Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/s/svim/svim_1.4.2+ds-1_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/svim-1.4.2+ds-1ip_1lae7/svim_1.4.2+ds-1_all.buildinfo Get source package info: svim=1.4.2+ds-1 Source URL: http://snapshot.notset.fr/mr/package/svim/1.4.2+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 binutils=2.35.1-2 binutils-common=2.35.1-2 binutils-x86-64-linux-gnu=2.35.1-2 bsdextrautils=2.36-3+b1 bsdutils=1:2.36-3+b1 build-essential=12.8 bzip2=1.0.8-4 ca-certificates=20200601 coreutils=8.32-4+b1 cpp=4:10.2.0-1 cpp-10=10.2.0-15 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=4.7.0-1 fonts-lyx=2.3.5.2-1 g++=4:10.2.0-1 g++-10=10.2.0-15 gcc=4:10.2.0-1 gcc-10=10.2.0-15 gcc-10-base=10.2.0-15 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=10.2.0-15 libatomic1=10.2.0-15 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 libbsd0=0.10.0-1 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=10.2.0-15 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=0.254 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 libfreetype6=2.10.2+dfsg-3 libgcc-10-dev=10.2.0-15 libgcc-s1=10.2.0-15 libgcrypt20=1.8.6-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libgfortran5=10.2.0-15 libglib2.0-0=2.66.1-2 libgmp10=2:6.2.0+dfsg-6 libgnutls30=3.6.15-4 libgomp1=10.2.0-15 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 libimagequant0=2.12.2-1.1 libisl22=0.22.1-1 libitm1=10.2.0-15 libjbig0=2.1-3.1+b2 libjpeg62-turbo=1:2.0.5-1.1 libjs-jquery=3.5.1+dfsg-4 libjs-jquery-ui=1.12.1+dfsg-7 libk5crypto3=1.17-10 libkeyutils1=1.6.1-2 libkrb5-3=1.17-10 libkrb5support0=1.17-10 liblapack3=3.9.0-3 liblbfgsb0=3.0+dfsg.3-9 liblcms2-2=2.9-4+b1 libldap-2.4-2=2.4.54+dfsg-1 liblsan0=10.2.0-15 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 libpng16-16=1.6.37-3 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=10.2.0-15 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=10.2.0-15 libstdc++6=10.2.0-15 libsub-override-perl=0.09-2 libsystemd0=246.6-2 libtasn1-6=4.16.0-2 libtiff5=4.1.0+git191117-2 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=10.2.0-15 libubsan1=10.2.0-15 libuchardet0=0.0.7-1 libudev1=246.6-2 libunistring2=0.9.10-4 libuuid1=2.36-3+b1 libwebp6=0.6.1-2+b1 libwebpdemux2=0.6.1-2+b1 libwebpmux3=0.6.1-2+b1 libxau6=1:1.0.8-1+b2 libxcb1=1.14-2 libxdmcp6=1:1.1.2-3 libxml2=2.9.10+dfsg-6.1 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 node-jquery=3.5.1+dfsg-4 openssl=1.1.1h-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 python-matplotlib-data=3.3.2-2 python3=3.8.6-1 python3-all=3.8.6-1 python3-certifi=2020.6.20-1 python3-cycler=0.10.0-3 python3-dateutil=2.8.1-4 python3-decorator=4.4.2-2 python3-distutils=3.8.6-1 python3-kiwisolver=1.2.0-1+b1 python3-lib2to3=3.8.6-1 python3-matplotlib=3.3.2-2 python3-minimal=3.8.6-1 python3-numpy=1:1.19.2-2+b1 python3-pil=7.2.0-1+b1 python3-pkg-resources=50.3.0-1 python3-pyparsing=2.4.7-1 python3-pysam=0.15.4+ds-3+b1 python3-scipy=1.5.2-2+b1 python3-setuptools=50.3.0-1 python3-six=1.15.0-1 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 ttf-bitstream-vera=1.10-8 tzdata=2020c-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/20201021T155324Z/ 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 svim=1.4.2+ds-1 && mkdir -p /build/svim-d9cSKP && dpkg-source --no-check -x /*.dsc /build/svim-d9cSKP/svim-1.4.2+ds && chown -R builduser:builduser /build/svim-d9cSKP" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/svim-d9cSKP/svim-1.4.2+ds && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1603272833" dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/svim-d9cSKP /tmp/svim-1.4.2+ds-1ip_1lae7 bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20201021T155324Z 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.Z_FLs2POJX 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.Z_FLs2POJX 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/20201021T155324Z unstable/main amd64 libfakeroot amd64 1.25.3-1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20201021T155324Z 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 (720 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/20201021T155324Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.Z_FLs2POJX Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20201021T155324Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Fetched 22.6 MB in 21s (1085 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.Z_FLs2POJX I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d svim=1.4.2+ds-1 && mkdir -p /build/svim-d9cSKP && dpkg-source --no-check -x /*.dsc /build/svim-d9cSKP/svim-1.4.2+ds && chown -R builduser:builduser /build/svim-d9cSKP"' exec /tmp/mmdebstrap.Z_FLs2POJX Reading package lists... NOTICE: 'svim' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/svim.git Please use: git clone https://salsa.debian.org/med-team/svim.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 225 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main svim 1.4.2+ds-1 (dsc) [2037 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main svim 1.4.2+ds-1 (tar) [214 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main svim 1.4.2+ds-1 (diff) [9044 B] Fetched 225 kB in 0s (910 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'svim_1.4.2+ds-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting svim in /build/svim-d9cSKP/svim-1.4.2+ds dpkg-source: info: unpacking svim_1.4.2+ds.orig.tar.xz dpkg-source: info: unpacking svim_1.4.2+ds-1.debian.tar.xz I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/svim-d9cSKP/svim-1.4.2+ds && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1603272833" dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.Z_FLs2POJX dpkg-buildpackage: info: source package svim dpkg-buildpackage: info: source version 1.4.2+ds-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . 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/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/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/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/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 dh_auto_build -i -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python3.9 setup.py build running build running build_py creating /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_alignment.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_COLLECT.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_input_parsing.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/__init__.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_plot.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_COMBINE.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVSignature.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_CLUSTER.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_genotyping.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_intra.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_merging.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_clustering.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVIM_inter.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim copying src/svim/SVCandidate.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim creating /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests copying src/tests/test_Collect.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests copying src/tests/test_input_parsing.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests copying src/tests/__init__.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests copying src/tests/test_clustering.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests copying src/tests/test_Combine.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests copying src/tests/test_satag.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests copying src/tests/test_inter.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests copying src/tests/test_intra.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests copying src/tests/test_Signature.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests running build_scripts creating build creating build/scripts-3.9 copying and adjusting src/svim/svim -> build/scripts-3.9 changing mode of build/scripts-3.9/svim from 644 to 755 I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_py creating /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_alignment.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_COLLECT.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_input_parsing.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/__init__.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_plot.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_COMBINE.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVSignature.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_CLUSTER.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_genotyping.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_intra.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_merging.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_clustering.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVIM_inter.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim copying src/svim/SVCandidate.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim creating /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests copying src/tests/test_Collect.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests copying src/tests/test_input_parsing.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests copying src/tests/__init__.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests copying src/tests/test_clustering.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests copying src/tests/test_Combine.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests copying src/tests/test_satag.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests copying src/tests/test_inter.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests copying src/tests/test_intra.