Thu Jul 29 23:32:15 UTC 2021 I: starting to build python-pyfaidx/bullseye/arm64 on jenkins on '2021-07-29 23:32' Thu Jul 29 23:32:15 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_3/1341/console.log Thu Jul 29 23:32:15 UTC 2021 I: Downloading source for bullseye/python-pyfaidx=0.5.9.2-1 --2021-07-29 23:32:15-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/python-pyfaidx/python-pyfaidx_0.5.9.2-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2337 (2.3K) Saving to: ‘python-pyfaidx_0.5.9.2-1.dsc’ 0K .. 100% 171M=0s 2021-07-29 23:32:15 (171 MB/s) - ‘python-pyfaidx_0.5.9.2-1.dsc’ saved [2337/2337] Thu Jul 29 23:32:15 UTC 2021 I: python-pyfaidx_0.5.9.2-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: python-pyfaidx Binary: python3-pyfaidx, python-pyfaidx-examples Architecture: all Version: 0.5.9.2-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/mdshw5/pyfaidx Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/python-pyfaidx Vcs-Git: https://salsa.debian.org/med-team/python-pyfaidx.git Testsuite: autopkgtest, autopkgtest-pkg-python Testsuite-Triggers: python3-nose, python3-numpy Build-Depends: debhelper-compat (= 13), dh-python, python3-all, python3-coverage, python3-setuptools, python3-nose, python3-numpy, python3-six, python3-mock, samtools, tabix Package-List: python-pyfaidx-examples deb python optional arch=all python3-pyfaidx deb python optional arch=all Checksums-Sha1: 0f88c9e39cdb72730f0a65956590404412ef308d 93438 python-pyfaidx_0.5.9.2.orig.tar.gz 97789311d5782e84d3039389ee957f26ab26435c 5140 python-pyfaidx_0.5.9.2-1.debian.tar.xz Checksums-Sha256: a76198f44c186d3b079961b2d2dc5252a0d0a7d5e26402a418767a9e91957a9c 93438 python-pyfaidx_0.5.9.2.orig.tar.gz f4abf9dbee732c72c8e3df8867f46f27e2c4345ce6d2aeb69cc450c97da06981 5140 python-pyfaidx_0.5.9.2-1.debian.tar.xz Files: 8ed690a06d364e28a2a8206316ee62da 93438 python-pyfaidx_0.5.9.2.orig.tar.gz 1dd7f6bb08a94cd05ae54d1a303c89a9 5140 python-pyfaidx_0.5.9.2-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEPpmlJvXcwMu/HO6mALrnSzQzafEFAl/U7KUUHG5wYXRyYTk3 NEBnbWFpbC5jb20ACgkQALrnSzQzafEfHA//QqQOpqNglm4fPVRJZ+axUHemN7vO ZrnFydklYDvKuXZLdPdqLZNgJIipgnSDLVMUkQ6iPLw35ujTIYZzWPkvGfhhZ6nR pHa1T/eTH/EdET1F/NmwKguqYJytvytScdj4FCUKOrKltd4Q34C+GOP84SddTDGW lM1Fdr7+z+LMWLW13V6yIaMCMlunLXmnoUDRFmD3V+v7Cuk97fLBu1tQy6XvSW+n 7m6qLM73E21vxtAi98/gsXLQbk9DWLIDdVQm2X5KHZNktWW/ww+mgAVtnl8kYfgA Q9d0vFVapsZvikfbGXCbpOPk0rgOWw4CHIstQ0+ArUfRyXMErS7+nVZ8VneiLtSN gsKyaFrwn+4W/vl0c+aGZd1nqOSCZhgaoqJwfhbRJhKLsABVw21cBmnghxwpj4i+ UoV3mzuAND5r35IEUjcvRopbvtsFZZ5vpWVUTruYFQR3Ja+paAGlHYk3NXHaw+NO 1s4dF5iMIoGLEEhpnRwO+A9uoxFYtiWLmyoXKvJ3l60GyYEEPYJvWlkf9ejH8/a3 y3lYe7XV+/jfCPV9Ml6od7gbAA6Lw5OY/IV3OK8RczH4rcCh6eRfL69ysqipLut3 z7yqhzx3FsVVPRG4yzyUqGYEf9yetAS5mTutvlOZAu+mvLL5/ACmTWm0jHqGJ1pf cegOuhYOVk69Y0c= =hVMD -----END PGP SIGNATURE----- Thu Jul 29 23:32:16 UTC 2021 I: Checking whether the package is not for us Thu Jul 29 23:32:16 UTC 2021 I: Starting 1st build on remote node codethink9-arm64.debian.net. Thu Jul 29 23:32:16 UTC 2021 I: Preparing to do remote build '1' on codethink9-arm64.debian.net. Thu Jul 29 23:34:09 UTC 2021 I: Deleting $TMPDIR on codethink9-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Aug 31 17:55:19 -12 2022 I: pbuilder-time-stamp: 1662011719 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: Copying source file I: copying [python-pyfaidx_0.5.9.2-1.dsc] I: copying [./python-pyfaidx_0.5.9.2.orig.tar.gz] I: copying [./python-pyfaidx_0.5.9.2-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.wAgGmpLi/trustedkeys.kbx': General error gpgv: Signature made Sat Dec 12 04:15:33 2020 -12 gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 gpgv: issuer "npatra974@gmail.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./python-pyfaidx_0.5.9.2-1.dsc dpkg-source: info: extracting python-pyfaidx in python-pyfaidx-0.5.9.2 dpkg-source: info: unpacking python-pyfaidx_0.5.9.2.orig.tar.gz dpkg-source: info: unpacking python-pyfaidx_0.5.9.2-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying test-locale-to-c.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/5197/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' DISTRIBUTION='' HOME='/var/lib/jenkins' HOST_ARCH='arm64' IFS=' ' 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='5197' 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.68nNbzdgqf/pbuilderrc_VKRK --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.68nNbzdgqf/b1 --logfile b1/build.log python-pyfaidx_0.5.9.2-1.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a Linux codethink9-arm64 4.15.0-151-generic #157-Ubuntu SMP Fri Jul 9 21:03:48 UTC 2021 aarch64 GNU/Linux I: ls -l /bin total 5252 -rwxr-xr-x 1 root root 1282512 Jun 21 2021 bash -rwxr-xr-x 3 root root 34808 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 34808 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 34808 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 14264 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 39832 Sep 22 2020 cat -rwxr-xr-x 1 root root 64512 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 60368 Sep 22 2020 chmod -rwxr-xr-x 1 root root 64528 Sep 22 2020 chown -rwxr-xr-x 1 root root 138896 Sep 22 2020 cp -rwxr-xr-x 1 root root 129544 Dec 10 2020 dash -rwxr-xr-x 1 root root 101384 Sep 22 2020 date -rwxr-xr-x 1 root root 80984 Sep 22 2020 dd -rwxr-xr-x 1 root root 89824 Sep 