Wed Dec 15 09:02:00 UTC 2021 I: starting to build seqmagick/buster/amd64 on jenkins on '2021-12-15 09:01' Wed Dec 15 09:02:00 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_16/93084/console.log Wed Dec 15 09:02:00 UTC 2021 I: Downloading source for buster/seqmagick=0.7.0-1 --2021-12-15 09:02:01-- http://deb.debian.org/debian/pool/main/s/seqmagick/seqmagick_0.7.0-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2020 (2.0K) Saving to: ‘seqmagick_0.7.0-1.dsc’ 0K . 100% 179M=0s 2021-12-15 09:02:01 (179 MB/s) - ‘seqmagick_0.7.0-1.dsc’ saved [2020/2020] Wed Dec 15 09:02:01 UTC 2021 I: seqmagick_0.7.0-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: seqmagick Binary: seqmagick Architecture: all Version: 0.7.0-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/fhcrc/seqmagick/ Standards-Version: 4.1.4 Vcs-Browser: https://salsa.debian.org/med-team/seqmagick Vcs-Git: https://salsa.debian.org/med-team/seqmagick.git Build-Depends: debhelper (>= 11~), dh-python, python3-all, python3-setuptools, python3-nose, python3-biopython Package-List: seqmagick deb science optional arch=all Checksums-Sha1: d43e6946b0d6cc57d9a09ac2125fa6acb5f5c0a5 667644 seqmagick_0.7.0.orig.tar.gz 4fb63e61725cbdd41ec53c1ff073906c6fbe41e8 3236 seqmagick_0.7.0-1.debian.tar.xz Checksums-Sha256: 2b396331db64230f1367183c4ac381b7ca2ea4f3c7c1328846a79558cd5cb891 667644 seqmagick_0.7.0.orig.tar.gz 5ce2905a9ac845f514c43f11e11e124ef0ed071ba5c2e91838585f9affd677ad 3236 seqmagick_0.7.0-1.debian.tar.xz Files: 8f4b34f32329b135640ed921b13849e2 667644 seqmagick_0.7.0.orig.tar.gz 00906055be3aca6e4a1e30351bc548d0 3236 seqmagick_0.7.0-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlsPhYcRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFMzg//TfQOtsbIDgFMACOzhPVbk/kWL073qmIF 9ZoyE52trhis6WcS/lG3wiMeHRVGUGrSSy7wmFnYniUyGMANOJfrfAidepFlL9gw t0tdKYtXBKR7YLRnnI4esnbdTF0iBIJGrbvMct4R96aDarrQcjCSTQx2q3tA8lZp eYuHRHc7eeklmWU6RfTYEaH4WKEK3IIFkqQY7sjk76dBqb1pSk3wRMGexQGFbAOD Gachs7bPRJRZOVkWwhHHWMdRwezWeMg7xWylsBKfai4SLVnxMawrwA+Ksz4R97w1 O2uR+iDqpUfUyR1jNoIyYuwgLx3itRgaCZVq+Bj6sowdiPfhSUXmtP/9nmBfInrI EAWSWVhJTP0sp1sJBT1kqohroQ8Y1dr2syZdNK7xnislY3YhNxls4/VFrfjOz1yY lesrKZYtqlSdalFzDXeRYHhzp/Eh90qdC9n3jc9HESa7ocZxMDoS2nC0Rp3qWERg fjg6UvKrTcysXbI+q/6r0eHpo2FqcBC4/cG63IaI7O/eu4ERMa2fAMQe5XcZCYju Hqd8zvzZhwxKn2xE+aeds6yrUpeHsEg25EAXWGsq/B4YvkzOKYiN/Kk3QOvnBuKC 8kQfiLvSuSDIa57dVxDMJSGmuh7u7/f9a+vAI6ndtEAyuRHB3V9+CVABYJazovOY lP2d4p43VEo= =CU5K -----END PGP SIGNATURE----- Wed Dec 15 09:02:01 UTC 2021 I: Checking whether the package is not for us Wed Dec 15 09:02:01 UTC 2021 I: Starting 1st build on remote node ionos15-amd64.debian.net. Wed Dec 15 09:02:01 UTC 2021 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Wed Dec 15 09:02:52 UTC 2021 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jan 17 03:25:05 -12 2023 I: pbuilder-time-stamp: 1673969105 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-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: Copying source file I: copying [seqmagick_0.7.0-1.dsc] I: copying [./seqmagick_0.7.0.orig.tar.gz] I: copying [./seqmagick_0.7.0-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Wed May 30 17:17:59 2018 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./seqmagick_0.7.0-1.dsc dpkg-source: info: extracting seqmagick in seqmagick-0.7.0 dpkg-source: info: unpacking seqmagick_0.7.0.orig.tar.gz dpkg-source: info: unpacking seqmagick_0.7.0-1.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: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3989591/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='e93e74d5e1d44accb9b2d193c1c66fa9' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' 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='3989591' 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.A0D3MraVm9/pbuilderrc_pB06 --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.A0D3MraVm9/b1 --logfile b1/build.log seqmagick_0.7.0-1.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos15-amd64 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux I: ls -l /bin total 5116 -rwxr-xr-x 1 root root 1168776 Apr 17 2019 bash -rwxr-xr-x 3 root root 38984 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 14328 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 43744 Feb 28 2019 cat -rwxr-xr-x 1 root root 64320 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 64288 Feb 28 2019 chmod -rwxr-xr-x 1 root root 72512 Feb 28 2019 chown -rwxr-xr-x 1 root root 146880 Feb 28 2019 cp -rwxr-xr-x 1 root root 121464 Jan 17 2019 dash -rwxr-xr-x 1 root root 109408 Feb 28 2019 date -rwxr-xr-x 1 root root 76712 Feb 28 2019 dd -rwxr-xr-x 1 root root 93744 Feb 28 2019 df -rwxr-xr-x 1 root root 138856 Feb 28 2019 dir -rwxr-xr-x 1 root root 84288 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 39520 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 35424 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 68880 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 