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests copying src/tests/test_Signature.py -> /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests running build_scripts creating build/scripts-3.8 copying and adjusting src/svim/svim -> build/scripts-3.8 changing mode of build/scripts-3.8/svim from 644 to 755 debian/rules override_dh_auto_test make[1]: Entering directory '/build/svim-d9cSKP/svim-1.4.2+ds' cat debian/missing-sources/chimeric_read.sam| samtools view -Sb - > src/tests/chimeric_read.bam samtools index src/tests/chimeric_read.bam src/tests/chimeric_read.bam.bai cat src/tests/chimeric_read_errors.sam| samtools view -Sb - > src/tests/chimeric_read_errors.bam samtools index src/tests/chimeric_read_errors.bam src/tests/chimeric_read_errors.bam.bai dh_auto_test -- --system=custom --test-args="PYTHONPATH={build_dir} {interpreter} -m unittest discover -v src/tests" I: pybuild base:217: PYTHONPATH=/build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build python3.9 -m unittest discover -v src/tests test_analyze_alignment_file_querysorted (test_Collect.TestCollect) ... ok test_bam_iterator (test_Collect.TestCollect) ... ok test_retrieve_primary_alignment_from_supplementary (test_Collect.TestCollect) ... ok test_retrieve_supplementary_alignment_from_primary (test_Collect.TestCollect) ... ok test_combine (test_Combine.TestSVIMClustering) ... ok test_accessors (test_Signature.TestSVSignature) ... ok test_as_string (test_Signature.TestSVSignature) ... ok test_downstream_distance_to (test_Signature.TestSVSignature) ... ok test_clustering (test_clustering.TestSVIMClustering) ... ok test_scores (test_clustering.TestSVIMClustering) ... ok test_guess_file_type (test_input_parsing.TestInputParsing) ... ok test_parse_arguments (test_input_parsing.TestInputParsing) ... ok test_is_similar (test_inter.TestSVIMInter) ... ok test_analyze_cigar_indel (test_intra.TestSVIMIntra) ... ok test_fetch (test_satag.TestSAExtraction) ... ok test_satag_extraction_complete (test_satag.TestSAExtraction) ... ok test_satag_length (test_satag.TestSAExtraction) ... ok test_satag_negative_mapq (test_satag.TestSAExtractionError) ... ok test_satag_too_many_fields (test_satag.TestSAExtractionError) ... WARNING:root:SA tag does not consist of 6 fields. This could be a sign of invalid characters (e.g. commas or semicolons) in a chromosome name of the reference genome. ok ---------------------------------------------------------------------- Ran 19 tests in 1.837s OK I: pybuild base:217: PYTHONPATH=/build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build python3.8 -m unittest discover -v src/tests test_analyze_alignment_file_querysorted (test_Collect.TestCollect) ... ok test_bam_iterator (test_Collect.TestCollect) ... ok test_retrieve_primary_alignment_from_supplementary (test_Collect.TestCollect) ... ok test_retrieve_supplementary_alignment_from_primary (test_Collect.TestCollect) ... ok test_combine (test_Combine.TestSVIMClustering) ... ok test_accessors (test_Signature.TestSVSignature) ... ok test_as_string (test_Signature.TestSVSignature) ... ok test_downstream_distance_to (test_Signature.TestSVSignature) ... ok test_clustering (test_clustering.TestSVIMClustering) ... ok test_scores (test_clustering.TestSVIMClustering) ... ok test_guess_file_type (test_input_parsing.TestInputParsing) ... ok test_parse_arguments (test_input_parsing.TestInputParsing) ... ok test_is_similar (test_inter.TestSVIMInter) ... ok test_analyze_cigar_indel (test_intra.TestSVIMIntra) ... ok test_fetch (test_satag.TestSAExtraction) ... ok test_satag_extraction_complete (test_satag.TestSAExtraction) ... ok test_satag_length (test_satag.TestSAExtraction) ... ok test_satag_negative_mapq (test_satag.TestSAExtractionError) ... ok test_satag_too_many_fields (test_satag.TestSAExtractionError) ... WARNING:root:SA tag does not consist of 6 fields. This could be a sign of invalid characters (e.g. commas or semicolons) in a chromosome name of the reference genome. ok ---------------------------------------------------------------------- Ran 19 tests in 1.941s OK find deban/ -name '*.bam*'| xargs rm -rf find: ‘deban/’: No such file or directory make[1]: Leaving directory '/build/svim-d9cSKP/svim-1.4.2+ds' create-stamp debian/debhelper-build-stamp dh_testroot -i -O--buildsystem=pybuild dh_prep -i -O--buildsystem=pybuild dh_auto_install -i -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python3.9 setup.py install --root /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim running install running build running build_py running build_scripts running install_lib creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9 creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_alignment.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_COLLECT.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_input_parsing.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__init__.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_plot.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_COMBINE.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVSignature.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_CLUSTER.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_genotyping.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_intra.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_merging.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVIM_input_parsing.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVSignature.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVIM_CLUSTER.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVIM_clustering.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVIM_COMBINE.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVIM_COLLECT.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/__init__.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVIM_inter.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVIM_merging.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVCandidate.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/__pycache__/SVIM_intra.cpython-39.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_clustering.