Fri Jun 25 22:22:36 UTC 2021 I: starting to build seqmagick/bullseye/i386 on jenkins on '2021-06-25 22:22' Fri Jun 25 22:22:36 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_15/14705/console.log Fri Jun 25 22:22:36 UTC 2021 I: Downloading source for bullseye/seqmagick=0.8.4-1 --2021-06-25 22:22:36-- http://cdn-fastly.deb.debian.org/debian/pool/main/s/seqmagick/seqmagick_0.8.4-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2087 (2.0K) Saving to: ‘seqmagick_0.8.4-1.dsc’ 0K .. 100% 188M=0s 2021-06-25 22:22:36 (188 MB/s) - ‘seqmagick_0.8.4-1.dsc’ saved [2087/2087] Fri Jun 25 22:22:37 UTC 2021 I: seqmagick_0.8.4-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: seqmagick Binary: seqmagick Architecture: all Version: 0.8.4-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://github.com/fhcrc/seqmagick/ Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/seqmagick Vcs-Git: https://salsa.debian.org/med-team/seqmagick.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-python, python3-all, python3-setuptools, python3-nose, python3-biopython, python3-pygtrie Package-List: seqmagick deb science optional arch=all Checksums-Sha1: f6597c3d31ba9013c562b4a457da84670b30b7a0 668090 seqmagick_0.8.4.orig.tar.gz 39a6bcd897479c8d5046478c9ae7765cd07d9fcf 4312 seqmagick_0.8.4-1.debian.tar.xz Checksums-Sha256: d7c583199bf09f05ea7ea833b4d97bd9cea01436d7320f80c5f6492a016b3b2f 668090 seqmagick_0.8.4.orig.tar.gz 65083713625225bba9f57682dc844af7941ee3c2697b86173dbcbd7036b798b1 4312 seqmagick_0.8.4-1.debian.tar.xz Files: 0c7b6732ea910867139652bcafaa8f35 668090 seqmagick_0.8.4.orig.tar.gz d3ec5f9bff8b4b8abf94064f527b5ca3 4312 seqmagick_0.8.4-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAl/Q1GUACgkQeTz2fo8N Edp1/A//aqNr0fumfw1CEtLUpxDvc3BJPPWGRJMqmKmowFDSqNyOF0Bcfll6+6Z9 d5J/gOI2M52Krlg91Fzx8xj1GSWJp/rWp3vcbBzco0kvP3AC8y09tQrkZ0ufPiEy idXuME/U1nkYTUlKKA7CkS5GCORlgDxLAl8yG+MgbvXwnXEHzV9KkrOXUrzV4PNK ioygryJc7sJsYQWnuKgLDsKAGlNYlFimxX5yZjtmb6ZmB29amDhgcoqXRa5hbg+3 ciyZwKJcpF1G0C55Bf1pfvUicjjv2MaMKPcH4ilmfQQJo5dSr8WDjCuUapZ3hz22 aANcFhLgNzc7zYMBI7v5um/+WK+BSjw6mfE40hmsx2DG/HXxIq9leoGwH8twNxLT y8FOSFy+/e0VMdpmewZIn2jIg4Y3bWpaiK9rkrlZ46WWMQwJc1j+ScAp3T1+aksv Uu3o3qASUijuZboBhDZ4EuFwvHElwOkV1RT/zYZldURX+99Mx481QSn1F0r50cgp 4FbHLvq72IevNLhQw95jK00ZfAa/AO3muiBO1j2p92/IEmO8cYyj7npMy6KumOYD FlVK63M8doWZ4/r6Who4+V7bL23vhL4DYHsKZgbHrTavygeQsTl5jytBTzkgjbnC LQr8X8SWRjHuPbA35hItOMnLRBSgLIHo9lLqcvHFKhJ+t/0un8U= =ysBa -----END PGP SIGNATURE----- Fri Jun 25 22:22:37 UTC 2021 I: Checking whether the package is not for us Fri Jun 25 22:22:37 UTC 2021 I: Starting 1st build on remote node ionos12-i386.debian.net. Fri Jun 25 22:22:37 UTC 2021 I: Preparing to do remote build '1' on ionos12-i386.debian.net. Fri Jun 25 22:29:37 UTC 2021 I: Deleting $TMPDIR on ionos12-i386.debian.net. unshare: unshare failed: Cannot allocate memory W: pbuilder: unshare CLONE_NEWNET not available I: pbuilder: network access is available during build! I: Current time: Fri Jun 25 10:22:41 -12 2021 I: pbuilder-time-stamp: 1624659761 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [seqmagick_0.8.4-1.dsc] I: copying [./seqmagick_0.8.4.orig.tar.gz] I: copying [./seqmagick_0.8.4-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.3Ebt8nVH/trustedkeys.kbx': General error gpgv: Signature made Wed Dec 9 01:43:01 2020 -12 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./seqmagick_0.8.4-1.dsc dpkg-source: info: extracting seqmagick in seqmagick-0.8.4 dpkg-source: info: unpacking seqmagick_0.8.4.orig.tar.gz dpkg-source: info: unpacking seqmagick_0.8.4-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying biopython_1.71_dual_coding_support.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/27287/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=10' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='2e5956e0097a42b3a537adbb64002a20' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='27287' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.ukRJlPvzQZ/pbuilderrc_x8oT --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.ukRJlPvzQZ/b1 --logfile b1/build.log seqmagick_0.8.4-1.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos12-i386 4.19.0-17-686-pae #1 SMP Debian 4.19.194-1 (2021-06-10) i686 GNU/Linux I: ls -l /bin total 5784 -rwxr-xr-x 1 root root 1367848 Jun 21 14:25 bash -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 22 2020 cat -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp -rwxr-xr-x 1 root root 128724 Dec 10 2020 dash -rwxr-xr-x 1 root root 124904 Sep 22 2020 date -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd -rwxr-xr-x 1 root root 100752 Sep 22 2020 df -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir -rwxr-xr-x 1 root root 83644 Feb 7 02:38 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 34664 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 71928 Feb 7 02:38 findmnt -rwsr-xr-x 1 root root 30112 Feb 26 04:12 fusermount -rwxr-xr-x 1 root root 210488 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe -rwxr-xr-x 1 root root 100952 Mar 2 11:30 gzip -rwxr-xr-x 1 root root 21916 Nov 6 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln -rwxr-xr-x 1 root root 55572 Feb 7 2020 login -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls -rwxr-xr-x 1 root root 153124 Feb 7 02:38 lsblk -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 58920 Feb 7 02:38 more -rwsr-xr-x 1 root root 50720 Feb 7 02:38 mount -rwxr-xr-x 1 root root 13856 Feb 7 02:38 mountpoint -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Jun 21 14:25 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jun 23 21:28 sh -> dash -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty -rwsr-xr-x 1 root root 79396 Feb 7 02:38 su -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync -rwxr-xr-x 1 root root 602584 Feb 16 21:55 tar -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch -rwxr-xr-x 1 root root 34664 Sep 22 2020 true -rwxr-xr-x 1 root root 17768 Feb 26 04:12 ulockmgr_server -rwsr-xr-x 1 root root 30236 Feb 7 02:38 umount -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir -rwxr-xr-x 1 root root 63024 Feb 7 02:38 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew