpp -o build/temp.linux-x86_64-3.10/src/event_profiler.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/fast5_reader.cpp -o build/temp.linux-x86_64-3.10/src/fast5_reader.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/map_pool.cpp -o build/temp.linux-x86_64-3.10/src/map_pool.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/mapper.cpp -o build/temp.linux-x86_64-3.10/src/mapper.o -std=c++11 -O3 src/mapper.cpp: In member function ‘void Mapper::update_seeds(Mapper::PathBuffer&, bool)’: src/mapper.cpp:673:13: warning: unused variable ‘sa_start’ [-Wunused-variable] 673 | u64 sa_start = sa_end - ref_len + 1; | ^~~~~~~~ src/mapper.cpp:676:14: warning: variable ‘clust’ set but not used [-Wunused-but-set-variable] 676 | auto clust = seed_tracker_.add_seed( | ^~~~~ src/mapper.cpp: In copy constructor ‘Mapper::PathBuffer::PathBuffer(const Mapper::PathBuffer&)’: src/mapper.cpp:736:16: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of type ‘class Mapper::PathBuffer’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 736 | std::memcpy(this, &p, sizeof(PathBuffer)); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from src/mapper.cpp:26: src/mapper.hpp:139:11: note: ‘class Mapper::PathBuffer’ declared here 139 | class PathBuffer { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/normalizer.cpp -o build/temp.linux-x86_64-3.10/src/normalizer.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/pybinder.cpp -o build/temp.linux-x86_64-3.10/src/pybinder.o -std=c++11 -O3 In file included from /usr/include/x86_64-linux-gnu/c++/11/bits/c++allocator.h:33, from /usr/include/c++/11/bits/allocator.h:46, from /usr/include/c++/11/string:41, from /usr/include/c++/11/bits/locale_classes.h:40, from /usr/include/c++/11/bits/ios_base.h:41, from /usr/include/c++/11/ios:42, from /usr/include/c++/11/ostream:38, from /usr/include/c++/11/iostream:39, from src/pybinder.cpp:1: In member function ‘void __gnu_cxx::new_allocator<_Tp>::deallocate(_Tp*, __gnu_cxx::new_allocator<_Tp>::size_type) [with _Tp = char]’, inlined from ‘static void std::allocator_traits >::deallocate(std::allocator_traits >::allocator_type&, std::allocator_traits >::pointer, std::allocator_traits >::size_type) [with _Tp = char]’ at /usr/include/c++/11/bits/alloc_traits.h:496:23, inlined from ‘void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_destroy(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/11/bits/basic_string.h:245:34, inlined from ‘void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_dispose() [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/11/bits/basic_string.h:240:14, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::~basic_string() [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/11/bits/basic_string.h:672:19, inlined from ‘toml::failure::~failure() [with T = std::__cxx11::basic_string]’ at ./submods/toml11/toml/result.hpp:70:5, inlined from ‘void toml::result::cleanup() [with T = std::unordered_map, toml::basic_value >; E = std::__cxx11::basic_string]’ at ./submods/toml11/toml/result.hpp:657:51, inlined from ‘toml::result::~result() [with T = std::unordered_map, toml::basic_value >; E = std::__cxx11::basic_string]’ at ./submods/toml11/toml/result.hpp:244:38, inlined from ‘toml::result > toml::detail::parse_toml_file(toml::detail::location&) [with Value = toml::basic_value; Container = std::vector]’ at ./submods/toml11/toml/parser.hpp:1975:5: /usr/include/c++/11/ext/new_allocator.h:145:26: warning: ‘void operator delete(void*)’ called on unallocated object ‘tab’ [-Wfree-nonheap-object] 145 | ::operator delete(__p | ~~~~~~~~~~~~~~~~~^~~~ 146 | #if __cpp_sized_deallocation | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | , __t * sizeof(_Tp) | ~~~~~~~~~~~~~~~~~~~ 148 | #endif | ~~~~~~ 149 | ); | ~ In file included from ./submods/toml11/toml.hpp:36, from src/conf.hpp:33, from src/map_pool.hpp:31, from src/pybinder.cpp:4: ./submods/toml11/toml/parser.hpp: In function ‘toml::result > toml::detail::parse_toml_file(toml::detail::location&) [with Value = toml::basic_value; Container = std::vector]’: ./submods/toml11/toml/parser.hpp:1975:13: note: declared here 1975 | if(auto tab = parse_ml_table(loc)) | ^~~ x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/range.cpp -o build/temp.linux-x86_64-3.10/src/range.