Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/h/htseq/htseq_0.13.5-1+b1_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/htseq-0.13.5-1+b1qat505nz/htseq_0.13.5-1+b1_amd64.buildinfo Get source package info: htseq=0.13.5-1 Source URL: http://snapshot.notset.fr/mr/package/htseq/0.13.5-1/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=2to3=3.9.8-1 autoconf=2.71-2 automake=1:1.16.5-1.1 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=12 base-passwd=3.5.52 bash=5.1-3.1 binutils=2.37-9 binutils-common=2.37-9 binutils-x86-64-linux-gnu=2.37-9 bsdextrautils=2.37.2-4 bsdutils=1:2.37.2-4 build-essential=12.9 bzip2=1.0.8-4 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.2.0-12 cython3=0.29.24-1+b1 dash=0.5.11+git20210903+057cd650a4ed-3 debconf=1.5.79 debhelper=13.5.2 debianutils=5.5-1 dh-autoreconf=20 dh-python=5.20211114 dh-strip-nondeterminism=1.12.0-2 diffutils=1:3.7-5 dpkg=1.20.9 dpkg-dev=1.20.9 dwz=0.14-1 file=1:5.41-2 findutils=4.8.0-1 fonts-dejavu-core=2.37-2 fonts-lyx=2.3.6-1 g++=4:11.2.0-2 g++-11=11.2.0-12 gcc=4:11.2.0-2 gcc-11=11.2.0-12 gcc-11-base=11.2.0-12 gettext=0.21-4 gettext-base=0.21-4 grep=3.7-1 groff-base=1.22.4-7 gzip=1.10-4 hostname=3.23 init-system-helpers=1.60 intltool-debian=0.35.0+20060710.5 libacl1=2.3.1-1 libarchive-zip-perl=1.68-1 libasan6=11.2.0-12 libatomic1=11.2.0-12 libattr1=1:2.5.1-1 libaudit-common=1:3.0.6-1 libaudit1=1:3.0.6-1 libbinutils=2.37-9 libblas3=3.10.0-1 libblkid1=2.37.2-4 libbrotli1=1.0.9-2+b3 libbsd0=0.11.3-1 libbz2-1.0=1.0.8-4 libc-bin=2.32-4 libc-dev-bin=2.32-4 libc6=2.32-4 libc6-dev=2.32-4 libcap-ng0=0.7.9-2.2+b1 libcap2=1:2.44-1 libcc1-0=11.2.0-12 libcom-err2=1.46.4-1 libcrypt-dev=1:4.4.26-1 libcrypt1=1:4.4.26-1 libctf-nobfd0=2.37-9 libctf0=2.37-9 libcurl3-gnutls=7.79.1-2 libdb5.3=5.3.28+dfsg1-0.8 libdebconfclient0=0.261 libdebhelper-perl=13.5.2 libdeflate0=1.8-1 libdpkg-perl=1.20.9 libedit2=3.1-20210910-1 libelf1=0.186-1 libexpat1=2.4.1-3 libexpat1-dev=2.4.1-3 libffi8=3.4.2-3 libfile-stripnondeterminism-perl=1.12.0-2 libfreetype6=2.11.0+dfsg-1 libfribidi0=1.0.8-2 libgcc-11-dev=11.2.0-12 libgcc-s1=11.2.0-12 libgcrypt20=1.9.4-3+b1 libgdbm-compat4=1.22-1 libgdbm6=1.22-1 libgfortran5=11.2.0-12 libglib2.0-0=2.70.1-1 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.2-2 libgomp1=11.2.0-12 libgpg-error0=1.42-3 libgraphite2-3=1.3.14-1 libgssapi-krb5-2=1.18.3-7 libharfbuzz0b=2.7.4-1 libhogweed6=3.7.3-1 libhts3=1.13+ds-2 libhtscodecs2=1.1.1-3+b1 libicu67=67.1-7 libidn2-0=2.3.2-2 libimagequant0=2.12.2-1.1 libisl23=0.24-2 libitm1=11.2.0-12 libjbig0=2.1-3.1+b2 libjpeg62-turbo=1:2.1.1-2 libjs-jquery=3.5.1+dfsg+~3.5.5-8 libjs-jquery-ui=1.13.0+dfsg-1 libjs-sphinxdoc=4.2.0-5 libjs-underscore=1.9.1~dfsg-4 libk5crypto3=1.18.3-7 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-7 libkrb5support0=1.18.3-7 liblapack3=3.10.0-1 liblbfgsb0=3.0+dfsg.3-9 liblcms2-2=2.12~rc1-2 libldap-2.4-2=2.4.59+dfsg-1 liblsan0=11.2.0-12 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=2.37.2-4 libmpc3=1.2.1-1 libmpdec3=2.5.1-2 libmpfr6=4.1.0-3 libncursesw6=6.3-1 libnettle8=3.7.3-1 libnghttp2-14=1.43.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libopenjp2-7=2.4.0-3 libp11-kit0=0.24.0-5 libpam-modules=1.4.0-10 libpam-modules-bin=1.4.0-10 libpam-runtime=1.4.0-10 libpam0g=1.4.0-10 libpcre2-8-0=10.39-3 libpcre3=2:8.39-13 libperl5.32=5.32.1-6 libpipeline1=1.5.4-1 libpng16-16=1.6.37-3 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=3.10.0-5 libpython3.10-dev=3.10.0-5 libpython3.10-minimal=3.10.0-5 libpython3.10-stdlib=3.10.0-5 libpython3.9=3.9.9-1 libpython3.9-dev=3.9.9-1 libpython3.9-minimal=3.9.9-1 libpython3.9-stdlib=3.9.9-1 libqhull-r8.0=2020.2-4 libquadmath0=11.2.0-12 libraqm0=0.7.0-4 libreadline8=8.1-2 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg2-2 libsasl2-modules-db=2.1.27+dfsg2-2 libseccomp2=2.5.2-2 libselinux1=3.3-1 libsigsegv2=2.13-1 libsmartcols1=2.37.2-4 libsqlite3-0=3.36.0-2 libssh2-1=1.10.0-2 libssl1.1=1.1.1l-1 libstdc++-11-dev=11.2.0-12 libstdc++6=11.2.0-12 libsub-override-perl=0.09-2 libsystemd0=249.6-2 libtasn1-6=4.18.0-4 libtiff5=4.3.0-2 libtinfo6=6.3-1 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtool=2.4.6-15 libtsan0=11.2.0-12 libubsan1=11.2.0-12 libuchardet0=0.0.7-1 libudev1=249.6-2 libunistring2=0.9.10-6 libuuid1=2.37.2-4 libwebp6=0.6.1-2.1 libwebpdemux2=0.6.1-2.1 libwebpmux3=0.6.1-2.1 libxau6=1:1.0.9-1 libxcb1=1.14-3 libxdmcp6=1:1.1.2-3 libxml2=2.9.12+dfsg-5+b1 libxslt1.1=1.1.34-4 libzstd1=1.4.8+dfsg-3 linux-libc-dev=5.14.16-1 login=1:4.8.1-2 lsb-base=11.1.0 m4=1.4.18-5 mailcap=3.70 make=4.3-4.1 man-db=2.9.4-2 mawk=1.3.4.20200120-2 media-types=4.0.0 mime-support=3.66 ncurses-base=6.3-1 ncurses-bin=6.3-1 patch=2.7.6-7 