34896 Apr 22 2020 fusermount -rwxr-xr-x 1 root root 198976 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 98048 Jan 5 2019 gzip -rwxr-xr-x 1 root root 26696 Sep 26 2018 hostname -rwxr-xr-x 1 root root 68552 Feb 28 2019 ln -rwxr-xr-x 1 root root 56760 Jul 26 2018 login -rwxr-xr-x 1 root root 138856 Feb 28 2019 ls -rwxr-xr-x 1 root root 108624 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 89088 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 68544 Feb 28 2019 mknod -rwxr-xr-x 1 root root 43808 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 43008 Jan 9 2019 more -rwsr-xr-x 1 root root 51280 Jan 9 2019 mount -rwxr-xr-x 1 root root 14408 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 138728 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 39616 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 47776 Feb 28 2019 readlink -rwxr-xr-x 1 root root 68416 Feb 28 2019 rm -rwxr-xr-x 1 root root 47776 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 23312 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Dec 10 16:20 sh -> dash -rwxr-xr-x 1 root root 39552 Feb 28 2019 sleep -rwxr-xr-x 1 root root 80672 Feb 28 2019 stty -rwsr-xr-x 1 root root 63568 Jan 9 2019 su -rwxr-xr-x 1 root root 35488 Feb 28 2019 sync -rwxr-xr-x 1 root root 445560 Apr 23 2019 tar -rwxr-xr-x 1 root root 14440 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 97152 Feb 28 2019 touch -rwxr-xr-x 1 root root 35424 Feb 28 2019 true -rwxr-xr-x 1 root root 14328 Apr 22 2020 ulockmgr_server -rwsr-xr-x 1 root root 34888 Jan 9 2019 umount -rwxr-xr-x 1 root root 39584 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 138856 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34896 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/3989591/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: amd64 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 (>= 11~), dh-python, python3-all, python3-setuptools, python3-nose, python3-biopython dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19195 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 (>= 11~); however: Package debhelper 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. 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} bsdmainutils{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} libbsd0{a} libcroco3{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfreetype6{a} libgfortran5{a} libglib2.0-0{a} libicu63{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} liblapack3{a} liblcms2-2{a} libmagic-mgc{a} libmagic1{a} libmpdec2{a} libncurses6{a} libpipeline1{a} libpng16-16{a} libpython3-stdlib{a} libpython3.7-minimal{a} libpython3.7-stdlib{a} libreadline7{a} libsigsegv2{a} libssl1.1{a} libtiff5{a} libtool{a} libuchardet0{a} libwebp6{a} libwebpdemux2{a} libwebpmux3{a} libxml2{a} m4{a} man-db{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-reportlab{a} python3-reportlab-accel{a} python3-setuptools{a} python3.7{a} python3.7-minimal{a} readline-common{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl lynx ncbi-blast+ python-biopython-doc python3-olefile python3-renderpm shared-mime-info wget xdg-user-dirs 0 packages upgraded, 71 newly installed, 0 to remove and 0 not upgraded. Need to get 35.4 MB of archives. After unpacking 141 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get: 2 http://deb.debian.org/debian buster/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get: 3 http://deb.debian.org/debian buster/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get: 4 http://deb.debian.org/debian buster/main amd64 groff-base amd64 1.22.4-3+deb10u1 [916 kB] Get: 5 http://deb.debian.org/debian buster/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get: 6 http://deb.debian.org/debian buster/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get: 7 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1d-0+deb10u7 [1539 kB] Get: 8 http://deb.debian.org/debian buster/main amd64 libpython3.7-minimal amd64 3.7.3-2+deb10u3 [589 kB] Get: 9 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u1 [106 kB] Get: 10 http://deb.debian.org/debian buster/main amd64 python3.7-minimal amd64 3.7.3-2+deb10u3 [1737 kB] Get: 11 http://deb.debian.org/debian buster/main amd64 python3-minimal amd64 3.7.3-1 [36.6 kB] Get: 12 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main amd64 libmpdec2 amd64 2.4.2-2 [87.2 kB] Get: 14 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get: 16 http://deb.debian.org/debian buster/main amd64 libpython3.7-stdlib amd64 3.7.3-2+deb10u3 [1734 kB] Get: 17 http://deb.debian.org/debian buster/main amd64 python3.7 amd64 3.7.3-2+deb10u3 [330 kB] Get: 18 http://deb.debian.org/debian buster/main amd64 libpython3-stdlib amd64 3.7.3-1 [20.0 kB] Get: 19 http://deb.debian.org/debian buster/main amd64 python3 amd64 3.7.3-1 [61.5 kB] Get: 20 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get: 21 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get: 