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/read_buffer.cpp -o build/temp.linux-x86_64-3.10/src/read_buffer.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/realtime_pool.cpp -o build/temp.linux-x86_64-3.10/src/realtime_pool.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/seed_tracker.cpp -o build/temp.linux-x86_64-3.10/src/seed_tracker.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.10 -c src/self_align_ref.cpp -o build/temp.linux-x86_64-3.10/src/self_align_ref.o -std=c++11 -O3 x86_64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.10/src/chunk.o build/temp.linux-x86_64-3.10/src/client_sim.o build/temp.linux-x86_64-3.10/src/event_detector.o build/temp.linux-x86_64-3.10/src/event_profiler.o build/temp.linux-x86_64-3.10/src/fast5_reader.o build/temp.linux-x86_64-3.10/src/map_pool.o build/temp.linux-x86_64-3.10/src/mapper.o build/temp.linux-x86_64-3.10/src/normalizer.o build/temp.linux-x86_64-3.10/src/pybinder.o build/temp.linux-x86_64-3.10/src/range.o build/temp.linux-x86_64-3.10/src/read_buffer.o build/temp.linux-x86_64-3.10/src/realtime_pool.o build/temp.linux-x86_64-3.10/src/seed_tracker.o build/temp.linux-x86_64-3.10/src/self_align_ref.o -L./submods/bwa -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lbwa -lhdf5 -lz -ldl -lm -o /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/_uncalled.cpython-310-x86_64-linux-gnu.so running build_scripts creating build/scripts-3.10 copying and adjusting scripts/uncalled -> build/scripts-3.10 changing mode of build/scripts-3.10/uncalled from 644 to 755 I: pybuild base:237: /usr/bin/python3 setup.py build running build running build_py creating /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled copying uncalled/__init__.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled copying uncalled/index.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled copying uncalled/args.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled copying uncalled/minknow_client.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled copying uncalled/pafstats.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled copying uncalled/sim_utils.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled copying uncalled/debug.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled running egg_info writing uncalled.egg-info/PKG-INFO writing dependency_links to uncalled.egg-info/dependency_links.txt writing top-level names to uncalled.egg-info/top_level.txt reading manifest file 'uncalled.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENCE' writing manifest file 'uncalled.egg-info/SOURCES.txt' creating /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/conf copying uncalled/conf/defaults.toml -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/conf copying uncalled/conf/r94_5mers.txt -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/conf copying uncalled/conf/r94_5mers_threshs.txt -> /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/conf running build_ext All submodules present Found libbwa.a Found libhdf5.a building '_uncalled' extension creating build/temp.linux-x86_64-3.9 creating build/temp.linux-x86_64-3.9/src x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/chunk.cpp -o build/temp.linux-x86_64-3.9/src/chunk.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/client_sim.cpp -o build/temp.linux-x86_64-3.9/src/client_sim.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/event_detector.cpp -o build/temp.linux-x86_64-3.9/src/event_detector.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/event_profiler.cpp -o build/temp.linux-x86_64-3.9/src/event_profiler.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/fast5_reader.cpp -o build/temp.linux-x86_64-3.9/src/fast5_reader.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/map_pool.cpp -o build/temp.linux-x86_64-3.9/src/map_pool.