Sun Jan 14 11:22:45 UTC 2024 I: starting to build pyfastx/bookworm/armhf on jenkins on '2024-01-14 11:22' Sun Jan 14 11:22:45 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_7/621/console.log Sun Jan 14 11:22:45 UTC 2024 I: Downloading source for bookworm/pyfastx=0.8.4-2 --2024-01-14 11:22:45-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/pyfastx/pyfastx_0.8.4-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2259 (2.2K) [text/prs.lines.tag] Saving to: ‘pyfastx_0.8.4-2.dsc’ 0K .. 100% 2.08M=0.001s 2024-01-14 11:22:45 (2.08 MB/s) - ‘pyfastx_0.8.4-2.dsc’ saved [2259/2259] Sun Jan 14 11:22:46 UTC 2024 I: pyfastx_0.8.4-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: pyfastx Binary: pyfastx, python3-pyfastx Architecture: any Version: 0.8.4-2 Maintainer: Debian Med Packaging Team Uploaders: Étienne Mollier Homepage: https://github.com/lmdu/pyfastx.git Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/pyfastx Vcs-Git: https://salsa.debian.org/med-team/pyfastx.git Testsuite: autopkgtest Testsuite-Triggers: python3-all Build-Depends: debhelper-compat (= 13), dh-python, libsqlite3-dev, python3-all-dev, python3-pyfaidx , python3-setuptools Package-List: pyfastx deb science optional arch=any python3-pyfastx deb python optional arch=any Checksums-Sha1: 4d6622673ecae2c2f29b7d063b009f42c3510bb0 299324 pyfastx_0.8.4.orig.tar.xz 300b83bbb586a2d45cad0aa27712af2f6c201263 6548 pyfastx_0.8.4-2.debian.tar.xz Checksums-Sha256: 08e7d04055efbff3df722e2f4753260cc90a5a84c7ed4579bd782816d312a168 299324 pyfastx_0.8.4.orig.tar.xz 540b61468a8d0de87334e5ae7f60c8861f52fcc8226f2289fa064b03069a9819 6548 pyfastx_0.8.4-2.debian.tar.xz Files: 490ab0021895a9ccb3bc2ed6bdef5ca0 299324 pyfastx_0.8.4.orig.tar.xz 31b9bc35985c2796204b6dfec52439ad 6548 pyfastx_0.8.4-2.debian.tar.xz Dgit: e7b2d0fe8775461222b36b4fb5130d2aaab67857 debian archive/debian/0.8.4-2 https://git.dgit.debian.org/pyfastx -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmORAyoUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdouRQ/+JHWWIfe7VhEA9/q7yFKK02NrmJon N780Op+LahfAUV8+6ZzUYb+P3JN2IsnkUl3/ytSeX4YBJlbL0Fa+8vS5nfu6hjS2 Fk8P32i2o0ByODdIoSeIRluSf49iz9ewctzNcMBEeOqdvjlXPq0I7Mk82DEWDrgH 2xgh3eDHY2d7/6a9IOp79TOapEllXl4reKZu9cC5bk9GyFXeyi5TxNS9VmN/Cqas 1cq43YbgMYjR1XwCdQG18ObHyvQCKc8Bf72Gp+zAusWybH+LdPxaEu0D/5J02ea1 5JmHjji1w1oMsHFiq41L/hVe5kFGYQCxHzXxQl4Dtrw53V5ZPjzgUb5T2GPbLxTN PHzGMhhbi/Q3XZGKHhShxP+VS7Qn02Mp1l6xxOj62k0dHaHHMgC8itseUWId1xlV Wdx4+Yq6PM1zqnMAKePuryVCN/NxhpM+PPLUWhK0o3nhZ/FXeEFnsgipgQCy4g5H BMOAoLHk+O5bN94BqK/VjqgCr61Klap3fet+Uu+uvFHljpI1+XRC+pijICeAAR2b dvaVS4IPOoTNqDXDv1zp7tsAvXFKygzi5Yn/omURtE9eDge744i6SuJWtiBs7ttU VpUy8MajdigCmi9OfXK4c10RpG3enVF22EmzjC6oX1s0lLDEZesHp0Mdm7ocgpHd yDCU+owem5ncpKY= =kwPC -----END PGP SIGNATURE----- Sun Jan 14 11:22:46 UTC 2024 I: Checking whether the package is not for us Sun Jan 14 11:22:46 UTC 2024 I: Starting 1st build on remote node virt64b-armhf-rb.debian.net. Sun Jan 14 11:22:46 UTC 2024 I: Preparing to do remote build '1' on virt64b-armhf-rb.debian.net. Sun Jan 14 11:25:01 UTC 2024 I: Deleting $TMPDIR on virt64b-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Jan 13 23:22:52 -12 2024 I: pbuilder-time-stamp: 1705231372 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. 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 [pyfastx_0.8.4-2.dsc] I: copying [./pyfastx_0.8.4.orig.tar.xz] I: copying [./pyfastx_0.8.4-2.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Dec 7 21:18:34 2022 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./pyfastx_0.8.4-2.dsc: no acceptable signature found dpkg-source: info: extracting pyfastx in pyfastx-0.8.4 dpkg-source: info: unpacking pyfastx_0.8.4.orig.tar.xz dpkg-source: info: unpacking pyfastx_0.8.4-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 0001-t-test_sequence.py.patch dpkg-source: info: applying 0002-src-index.c-fix-typo-caught-by-lintian.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/22627/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='0ab4f2d1b2e54cf68868931271dbcfe1' 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='22627' 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/r-b-build.AUXYRHH9/pbuilderrc_rgg8 --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.AUXYRHH9/b1 --logfile b1/build.log pyfastx_0.8.4-2.