22 2020 df -rwxr-xr-x 1 root root 143088 Sep 22 2020 dir -rwxr-xr-x 1 root root 76152 Feb 7 2021 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 35632 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 31512 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 64856 Feb 7 2021 findmnt -rwsr-xr-x 1 root root 34824 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 178400 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 93744 Mar 2 2021 gzip -rwxr-xr-x 1 root root 18440 Nov 6 2019 hostname -rwxr-xr-x 1 root root 68720 Sep 22 2020 ln -rwxr-xr-x 1 root root 52720 Feb 7 2020 login -rwxr-xr-x 1 root root 143088 Sep 22 2020 ls -rwxr-xr-x 1 root root 161960 Feb 7 2021 lsblk -rwxr-xr-x 1 root root 85200 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 68744 Sep 22 2020 mknod -rwxr-xr-x 1 root root 43976 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 51368 Feb 7 2021 more -rwsr-xr-x 1 root root 51360 Feb 7 2021 mount -rwxr-xr-x 1 root root 14496 Feb 7 2021 mountpoint -rwxr-xr-x 1 root root 134808 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 35720 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Jun 21 2021 rbash -> bash -rwxr-xr-x 1 root root 43872 Sep 22 2020 readlink -rwxr-xr-x 1 root root 68592 Sep 22 2020 rm -rwxr-xr-x 1 root root 43880 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 19208 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Aug 30 03:47 sh -> dash -rwxr-xr-x 1 root root 35656 Sep 22 2020 sleep -rwxr-xr-x 1 root root 72640 Sep 22 2020 stty -rwsr-xr-x 1 root root 67776 Feb 7 2021 su -rwxr-xr-x 1 root root 35672 Sep 22 2020 sync -rwxr-xr-x 1 root root 535768 Feb 16 2021 tar -rwxr-xr-x 1 root root 10568 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 89120 Sep 22 2020 touch -rwxr-xr-x 1 root root 31512 Sep 22 2020 true -rwxr-xr-x 1 root root 14264 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 30880 Feb 7 2021 umount -rwxr-xr-x 1 root root 35640 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 143088 Sep 22 2020 vdir -rwxr-xr-x 1 root root 59584 Feb 7 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/5197/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: arm64 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-coverage, python3-setuptools, python3-nose, python3-numpy, python3-six, python3-mock, samtools, tabix dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19646 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-coverage; however: Package python3-coverage 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-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-six; however: Package python3-six is not installed. pbuilder-satisfydepends-dummy depends on python3-mock; however: Package python3-mock is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools is not installed. pbuilder-satisfydepends-dummy depends on tabix; however: Package tabix 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} libcurl3-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libhts3{a} libicu67{a} liblapack3{a} libldap-2.4-2{a} libmagic-mgc{a} libmagic1{a} libmpdec3{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libpsl5{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} po-debconf{a} python3{a} python3-all{a} python3-coverage{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-mock{a} python3-nose{a} python3-numpy{a} python3-pbr{a} python3-pkg-resources{a} python3-setuptools{a} python3-six{a} python3.9{a} python3.9-minimal{a} readline-common{a} samtools{a} sensible-utils{a} tabix{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libgpm2 libjs-jquery libjs-jquery-isonscreen libjs-jquery-tablesorter libjs-jquery-throttle-debounce libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix wget 0 packages upgraded, 72 newly installed, 0 to remove and 0 not upgraded. Need to get 32.4 MB of archives. After unpacking 127 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main arm64 bsdextrautils arm64 2.36.1-7 [141 kB] Get: 2 http://deb.debian.org/debian bullseye/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main arm64 groff-base arm64 1.22.4-6 [883 kB] Get: 4 http://deb.debian.org/debian bullseye/main arm64 libpipeline1 arm64 1.5.3-1 [33.0 kB] Get: 5 http://deb.debian.org/debian bullseye/main arm64 man-db arm64 2.9.4-2 [1336 kB] Get: 6 http://deb.debian.org/debian bullseye/main arm64 libpython3.9-minimal arm64 3.9.2-1 [797 kB] Get: 7 http://deb.debian.org/debian bullseye/main arm64 libexpat1 arm64 2.2.10-2 [83.1 kB] Get: 8 http://deb.debian.org/debian bullseye/main arm64 python3.9-minimal arm64 3.9.2-1 [1884 kB] Get: 9 http://deb.debian.org/debian bullseye/main arm64 python3-minimal arm64 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main arm64 media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main arm64 libmpdec3 arm64 2.5.1-1 [84.4 kB] Get: 12 http://deb.debian.org/debian bullseye/main arm64 readline-common all 8.1-1 [73.7 kB] Get: 13 http://deb.debian.org/debian bullseye/main arm64 libreadline8 arm64 8.1-1 [160 kB] Get: 14 http://deb.debian.org/debian bullseye/main arm64 libpython3.9-stdlib arm64 3.9.2-1 [1658 kB] Get: 15 http://deb.debian.org/debian bullseye/main arm64 python3.9 arm64 3.9.2-1 [466 kB] Get: 16 http://deb.debian.org/debian bullseye/main arm64 libpython3-stdlib arm64 3.9.2-3 [21.4 kB] Get: 17 http://deb.debian.org/debian bullseye/main arm64 python3 arm64 