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/mapper.cpp -o build/temp.linux-x86_64-3.9/src/mapper.o -std=c++11 -O3 src/mapper.cpp: In member function ‘void Mapper::update_seeds(Mapper::PathBuffer&, bool)’: src/mapper.cpp:673:13: warning: unused variable ‘sa_start’ [-Wunused-variable] 673 | u64 sa_start = sa_end - ref_len + 1; | ^~~~~~~~ src/mapper.cpp:676:14: warning: variable ‘clust’ set but not used [-Wunused-but-set-variable] 676 | auto clust = seed_tracker_.add_seed( | ^~~~~ src/mapper.cpp: In copy constructor ‘Mapper::PathBuffer::PathBuffer(const Mapper::PathBuffer&)’: src/mapper.cpp:736:16: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of type ‘class Mapper::PathBuffer’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 736 | std::memcpy(this, &p, sizeof(PathBuffer)); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from src/mapper.cpp:26: src/mapper.hpp:139:11: note: ‘class Mapper::PathBuffer’ declared here 139 | class PathBuffer { | ^~~~~~~~~~ x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/normalizer.cpp -o build/temp.linux-x86_64-3.9/src/normalizer.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/pybinder.cpp -o build/temp.linux-x86_64-3.9/src/pybinder.o -std=c++11 -O3 In file included from /usr/include/x86_64-linux-gnu/c++/11/bits/c++allocator.h:33, from /usr/include/c++/11/bits/allocator.h:46, from /usr/include/c++/11/string:41, from /usr/include/c++/11/bits/locale_classes.h:40, from /usr/include/c++/11/bits/ios_base.h:41, from /usr/include/c++/11/ios:42, from /usr/include/c++/11/ostream:38, from /usr/include/c++/11/iostream:39, from src/pybinder.cpp:1: In member function ‘void __gnu_cxx::new_allocator<_Tp>::deallocate(_Tp*, __gnu_cxx::new_allocator<_Tp>::size_type) [with _Tp = char]’, inlined from ‘static void std::allocator_traits >::deallocate(std::allocator_traits >::allocator_type&, std::allocator_traits >::pointer, std::allocator_traits >::size_type) [with _Tp = char]’ at /usr/include/c++/11/bits/alloc_traits.h:496:23, inlined from ‘void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_destroy(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/11/bits/basic_string.h:245:34, inlined from ‘void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_dispose() [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/11/bits/basic_string.h:240:14, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::~basic_string() [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/11/bits/basic_string.h:672:19, inlined from ‘toml::failure::~failure() [with T = std::__cxx11::basic_string]’ at ./submods/toml11/toml/result.hpp:70:5, inlined from ‘void toml::result::cleanup() [with T = std::unordered_map, toml::basic_value >; E = std::__cxx11::basic_string]’ at ./submods/toml11/toml/result.hpp:657:51, inlined from ‘toml::result::~result() [with T = std::unordered_map, toml::basic_value >; E = std::__cxx11::basic_string]’ at ./submods/toml11/toml/result.hpp:244:38, inlined from ‘toml::result > toml::detail::parse_toml_file(toml::detail::location&) [with Value = toml::basic_value; Container = std::vector]’ at ./submods/toml11/toml/parser.hpp:1975:5: /usr/include/c++/11/ext/new_allocator.h:145:26: warning: ‘void operator delete(void*)’ called on unallocated object ‘tab’ [-Wfree-nonheap-object] 145 | ::operator delete(__p | ~~~~~~~~~~~~~~~~~^~~~ 146 | #if __cpp_sized_deallocation | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | , __t * sizeof(_Tp) | ~~~~~~~~~~~~~~~~~~~ 148 | #endif | ~~~~~~ 149 | ); | ~ In file included from ./submods/toml11/toml.hpp:36, from src/conf.hpp:33, from src/map_pool.hpp:31, from src/pybinder.cpp:4: ./submods/toml11/toml/parser.hpp: In function ‘toml::result > toml::detail::parse_toml_file(toml::detail::location&) [with Value = toml::basic_value; Container = std::vector]’: ./submods/toml11/toml/parser.hpp:1975:13: note: declared here 1975 | if(auto tab = parse_ml_table(loc)) | ^~~ x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/range.cpp -o build/temp.linux-x86_64-3.9/src/range.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/read_buffer.cpp -o build/temp.linux-x86_64-3.9/src/read_buffer.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/realtime_pool.cpp -o build/temp.linux-x86_64-3.9/src/realtime_pool.