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt64b 6.1.0-17-arm64 #1 SMP Debian 6.1.69-1 (2023-12-30) aarch64 GNU/Linux I: ls -l /bin total 4964 -rwxr-xr-x 1 root root 838488 Apr 23 2023 bash -rwxr-xr-x 3 root root 67144 Sep 19 2022 bunzip2 -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzip2 -rwxr-xr-x 1 root root 67112 Sep 19 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore -rwxr-xr-x 1 root root 67632 Sep 20 2022 cat -rwxr-xr-x 1 root root 67676 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67644 Sep 20 2022 chmod -rwxr-xr-x 1 root root 67684 Sep 20 2022 chown -rwxr-xr-x 1 root root 133532 Sep 20 2022 cp -rwxr-xr-x 1 root root 132868 Jan 5 2023 dash -rwxr-xr-x 1 root root 133220 Sep 20 2022 date -rwxr-xr-x 1 root root 67732 Sep 20 2022 dd -rwxr-xr-x 1 root root 68104 Sep 20 2022 df -rwxr-xr-x 1 root root 133632 Sep 20 2022 dir -rwxr-xr-x 1 root root 59128 Mar 23 2023 dmesg lrwxrwxrwx 1 root root 8 Dec 19 2022 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 2022 domainname -> hostname -rwxr-xr-x 1 root root 67560 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep -rwxr-xr-x 1 root root 67548 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 55748 Mar 23 2023 findmnt -rwsr-xr-x 1 root root 26208 Mar 23 2023 fusermount -rwxr-xr-x 1 root root 128608 Jan 24 2023 grep -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe -rwxr-xr-x 1 root root 64220 Apr 10 2022 gzip -rwxr-xr-x 1 root root 67032 Dec 19 2022 hostname -rwxr-xr-x 1 root root 67720 Sep 20 2022 ln -rwxr-xr-x 1 root root 35132 Mar 23 2023 login -rwxr-xr-x 1 root root 133632 Sep 20 2022 ls -rwxr-xr-x 1 root root 136808 Mar 23 2023 lsblk -rwxr-xr-x 1 root root 67800 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 67764 Sep 20 2022 mknod -rwxr-xr-x 1 root root 67596 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 38504 Mar 23 2023 more -rwsr-xr-x 1 root root 38496 Mar 23 2023 mount -rwxr-xr-x 1 root root 9824 Mar 23 2023 mountpoint -rwxr-xr-x 1 root root 133532 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 2022 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 3 2023 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 67608 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 2023 rbash -> bash -rwxr-xr-x 1 root root 67600 Sep 20 2022 readlink -rwxr-xr-x 1 root root 67672 Sep 20 2022 rm -rwxr-xr-x 1 root root 67600 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 14152 Jul 28 23:46 run-parts -rwxr-xr-x 1 root root 133372 Jan 5 2023 sed lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash -rwxr-xr-x 1 root root 67584 Sep 20 2022 sleep -rwxr-xr-x 1 root root 67644 Sep 20 2022 stty -rwsr-xr-x 1 root root 50800 Mar 23 2023 su -rwxr-xr-x 1 root root 67584 Sep 20 2022 sync -rwxr-xr-x 1 root root 336764 Apr 6 2023 tar -rwxr-xr-x 1 root root 9800 Jul 28 23:46 tempfile -rwxr-xr-x 1 root root 133224 Sep 20 2022 touch -rwxr-xr-x 1 root root 67548 Sep 20 2022 true -rwxr-xr-x 1 root root 9768 Mar 23 2023 ulockmgr_server -rwsr-xr-x 1 root root 22108 Mar 23 2023 umount -rwxr-xr-x 1 root root 67572 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 133632 Sep 20 2022 vdir -rwxr-xr-x 1 root root 42608 Mar 23 2023 wdctl lrwxrwxrwx 1 root root 8 Dec 19 2022 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew I: user script /srv/workspace/pbuilder/22627/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: armhf 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, libsqlite3-dev, python3-all-dev, python3-pyfaidx, python3-setuptools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 17881 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 libsqlite3-dev; however: Package libsqlite3-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-pyfaidx; however: Package python3-pyfaidx is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools 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} libdebhelper-perl{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libicu72{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8{a} libsqlite3-dev{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-all-dev{a} python3-dev{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-pkg-resources{a} python3-pyfaidx{a} python3-setuptools{a} python3-six{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} readline-common{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl javascript-common libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx python3-biopython wget 0 packages upgraded, 62 newly installed, 0 to remove and 0 not upgraded. Need to get 32.8 MB of archives. After unpacking 119 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main armhf libpython3.11-minimal armhf 3.11.2-6 [798 kB] Get: 2 http://deb.debian.org/debian bookworm/main armhf libexpat1 armhf 2.5.0-1 [79.9 kB] Get: 3 http://deb.debian.org/debian bookworm/main armhf python3.11-minimal armhf 3.11.2-6 [1714 kB] Get: 4 http://deb.debian.org/debian bookworm/main armhf python3-minimal armhf 3.11.2-1+b1 [26.3 kB] Get: 5 http://deb.debian.org/debian bookworm/main armhf media-types all 10.0.0 [26.1 kB] Get: 6 http://deb.debian.org/debian bookworm/main armhf readline-common all 8.2-1.3 [69.0 kB] Get: 7 http://deb.debian.org/debian bookworm/main armhf libreadline8 armhf 8.2-1.3 [144 kB] Get: 8 http://deb.debian.org/debian bookworm/main armhf libpython3.11-stdlib armhf 3.11.2-6 [1678 kB] Get: 9 http://deb.debian.org/debian bookworm/main armhf python3.11 armhf 3.11.2-6 [572 kB] Get: 10 http://deb.debian.org/debian bookworm/main armhf libpython3-stdlib armhf 3.11.2-1+b1 [9296 B] Get: 11 http://deb.debian.org/debian bookworm/main armhf python3 armhf 3.11.2-1+b1 [26.3 kB] Get: 12 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 13 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB] Get: 14 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB] Get: 15 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB] Get: 16 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB] Get: 17 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 18 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB] Get: 19 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB] Get: 20 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB] Get: 21 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB] Get: 22 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB] Get: 23 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB] Get: 24 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 25 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 26 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB] Get: 27 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB] Get: 28 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB] Get: 29 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB] Get: 30 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 31 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B] Get: 32 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 33 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 34 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB] Get: 35 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB] Get: 36 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB] Get: 37 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.3~deb12u1 [591 kB] Get: 38 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB] Get: 39 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 40 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 41 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 42 http://deb.debian.org/debian bookworm/main armhf python3-lib2to3 all 3.11.2-3 [76.3 kB] Get: 43 http://deb.debian.org/debian bookworm/main armhf python3-distutils all 3.11.2-3 [131 kB] Get: 44 http://deb.debian.org/debian bookworm/main armhf dh-python all 5.20230130+deb12u1 [104 kB] Get: 45 http://deb.debian.org/debian bookworm/main armhf libexpat1-dev armhf 2.5.0-1 [134 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 47 http://deb.debian.org/debian bookworm/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf libpython3.11 armhf 3.11.2-6 [1710 kB] Get: 50 