perl=5.32.1-6 perl-base=5.32.1-6 perl-modules-5.32=5.32.1-6 po-debconf=1.0.21+nmu1 python-matplotlib-data=3.5.0-1 python3=3.9.8-1 python3-all=3.9.8-1 python3-all-dev=3.9.8-1 python3-appdirs=1.4.4-1 python3-attr=20.3.0-1 python3-brotli=1.0.9-2+b3 python3-chardet=4.0.0-1 python3-cycler=0.11.0-1 python3-dateutil=2.8.1-6 python3-debian=0.1.42 python3-decorator=4.4.2-2 python3-dev=3.9.8-1 python3-distutils=3.9.9-2 python3-fonttools=4.27.1-1+b1 python3-fs=2.4.12-1 python3-kiwisolver=1.3.2-1+b1 python3-lib2to3=3.9.9-2 python3-lxml=4.6.4-1 python3-lz4=3.1.3+dfsg-1+b1 python3-matplotlib=3.5.0-1 python3-minimal=3.9.8-1 python3-mpmath=1.2.1-2 python3-numpy=1:1.21.4-2 python3-packaging=21.2-1 python3-pil=8.3.2-1+b1 python3-pkg-resources=58.2.0-1 python3-pyparsing=2.4.7-1 python3-pysam=0.17.0+ds-2+b1 python3-scipy=1.7.1-2+b1 python3-setuptools=58.2.0-1 python3-six=1.16.0-2 python3-sympy=1.7.1-3 python3-tz=2021.3-1 python3-ufolib2=0.11.1+dfsg1-1 python3.10=3.10.0-5 python3.10-dev=3.10.0-5 python3.10-minimal=3.10.0-5 python3.9=3.9.9-1 python3.9-dev=3.9.9-1 python3.9-minimal=3.9.9-1 readline-common=8.1-2 rpcsvc-proto=1.4.2-4 sed=4.8-1 sensible-utils=0.0.17 swig=4.0.2-1 swig4.0=4.0.2-1 sysvinit-utils=3.00-1 tar=1.34+dfsg-1 tzdata=2021e-1 unicode-data=14.0.0-1.1 util-linux=2.37.2-4 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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20211125T084445Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20211118T084946Z/ 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 htseq=0.13.5-1 && mkdir -p /build/htseq-D99ZAX && dpkg-source --no-check -x /*.dsc /build/htseq-D99ZAX/htseq-0.13.5 && cd /build/htseq-D99ZAX/htseq-0.13.5 && { printf '%s' 'htseq (0.13.5-1+b1) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Add Python 3.10 as supported version -- amd64 / i386 Build Daemon (x86-csail-01) Sun, 21 Nov 2021 21:18:00 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/htseq-D99ZAX" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/htseq-D99ZAX/htseq-0.13.5 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1637529480" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/htseq-D99ZAX /tmp/htseq-0.13.5-1+b1qat505nz bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20211118T084946Z 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.2p_YYSV64I 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.2p_YYSV64I Reading package lists... Building dependency tree... util-linux is already the newest version (2.37.2-4). 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/20211118T084946Z unstable/main amd64 libfakeroot amd64 1.26-1 [47.3 kB] Get:2 http://snapshot.notset.fr/archive/debian/20211118T084946Z unstable/main amd64 fakeroot amd64 1.26-1 [87.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (1027 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 ... 4669 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.26-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.26-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.26-1_amd64.deb ... Unpacking fakeroot (1.26-1) ... Setting up libfakeroot:amd64 (1.26-1) ... Setting up fakeroot (1.26-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.32-4) ... 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/20211125T084445Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20211118T084946Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.2p_YYSV64I Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Get:2 http://snapshot.notset.fr/archive/debian/20211125T084445Z unstable InRelease [165 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20211118T084946Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20211125T084445Z unstable/main amd64 Packages Err:6 http://snapshot.notset.fr/archive/debian/20211125T084445Z unstable/main amd64 Packages 404 Not Found [IP: 10.13.0.253 80] Ign:6 http://snapshot.notset.fr/archive/debian/20211125T084445Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20211125T084445Z unstable/main amd64 Packages [12.0 MB] Fetched 34.8 MB in 29s (1217 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.2p_YYSV64I I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d htseq=0.13.5-1 && mkdir -p /build/htseq-D99ZAX && dpkg-source --no-check -x /*.dsc /build/htseq-D99ZAX/htseq-0.13.5 && cd /build/htseq-D99ZAX/htseq-0.13.5 && { printf '%s' 'htseq (0.13.5-1+b1) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Add Python 3.10 as supported version -- amd64 / i386 Build Daemon (x86-csail-01) Sun, 21 Nov 2021 21:18:00 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/htseq-D99ZAX"' exec /tmp/mmdebstrap.2p_YYSV64I Reading package lists... NOTICE: 'htseq' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/htseq.git Please use: git clone https://salsa.debian.org/med-team/htseq.