I: user script /srv/workspace/pbuilder/27287/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, python3-all, python3-setuptools, python3-nose, python3-biopython, python3-pygtrie dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19675 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-nose; however: Package python3-nose is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-pygtrie; however: Package python3-pygtrie is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfreetype6{a} libgfortran5{a} libicu67{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} liblapack3{a} liblcms2-2{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmpdec3{a} libpipeline1{a} libpng16-16{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} libsigsegv2{a} libsub-override-perl{a} libtiff5{a} libtool{a} libuchardet0{a} libwebp6{a} libwebpdemux2{a} libwebpmux3{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml2{a} m4{a} mailcap{a} man-db{a} media-types{a} mime-support{a} po-debconf{a} python3{a} python3-all{a} python3-biopython{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-nose{a} python3-numpy{a} python3-pil{a} python3-pkg-resources{a} python3-pygtrie{a} python3-reportlab{a} python3-reportlab-accel{a} python3-setuptools{a} python3.9{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx ncbi-blast+ python-biopython-doc python3-olefile python3-renderpm wget 0 packages upgraded, 78 newly installed, 0 to remove and 0 not upgraded. Need to get 36.6 MB of archives. After unpacking 145 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-7 [148 kB] Get: 2 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB] Get: 4 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB] Get: 5 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB] Get: 6 http://deb.debian.org/debian bullseye/main i386 libpython3.9-minimal i386 3.9.2-1 [801 kB] Get: 7 http://deb.debian.org/debian bullseye/main i386 libexpat1 i386 2.2.10-2 [98.8 kB] Get: 8 http://deb.debian.org/debian bullseye/main i386 python3.9-minimal i386 3.9.2-1 [1956 kB] Get: 9 http://deb.debian.org/debian bullseye/main i386 python3-minimal i386 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main i386 media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main i386 mailcap all 3.69 [31.7 kB] Get: 12 http://deb.debian.org/debian bullseye/main i386 mime-support all 3.66 [10.9 kB] Get: 13 http://deb.debian.org/debian bullseye/main i386 libmpdec3 i386 2.5.1-1 [91.9 kB] Get: 14 http://deb.debian.org/debian bullseye/main i386 readline-common all 8.1-1 [73.7 kB] Get: 15 http://deb.debian.org/debian bullseye/main i386 libreadline8 i386 8.1-1 [173 kB] Get: 16 http://deb.debian.org/debian bullseye/main i386 libpython3.9-stdlib i386 3.9.2-1 [1703 kB] Get: 17 http://deb.debian.org/debian bullseye/main i386 python3.9 i386 3.9.2-1 [466 kB] Get: 18 http://deb.debian.org/debian bullseye/main i386 libpython3-stdlib i386 3.9.2-3 [21.4 kB] Get: 19 http://deb.debian.org/debian bullseye/main i386 python3 i386 3.9.2-3 [37.9 kB] Get: 20 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB] Get: 21 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3 [273 kB] Get: 22 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3 [133 kB] Get: 23 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3 [69.0 kB] Get: 24 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB] Get: 25 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB] Get: 26 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB] Get: 27 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB] Get: 28 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 29 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB] Get: 30 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB] Get: 31 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB] Get: 32 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB] Get: 33 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB] Get: 34 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 35 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB] Get: 36 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB] Get: 37 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.11.0-1 [15.3 kB] Get: 38 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB] Get: 39 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB] Get: 40 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-6 [8776 kB] Get: 41 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7 [728 kB] Get: 42 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB] Get: 43 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 44 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 45 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB] Get: 46 http://deb.debian.org/debian bullseye/main i386 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 47 http://deb.debian.org/debian bullseye/main i386 python3-distutils all 3.9.2-1 [143 kB] Get: 48 http://deb.debian.org/debian bullseye/main i386 dh-python all 4.20201102+nmu1 [99.4 kB] Get: 49 http://deb.debian.org/debian bullseye/main i386 libblas3 i386 3.9.0-3 [147 kB] Get: 50 http://deb.debian.org/debian bullseye/main i386 libbrotli1 i386 1.0.9-2+b2 [286 kB] Get: 51 http://deb.debian.org/debian bullseye/main i386 libmd0 i386 1.0.3-3 [28.9 kB] Get: 52 http://deb.debian.org/debian bullseye/main i386 libbsd0 i386 0.11.3-1 [111 kB] Get: 53 http://deb.debian.org/debian bullseye/main i386 libdeflate0 i386 1.7-1 [48.4 kB] Get: 54 http://deb.debian.org/debian bullseye/main i386 libpng16-16 i386 1.6.37-3 [303 kB] Get: 55 http://deb.debian.org/debian bullseye/main i386 libfreetype6 i386 2.10.4+dfsg-1 [429 kB] Get: 56 http://deb.debian.org/debian bullseye/main i386 libgfortran5 i386 10.2.1-6 [643 kB] Get: 57 http://deb.debian.org/debian bullseye/main i386 libimagequant0 i386 2.12.2-1.1 [32.4 kB] Get: 58 http://deb.debian.org/debian bullseye/main i386 libjbig0 i386 2.1-3.1+b2 [31.5 kB] Get: 59 http://deb.debian.org/debian bullseye/main i386 libjpeg62-turbo i386 1:2.0.6-4 [160 kB] Get: 60 http://deb.debian.org/debian bullseye/main i386 liblapack3 i386 3.9.0-3 [1960 kB] Get: 61 http://deb.debian.org/debian bullseye/main i386 liblcms2-2 i386 2.12~rc1-2 [161 kB] Get: 62 http://deb.debian.org/debian bullseye/main i386 libwebp6 i386 0.6.1-2.1 [269 kB] Get: 63 http://deb.debian.org/debian bullseye/main i386 libtiff5 i386 4.2.0-1 [305 kB] Get: 64 http://deb.debian.org/debian bullseye/main i386 libwebpdemux2 i386 0.6.1-2.1 [88.2 kB] Get: 65 http://deb.debian.org/debian bullseye/main i386 libwebpmux3 i386 0.6.1-2.1 [99.0 kB] Get: 66 http://deb.debian.org/debian bullseye/main i386 libxau6 i386 1:1.0.9-1 [20.0 kB] Get: 67 http://deb.debian.org/debian bullseye/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 68 http://deb.debian.org/debian bullseye/main i386 libxcb1 i386 1.14-3 [144 kB] Get: 69 http://deb.debian.org/debian bullseye/main i386 python3-all i386 3.9.2-3 [1060 B] Get: 70 http://deb.debian.org/debian bullseye/main i386 python3-pkg-resources all 52.0.0-3 [189 kB] Get: 71 http://deb.debian.org/debian bullseye/main i386 python3-numpy i386 1:1.19.5-1 [3600 kB] Get: 72 http://deb.debian.org/debian bullseye/main i386 python3-reportlab-accel i386 3.5.59-1 [39.9 kB] Get: 73 http://deb.debian.org/debian bullseye/main i386 python3-pil i386 8.1.2+dfsg-0.1 [444 kB] Get: 74 http://deb.debian.org/debian bullseye/main i386 python3-reportlab all 3.5.59-1 [575 kB] Get: 75 http://deb.debian.org/debian bullseye/main i386 python3-biopython i386 1.78+dfsg-4 [1401 kB] Get: 76 http://deb.debian.org/debian bullseye/main i386 python3-nose all 1.3.7-7 [133 kB] Get: 77 http://deb.debian.org/debian bullseye/main i386 python3-pygtrie all 2.2-1.1 [16.4 kB] Get: 78 http://deb.debian.org/debian bullseye/main i386 python3-setuptools all 52.0.0-3 [441 kB] Fetched 36.6 MB in 3s (14.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19675 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-7_i386.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../1-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../2-groff-base_1.22.4-6_i386.deb ... 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Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:i386 (1.0.9-2+b2) ... Setting up libmagic1:i386 (1:5.39-3) ... Setting up libdeflate0:i386 (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libjbig0:i386 (2.1-3.1+b2) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libblas3:i386 (3.9.0-3) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode Setting up libjpeg62-turbo:i386 (1:2.0.6-4) ... Setting up libsigsegv2:i386 (2.13-1) ... Setting up libimagequant0:i386 (2.12.2-1.1) ... Setting up libpng16-16:i386 (1.6.37-3) ... Setting up autopoint (0.21-4) ... Setting up libwebp6:i386 (0.6.1-2.1) ... Setting up libgfortran5:i386 (10.2.1-6) ... Setting up libmd0:i386 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:i386 (0.0.7-1) ... Setting up libmpdec3:i386 (2.5.1-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libtiff5:i386 (4.2.0-1) ... Setting up libwebpmux3:i386 (0.6.1-2.1) ... Setting up libbsd0:i386 (0.11.3-1) ... Setting up mailcap (3.69) ... Setting up libelf1:i386 (0.183-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:i386 (2.9.10+dfsg-6.7) ... Setting up libfile-stripnondeterminism-perl (1.11.0-1) ... Setting up libxdmcp6:i386 (1:1.1.2-3) ... Setting up liblapack3:i386 (3.9.0-3) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up libxcb1:i386 (1.14-3) ... Setting up gettext (0.21-4) ... Setting up mime-support (3.66) ... Setting up libtool (2.4.6-15) ... Setting up libwebpdemux2:i386 (0.6.1-2.1) ... Setting up libreadline8:i386 (8.1-1) ... Setting up m4 (1.4.18-5) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libfreetype6:i386 (2.10.4+dfsg-1) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.11.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up libpython3.9-stdlib:i386 (3.9.2-1) ... Setting up libpython3-stdlib:i386 (3.9.2-3) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up python3.9 (3.9.2-1) ... Setting up debhelper (13.3.4) ... Setting up python3 (3.9.2-3) ... Setting up python3-pil:i386 (8.1.2+dfsg-0.1) ... Setting up python3-pygtrie (2.2-1.1) ... Setting up python3-reportlab-accel:i386 (3.5.59-1) ... Setting up python3-reportlab (3.5.59-1) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up python3-pkg-resources (52.0.0-3) ... Setting up python3-distutils (3.9.2-1) ... Setting up dh-python (4.20201102+nmu1) ... Setting up python3-setuptools (52.0.0-3) ... Setting up python3-all (3.9.2-3) ... Setting up python3-nose (1.3.7-7) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up python3-biopython (1.78+dfsg-4) ... Processing triggers for libc-bin (2.31-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/seqmagick-0.8.4/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package seqmagick dpkg-buildpackage: info: source version 0.8.4-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/seqmagick-0.8.4' dh_auto_clean I: pybuild base:232: python3.9 setup.py clean /usr/lib/python3/dist-packages/setuptools/dist.py:475: UserWarning: The version specified ('') is an invalid version, this may not work as expected with newer versions of setuptools, pip, and PyPI. Please see PEP 440 for more details. warnings.warn( running clean removing '/build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build' (and everything under it) 'build/bdist.linux-i386' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it rm -rf seqmagick/data rm -rf seqmagick.egg-info make[1]: Leaving directory '/build/seqmagick-0.8.4' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:232: python3.9 setup.py config /usr/lib/python3/dist-packages/setuptools/dist.py:475: UserWarning: The version specified ('') is an invalid version, this may not work as expected with newer versions of setuptools, pip, and PyPI. Please see PEP 440 for more details. warnings.warn( running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:475: UserWarning: The version specified ('') is an invalid version, this may not work as expected with newer versions of setuptools, pip, and PyPI. Please see PEP 440 for more details. warnings.warn( running build running build_py creating /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick copying seqmagick/transform.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick copying seqmagick/__init__.