22 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get: 23 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get: 24 http://deb.debian.org/debian buster/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get: 25 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get: 26 http://deb.debian.org/debian buster/main amd64 m4 amd64 1.4.18-2 [203 kB] Get: 27 http://deb.debian.org/debian buster/main amd64 autoconf all 2.69-11 [341 kB] Get: 28 http://deb.debian.org/debian buster/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get: 29 http://deb.debian.org/debian buster/main amd64 automake all 1:1.16.1-4 [771 kB] Get: 30 http://deb.debian.org/debian buster/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get: 31 http://deb.debian.org/debian buster/main amd64 libtool all 2.4.6-9 [547 kB] Get: 32 http://deb.debian.org/debian buster/main amd64 dh-autoreconf all 19 [16.9 kB] Get: 33 http://deb.debian.org/debian buster/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 34 http://deb.debian.org/debian buster/main amd64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 35 http://deb.debian.org/debian buster/main amd64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 36 http://deb.debian.org/debian buster/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get: 37 http://deb.debian.org/debian buster/main amd64 dwz amd64 0.12-3 [78.0 kB] Get: 38 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get: 39 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u1 [8300 kB] Get: 40 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u2 [689 kB] Get: 41 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get: 42 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get: 43 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get: 44 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 45 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] Get: 46 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] Get: 47 http://deb.debian.org/debian buster/main amd64 python3-lib2to3 all 3.7.3-1 [76.7 kB] Get: 48 http://deb.debian.org/debian buster/main amd64 python3-distutils all 3.7.3-1 [142 kB] Get: 49 http://deb.debian.org/debian buster/main amd64 dh-python all 3.20190308 [99.3 kB] Get: 50 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get: 51 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get: 52 http://deb.debian.org/debian buster/main amd64 libpng16-16 amd64 1.6.36-6 [292 kB] Get: 53 http://deb.debian.org/debian buster/main amd64 libfreetype6 amd64 2.9.1-3+deb10u2 [380 kB] Get: 54 http://deb.debian.org/debian buster/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get: 55 http://deb.debian.org/debian buster/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get: 56 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+deb10u1 [133 kB] Get: 57 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 kB] Get: 58 http://deb.debian.org/debian buster/main amd64 liblcms2-2 amd64 2.9-3 [145 kB] Get: 59 http://deb.debian.org/debian buster/main amd64 libwebp6 amd64 0.6.1-2+deb10u1 [261 kB] Get: 60 http://deb.debian.org/debian buster/main amd64 libtiff5 amd64 4.1.0+git191117-2~deb10u2 [271 kB] Get: 61 http://deb.debian.org/debian buster/main amd64 libwebpdemux2 amd64 0.6.1-2+deb10u1 [87.6 kB] Get: 62 http://deb.debian.org/debian buster/main amd64 libwebpmux3 amd64 0.6.1-2+deb10u1 [97.8 kB] Get: 63 http://deb.debian.org/debian buster/main amd64 python3-all amd64 3.7.3-1 [1068 B] Get: 64 http://deb.debian.org/debian buster/main amd64 python3-pkg-resources all 40.8.0-1 [153 kB] Get: 65 http://deb.debian.org/debian buster/main amd64 python3-numpy amd64 1:1.16.2-1 [2119 kB] Get: 66 http://deb.debian.org/debian buster/main amd64 python3-reportlab-accel amd64 3.5.13-1+deb10u1 [35.3 kB] Get: 67 http://deb.debian.org/debian buster/main amd64 python3-pil amd64 5.4.1-2+deb10u2 [395 kB] Get: 68 http://deb.debian.org/debian buster/main amd64 python3-reportlab all 3.5.13-1+deb10u1 [541 kB] Get: 69 http://deb.debian.org/debian buster/main amd64 python3-biopython amd64 1.73+dfsg-1 [1287 kB] Get: 70 http://deb.debian.org/debian buster/main amd64 python3-nose all 1.3.7-4 [132 kB] Get: 71 http://deb.debian.org/debian buster/main amd64 python3-setuptools all 40.8.0-1 [306 kB] Fetched 35.4 MB in 1s (67.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0: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 ... 19195 files and directories currently installed.) Preparing to unpack .../0-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../1-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. 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Setting up libicu63:amd64 (63.1-6+deb10u1) ... Setting up autotools-dev (20180224.1) ... Setting up libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libimagequant0:amd64 (2.12.2-1.1) ... Setting up libpng16-16:amd64 (1.6.36-6) ... Setting up autopoint (0.19.8.1-9) ... Setting up libwebp6:amd64 (0.6.1-2+deb10u1) ... Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up sensible-utils (0.0.12) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libtiff5:amd64 (4.1.0+git191117-2~deb10u2) ... Setting up libmpdec2:amd64 (2.4.2-2) ... Setting up libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u2) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... Setting up libtool (2.4.6-9) ... Setting up libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Setting up m4 (1.4.18-2) ... Setting up libblas3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libfreetype6:amd64 (2.9.1-3+deb10u2) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libcroco3:amd64 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3+deb10u1) ... Setting up libpython3-stdlib:amd64 (3.7.3-1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3.7 (3.7.3-2+deb10u3) ... Setting up liblapack3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up gettext (0.19.8.1-9) ... Setting up python3 (3.7.3-1) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up intltool-debian (0.35.0+20060710.5) ... Setting up python3-pil:amd64 (5.4.1-2+deb10u2) ... Setting up python3-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Setting up python3-reportlab (3.5.13-1+deb10u1) ... Setting up python3-lib2to3 (3.7.3-1) ... Setting up python3-pkg-resources (40.8.0-1) ... Setting up python3-distutils (3.7.3-1) ... Setting up dh-python (3.20190308) ... Setting up python3-setuptools (40.8.0-1) ... Setting up po-debconf (1.0.21) ... Setting up python3-all (3.7.3-1) ... Setting up python3-nose (1.3.7-4) ... Setting up python3-numpy (1:1.16.2-1) ... Setting up python3-biopython (1.73+dfsg-1) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... 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 Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/seqmagick-0.7.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../seqmagick_0.7.0-1_source.changes dpkg-buildpackage: info: source package seqmagick dpkg-buildpackage: info: source version 0.7.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:217: python3.7 setup.py clean running clean removing '/build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build' (and everything under it) /usr/lib/python3/dist-packages/setuptools/dist.py:484: 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. "details." % self.metadata.version 'build/bdist.linux-amd64' does not exist -- can't clean it 'build/scripts-3.7' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules build dh build --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:217: python3.7 setup.py config running config /usr/lib/python3/dist-packages/setuptools/dist.py:484: 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. "details." % self.metadata.version dh_auto_build -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_py creating /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick copying seqmagick/transform.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick copying seqmagick/fileformat.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick copying seqmagick/__init__.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick creating /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test copying seqmagick/test/test_transform.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test copying seqmagick/test/test_subcommands_quality_filter.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test copying seqmagick/test/test_subcommands_convert.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test copying seqmagick/test/test_subcommands_common.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test copying seqmagick/test/test_subcommands_backtrans_align.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test copying seqmagick/test/test_primer_trim.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test copying seqmagick/test/__init__.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test creating /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands copying seqmagick/subcommands/quality_filter.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands copying seqmagick/subcommands/primer_trim.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands copying seqmagick/subcommands/mogrify.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands copying seqmagick/subcommands/info.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands copying seqmagick/subcommands/extract_ids.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands copying seqmagick/subcommands/convert.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands copying seqmagick/subcommands/common.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands copying seqmagick/subcommands/backtrans_align.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands copying seqmagick/subcommands/__init__.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands creating /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/scripts copying seqmagick/scripts/cli.