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 331 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main htseq 0.13.5-1 (dsc) [2155 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main htseq 0.13.5-1 (tar) [318 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main htseq 0.13.5-1 (diff) [11.1 kB] Fetched 331 kB in 0s (1025 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'htseq_0.13.5-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting htseq in /build/htseq-D99ZAX/htseq-0.13.5 dpkg-source: info: unpacking htseq_0.13.5.orig.tar.gz dpkg-source: info: unpacking htseq_0.13.5-1.debian.tar.xz I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/htseq-D99ZAX/htseq-0.13.5 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1637529480" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.2p_YYSV64I dpkg-buildpackage: info: source package htseq dpkg-buildpackage: info: source version 0.13.5-1+b1 dpkg-buildpackage: info: source distribution sid dpkg-buildpackage: info: source changed by amd64 / i386 Build Daemon (x86-csail-01) 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/htseq-D99ZAX/htseq-0.13.5' dh_auto_clean I: pybuild base:237: python3.10 setup.py clean /build/htseq-D99ZAX/htseq-0.13.5/setup.py:5: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives from distutils.log import INFO as logINFO running clean removing '/build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/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/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/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 # setup.py creates some symlinks in clean target # remove these links to keep source tree clean for link in 'src' 'HTSeq' 'doc' 'scripts' 'test' ; do \ if [ -L ${link} ] ; then rm ${link} ; fi \ done make[1]: Leaving directory '/build/htseq-D99ZAX/htseq-0.13.5' 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 /build/htseq-D99ZAX/htseq-0.13.5/setup.py:5: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives from distutils.log import INFO as logINFO 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 /build/htseq-D99ZAX/htseq-0.13.5/setup.py:5: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives from distutils.log import INFO as logINFO running build running build_py running preprocess cythonizing Cython version 0.29.24 SWIGging correcting SWIG for python3 RefactoringTool: Skipping optional fixer: buffer RefactoringTool: Skipping optional fixer: idioms RefactoringTool: Skipping optional fixer: set_literal RefactoringTool: Skipping optional fixer: ws_comma RefactoringTool: Refactored src/StepVector.py RefactoringTool: Files that were modified: RefactoringTool: src/StepVector.py moving swigged .py module done creating /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq copying HTSeq/__init__.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq copying HTSeq/_HTSeq_internal.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq copying HTSeq/StepVector.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq copying HTSeq/_version.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq creating /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/scripts copying HTSeq/scripts/__init__.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/scripts copying HTSeq/scripts/qa.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/scripts copying HTSeq/scripts/count.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/scripts copying HTSeq/scripts/count_with_barcodes.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/scripts copying HTSeq/utils.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq copying HTSeq/features.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq running build_ext building 'HTSeq._HTSeq' 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.10 -c src/_HTSeq.c -o build/temp.linux-x86_64-3.10/src/_HTSeq.o -w x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.10/src/_HTSeq.o -o /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/_HTSeq.cpython-310-x86_64-linux-gnu.so building 'HTSeq._StepVector' extension 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.10 -c src/StepVector_wrap.cxx -o build/temp.linux-x86_64-3.10/src/StepVector_wrap.o -w 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.10/src/StepVector_wrap.o -o /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/_StepVector.cpython-310-x86_64-linux-gnu.so running build_scripts creating build/scripts-3.10 copying and adjusting scripts/htseq-qa -> build/scripts-3.10 copying and adjusting scripts/htseq-count -> build/scripts-3.10 copying and