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick copying seqmagick/fileformat.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick creating /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands copying seqmagick/subcommands/convert.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands copying seqmagick/subcommands/info.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands copying seqmagick/subcommands/backtrans_align.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands copying seqmagick/subcommands/extract_ids.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands copying seqmagick/subcommands/primer_trim.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands copying seqmagick/subcommands/common.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands copying seqmagick/subcommands/__init__.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands copying seqmagick/subcommands/quality_filter.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands copying seqmagick/subcommands/mogrify.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands creating /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test copying seqmagick/test/test_subcommands_convert.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test copying seqmagick/test/test_subcommands_quality_filter.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test copying seqmagick/test/test_transform.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test copying seqmagick/test/test_primer_trim.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test copying seqmagick/test/test_subcommands_backtrans_align.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test copying seqmagick/test/__init__.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test copying seqmagick/test/test_subcommands_common.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test creating /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/scripts copying seqmagick/scripts/cli.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/scripts copying seqmagick/scripts/__init__.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/scripts creating /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration copying seqmagick/test/integration/test_mogrify.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration copying seqmagick/test/integration/test_extract_ids.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration copying seqmagick/test/integration/__init__.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration copying seqmagick/test/integration/test_info.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration copying seqmagick/test/integration/test_convert.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration creating /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/__init__.py -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output5.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output4.nex -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input4_ambig.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output3.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output2.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input2.fasta.gz -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input3.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output3.nex -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input1.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input2.fasta.bz2 -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input2.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output2.nex -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output2_ungap_cut.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output2.phy -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output4.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input5.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input6.fasta -> /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data dh_auto_test -O--buildsystem=pybuild I: pybuild base:232: cd /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build; python3.9 -m nose -v test_run (seqmagick.test.integration.test_convert.BasicConvertTestCase) ... ok test_run (seqmagick.test.integration.test_convert.BzipInputConvertTestCase) ... SKIP: bzip2 not supported test_run (seqmagick.test.integration.test_convert.BzipOutputConvertTestCase) ... SKIP: bzip2 not supported test_run (seqmagick.test.integration.test_convert.ConvertToNexusProteinTestCase) ... ok test_run (seqmagick.test.integration.test_convert.ConvertToNexusRNATestCase) ... ok test_run (seqmagick.test.integration.test_convert.ConvertToNexusTestCase) ... ok test_convert (seqmagick.test.integration.test_convert.ConvertToStdOutTestCase) ... ok test_convert_noformat (seqmagick.test.integration.test_convert.ConvertToStdOutTestCase) ... ok test_run (seqmagick.test.integration.test_convert.ConvertUngapCutTestCase) ... ok test_run (seqmagick.test.integration.test_convert.GzipInputConvertTestCase) ... ok test_run (seqmagick.test.integration.test_convert.GzipOutputConvertTestCase) ... ok test_run (seqmagick.test.integration.test_convert.TestConvertFromStdin) ... ok test_run (seqmagick.test.integration.test_convert.TestCutRelative) ... ok test_unknown_seq (seqmagick.test.integration.test_convert.TestCutRelative) ... ok test_run (seqmagick.test.integration.test_convert.TestSample) ... ok test_run (seqmagick.test.integration.test_convert.TestStdin) ... ok test_run (seqmagick.test.integration.test_convert.TestTranslateAmbiguous) ... ok test_descriptions (seqmagick.test.integration.test_extract_ids.Bz2ExtractIdsTestCase) ... SKIP: bzip2 not supported test_ids (seqmagick.test.integration.test_extract_ids.Bz2ExtractIdsTestCase) ... SKIP: bzip2 not supported test_descriptions (seqmagick.test.integration.test_extract_ids.GzipExtractIdsTestCase) ... ok test_ids (seqmagick.test.integration.test_extract_ids.GzipExtractIdsTestCase) ... ok test_descriptions (seqmagick.test.integration.test_extract_ids.SimpleExtractIdsTestCase) ... ok test_ids (seqmagick.test.integration.test_extract_ids.SimpleExtractIdsTestCase) ... ok test_info (seqmagick.test.integration.test_info.MultithreadedInfoTestCase) ... ok