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/scripts copying seqmagick/scripts/__init__.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/scripts creating /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration copying seqmagick/test/integration/test_mogrify.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration copying seqmagick/test/integration/test_info.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration copying seqmagick/test/integration/test_extract_ids.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration copying seqmagick/test/integration/test_convert.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration copying seqmagick/test/integration/__init__.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration creating /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/__init__.py -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output5.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output4.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output3.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output2_ungap_cut.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output2.phy -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output2.nex -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/output2.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input5.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input4_ambig.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input3.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input2.fasta.gz -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input2.fasta.bz2 -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input2.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data copying seqmagick/test/integration/data/input1.fasta -> /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data /usr/lib/python3/dist-packages/setuptools/dist.py:484: 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. "details." % self.metadata.version dh_auto_test -O--buildsystem=pybuild I: pybuild base:217: cd /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build; python3.7 -m nose -v /usr/lib/python3.7/importlib/_bootstrap.py:219: RuntimeWarning: This module has been deprecated. We encourage users to switch to alternative libraries implementing a trie data structure, for example pygtrie. return f(*args, **kwds) /usr/lib/python3/dist-packages/Bio/triefind.py:34: BiopythonDeprecationWarning: This module has been deprecated. We encourage users to switch to alternative libraries implementing a trie data structure, for example pygtrie. "for example pygtrie.", BiopythonDeprecationWarning) 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.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 164 tests in 1.755s OK (SKIP=7) create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python3 setup.py install --root /build/seqmagick-0.7.0/debian/seqmagick running install running build running build_py running install_lib creating /build/seqmagick-0.7.0/debian/seqmagick/usr creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7 creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/__pycache__/transform.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/__pycache__/fileformat.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/__pycache__/__init__.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/__pycache__ creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/scripts creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/scripts/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/scripts/__pycache__/cli.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/scripts/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/scripts/__pycache__/__init__.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/scripts/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/scripts/__init__.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/scripts copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/scripts/cli.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/scripts creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__pycache__/extract_ids.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__pycache__/mogrify.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__pycache__/info.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__pycache__/quality_filter.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__pycache__/convert.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__pycache__/backtrans_align.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__pycache__/primer_trim.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__pycache__/common.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__pycache__/__init__.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/__init__.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/backtrans_align.