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/seed_tracker.cpp -o build/temp.linux-x86_64-3.9/src/seed_tracker.o -std=c++11 -O3 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPYBIND -I./submods -I/usr/include/hdf5/serial -I/usr/include/fast5/ -I/usr/include/ -I./submods/toml11 -I/usr/lib/python3/dist-packages/pybind11/include -I/usr/include/python3.9 -c src/self_align_ref.cpp -o build/temp.linux-x86_64-3.9/src/self_align_ref.o -std=c++11 -O3 x86_64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/uncalled-6mRonr/uncalled-2.2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/src/chunk.o build/temp.linux-x86_64-3.9/src/client_sim.o build/temp.linux-x86_64-3.9/src/event_detector.o build/temp.linux-x86_64-3.9/src/event_profiler.o build/temp.linux-x86_64-3.9/src/fast5_reader.o build/temp.linux-x86_64-3.9/src/map_pool.o build/temp.linux-x86_64-3.9/src/mapper.o build/temp.linux-x86_64-3.9/src/normalizer.o build/temp.linux-x86_64-3.9/src/pybinder.o build/temp.linux-x86_64-3.9/src/range.o build/temp.linux-x86_64-3.9/src/read_buffer.o build/temp.linux-x86_64-3.9/src/realtime_pool.o build/temp.linux-x86_64-3.9/src/seed_tracker.o build/temp.linux-x86_64-3.9/src/self_align_ref.o -L./submods/bwa -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lbwa -lhdf5 -lz -ldl -lm -o /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/_uncalled.cpython-39-x86_64-linux-gnu.so running build_scripts creating build/scripts-3.9 copying and adjusting scripts/uncalled -> build/scripts-3.9 changing mode of build/scripts-3.9/uncalled from 644 to 755 dh: command-omitted: The call to "dh_auto_test -a -O--buildsystem=pybuild" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=pybuild dh_prep -a -O--buildsystem=pybuild dh_auto_install --destdir=debian/uncalled/ -a -O--buildsystem=pybuild I: pybuild base:237: /usr/bin/python3.10 setup.py install --root /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled running install /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running egg_info writing uncalled.egg-info/PKG-INFO writing dependency_links to uncalled.egg-info/dependency_links.txt writing top-level names to uncalled.egg-info/top_level.txt reading manifest file 'uncalled.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENCE' writing manifest file 'uncalled.egg-info/SOURCES.txt' running build_ext All submodules present Found libbwa.a Found libhdf5.a running build_scripts running install_lib creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10 creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/__init__.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/index.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/args.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/minknow_client.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/pafstats.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/sim_utils.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/debug.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/conf copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/conf/defaults.toml -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/conf copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/conf/r94_5mers.txt -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/conf copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/uncalled/conf/r94_5mers_threshs.txt -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/conf copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.10_uncalled/build/_uncalled.cpython-310-x86_64-linux-gnu.so -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/__init__.py to __init__.cpython-310.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/index.py to index.cpython-310.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/args.py to args.cpython-310.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/minknow_client.py to minknow_client.cpython-310.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/pafstats.py to pafstats.cpython-310.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/sim_utils.py to sim_utils.cpython-310.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled/debug.py to debug.cpython-310.pyc running install_egg_info Copying uncalled.egg-info to /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.10/dist-packages/uncalled-2.2.egg-info Skipping SOURCES.txt running install_scripts creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/bin copying build/scripts-3.10/uncalled -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/bin changing mode of /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/bin/uncalled to 755 I: pybuild base:237: /usr/bin/python3 setup.py install --root /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled running install /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running egg_info writing uncalled.egg-info/PKG-INFO writing dependency_links to uncalled.egg-info/dependency_links.txt writing top-level names to uncalled.egg-info/top_level.txt reading manifest file 'uncalled.