test_info (seqmagick.test.integration.test_info.SimpleBzip2InfoTestCase) ... SKIP: bzip2 not supported test_info (seqmagick.test.integration.test_info.SimpleGzipInfoTestCase) ... ok test_info (seqmagick.test.integration.test_info.SimpleInfoTestCase) ... ok test_run (seqmagick.test.integration.test_mogrify.MogrifyBzipInputTestCase) ... SKIP: bzip2 not supported test_run (seqmagick.test.integration.test_mogrify.MogrifyGzipInputTestCase) ... ok test_run (seqmagick.test.integration.test_mogrify.MogrifyUngapCutTestCase) ... ok test_all_different (seqmagick.test.test_primer_trim.HammingDistanceTestCase) ... ok test_ambiguous (seqmagick.test.test_primer_trim.HammingDistanceTestCase) ... ok test_basic (seqmagick.test.test_primer_trim.HammingDistanceTestCase) ... ok test_no_difference (seqmagick.test.test_primer_trim.HammingDistanceTestCase) ... ok test_unequal_length (seqmagick.test.test_primer_trim.HammingDistanceTestCase) ... ok Should fail if reverse primer occurs before forward primer ... ok test_basic (seqmagick.test.test_primer_trim.LocatePrimersTestCase) ... ok test_no_forward (seqmagick.test.test_primer_trim.LocatePrimersTestCase) ... ok test_no_reverse (seqmagick.test.test_primer_trim.LocatePrimersTestCase) ... ok test_align_exact (seqmagick.test.test_primer_trim.PrimerAlignerTestCase) ... ok test_align_gap (seqmagick.test.test_primer_trim.PrimerAlignerTestCase) ... ok test_max_score (seqmagick.test.test_primer_trim.PrimerAlignerTestCase) ... ok test_map_alignment (seqmagick.test.test_subcommands_backtrans_align.AlignmentMapperTestCase) ... ok test_map_alignment_excess_codons (seqmagick.test.test_subcommands_backtrans_align.AlignmentMapperTestCase) ... ok test_map_alignment_insufficient_codons (seqmagick.test.test_subcommands_backtrans_align.AlignmentMapperTestCase) ... ok test_validate_invalid (seqmagick.test.test_subcommands_backtrans_align.AlignmentMapperTestCase) ... ok test_validate_valid (seqmagick.test.test_subcommands_backtrans_align.AlignmentMapperTestCase) ... ok test_doubles (seqmagick.test.test_subcommands_backtrans_align.BatchTestCase) ... ok test_no_input (seqmagick.test.test_subcommands_backtrans_align.BatchTestCase) ... ok test_partial (seqmagick.test.test_subcommands_backtrans_align.BatchTestCase) ... ok test_singletons (seqmagick.test.test_subcommands_backtrans_align.BatchTestCase) ... ok test_provided_umask (seqmagick.test.test_subcommands_common.ApplyUmaskTestCase) ... ok test_user_umask (seqmagick.test.test_subcommands_common.ApplyUmaskTestCase) ... ok test_exception_leaves_unchanged (seqmagick.test.test_subcommands_common.AtomicWriteTestCase) ... ok test_write (seqmagick.test.test_subcommands_common.AtomicWriteTestCase) ... ok test_negative (seqmagick.test.test_subcommands_common.CutRangeTestCase) ... ok test_no_end (seqmagick.test.test_subcommands_common.CutRangeTestCase) ... ok test_no_start (seqmagick.test.test_subcommands_common.CutRangeTestCase) ... ok test_out_of_order (seqmagick.test.test_subcommands_common.CutRangeTestCase) ... ok test_start (seqmagick.test.test_subcommands_common.CutRangeTestCase) ... ok test_read (seqmagick.test.test_subcommands_common.FileTypeTestCase) ... ok test_read_bz2 (seqmagick.test.test_subcommands_common.FileTypeTestCase) ... SKIP: bzip2 not supported test_read_gz (seqmagick.test.test_subcommands_common.FileTypeTestCase) ... ok test_read_text (seqmagick.test.test_subcommands_common.FileTypeTestCase) ... ok test_stdin (seqmagick.test.test_subcommands_common.FileTypeTestCase) ... ok test_stdout (seqmagick.test.test_subcommands_common.FileTypeTestCase) ... ok test_write (seqmagick.test.test_subcommands_common.FileTypeTestCase) ... ok test_multi_arg (seqmagick.test.test_subcommands_common.PartialAppendTestCase) ... ok test_no_arg (seqmagick.test.test_subcommands_common.PartialAppendTestCase) ... ok test_single_arg (seqmagick.test.test_subcommands_common.PartialAppendTestCase) ... ok test_negative (seqmagick.test.test_subcommands_common.PositiveValueTestCase) ... ok test_positive (seqmagick.test.test_subcommands_common.PositiveValueTestCase) ... ok test_zero (seqmagick.test.test_subcommands_common.PositiveValueTestCase) ... ok test_multiple (seqmagick.test.test_subcommands_common.SequenceSlicesTestCase) ... ok test_single (seqmagick.test.test_subcommands_common.SequenceSlicesTestCase) ... ok test_argument_type (seqmagick.test.test_subcommands_convert.ArgumentTypeTestCase) ... ok test_parse (seqmagick.test.test_subcommands_convert.ArgumentTypeTestCase) ... ok test_parse (seqmagick.test.test_subcommands_convert.IdModificationTransformsTestCase) ... ok test_parse (seqmagick.test.test_subcommands_convert.OrderRespectedTestCase) ... ok test_parse (seqmagick.test.test_subcommands_convert.SeqSelectTransformsTestCase) ... ok test_parse (seqmagick.test.test_subcommands_convert.SequenceModTransformsTestCase) ... ok test_four_nt (seqmagick.test.test_subcommands_quality_filter.AllUnambiguousTestCase) ... ok test_one_nt (seqmagick.test.test_subcommands_quality_filter.AllUnambiguousTestCase) ... ok Test that the first record (with no Ns) does not get filtered ... ok test_invalid_action (seqmagick.test.test_subcommands_quality_filter.AmbiguousBaseFilterTestCase) ... ok test_truncate (seqmagick.test.test_subcommands_quality_filter.AmbiguousBaseFilterTestCase) ... ok test_primer_in_file (seqmagick.test.test_subcommands_quality_filter.BarcodePrimerTrieTestCase) ... ok test_primer_provided (seqmagick.test.test_subcommands_quality_filter.BarcodePrimerTrieTestCase) ... ok test_1 (seqmagick.test.test_subcommands_quality_filter.MaxAmbiguousFilterTestCase) ... ok test_10 (seqmagick.test.test_subcommands_quality_filter.MaxAmbiguousFilterTestCase) ... ok test_none (seqmagick.test.test_subcommands_quality_filter.MaxAmbiguousFilterTestCase) ... ok test_all_truncated (seqmagick.test.test_subcommands_quality_filter.MaxLengthFilterTestCase) ... ok test_none_truncated (seqmagick.test.test_subcommands_quality_filter.MaxLengthFilterTestCase) ... ok test_some_truncated (seqmagick.test.test_subcommands_quality_filter.MaxLengthFilterTestCase) ... ok test_all_pass (seqmagick.test.test_subcommands_quality_filter.MinLengthFilterTestCase) ... ok