3.9.2-3 [37.9 kB] Get: 18 http://deb.debian.org/debian bullseye/main arm64 sensible-utils all 0.0.14 [14.8 kB] Get: 19 http://deb.debian.org/debian bullseye/main arm64 libmagic-mgc arm64 1:5.39-3 [273 kB] Get: 20 http://deb.debian.org/debian bullseye/main arm64 libmagic1 arm64 1:5.39-3 [121 kB] Get: 21 http://deb.debian.org/debian bullseye/main arm64 file arm64 1:5.39-3 [69.1 kB] Get: 22 http://deb.debian.org/debian bullseye/main arm64 gettext-base arm64 0.21-4 [173 kB] Get: 23 http://deb.debian.org/debian bullseye/main arm64 libsigsegv2 arm64 2.13-1 [34.7 kB] Get: 24 http://deb.debian.org/debian bullseye/main arm64 m4 arm64 1.4.18-5 [199 kB] Get: 25 http://deb.debian.org/debian bullseye/main arm64 autoconf all 2.69-14 [313 kB] Get: 26 http://deb.debian.org/debian bullseye/main arm64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 27 http://deb.debian.org/debian bullseye/main arm64 automake all 1:1.16.3-2 [814 kB] Get: 28 http://deb.debian.org/debian bullseye/main arm64 autopoint all 0.21-4 [510 kB] Get: 29 http://deb.debian.org/debian bullseye/main arm64 libdebhelper-perl all 13.3.4 [189 kB] Get: 30 http://deb.debian.org/debian bullseye/main arm64 libtool all 2.4.6-15 [513 kB] Get: 31 http://deb.debian.org/debian bullseye/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 32 http://deb.debian.org/debian bullseye/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 33 http://deb.debian.org/debian bullseye/main arm64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 34 http://deb.debian.org/debian bullseye/main arm64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 35 http://deb.debian.org/debian bullseye/main arm64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 36 http://deb.debian.org/debian bullseye/main arm64 libelf1 arm64 0.183-1 [164 kB] Get: 37 http://deb.debian.org/debian bullseye/main arm64 dwz arm64 0.13+20210201-1 [155 kB] Get: 38 http://deb.debian.org/debian bullseye/main arm64 libicu67 arm64 67.1-7 [8467 kB] Get: 39 http://deb.debian.org/debian bullseye/main arm64 libxml2 arm64 2.9.10+dfsg-6.7 [629 kB] Get: 40 http://deb.debian.org/debian bullseye/main arm64 gettext arm64 0.21-4 [1261 kB] Get: 41 http://deb.debian.org/debian bullseye/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 42 http://deb.debian.org/debian bullseye/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 43 http://deb.debian.org/debian bullseye/main arm64 debhelper all 13.3.4 [1049 kB] Get: 44 http://deb.debian.org/debian bullseye/main arm64 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 45 http://deb.debian.org/debian bullseye/main arm64 python3-distutils all 3.9.2-1 [143 kB] Get: 46 http://deb.debian.org/debian bullseye/main arm64 dh-python all 4.20201102+nmu1 [99.4 kB] Get: 47 http://deb.debian.org/debian bullseye/main arm64 libblas3 arm64 3.9.0-3 [101 kB] Get: 48 http://deb.debian.org/debian bullseye/main arm64 libbrotli1 arm64 1.0.9-2+b2 [267 kB] Get: 49 http://deb.debian.org/debian bullseye/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg-2.1 [69.3 kB] Get: 50 http://deb.debian.org/debian bullseye/main arm64 libsasl2-2 arm64 2.1.27+dfsg-2.1 [105 kB] Get: 51 http://deb.debian.org/debian bullseye/main arm64 libldap-2.4-2 arm64 2.4.57+dfsg-3 [222 kB] Get: 52 http://deb.debian.org/debian bullseye/main arm64 libnghttp2-14 arm64 1.43.0-1 [73.8 kB] Get: 53 http://deb.debian.org/debian bullseye/main arm64 libpsl5 arm64 0.21.0-1.2 [57.1 kB] Get: 54 http://deb.debian.org/debian bullseye/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b2 [59.4 kB] Get: 55 http://deb.debian.org/debian bullseye/main arm64 libssh2-1 arm64 1.9.0-2 [150 kB] Get: 56 http://deb.debian.org/debian bullseye/main arm64 libcurl3-gnutls arm64 7.74.0-1.3+b1 [318 kB] Get: 57 http://deb.debian.org/debian bullseye/main arm64 libdeflate0 arm64 1.7-1 [47.7 kB] Get: 58 http://deb.debian.org/debian bullseye/main arm64 libgfortran5 arm64 10.2.1-6 [333 kB] Get: 59 http://deb.debian.org/debian bullseye/main arm64 libhts3 arm64 1.11-4 [346 kB] Get: 60 http://deb.debian.org/debian bullseye/main arm64 liblapack3 arm64 3.9.0-3 [1541 kB] Get: 61 http://deb.debian.org/debian bullseye/main arm64 libncurses6 arm64 6.2+20201114-2 [93.2 kB] Get: 62 http://deb.debian.org/debian bullseye/main arm64 python3-all arm64 3.9.2-3 [1056 B] Get: 63 http://deb.debian.org/debian bullseye/main arm64 python3-pkg-resources all 52.0.0-4 [190 kB] Get: 64 http://deb.debian.org/debian bullseye/main arm64 python3-coverage arm64 5.1+dfsg.1-2+b2 [169 kB] Get: 65 http://deb.debian.org/debian bullseye/main arm64 python3-setuptools all 52.0.0-4 [366 kB] Get: 66 http://deb.debian.org/debian bullseye/main arm64 python3-six all 1.16.0-1 [17.1 kB] Get: 67 http://deb.debian.org/debian bullseye/main arm64 python3-pbr all 5.5.0-2 [60.4 kB] Get: 68 http://deb.debian.org/debian bullseye/main arm64 python3-mock all 4.0.3-1 [34.6 kB] Get: 69 http://deb.debian.org/debian bullseye/main arm64 python3-nose all 1.3.7-7 [133 kB] Get: 70 http://deb.debian.org/debian bullseye/main arm64 python3-numpy arm64 1:1.19.5-1 [3196 kB] Get: 71 http://deb.debian.org/debian bullseye/main arm64 samtools arm64 1.11-1 [526 kB] Get: 72 http://deb.debian.org/debian bullseye/main arm64 tabix arm64 1.11-4 [316 kB] Fetched 32.4 MB in 1s (47.5 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 ... 19646 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-7_arm64.