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENCE' writing manifest file 'uncalled.egg-info/SOURCES.txt' running build_ext All submodules present Found libbwa.a Found libhdf5.a running build_scripts running install_lib creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9 creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/__init__.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/index.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/args.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/minknow_client.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/pafstats.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/sim_utils.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/debug.py -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled creating /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/conf copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/conf/defaults.toml -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/conf copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/conf/r94_5mers.txt -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/conf copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/uncalled/conf/r94_5mers_threshs.txt -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/conf copying /build/uncalled-6mRonr/uncalled-2.2+ds/.pybuild/cpython3_3.9_uncalled/build/_uncalled.cpython-39-x86_64-linux-gnu.so -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/__init__.py to __init__.cpython-39.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/index.py to index.cpython-39.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/args.py to args.cpython-39.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/minknow_client.py to minknow_client.cpython-39.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/pafstats.py to pafstats.cpython-39.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/sim_utils.py to sim_utils.cpython-39.pyc byte-compiling /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled/debug.py to debug.cpython-39.pyc running install_egg_info Copying uncalled.egg-info to /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/lib/python3.9/dist-packages/uncalled-2.2.egg-info Skipping SOURCES.txt running install_scripts copying build/scripts-3.9/uncalled -> /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/bin changing mode of /build/uncalled-6mRonr/uncalled-2.2+ds/debian/uncalled/usr/bin/uncalled to 755 dh_installdocs -a -O--buildsystem=pybuild dh_installchangelogs -a -O--buildsystem=pybuild dh_installexamples -a -O--buildsystem=pybuild dh_python3 -a -O--buildsystem=pybuild dh_installsystemduser -a -O--buildsystem=pybuild dh_lintian -a -O--buildsystem=pybuild dh_perl -a -O--buildsystem=pybuild dh_link -a -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--buildsystem=pybuild dh_compress -a -O--buildsystem=pybuild dh_fixperms -a -O--buildsystem=pybuild dh_missing -a -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -a -O--buildsystem=pybuild dh_gencontrol -a -O--buildsystem=pybuild dpkg-gencontrol: warning: package uncalled: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package uncalled: substitution variable ${python3:Versions} unused, but is defined dh_md5sums -a -O--buildsystem=pybuild dh_builddeb -a -O--buildsystem=pybuild dpkg-deb: building package 'uncalled' in '../uncalled_2.2+ds-3_amd64.deb'. dpkg-deb: building package 'uncalled-dbgsym' in '../uncalled-dbgsym_2.2+ds-3_amd64.deb'. dpkg-genbuildinfo --build=any -O../uncalled_2.2+ds-3_amd64.buildinfo dpkg-genchanges --build=any -O../uncalled_2.2+ds-3_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/uncalled-6mRonr /tmp/uncalled-2.2+ds-34anvbegk I: cleaning package lists and apt cache... I: removing tempdir /tmp/mmdebstrap.Y0Kc6Pu6hq... I: success in 770.9123 seconds md5: uncalled-dbgsym_2.2+ds-3_amd64.deb: OK md5: uncalled_2.2+ds-3_amd64.deb: OK sha1: uncalled-dbgsym_2.2+ds-3_amd64.deb: OK sha1: uncalled_2.2+ds-3_amd64.deb: OK sha256: uncalled-dbgsym_2.2+ds-3_amd64.deb: OK sha256: uncalled_2.2+ds-3_amd64.deb: OK Checksums: OK