test_none_pass (seqmagick.test.test_subcommands_quality_filter.MinLengthFilterTestCase) ... ok test_some_pass (seqmagick.test.test_subcommands_quality_filter.MinLengthFilterTestCase) ... ok test_1 (seqmagick.test.test_subcommands_quality_filter.PctAmbiguousFilterTestCase) ... ok test_10 (seqmagick.test.test_subcommands_quality_filter.PctAmbiguousFilterTestCase) ... ok test_none (seqmagick.test.test_subcommands_quality_filter.PctAmbiguousFilterTestCase) ... ok test_filter_trim (seqmagick.test.test_subcommands_quality_filter.PrimerBarcodeFilterTestCase) ... ok test_nowindow_fail (seqmagick.test.test_subcommands_quality_filter.QualityFilterTestCase) ... ok test_nowindow_pass (seqmagick.test.test_subcommands_quality_filter.QualityFilterTestCase) ... ok test_send (seqmagick.test.test_subcommands_quality_filter.RecordEventListenerTestCase) ... ok test_window_pass (seqmagick.test.test_subcommands_quality_filter.WindowQualityFilterTestCase) ... ok test_window_truncate_mid (seqmagick.test.test_subcommands_quality_filter.WindowQualityFilterTestCase) ... ok test_window_truncate_noseq (seqmagick.test.test_subcommands_quality_filter.WindowQualityFilterTestCase) ... ok test_nowarn (seqmagick.test.test_transform.CodonWarningTableTestCase) ... ok test_warn (seqmagick.test.test_transform.CodonWarningTableTestCase) ... ok test_cut_sequences (seqmagick.test.test_transform.CutTestCase) ... ok test_full_sequence (seqmagick.test.test_transform.CutTestCase) ... ok test_no_sequences (seqmagick.test.test_transform.CutTestCase) ... ok test_basic (seqmagick.test.test_transform.DashesCleanupTestCase) ... ok test_basic (seqmagick.test.test_transform.DropColumnsTestCase) ... ok test_multi (seqmagick.test.test_transform.DropColumnsTestCase) ... ok test_filter (seqmagick.test.test_transform.ExcludeFromFileTestCase) ... ok Try specifying some minus values. ... ok Test that -0 returns all sequences ... ok Specifying more sequences than are in input records should return ... ok Try specifying some values. ... ok test_zero (seqmagick.test.test_transform.HeadTestCase) ... ok test_filter (seqmagick.test.test_transform.IncludeFromFileTestCase) ... ok test_invalid (seqmagick.test.test_transform.IsolateRegionTestCase) ... ok test_middle (seqmagick.test.test_transform.IsolateRegionTestCase) ... ok test_no_isolation (seqmagick.test.test_transform.IsolateRegionTestCase) ... ok test_single_loc (seqmagick.test.test_transform.IsolateRegionTestCase) ... ok test_all_pass (seqmagick.test.test_transform.MinUngapLengthTestCase) ... ok test_none_pass (seqmagick.test.test_transform.MinUngapLengthTestCase) ... ok test_partial (seqmagick.test.test_transform.MinUngapLengthTestCase) ... ok test_multicut (seqmagick.test.test_transform.MultiCutTestCase) ... ok test_mask (seqmagick.test.test_transform.MultiMaskSequences) ... ok test_mask_whole (seqmagick.test.test_transform.MultiMaskSequences) ... ok test_filter_description (seqmagick.test.test_transform.NameExcludeTestCase) ... ok test_filter_id (seqmagick.test.test_transform.NameExcludeTestCase) ... ok test_filter_description (seqmagick.test.test_transform.NameIncludeTestCase) ... ok test_filter_id (seqmagick.test.test_transform.NameIncludeTestCase) ... ok test_modify (seqmagick.test.test_transform.NamePrefixTestCase) ... ok test_modify (seqmagick.test.test_transform.NameSuffixTestCase) ... ok test_pattern_replace_anchored_add_to_description (seqmagick.test.test_transform.PatternReplaceTestCase) ... ok test_pattern_replace_anchored_id_from_description (seqmagick.test.test_transform.PatternReplaceTestCase) ... ok test_pattern_replace_anchored_match (seqmagick.test.test_transform.PatternReplaceTestCase) ... ok test_pattern_replace_anchored_nomatch (seqmagick.test.test_transform.PatternReplaceTestCase) ... ok test_pattern_replace_anchored_remove_from_description (seqmagick.test.test_transform.PatternReplaceTestCase) ... ok test_pattern_replace_anchored_transform_id (seqmagick.test.test_transform.PatternReplaceTestCase) ... ok Substitutions are case insensitive ... ok Make sure capturing groups work ... ok test_pattern_replace_none (seqmagick.test.test_transform.PatternReplaceTestCase) ... ok test_pattern_replace_static (seqmagick.test.test_transform.PatternReplaceTestCase) ... ok test_multi_pass (seqmagick.test.test_transform.RecordBufferTestCase) ... ok test_single_pass (seqmagick.test.test_transform.RecordBufferTestCase) ... ok test_exclude (seqmagick.test.test_transform.SeqPatternTestCase) ... ok test_include (seqmagick.test.test_transform.SeqPatternTestCase) ... ok test_basic_squeeze (seqmagick.test.test_transform.SqueezeTestCase) ... ok test_gap_proportion (seqmagick.test.test_transform.SqueezeTestCase) ... ok Threshold of 0.001 - nothing should be squeezed. ... ok Try specifying some plus values. ... ok Test that +0 returns all sequences ... ok test_tail_1 (seqmagick.test.test_transform.TailTestCase) ... ok test_tail_2 (seqmagick.test.test_transform.TailTestCase) ... ok test_tail_3 (seqmagick.test.test_transform.TailTestCase) ... ok test_dna_protein_gap (seqmagick.test.test_transform.TranslateTestCase) ... ok test_dna_protein_gap_stop (seqmagick.test.test_transform.TranslateTestCase) ... ok test_dna_protein_nogap (seqmagick.test.test_transform.TranslateTestCase) ... ok test_dna_protein_nogap_stop (seqmagick.test.test_transform.TranslateTestCase) ... ok test_dash_gap (seqmagick.test.test_transform.UngapSequencesTestCase) ... ok test_dot_gap (seqmagick.test.test_transform.UngapSequencesTestCase) ... ok ---------------------------------------------------------------------- Ran 166 tests in 5.485s OK (SKIP=7) create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py install --root /build/seqmagick-0.8.4/debian/seqmagick /usr/lib/python3/dist-packages/setuptools/dist.py:475: UserWarning: The version specified ('') is an invalid version, this may not work as expected with newer versions of setuptools, pip, and PyPI. Please see PEP 440 for more details. warnings.warn( running install running build running build_py running install_lib creating /build/seqmagick-0.8.4/debian/seqmagick/usr creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9 creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/convert.