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/common.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/convert.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/extract_ids.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/info.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/mogrify.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/primer_trim.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/subcommands/quality_filter.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/__pycache__/test_transform.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/__pycache__/test_subcommands_quality_filter.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/__pycache__/test_subcommands_convert.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/__pycache__/test_subcommands_common.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/__pycache__/test_subcommands_backtrans_align.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/__pycache__/test_primer_trim.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/__pycache__/__init__.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/__pycache__ creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/__pycache__/test_mogrify.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/__pycache__/test_info.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/__pycache__/test_extract_ids.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/__pycache__/test_convert.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/__pycache__/__init__.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/__pycache__ creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data creating /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/__pycache__/__init__.cpython-37.pyc -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data/__pycache__ copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/input1.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/input2.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/input2.fasta.bz2 -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/input2.fasta.gz -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/input3.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/input4_ambig.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/input5.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/output2.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/output2.nex -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/output2.phy -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/output2_ungap_cut.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/output3.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/output4.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/output5.fasta -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/data/__init__.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/__init__.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/test_convert.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/test_extract_ids.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/test_info.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/integration/test_mogrify.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/__init__.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/test_primer_trim.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/test_subcommands_backtrans_align.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/test_subcommands_common.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/test_subcommands_convert.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/test_subcommands_quality_filter.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/test/test_transform.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/__init__.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/fileformat.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick copying /build/seqmagick-0.7.0/.pybuild/cpython3_3.7/build/seqmagick/transform.py -> /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/scripts/__init__.py to __init__.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/scripts/cli.py to cli.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/__init__.py to __init__.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/backtrans_align.py to backtrans_align.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/common.py to common.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/convert.py to convert.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/extract_ids.py to extract_ids.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/info.py to info.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/mogrify.py to mogrify.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/primer_trim.py to primer_trim.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/subcommands/quality_filter.py to quality_filter.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/data/__init__.py to __init__.