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] Get: 51 http://deb.debian.org/debian bookworm/main armhf libpython3.11-dev armhf 3.11.2-6 [3518 kB] Get: 52 http://deb.debian.org/debian bookworm/main armhf libpython3-dev armhf 3.11.2-1+b1 [9556 B] Get: 53 http://deb.debian.org/debian bookworm/main armhf libpython3-all-dev armhf 3.11.2-1+b1 [1068 B] Get: 54 http://deb.debian.org/debian bookworm/main armhf libsqlite3-dev armhf 3.40.1-2 [926 kB] Get: 55 http://deb.debian.org/debian bookworm/main armhf python3-all armhf 3.11.2-1+b1 [1060 B] Get: 56 http://deb.debian.org/debian bookworm/main armhf python3.11-dev armhf 3.11.2-6 [615 kB] Get: 57 http://deb.debian.org/debian bookworm/main armhf python3-dev armhf 3.11.2-1+b1 [26.2 kB] Get: 58 http://deb.debian.org/debian bookworm/main armhf python3-all-dev armhf 3.11.2-1+b1 [1076 B] Get: 59 http://deb.debian.org/debian bookworm/main armhf python3-pkg-resources all 66.1.1-1 [296 kB] Get: 60 http://deb.debian.org/debian bookworm/main armhf python3-six all 1.16.0-4 [17.5 kB] Get: 61 http://deb.debian.org/debian bookworm/main armhf python3-pyfaidx all 0.7.1-2 [28.0 kB] Get: 62 http://deb.debian.org/debian bookworm/main armhf python3-setuptools all 66.1.1-1 [521 kB] Fetched 32.8 MB in 4s (8457 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:armhf. (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 ... 17881 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.2-6_armhf.deb ... Unpacking libpython3.11-minimal:armhf (3.11.2-6) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.5.0-1_armhf.deb ... Unpacking libexpat1:armhf (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_armhf.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:armhf (3.11.2-6) ... Setting up libexpat1:armhf (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... 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 ... 18197 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_armhf.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package readline-common. Preparing to unpack .../2-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:armhf. Preparing to unpack .../3-libreadline8_8.2-1.3_armhf.deb ... Unpacking libreadline8:armhf (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:armhf. Preparing to unpack .../4-libpython3.11-stdlib_3.11.2-6_armhf.deb ... Unpacking libpython3.11-stdlib:armhf (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../5-python3.11_3.11.2-6_armhf.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../6-libpython3-stdlib_3.11.2-1+b1_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... 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 ... 18631 files and directories currently installed.) Preparing to unpack .../00-python3_3.11.2-1+b1_armhf.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.44-3_armhf.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../03-libmagic1_1%3a5.44-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.44-3_armhf.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-12_armhf.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../06-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.22.4-10_armhf.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.38.1-5+b1_armhf.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../09-libpipeline1_1.5.7-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.11.2-2_armhf.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-3_armhf.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../20-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../21-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../22-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:armhf. Preparing to unpack .../23-libelf1_0.188-2.1_armhf.deb ... Unpacking libelf1:armhf (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.15-1_armhf.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../25-libicu72_72.1-3_armhf.deb ... Unpacking libicu72:armhf (72.1-3) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../26-libxml2_2.9.14+dfsg-1.3~deb12u1_armhf.deb ... Unpacking libxml2:armhf (2.9.14+dfsg-1.3~deb12u1) ... Selecting previously unselected package gettext. Preparing to unpack .../27-gettext_0.21-12_armhf.