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVIM_inter.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/svim/SVCandidate.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests/test_Collect.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests/test_input_parsing.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests/__init__.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests/test_clustering.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests/test_Combine.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests/test_satag.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests/test_inter.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests/test_intra.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.9/build/tests/test_Signature.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_alignment.py to SVIM_alignment.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_COLLECT.py to SVIM_COLLECT.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_input_parsing.py to SVIM_input_parsing.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/__init__.py to __init__.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_plot.py to SVIM_plot.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_COMBINE.py to SVIM_COMBINE.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVSignature.py to SVSignature.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_CLUSTER.py to SVIM_CLUSTER.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_genotyping.py to SVIM_genotyping.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_intra.py to SVIM_intra.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_merging.py to SVIM_merging.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_clustering.py to SVIM_clustering.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVIM_inter.py to SVIM_inter.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim/SVCandidate.py to SVCandidate.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests/test_Collect.py to test_Collect.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests/test_input_parsing.py to test_input_parsing.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests/__init__.py to __init__.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests/test_clustering.py to test_clustering.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests/test_Combine.py to test_Combine.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests/test_satag.py to test_satag.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests/test_inter.py to test_inter.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests/test_intra.py to test_intra.cpython-39.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/tests/test_Signature.py to test_Signature.cpython-39.pyc running install_data copying LICENSE -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/ running install_egg_info running egg_info creating src/svim.egg-info writing src/svim.egg-info/PKG-INFO writing dependency_links to src/svim.egg-info/dependency_links.txt writing requirements to src/svim.egg-info/requires.txt writing top-level names to src/svim.egg-info/top_level.txt writing manifest file 'src/svim.egg-info/SOURCES.txt' reading manifest file 'src/svim.egg-info/SOURCES.txt' writing manifest file 'src/svim.egg-info/SOURCES.txt' Copying src/svim.egg-info to /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.9/dist-packages/svim-1.4.2.egg-info Skipping SOURCES.txt running install_scripts creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/bin copying build/scripts-3.9/svim -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/bin changing mode of /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/bin/svim to 755 I: pybuild base:217: /usr/bin/python3 setup.py install --root /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim running install running build running build_py running build_scripts running install_lib creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8 creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_alignment.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_COLLECT.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_input_parsing.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__init__.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_plot.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_COMBINE.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVSignature.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_CLUSTER.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_genotyping.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_intra.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_merging.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVIM_clustering.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/__init__.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVCandidate.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVIM_CLUSTER.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVIM_merging.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVIM_inter.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVIM_intra.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVIM_COMBINE.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVSignature.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVIM_COLLECT.