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/info.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/backtrans_align.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/extract_ids.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/primer_trim.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/common.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__init__.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/quality_filter.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/mogrify.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__pycache__/common.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__pycache__/backtrans_align.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__pycache__/mogrify.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__pycache__/__init__.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__pycache__/extract_ids.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__pycache__/info.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__pycache__/quality_filter.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__pycache__/primer_trim.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/subcommands/__pycache__/convert.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/transform.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/test_subcommands_convert.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/test_subcommands_quality_filter.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/test_transform.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/test_primer_trim.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/test_subcommands_backtrans_align.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/__init__.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/test_mogrify.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/output5.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/output4.nex -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/input4_ambig.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/output3.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/output2.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/input2.fasta.gz -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/input3.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/output3.nex -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/input1.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/input2.fasta.bz2 -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/input2.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/output2.nex -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/output2_ungap_cut.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/__init__.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/output2.phy -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/__pycache__/__init__.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/output4.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/input5.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/data/input6.fasta -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/test_extract_ids.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/__init__.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/__pycache__/test_mogrify.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/__pycache__/test_convert.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/__pycache__/test_info.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/__pycache__/test_extract_ids.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/__pycache__/__init__.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/test_info.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/integration/test_convert.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/test_subcommands_common.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/__pycache__/test_subcommands_convert.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/__pycache__/test_primer_trim.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/__pycache__/test_transform.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/__pycache__/__init__.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/__pycache__/test_subcommands_backtrans_align.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/__pycache__/test_subcommands_common.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/test/__pycache__/test_subcommands_quality_filter.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/__init__.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/fileformat.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/__pycache__/fileformat.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/__pycache__/transform.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/__pycache__/__init__.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/__pycache__ creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/scripts copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/scripts/cli.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/scripts copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/scripts/__init__.py -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/scripts creating /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/scripts/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/scripts/__pycache__/cli.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/scripts/__pycache__ copying /build/seqmagick-0.8.4/.pybuild/cpython3_3.9/build/seqmagick/scripts/__pycache__/__init__.cpython-39.pyc -> /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/scripts/__pycache__ byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/convert.py to convert.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/info.py to info.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/backtrans_align.py to backtrans_align.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/extract_ids.py to extract_ids.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/primer_trim.py to primer_trim.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/common.py to common.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/__init__.py to __init__.