adjusting scripts/htseq-count-barcodes -> build/scripts-3.10 changing mode of build/scripts-3.10/htseq-qa from 644 to 755 changing mode of build/scripts-3.10/htseq-count from 644 to 755 changing mode of build/scripts-3.10/htseq-count-barcodes from 644 to 755 I: pybuild base:237: /usr/bin/python3 setup.py build running build running build_py running preprocess cythonizing Cython version 0.29.24 SWIGging correcting SWIG for python3 RefactoringTool: Skipping optional fixer: buffer RefactoringTool: Skipping optional fixer: idioms RefactoringTool: Skipping optional fixer: set_literal RefactoringTool: Skipping optional fixer: ws_comma RefactoringTool: Refactored src/StepVector.py RefactoringTool: Files that were modified: RefactoringTool: src/StepVector.py moving swigged .py module done creating /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/__init__.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/_HTSeq_internal.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/StepVector.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/_version.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq creating /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/scripts/__init__.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/scripts/qa.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/scripts/count.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/scripts/count_with_barcodes.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts copying HTSeq/utils.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/features.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq running build_ext building 'HTSeq._HTSeq' 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/_HTSeq.c -o build/temp.linux-x86_64-3.9/src/_HTSeq.o -w x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/src/_HTSeq.o -o /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_HTSeq.cpython-39-x86_64-linux-gnu.so building 'HTSeq._StepVector' extension 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c src/StepVector_wrap.cxx -o build/temp.linux-x86_64-3.9/src/StepVector_wrap.o -w 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/src/StepVector_wrap.o -o /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_StepVector.cpython-39-x86_64-linux-gnu.so running build_scripts creating build/scripts-3.9 copying and adjusting scripts/htseq-qa -> build/scripts-3.9 copying and adjusting scripts/htseq-count -> build/scripts-3.9 copying and adjusting scripts/htseq-count-barcodes -> build/scripts-3.9 changing mode of build/scripts-3.9/htseq-qa from 644 to 755 changing mode of build/scripts-3.9/htseq-count from 644 to 755 changing mode of build/scripts-3.9/htseq-count-barcodes 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/python3-htseq/ -a -O--buildsystem=pybuild I: pybuild base:237: /usr/bin/python3.10 setup.py install --root /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq /build/htseq-D99ZAX/htseq-0.13.5/setup.py:5: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives from distutils.log import INFO as logINFO running install running build running build_py running preprocess cythonizing Cython version 0.29.24 SWIGging correcting SWIG for python3 RefactoringTool: Skipping optional fixer: buffer RefactoringTool: Skipping optional fixer: idioms RefactoringTool: Skipping optional fixer: set_literal RefactoringTool: Skipping optional fixer: ws_comma RefactoringTool: Refactored src/StepVector.py RefactoringTool: Files that were modified: RefactoringTool: src/StepVector.py moving swigged .py module done copying HTSeq/StepVector.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq copying HTSeq/_version.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq running build_ext building 'HTSeq._HTSeq' extension 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.10 -c src/_HTSeq.c -o build/temp.linux-x86_64-3.10/src/_HTSeq.o -w x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.10/src/_HTSeq.o -o /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/_HTSeq.cpython-310-x86_64-linux-gnu.so building 'HTSeq._StepVector' extension 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.10 -c src/StepVector_wrap.cxx -o build/temp.linux-x86_64-3.10/src/StepVector_wrap.o -w 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.10/src/StepVector_wrap.o -o /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/_StepVector.cpython-310-x86_64-linux-gnu.so running build_scripts running install_lib creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10 creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/__init__.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/_HTSeq_internal.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/scripts/__init__.