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../31-python3-lib2to3_3.11.2-3_all.deb ... Unpacking python3-lib2to3 (3.11.2-3) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../32-python3-distutils_3.11.2-3_all.deb ... Unpacking python3-distutils (3.11.2-3) ... Selecting previously unselected package dh-python. Preparing to unpack .../33-dh-python_5.20230130+deb12u1_all.deb ... Unpacking dh-python (5.20230130+deb12u1) ... Selecting previously unselected package libexpat1-dev:armhf. Preparing to unpack .../34-libexpat1-dev_2.5.0-1_armhf.deb ... Unpacking libexpat1-dev:armhf (2.5.0-1) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../35-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Selecting previously unselected package libjs-underscore. Preparing to unpack .../36-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Selecting previously unselected package libjs-sphinxdoc. Preparing to unpack .../37-libjs-sphinxdoc_5.3.0-4_all.deb ... Unpacking libjs-sphinxdoc (5.3.0-4) ... Selecting previously unselected package libpython3.11:armhf. Preparing to unpack .../38-libpython3.11_3.11.2-6_armhf.deb ... Unpacking libpython3.11:armhf (3.11.2-6) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../39-zlib1g-dev_1%3a1.2.13.dfsg-1_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Selecting previously unselected package libpython3.11-dev:armhf. Preparing to unpack .../40-libpython3.11-dev_3.11.2-6_armhf.deb ... Unpacking libpython3.11-dev:armhf (3.11.2-6) ... Selecting previously unselected package libpython3-dev:armhf. Preparing to unpack .../41-libpython3-dev_3.11.2-1+b1_armhf.deb ... Unpacking libpython3-dev:armhf (3.11.2-1+b1) ... Selecting previously unselected package libpython3-all-dev:armhf. Preparing to unpack .../42-libpython3-all-dev_3.11.2-1+b1_armhf.deb ... Unpacking libpython3-all-dev:armhf (3.11.2-1+b1) ... Selecting previously unselected package libsqlite3-dev:armhf. Preparing to unpack .../43-libsqlite3-dev_3.40.1-2_armhf.deb ... Unpacking libsqlite3-dev:armhf (3.40.1-2) ... Selecting previously unselected package python3-all. Preparing to unpack .../44-python3-all_3.11.2-1+b1_armhf.deb ... Unpacking python3-all (3.11.2-1+b1) ... Selecting previously unselected package python3.11-dev. Preparing to unpack .../45-python3.11-dev_3.11.2-6_armhf.deb ... Unpacking python3.11-dev (3.11.2-6) ... Selecting previously unselected package python3-dev. Preparing to unpack .../46-python3-dev_3.11.2-1+b1_armhf.deb ... Unpacking python3-dev (3.11.2-1+b1) ... Selecting previously unselected package python3-all-dev. Preparing to unpack .../47-python3-all-dev_3.11.2-1+b1_armhf.deb ... Unpacking python3-all-dev (3.11.2-1+b1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../48-python3-pkg-resources_66.1.1-1_all.deb ... Unpacking python3-pkg-resources (66.1.1-1) ... Selecting previously unselected package python3-six. Preparing to unpack .../49-python3-six_1.16.0-4_all.deb ... Unpacking python3-six (1.16.0-4) ... Selecting previously unselected package python3-pyfaidx. Preparing to unpack .../50-python3-pyfaidx_0.7.1-2_all.deb ... Unpacking python3-pyfaidx (0.7.1-2) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../51-python3-setuptools_66.1.1-1_all.deb ... Unpacking python3-setuptools (66.1.1-1) ... Setting up media-types (10.0.0) ... Setting up libpipeline1:armhf (1.5.7-1) ... Setting up libicu72:armhf (72.1-3) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libmagic1:armhf (1:5.44-3) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up autotools-dev (20220109.1) ... Setting up libexpat1-dev:armhf (2.5.0-1) ... Setting up libsqlite3-dev:armhf (3.40.1-2) ... Setting up autopoint (0.21-12) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libelf1:armhf (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:armhf (2.9.14+dfsg-1.3~deb12u1) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up libreadline8:armhf (8.2-1.3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:armhf (3.11.2-6) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython3-stdlib:armhf (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6) ... Setting