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/__init__.py to __init__.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/test_convert.py to test_convert.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/test_extract_ids.py to test_extract_ids.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/test_info.py to test_info.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/integration/test_mogrify.py to test_mogrify.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/__init__.py to __init__.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/test_primer_trim.py to test_primer_trim.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/test_subcommands_backtrans_align.py to test_subcommands_backtrans_align.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/test_subcommands_common.py to test_subcommands_common.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/test_subcommands_convert.py to test_subcommands_convert.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/test_subcommands_quality_filter.py to test_subcommands_quality_filter.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/test/test_transform.py to test_transform.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/__init__.py to __init__.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/fileformat.py to fileformat.cpython-37.pyc byte-compiling /build/seqmagick-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick/transform.py to transform.cpython-37.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' /usr/lib/python3/dist-packages/setuptools/dist.py:484: 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. "details." % self.metadata.version 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-0.7.0/debian/seqmagick/usr/lib/python3.7/dist-packages/seqmagick-0.0.0.egg-info Skipping SOURCES.txt running install_scripts Installing seqmagick script to /build/seqmagick-0.7.0/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_installinit -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_0.7.0-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../seqmagick_0.7.0-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration 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/3989591 and its subdirectories I: Current time: Tue Jan 17 03:25:54 -12 2023 I: pbuilder-time-stamp: 1673969154 Wed Dec 15 09:02:52 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Wed Dec 15 09:02:52 UTC 2021 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Wed Dec 15 09:03:38 UTC 2021 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Wed Dec 15 09:03:39 UTC 2021 I: seqmagick_0.7.0-1_amd64.changes: Format: 1.8 Date: Wed, 30 May 2018 09:47:34 +0200 Source: seqmagick Binary: seqmagick Architecture: all Version: 0.7.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: seqmagick - imagemagick-like frontend to Biopython SeqIO Closes: 900394 Changes: seqmagick (0.7.0-1) unstable; urgency=medium . * Initial release (Closes: #900394) Checksums-Sha1: 150baa7c1292de5de8c509fa848aeb9a511ad94c 41184 seqmagick_0.7.0-1_all.deb 7e609b38a4595d90c3db05d7544c2f366d9c22b1 5694 seqmagick_0.7.0-1_amd64.buildinfo Checksums-Sha256: b7a8e507b1629a799b0ef0416b1e9b289cbf7abcb85ceb61473368c61c5db8f0 41184 seqmagick_0.7.0-1_all.deb a3e497b95bcc2970a79f35782e44517c81225ee6729eb5b61c2e6122430ccf1b 5694 seqmagick_0.7.0-1_amd64.buildinfo Files: 1181a1aa4de4414e52b67e0c19dfc257 41184 science optional seqmagick_0.7.0-1_all.deb b06b0dcba9ca6a2e681cedb8a3099b67 5694 science optional seqmagick_0.7.0-1_amd64.buildinfo Wed Dec 15 09:03:40 UTC 2021 I: will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.A0D3MraVm9/seqmagick_0.7.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.A0D3MraVm9/seqmagick_0.7.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.A0D3MraVm9/seqmagick_0.7.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.A0D3MraVm9/b1/seqmagick_0.7.0-1_amd64.changes /srv/reproducible-results/rbuild-debian/tmp.A0D3MraVm9/b2/seqmagick_0.7.0-1_amd64.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: 0.296s) 0.296s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.022s) 0.022s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Wed Dec 15 09:03:41 UTC 2021 I: found no differences in the changes files, and a .buildinfo file also exists. Wed Dec 15 09:03:41 UTC 2021 I: seqmagick from buster built successfully and reproducibly on amd64. Wed Dec 15 09:03:44 UTC 2021 I: Submitting .buildinfo files to external archives: Wed Dec 15 09:03:44 UTC 2021 I: Submitting 8.0K b1/seqmagick_0.7.0-1_amd64.buildinfo.asc Wed Dec 15 09:03:45 UTC 2021 I: Submitting 8.0K b2/seqmagick_0.7.0-1_amd64.buildinfo.asc Wed Dec 15 09:03:46 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Dec 15 09:03:46 UTC 2021 I: Done submitting .buildinfo files. Wed Dec 15 09:03:46 UTC 2021 I: Removing signed seqmagick_0.7.0-1_amd64.buildinfo.asc files: removed './b1/seqmagick_0.7.0-1_amd64.buildinfo.asc' removed './b2/seqmagick_0.7.0-1_amd64.buildinfo.asc'