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/scripts/qa.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/scripts/count.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/scripts/count_with_barcodes.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/utils.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/features.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/StepVector.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/_version.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/_HTSeq.cpython-310-x86_64-linux-gnu.so -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.10_htseq/build/HTSeq/_StepVector.cpython-310-x86_64-linux-gnu.so -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/__init__.py to __init__.cpython-310.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/_HTSeq_internal.py to _HTSeq_internal.cpython-310.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/scripts/__init__.py to __init__.cpython-310.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/scripts/qa.py to qa.cpython-310.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/scripts/count.py to count.cpython-310.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/scripts/count_with_barcodes.py to count_with_barcodes.cpython-310.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/utils.py to utils.cpython-310.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/features.py to features.cpython-310.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/StepVector.py to StepVector.cpython-310.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq/_version.py to _version.cpython-310.pyc running install_egg_info running egg_info writing HTSeq.egg-info/PKG-INFO writing dependency_links to HTSeq.egg-info/dependency_links.txt writing requirements to HTSeq.egg-info/requires.txt writing top-level names to HTSeq.egg-info/top_level.txt reading manifest file 'HTSeq.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'todo.txt' writing manifest file 'HTSeq.egg-info/SOURCES.txt' Copying HTSeq.egg-info to /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.10/dist-packages/HTSeq-0.13.5.egg-info Skipping SOURCES.txt running install_scripts creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin copying build/scripts-3.10/htseq-qa -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin copying build/scripts-3.10/htseq-count -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin copying build/scripts-3.10/htseq-count-barcodes -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin changing mode of /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin/htseq-qa to 755 changing mode of /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin/htseq-count to 755 changing mode of /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin/htseq-count-barcodes to 755 I: pybuild base:237: /usr/bin/python3 setup.py install --root /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq running install running build running build_py running preprocess cythonizing Cython version 0.29.24 SWIGging correcting SWIG for python3 RefactoringTool: Skipping optional fixer: buffer RefactoringTool: Skipping optional fixer: idioms RefactoringTool: Skipping optional fixer: set_literal RefactoringTool: Skipping optional fixer: ws_comma RefactoringTool: Refactored src/StepVector.py RefactoringTool: Files that were modified: RefactoringTool: src/StepVector.py moving swigged .py module done copying HTSeq/StepVector.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq copying HTSeq/_version.py -> /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq running build_ext building 'HTSeq._HTSeq' extension 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/_HTSeq.c -o build/temp.linux-x86_64-3.9/src/_HTSeq.o -w x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/src/_HTSeq.o -o /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_HTSeq.cpython-39-x86_64-linux-gnu.so building 'HTSeq._StepVector' extension 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c src/StepVector_wrap.cxx -o build/temp.linux-x86_64-3.9/src/StepVector_wrap.o -w 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/htseq-D99ZAX/htseq-0.13.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/src/StepVector_wrap.o -o /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_StepVector.cpython-39-x86_64-linux-gnu.so running build_scripts running install_lib creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9 creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/__init__.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_HTSeq_internal.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq creating /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts/__init__.