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../1-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../2-groff-base_1.22.4-6_arm64.deb ... 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Selecting previously unselected package python3-minimal. (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 ... 20513 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_arm64.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package libmpdec3:arm64. Preparing to unpack .../2-libmpdec3_2.5.1-1_arm64.deb ... Unpacking libmpdec3:arm64 (2.5.1-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../3-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:arm64. Preparing to unpack .../4-libreadline8_8.1-1_arm64.deb ... Unpacking libreadline8:arm64 (8.1-1) ... Selecting previously unselected package libpython3.9-stdlib:arm64. Preparing to unpack .../5-libpython3.9-stdlib_3.9.2-1_arm64.deb ... Unpacking libpython3.9-stdlib:arm64 (3.9.2-1) ... Selecting previously unselected package python3.9. Preparing to unpack .../6-python3.9_3.9.2-1_arm64.deb ... Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../7-libpython3-stdlib_3.9.2-3_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.9.2-3) ... Setting up python3-minimal (3.9.2-3) ... Selecting previously unselected package python3. (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 ... 20934 files and directories currently installed.) Preparing to unpack .../00-python3_3.9.2-3_arm64.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.39-3_arm64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../03-libmagic1_1%3a5.39-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.39-3_arm64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-4_arm64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../06-libsigsegv2_2.13-1_arm64.deb ... Unpacking libsigsegv2:arm64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../07-m4_1.4.18-5_arm64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../08-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../09-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../10-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../11-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../12-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../13-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../14-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. 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Selecting previously unselected package libicu67:arm64. Preparing to unpack .../21-libicu67_67.1-7_arm64.deb ... Unpacking libicu67:arm64 (67.1-7) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../22-libxml2_2.9.10+dfsg-6.7_arm64.deb ... Unpacking libxml2:arm64 (2.9.10+dfsg-6.7) ... Selecting previously unselected package gettext. Preparing to unpack .../23-gettext_0.21-4_arm64.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../24-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../25-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../26-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../27-python3-lib2to3_3.9.2-1_all.deb ... Unpacking python3-lib2to3 (3.9.2-1) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../28-python3-distutils_3.9.2-1_all.deb ... Unpacking python3-distutils (3.9.2-1) ... Selecting previously unselected package dh-python. Preparing to unpack .../29-dh-python_4.20201102+nmu1_all.deb ... Unpacking dh-python (4.20201102+nmu1) ... Selecting previously unselected package libblas3:arm64. Preparing to unpack .../30-libblas3_3.9.0-3_arm64.deb ... Unpacking libblas3:arm64 (3.9.0-3) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../31-libbrotli1_1.0.9-2+b2_arm64.deb ... Unpacking libbrotli1:arm64 (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../32-libsasl2-modules-db_2.1.27+dfsg-2.1_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.27+dfsg-2.1) ... 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Unpacking libssh2-1:arm64 (1.9.0-2) ... Selecting previously unselected package libcurl3-gnutls:arm64. Preparing to unpack .../39-libcurl3-gnutls_7.74.0-1.3+b1_arm64.deb ... Unpacking libcurl3-gnutls:arm64 (7.74.0-1.3+b1) ... Selecting previously unselected package libdeflate0:arm64. Preparing to unpack .../40-libdeflate0_1.7-1_arm64.deb ... Unpacking libdeflate0:arm64 (1.7-1) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../41-libgfortran5_10.2.1-6_arm64.deb ... Unpacking libgfortran5:arm64 (10.2.1-6) ... Selecting previously unselected package libhts3:arm64. Preparing to unpack .../42-libhts3_1.11-4_arm64.deb ... Unpacking libhts3:arm64 (1.11-4) ... Selecting previously unselected package liblapack3:arm64. Preparing to unpack .../43-liblapack3_3.9.0-3_arm64.deb ... Unpacking liblapack3:arm64 (3.9.0-3) ... Selecting previously unselected package libncurses6:arm64. Preparing to unpack .../44-libncurses6_6.2+20201114-2_arm64.deb ... Unpacking libncurses6:arm64 (6.2+20201114-2) ... Selecting previously unselected package python3-all. Preparing to unpack .../45-python3-all_3.9.2-3_arm64.deb ... Unpacking python3-all (3.9.2-3) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../46-python3-pkg-resources_52.0.0-4_all.deb ... Unpacking python3-pkg-resources (52.0.0-4) ... Selecting previously unselected package python3-coverage. Preparing to unpack .../47-python3-coverage_5.1+dfsg.1-2+b2_arm64.deb ... Unpacking python3-coverage (5.1+dfsg.1-2+b2) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../48-python3-setuptools_52.0.0-4_all.deb ... Unpacking python3-setuptools (52.0.0-4) ... Selecting previously unselected package python3-six. Preparing to unpack .../49-python3-six_1.16.0-1_all.deb ... Unpacking python3-six (1.16.0-1) ... Selecting previously unselected package python3-pbr. Preparing to unpack .../50-python3-pbr_5.5.0-2_all.deb ... Unpacking python3-pbr (5.5.0-2) ... Selecting previously unselected package python3-mock. Preparing to unpack .../51-python3-mock_4.0.3-1_all.deb ... Unpacking python3-mock (4.0.3-1) ... Selecting previously unselected package python3-nose. Preparing to unpack .../52-python3-nose_1.3.7-7_all.deb ... Unpacking python3-nose (1.3.7-7) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../53-python3-numpy_1%3a1.19.5-1_arm64.deb ... Unpacking python3-numpy (1:1.19.5-1) ... Selecting previously unselected package samtools. Preparing to unpack .../54-samtools_1.11-1_arm64.deb ... Unpacking samtools (1.11-1) ... Selecting previously unselected package tabix. Preparing to unpack .../55-tabix_1.11-4_arm64.deb ... Unpacking tabix (1.11-4) ... Setting up media-types (4.0.0) ... Setting up libpipeline1:arm64 (1.5.3-1) ... Setting up libpsl5:arm64 (0.21.0-1.2) ... Setting up bsdextrautils (2.36.1-7) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:arm64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:arm64 (1.0.9-2+b2) ... Setting up libnghttp2-14:arm64 (1.43.0-1) ... Setting up libmagic1:arm64 (1:5.39-3) ... Setting up libdeflate0:arm64 (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libblas3:arm64 (3.9.0-3) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:arm64 (6.2+20201114-2) ... Setting up libsigsegv2:arm64 (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up libsasl2-2:arm64 (2.1.27+dfsg-2.1) ... Setting up libgfortran5:arm64 (10.2.1-6) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up libmpdec3:arm64 (2.5.1-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:arm64 (1.9.0-2) ... Setting up tabix (1.11-4) ... Setting up libelf1:arm64 (0.183-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:arm64 (2.9.10+dfsg-6.7) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up liblapack3:arm64 (3.9.0-3) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up libreadline8:arm64 (8.1-1) ... Setting up libldap-2.4-2:arm64 (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up libcurl3-gnutls:arm64 (7.74.0-1.3+b1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up libpython3.9-stdlib:arm64 (3.9.2-1) ... Setting up libpython3-stdlib:arm64 (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 libhts3:arm64 (1.11-4) ... 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 samtools (1.11-1) ... 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-six (1.16.0-1) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up python3-distutils (3.9.2-1) ... Setting up dh-python (4.20201102+nmu1) ... Setting up python3-setuptools (52.0.0-4) ... Setting up python3-pbr (5.5.0-2) ... Setting up python3-all (3.9.2-3) ... Setting up python3-coverage (5.1+dfsg.1-2+b2) ... Setting up python3-nose (1.3.7-7) ... Setting up python3-mock (4.0.3-1) ... Setting up python3-numpy (1:1.19.5-1) ... Processing triggers for libc-bin (2.31-13) ... 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/python-pyfaidx-0.5.9.2/ && 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 > ../python-pyfaidx_0.5.9.2-1_source.changes dpkg-buildpackage: info: source package python-pyfaidx dpkg-buildpackage: info: source version 0.5.9.2-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean LC_ALL=C.UTF-8 dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/python-pyfaidx-0.5.9.2' dh_auto_clean I: pybuild base:232: python3.9 setup.py clean running clean removing '/build/python-pyfaidx-0.5.9.2/.pybuild/cpython3_3.9_pyfaidx/build' (and everything under it) 'build/bdist.linux-arm64' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it rm -f .coverage rm -f tests/data/genes.fasta.gz rm -rf pyfaidx.egg-info make[1]: Leaving directory '/build/python-pyfaidx-0.5.9.2' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary LC_ALL=C.UTF-8 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 running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py build running build running build_py creating /build/python-pyfaidx-0.5.9.2/.pybuild/cpython3_3.9_pyfaidx/build/pyfaidx copying pyfaidx/cli.py -> /build/python-pyfaidx-0.5.9.2/.pybuild/cpython3_3.9_pyfaidx/build/pyfaidx copying pyfaidx/__init__.py -> /build/python-pyfaidx-0.5.9.2/.pybuild/cpython3_3.9_pyfaidx/build/pyfaidx debian/rules override_dh_auto_test make[1]: Entering directory '/build/python-pyfaidx-0.5.9.2' bgzip -c tests/data/genes.fasta > tests/data/genes.fasta.gz dh_auto_test -- --test --system=custom --test-args='set -e; \ {interpreter} -m "nose" --with-coverage --cover-package=pyfaidx' I: pybuild base:232: set -e; \ python3.9 -m "nose" --with-coverage --cover-package=pyfaidx Doctest: pyfaidx.Sequence.__eq__ ... ok Doctest: pyfaidx.Sequence.__getitem__ ... ok Doctest: pyfaidx.Sequence.__len__ ... ok Doctest: pyfaidx.Sequence.