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/__pycache__/SVIM_input_parsing.cpython-38.pyc -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__pycache__ copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_clustering.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVIM_inter.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/svim/SVCandidate.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim creating /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests/test_Collect.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests/test_input_parsing.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests/__init__.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests/test_clustering.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests/test_Combine.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests/test_satag.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests/test_inter.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests/test_intra.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests copying /build/svim-d9cSKP/svim-1.4.2+ds/.pybuild/cpython3_3.8/build/tests/test_Signature.py -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_alignment.py to SVIM_alignment.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_COLLECT.py to SVIM_COLLECT.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_input_parsing.py to SVIM_input_parsing.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/__init__.py to __init__.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_plot.py to SVIM_plot.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_COMBINE.py to SVIM_COMBINE.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVSignature.py to SVSignature.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_CLUSTER.py to SVIM_CLUSTER.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_genotyping.py to SVIM_genotyping.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_intra.py to SVIM_intra.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_merging.py to SVIM_merging.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_clustering.py to SVIM_clustering.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVIM_inter.py to SVIM_inter.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim/SVCandidate.py to SVCandidate.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests/test_Collect.py to test_Collect.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests/test_input_parsing.py to test_input_parsing.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests/__init__.py to __init__.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests/test_clustering.py to test_clustering.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests/test_Combine.py to test_Combine.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests/test_satag.py to test_satag.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests/test_inter.py to test_inter.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests/test_intra.py to test_intra.cpython-38.pyc byte-compiling /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/tests/test_Signature.py to test_Signature.cpython-38.pyc running install_data copying LICENSE -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/ running install_egg_info running egg_info writing src/svim.egg-info/PKG-INFO writing dependency_links to src/svim.egg-info/dependency_links.txt writing requirements to src/svim.egg-info/requires.txt writing top-level names to src/svim.egg-info/top_level.txt reading manifest file 'src/svim.egg-info/SOURCES.txt' writing manifest file 'src/svim.egg-info/SOURCES.txt' Copying src/svim.egg-info to /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/lib/python3.8/dist-packages/svim-1.4.2.egg-info Skipping SOURCES.txt running install_scripts copying build/scripts-3.8/svim -> /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/bin changing mode of /build/svim-d9cSKP/svim-1.4.2+ds/debian/svim/usr/bin/svim to 755 debian/rules override_dh_install make[1]: Entering directory '/build/svim-d9cSKP/svim-1.4.2+ds' dh_install find debian -name LICENSE| xargs rm -rf make[1]: Leaving directory '/build/svim-d9cSKP/svim-1.4.2+ds' dh_installdocs -i -O--buildsystem=pybuild dh_installchangelogs -i -O--buildsystem=pybuild dh_installman -i -O--buildsystem=pybuild dh_python3 -i -O--buildsystem=pybuild dh_installsystemduser -i -O--buildsystem=pybuild dh_perl -i -O--buildsystem=pybuild dh_link -i -O--buildsystem=pybuild dh_strip_nondeterminism -i -O--buildsystem=pybuild dh_compress -i -O--buildsystem=pybuild dh_fixperms -i -O--buildsystem=pybuild dh_missing -i -O--buildsystem=pybuild dh_installdeb -i -O--buildsystem=pybuild dh_gencontrol -i -O--buildsystem=pybuild dpkg-gencontrol: warning: Depends field of package svim: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -i -O--buildsystem=pybuild dh_builddeb -i -O--buildsystem=pybuild dpkg-deb: building package 'svim' in '../svim_1.4.2+ds-1_all.deb'. dpkg-genbuildinfo --build=all dpkg-genchanges --build=all >../svim_1.4.2+ds-1_all.changes dpkg-genchanges: info: binary-only arch-indep upload (source code and arch-specific packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/svim-d9cSKP /tmp/svim-1.4.2+ds-1ip_1lae7 I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.Z_FLs2POJX... I: success in 656.1229 seconds md5: svim_1.4.2+ds-1_all.deb: OK sha1: svim_1.4.2+ds-1_all.deb: OK sha256: svim_1.4.2+ds-1_all.deb: OK Checksums: OK