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts/qa.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts/count.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/scripts/count_with_barcodes.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/utils.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/features.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/StepVector.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_version.py -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_HTSeq.cpython-39-x86_64-linux-gnu.so -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq copying /build/htseq-D99ZAX/htseq-0.13.5/.pybuild/cpython3_3.9_htseq/build/HTSeq/_StepVector.cpython-39-x86_64-linux-gnu.so -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/__init__.py to __init__.cpython-39.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/_HTSeq_internal.py to _HTSeq_internal.cpython-39.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/__init__.py to __init__.cpython-39.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/qa.py to qa.cpython-39.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/count.py to count.cpython-39.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/scripts/count_with_barcodes.py to count_with_barcodes.cpython-39.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/utils.py to utils.cpython-39.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/features.py to features.cpython-39.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/StepVector.py to StepVector.cpython-39.pyc byte-compiling /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq/_version.py to _version.cpython-39.pyc running install_egg_info running egg_info writing HTSeq.egg-info/PKG-INFO writing dependency_links to HTSeq.egg-info/dependency_links.txt writing requirements to HTSeq.egg-info/requires.txt writing top-level names to HTSeq.egg-info/top_level.txt reading manifest file 'HTSeq.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'todo.txt' writing manifest file 'HTSeq.egg-info/SOURCES.txt' Copying HTSeq.egg-info to /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/lib/python3.9/dist-packages/HTSeq-0.13.5.egg-info Skipping SOURCES.txt running install_scripts copying build/scripts-3.9/htseq-qa -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin copying build/scripts-3.9/htseq-count -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin copying build/scripts-3.9/htseq-count-barcodes -> /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin changing mode of /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin/htseq-qa to 755 changing mode of /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin/htseq-count to 755 changing mode of /build/htseq-D99ZAX/htseq-0.13.5/debian/python3-htseq/usr/bin/htseq-count-barcodes to 755 dh_installdocs -a -O--buildsystem=pybuild dh_installchangelogs -a -O--buildsystem=pybuild dh_installman -a -O--buildsystem=pybuild dh_python3 -a -O--buildsystem=pybuild dh_installsystemduser -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 dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/python3-htseq/usr/lib/python3/dist-packages/HTSeq/_StepVector.cpython-310-x86_64-linux-gnu.so debian/python3-htseq/usr/lib/python3/dist-packages/HTSeq/_StepVector.cpython-39-x86_64-linux-gnu.so were not linked against libpthread.so.0 (they use none of the library's symbols) dh_installdeb -a -O--buildsystem=pybuild dh_gencontrol -a -O--buildsystem=pybuild dpkg-gencontrol: warning: package python3-htseq: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-htseq: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-htseq: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-htseq: substitution variable ${python3:Versions} unused, but is defined dh_md5sums -a -O--buildsystem=pybuild dh_builddeb -a -O--buildsystem=pybuild dpkg-deb: building package 'python3-htseq' in '../python3-htseq_0.13.5-1+b1_amd64.deb'. dpkg-deb: building package 'python3-htseq-dbgsym' in '../python3-htseq-dbgsym_0.13.5-1+b1_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../htseq_0.13.5-1+b1_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/htseq-D99ZAX /tmp/htseq-0.13.5-1+b1qat505nz I: cleaning package lists and apt cache... I: removing tempdir /tmp/mmdebstrap.2p_YYSV64I... I: success in 3230.4367 seconds md5: python3-htseq-dbgsym_0.13.5-1+b1_amd64.deb: OK md5: python3-htseq_0.13.5-1+b1_amd64.deb: OK sha1: python3-htseq-dbgsym_0.13.5-1+b1_amd64.deb: OK sha1: python3-htseq_0.13.5-1+b1_amd64.deb: OK sha256: python3-htseq-dbgsym_0.13.5-1+b1_amd64.deb: OK sha256: python3-htseq_0.13.5-1+b1_amd64.deb: OK Checksums: OK