__neg__ ... ok Doctest: pyfaidx.Sequence.complement ... ok Doctest: pyfaidx.Sequence.fancy_name ... ok Doctest: pyfaidx.Sequence.gc ... ok Doctest: pyfaidx.Sequence.long_name ... ok Doctest: pyfaidx.Sequence.orientation ... ok Doctest: pyfaidx.Sequence.reverse ... ok Doctest: pyfaidx.check_bad_lines ... ok Doctest: pyfaidx.complement ... ok Doctest: pyfaidx.get_valid_filename ... ok Check for pathogenic FastaRecord.long_name behavior in mdshw5/pyfaidx#62 ... ok Test that deflines extracted using FastaRecord.long_name are ... ok Test the __array_interface__ ... ok Test that the sequence is always returned in ... ok test_unpadded_length (test_FastaRecord.TestFastaRecord) ... ok test_mutate_fasta_to_N (test_FastaRecord.TestMutableFastaRecord) ... ok test_mutate_fasta_to_same (test_FastaRecord.TestMutableFastaRecord) ... ok test_mutate_immutable_fasta (test_FastaRecord.TestMutableFastaRecord) ... ok test_mutate_single_position (test_FastaRecord.TestMutableFastaRecord) ... ok test_mutate_too_long (test_FastaRecord.TestMutableFastaRecord) ... ok test_fetch_whole_fasta (test_FastaRecord_iter.TestFastaRecordIter) ... ok test_line_len (test_FastaRecord_iter.TestFastaRecordIter) ... ok test_reverse_iter (test_FastaRecord_iter.TestFastaRecordIter) ... ok test_all_diff (test_FastaVariant.TestFastaVariant) ... SKIP test_all_pos (test_FastaVariant.TestFastaVariant) ... SKIP test_fetch_het_variant (test_FastaVariant.TestFastaVariant) ... SKIP test_fetch_hom_variant (test_FastaVariant.TestFastaVariant) ... SKIP test_fetch_variant (test_FastaVariant.TestFastaVariant) ... SKIP seq[0:0] should return a blank string mdshw5/pyfaidx#53 ... SKIP Fetch past the end of a gene entry ... SKIP Fetch past the end of a gene entry ... SKIP test_fetch_end (test_Fasta_bgzip.TestFastaBGZF) ... SKIP Fetch a key that does not exist ... SKIP test_fetch_middle (test_Fasta_bgzip.TestFastaBGZF) ... SKIP Fetch starting with a negative coordinate ... SKIP Fetch past the end of a gene entry ... SKIP Fetch starting with a negative coordinate ... SKIP test_fetch_whole_entry (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_fetch_whole_fasta (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_integer_index (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_integer_slice (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_issue_74_consistency (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_issue_74_end_faidx (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_issue_74_end_fasta (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_issue_74_start (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_issue_79_fix (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_issue_79_fix_negate (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_issue_79_fix_one_based_false (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_issue_79_fix_one_based_false_negate (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_line_len (test_Fasta_bgzip.TestFastaBGZF) ... SKIP Test that deflines extracted using FastaRecord.long_name are ... SKIP test_mutable_bgzf (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_rev (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_slice_from_beginning (test_Fasta_bgzip.TestFastaBGZF) ... SKIP test_slice_from_end (test_Fasta_bgzip.TestFastaBGZF) ... SKIP Samtools BGZF index should be identical to pyfaidx BGZF index ... SKIP test_integer_index (test_Fasta_integer_index.TestFastaIntIndex) ... ok test_integer_slice (test_Fasta_integer_index.TestFastaIntIndex) ... ok Test that each read of a sequence range is atomic. ... ok Combine the above two tests to check that interleaved reads and writes don't conflict. ... ok Test that each write of a sequence range is atomic. ... ok test_fetch_whole_entry (test_bio_seqio.TestBioSeqIO) ... SKIP test_revcomp_whole_entry (test_bio_seqio.TestBioSeqIO) ... SKIP test_slice_whole_entry (test_bio_seqio.TestBioSeqIO) ... SKIP Test that --auto-strand produces the same output as --reverse --complement ... ok test_fetch_error (test_faidx.TestCLI) ... ok test_fetch_whole_file (test_faidx.TestCLI) ... ok test_key_warning (test_faidx.TestCLI) ... warning: foo not found in file ok test_not_regexp (test_faidx.TestCLI) ... ok test_not_regexp_multi (test_faidx.TestCLI) ... ok test_regexp (test_faidx.TestCLI) ... ok test_short_line_lengths (test_faidx.TestCLI) ... ok test_split_entry (test_faidx.TestCLI) ... ok seq[0:0] should return a blank string mdshw5/pyfaidx#53 ... ok Fetch past the end of a gene entry ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_fetch_end ... ok Fetch a key that does not exist ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_fetch_middle ... ok Fetch starting with a negative coordinate ... ok Fetch past the end of a gene entry ... ok Fetch starting with a negative coordinate ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_fetch_whole_entry ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_issue_74_consistency ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_issue_74_end_faidx ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_issue_74_end_fasta ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_issue_74_start ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_issue_79_fix ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_issue_79_fix_negate ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_issue_79_fix_one_based_false ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_issue_79_fix_one_based_false_negate ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_rev ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_slice_from_beginning ... ok test_feature_bounds_check.TestFeatureBoundsCheck.test_slice_from_end ... ok test_feature_bounds_check.TestFeatureZeroLength.test_fetch_zero_length ... ok test_feature_bounds_check.TestFeatureZeroLength.test_index_zero_length ... ok test_as_raw_zero_length_subsequence (test_feature_bounds_check.TestZeroLengthSequenceSubRange) ... ok test_zero_length_subsequence (test_feature_bounds_check.TestZeroLengthSequenceSubRange) ... ok Fetch past the end of a gene entry ... ok test_build (test_feature_indexing.TestIndexing) ... ok test_build_issue_111 (test_feature_indexing.TestIndexing) ... ok test_build_issue_141 (test_feature_indexing.TestIndexing) ... ok Ensure that blank lines between entries are treated in the ... ok Ensure that the fasta file is closed if construction of the 'Faidx' file ... ok Ensure that the fasta file is closed if construction of the 'Faidx' file ... ok Ensure that index file is not built when build_index=False. See mdshw5/pyfaidx#134. ... ok Ensure that an exception is raised when a file contains no deflines. See mdshw5/pyfaidx#144. ... ok test_order (test_feature_indexing.TestIndexing) ... ok Ensure that index files written with write_fai() can be read back ... ok This test ensures that the index is regenerated when the FASTA ... ok Makes all full-length lines blank and checks that error is raised ... ok Makes all full-length lines long and checks that error is raised ... ok Makes all full-length lines short and checks that error is raised ... ok test_duplicated_keys (test_feature_key_function.TestFeatureKeyFunction) ... ok test_duplicated_keys_longest (test_feature_key_function.TestFeatureKeyFunction) ... ok test_duplicated_keys_shortest (test_feature_key_function.TestFeatureKeyFunction) ... ok test_key_function_by_dictionary_get_key (test_feature_key_function.TestFeatureKeyFunction) ... ok test_key_function_by_fetch (test_feature_key_function.TestFeatureKeyFunction) ... ok test_keys (test_feature_key_function.TestFeatureKeyFunction) ... ok test_bounds_error (test_feature_read_ahead_buffer.TestFeatureBuffer) ... ok test_buffer_exceed (test_feature_read_ahead_buffer.TestFeatureBuffer) ... ok test_buffer_false (test_feature_read_ahead_buffer.TestFeatureBuffer) ... ok test_buffer_true (test_feature_read_ahead_buffer.TestFeatureBuffer) ... ok test_buffer_value (test_feature_read_ahead_buffer.TestFeatureBuffer) ... ok test_as_raw_false (test_feature_sequence_as_raw.TestFeatureSequenceAsRaw) ... ok test_as_raw_false_error (test_feature_sequence_as_raw.TestFeatureSequenceAsRaw) ... ok test_as_raw_true (test_feature_sequence_as_raw.TestFeatureSequenceAsRaw) ... ok test_as_raw_true_error (test_feature_sequence_as_raw.TestFeatureSequenceAsRaw) ... ok test_as_raw_type_when_blen_lt_0 (test_feature_sequence_as_raw.TestFeatureSequenceAsRaw) ... ok Check get_seq with rc argument ... ok Fetch sequence by blocks ... ok test_key_function_by_dictionary_get_key (test_feature_split_char.TestFeatureSplitChar) ... ok test_key_function_by_fetch (test_feature_split_char.TestFeatureSplitChar) ... ok test_keys (test_feature_split_char.TestFeatureSplitChar) ... ok test_stop (test_feature_split_char.TestFeatureSplitChar) ... ok test_sequence_class.test_negate ... ok test_sequence_class.test_negate_metadata ... ok test_sequence_class.test_seq_invalid ... ok test_sequence_class.test_integer_index ... ok test_sequence_class.test_slice_index ... ok test_sequence_class.test_comp_invalid ... ok test_sequence_class.test_check_coordinates ... ok test_sequence_class.test_comp_valid ... ok test_sequence_class.test_comp_empty ... ok Name Stmts Miss Cover Missing --------------------------------------------------- pyfaidx/__init__.py 730 149 80% 24-25, 169, 174, 303-305, 347-358, 361, 371-378, 388-392, 400, 404, 429-430, 455, 458, 494, 496, 502, 556-557, 601, 677-680, 726, 739, 741, 761, 776-787, 793, 818, 825, 865, 908-919, 942, 954, 958, 960, 962, 967, 1018, 1026-1027, 1030, 1037, 1068, 1078, 1081, 1084, 1106-1145, 1148, 1157-1177, 1198-1200, 1221-1226, 1234-1235, 1273, 1281, 1302-1303 pyfaidx/cli.py 255 128 50% 29-34, 45-48, 76, 78, 89-104, 118-138, 179-180, 184, 188, 190, 193, 200-205, 209-215, 229, 232, 238-240, 249-251, 257, 266-279, 283, 287-288, 291-294, 309-316, 322-329, 335-343, 349-359, 362 --------------------------------------------------- TOTAL 985 277 72% ---------------------------------------------------------------------- Ran 146 tests in 49.637s OK (SKIP=36) make[1]: Leaving directory '/build/python-pyfaidx-0.5.9.2' 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/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx running install running build running build_py running install_lib creating /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx creating /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr creating /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/lib creating /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/lib/python3.9 creating /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/lib/python3.9/dist-packages creating /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/lib/python3.9/dist-packages/pyfaidx copying /build/python-pyfaidx-0.5.9.2/.pybuild/cpython3_3.9_pyfaidx/build/pyfaidx/__init__.py -> /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/lib/python3.9/dist-packages/pyfaidx copying /build/python-pyfaidx-0.5.9.2/.pybuild/cpython3_3.9_pyfaidx/build/pyfaidx/cli.py -> /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/lib/python3.9/dist-packages/pyfaidx byte-compiling /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/lib/python3.9/dist-packages/pyfaidx/__init__.py to __init__.cpython-39.pyc byte-compiling /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/lib/python3.9/dist-packages/pyfaidx/cli.py to cli.cpython-39.pyc running install_egg_info running egg_info creating pyfaidx.egg-info writing pyfaidx.egg-info/PKG-INFO writing dependency_links to pyfaidx.egg-info/dependency_links.txt writing entry points to pyfaidx.egg-info/entry_points.txt writing requirements to pyfaidx.egg-info/requires.txt writing top-level names to pyfaidx.egg-info/top_level.txt writing manifest file 'pyfaidx.egg-info/SOURCES.txt' reading manifest file 'pyfaidx.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'docs/build/html/*' writing manifest file 'pyfaidx.egg-info/SOURCES.txt' Copying pyfaidx.egg-info to /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/lib/python3.9/dist-packages/pyfaidx-0.5.9.2.egg-info Skipping SOURCES.txt running install_scripts Installing faidx script to /build/python-pyfaidx-0.5.9.2/debian/python3-pyfaidx/usr/bin dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installexamples -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 debian/rules override_dh_compress make[1]: Entering directory '/build/python-pyfaidx-0.5.9.2' dh_compress --exclude=gz.tbi make[1]: Leaving directory '/build/python-pyfaidx-0.5.9.2' 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 'python3-pyfaidx' in '../python3-pyfaidx_0.5.9.2-1_all.deb'. dpkg-deb: building package 'python-pyfaidx-examples' in '../python-pyfaidx-examples_0.5.9.2-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../python-pyfaidx_0.5.9.2-1_arm64.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/5197 and its subdirectories I: Current time: Wed Aug 31 17:57:08 -12 2022 I: pbuilder-time-stamp: 1662011828 Thu Jul 29 23:34:10 UTC 2021 I: 1st build successful. Starting 2nd build on remote node codethink14-arm64.debian.net. Thu Jul 29 23:34:10 UTC 2021 I: Preparing to do remote build '2' on codethink14-arm64.debian.net. Thu Jul 29 23:35:55 UTC 2021 I: Deleting $TMPDIR on codethink14-arm64.debian.net. Thu Jul 29 23:35:56 UTC 2021 I: python-pyfaidx_0.5.9.2-1_arm64.changes: Format: 1.8 Date: Sat, 12 Dec 2020 18:30:23 +0530 Source: python-pyfaidx Binary: python-pyfaidx-examples python3-pyfaidx Architecture: all Version: 0.5.9.2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: python-pyfaidx-examples - example data for efficient random access to fasta subsequences fo python3-pyfaidx - efficient random access to fasta subsequences for Python 3 Changes: python-pyfaidx (0.5.9.2-1) unstable; urgency=medium . * Team upload. * New upstream version * Standards-Version: 4.5.1 (routine-update) Checksums-Sha1: acf807ef289a26427dcd7d46a6938367bdc4d2cc 45180 python-pyfaidx-examples_0.5.9.2-1_all.deb ae7654beacb74e5b76fcd9c6f10470d2b2d797ba 6354 python-pyfaidx_0.5.9.2-1_arm64.buildinfo 214385712e5c312ecc6c79a1414ae0d3557a75c5 26424 python3-pyfaidx_0.5.9.2-1_all.deb Checksums-Sha256: 9beb9d91077f079677b2421580b8eff126077c54c94eaa38dc4ffe8d1ed00658 45180 python-pyfaidx-examples_0.5.9.2-1_all.deb 0e3c77b493cf7d56564da508561a1ad16c6a054026e02ca306c6dd8ac8fc5e5f 6354 python-pyfaidx_0.5.9.2-1_arm64.buildinfo c01fd84bebd66ef72b9f18cdcc41e54eb6a9aaffc5b0dfa8d1e07d0b68371ada 26424 python3-pyfaidx_0.5.9.2-1_all.deb Files: 740ae0d87d2b1209f30d152c01a1cde5 45180 python optional python-pyfaidx-examples_0.5.9.2-1_all.deb 29ee22c6e05a5f50099c886c46648405 6354 python optional python-pyfaidx_0.5.9.2-1_arm64.buildinfo 17820a83a8d5cd93615e1416fe8295eb 26424 python optional python3-pyfaidx_0.5.9.2-1_all.deb Thu Jul 29 23:35:57 UTC 2021 I: diffoscope 177 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.68nNbzdgqf/python-pyfaidx_0.5.9.2-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.68nNbzdgqf/python-pyfaidx_0.5.9.2-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.68nNbzdgqf/python-pyfaidx_0.5.9.2-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.68nNbzdgqf/b1/python-pyfaidx_0.5.9.2-1_arm64.changes /srv/reproducible-results/rbuild-debian/tmp.68nNbzdgqf/b2/python-pyfaidx_0.5.9.2-1_arm64.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: 0.249s) 0.248s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.016s) 0.016s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Thu Jul 29 23:35:59 UTC 2021 I: diffoscope 177 found no differences in the changes files, and a .buildinfo file also exists. Thu Jul 29 23:35:59 UTC 2021 I: python-pyfaidx from bullseye built successfully and reproducibly on arm64. Thu Jul 29 23:36:00 UTC 2021 I: Submitting .buildinfo files to external archives: Thu Jul 29 23:36:00 UTC 2021 I: Submitting 8.0K b1/python-pyfaidx_0.5.9.2-1_arm64.buildinfo.asc Thu Jul 29 23:36:01 UTC 2021 I: Submitting 8.0K b2/python-pyfaidx_0.5.9.2-1_arm64.buildinfo.asc Thu Jul 29 23:36:02 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Jul 29 23:36:02 UTC 2021 I: Done submitting .buildinfo files. Thu Jul 29 23:36:02 UTC 2021 I: Removing signed python-pyfaidx_0.5.9.2-1_arm64.buildinfo.asc files: removed './b1/python-pyfaidx_0.5.9.2-1_arm64.buildinfo.asc' removed './b2/python-pyfaidx_0.5.9.2-1_arm64.buildinfo.asc'