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/quality_filter.py to quality_filter.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/subcommands/mogrify.py to mogrify.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/transform.py to transform.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/test_subcommands_convert.py to test_subcommands_convert.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/test_subcommands_quality_filter.py to test_subcommands_quality_filter.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/test_transform.py to test_transform.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/test_primer_trim.py to test_primer_trim.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/test_subcommands_backtrans_align.py to test_subcommands_backtrans_align.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/__init__.py to __init__.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/test_mogrify.py to test_mogrify.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/data/__init__.py to __init__.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/test_extract_ids.py to test_extract_ids.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/__init__.py to __init__.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/test_info.py to test_info.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/integration/test_convert.py to test_convert.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/test/test_subcommands_common.py to test_subcommands_common.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/__init__.py to __init__.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/fileformat.py to fileformat.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/scripts/cli.py to cli.cpython-39.pyc byte-compiling /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick/scripts/__init__.py to __init__.cpython-39.pyc running install_egg_info running egg_info creating seqmagick.egg-info writing seqmagick.egg-info/PKG-INFO writing dependency_links to seqmagick.egg-info/dependency_links.txt writing entry points to seqmagick.egg-info/entry_points.txt writing requirements to seqmagick.egg-info/requires.txt writing top-level names to seqmagick.egg-info/top_level.txt writing manifest file 'seqmagick.egg-info/SOURCES.txt' reading manifest file 'seqmagick.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files matching '*.so' found anywhere in distribution warning: no previously-included files matching '*.pyd' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '.git*' found anywhere in distribution warning: no previously-included files matching '.DS_Store' found anywhere in distribution warning: no previously-included files matching '*.png' found anywhere in distribution writing manifest file 'seqmagick.egg-info/SOURCES.txt' Copying seqmagick.egg-info to /build/seqmagick-0.8.4/debian/seqmagick/usr/lib/python3.9/dist-packages/seqmagick-0.0.0.egg-info Skipping SOURCES.txt running install_scripts Installing seqmagick script to /build/seqmagick-0.8.4/debian/seqmagick/usr/bin dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'seqmagick' in '../seqmagick_0.8.4-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../seqmagick_0.8.4-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/27287 and its subdirectories I: Current time: Fri Jun 25 10:29:36 -12 2021 I: pbuilder-time-stamp: 1624660176 Fri Jun 25 22:29:38 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos16-i386.debian.net. Fri Jun 25 22:29:38 UTC 2021 I: Preparing to do remote build '2' on ionos16-i386.debian.net. Fri Jun 25 22:30:11 UTC 2021 I: Deleting $TMPDIR on ionos16-i386.debian.net. Fri Jun 25 22:30:11 UTC 2021 I: seqmagick_0.8.4-1_i386.changes: Format: 1.8 Date: Wed, 09 Dec 2020 14:27:08 +0100 Source: seqmagick Binary: seqmagick Architecture: all Version: 0.8.4-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: seqmagick - imagemagick-like frontend to Biopython SeqIO Changes: seqmagick (0.8.4-1) unstable; urgency=medium . * New upstream version * Standards-Version: 4.5.1 (routine-update) * More verbose autopkgtest and minor fix in case several shell scripts are in the same directory in the future. Checksums-Sha1: e4167f0d11f85416db52c3fba47b9767a8c3ab46 42408 seqmagick_0.8.4-1_all.deb 38ddd23d76a66941202259a4ce703414e244c0d1 5986 seqmagick_0.8.4-1_i386.buildinfo Checksums-Sha256: a59fcc9f50c40241f7aacb1b020616c21a04da9e4ab68a1b344a920435f6a26c 42408 seqmagick_0.8.4-1_all.deb 188d19a054a400d779400d70c974eb0e01a410b0f7a8a572281134082570a772 5986 seqmagick_0.8.4-1_i386.buildinfo Files: 9039ad753bd8540864ec23f97ccc83ac 42408 science optional seqmagick_0.8.4-1_all.deb e554fdb07b04a4aa25ef4c21b10ddc7d 5986 science optional seqmagick_0.8.4-1_i386.buildinfo Fri Jun 25 22:30:12 UTC 2021 I: diffoscope 172 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.ukRJlPvzQZ/seqmagick_0.8.4-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.ukRJlPvzQZ/seqmagick_0.8.4-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.ukRJlPvzQZ/seqmagick_0.8.4-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.ukRJlPvzQZ/b1/seqmagick_0.8.4-1_i386.changes /srv/reproducible-results/rbuild-debian/tmp.ukRJlPvzQZ/b2/seqmagick_0.8.4-1_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.239s) 0.239s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.019s) 0.019s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Fri Jun 25 22:30:16 UTC 2021 I: diffoscope 172 found no differences in the changes files, and a .buildinfo file also exists. Fri Jun 25 22:30:16 UTC 2021 I: seqmagick from bullseye built successfully and reproducibly on i386. Fri Jun 25 22:30:17 UTC 2021 I: Submitting .buildinfo files to external archives: Fri Jun 25 22:30:17 UTC 2021 I: Submitting 8.0K b1/seqmagick_0.8.4-1_i386.buildinfo.asc Fri Jun 25 22:30:18 UTC 2021 I: Submitting 8.0K b2/seqmagick_0.8.4-1_i386.buildinfo.asc Fri Jun 25 22:30:19 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri Jun 25 22:30:19 UTC 2021 I: Done submitting .buildinfo files. Fri Jun 25 22:30:19 UTC 2021 I: Removing signed seqmagick_0.8.4-1_i386.buildinfo.asc files: removed './b1/seqmagick_0.8.4-1_i386.buildinfo.asc' removed './b2/seqmagick_0.8.4-1_i386.buildinfo.asc'