up libpython3.11:armhf (3.11.2-6) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up python3-six (1.16.0-4) ... Setting up libpython3.11-dev:armhf (3.11.2-6) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up dh-python (5.20230130+deb12u1) ... Setting up python3-pyfaidx (0.7.1-2) ... Setting up libpython3-dev:armhf (3.11.2-1+b1) ... Setting up python3-setuptools (66.1.1-1) ... Setting up python3.11-dev (3.11.2-6) ... Setting up python3-all (3.11.2-1+b1) ... Setting up libpython3-all-dev:armhf (3.11.2-1+b1) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up python3-all-dev (3.11.2-1+b1) ... Processing triggers for libc-bin (2.36-9+deb12u3) ... 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/reproducible-path/pyfastx-0.8.4/ && 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 > ../pyfastx_0.8.4-2_source.changes dpkg-buildpackage: info: source package pyfastx dpkg-buildpackage: info: source version 0.8.4-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean --buildsystem pybuild --with python3 dh_auto_clean -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py clean running clean removing '/build/reproducible-path/pyfastx-0.8.4/.pybuild/cpython3_3.11/build' (and everything under it) 'build/bdist.linux-armhf' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem pybuild --with python3 dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py config running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3 setup.py build running build running build_py copying pyfastxcli.py -> /build/reproducible-path/pyfastx-0.8.4/.pybuild/cpython3_3.11/build running build_ext building 'pyfastx' extension creating build creating build/temp.linux-armhf-cpython-311 creating build/temp.linux-armhf-cpython-311/src arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/fakeys.c -o build/temp.linux-armhf-cpython-311/src/fakeys.o -Wno-unused-result src/fakeys.c: In function ‘pyfastx_fasta_keys_subscript’: src/fakeys.c:188:23: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘uint64_t’ {aka ‘long long unsigned int’} [-Wsign-compare] 188 | if (i > self->seq_counts){ | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/fasta.c -o build/temp.linux-armhf-cpython-311/src/fasta.o -Wno-unused-result src/fasta.c: In function ‘pyfastx_fasta_flank’: src/fasta.c:366:32: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 366 | if (slice_stop > seq_len) { | ^ src/fasta.c: In function ‘pyfastx_fasta_fetch’: src/fasta.c:480:28: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 480 | for (i=0; i= self->seq_counts) { | ^~ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/fastq.c -o build/temp.linux-armhf-cpython-311/src/fastq.o -Wno-unused-result src/fastq.c: In function ‘pyfastx_fastq_subscript’: src/fastq.c:501:23: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘uint64_t’ {aka ‘long long unsigned int’} [-Wsign-compare] 501 | if (i >= self->read_counts) { | ^~ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/fastx.c -o build/temp.linux-armhf-cpython-311/src/fastx.o -Wno-unused-result arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/fqkeys.c -o build/temp.linux-armhf-cpython-311/src/fqkeys.o -Wno-unused-result src/fqkeys.c: In function ‘pyfastx_fastq_keys_item’: src/fqkeys.c:90:15: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘uint64_t’ {aka ‘long long unsigned int’} [-Wsign-compare] 90 | if (i > self->read_counts){ | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/index.c -o build/temp.linux-armhf-cpython-311/src/index.o -Wno-unused-result src/index.c: In function ‘pyfastx_create_index’: src/index.c:303:86: warning: passing argument 2 of ‘PyUnicode_AsUTF8AndSize’ from incompatible pointer type [-Wincompatible-pointer-types] 303 | temp_chrom = (char *)PyUnicode_AsUTF8AndSize(result, &chrom.l); | ^~~~~~~~ | | | int64_t * {aka long long int *} In file included from /usr/include/python3.11/Python.h:51, from src/index.h:3, from src/index.c:1: /usr/include/python3.11/unicodeobject.h:481:17: note: expected ‘Py_ssize_t *’ {aka ‘int *’} but argument is of type ‘int64_t *’ {aka ‘long long int *’} 481 | Py_ssize_t *size); | ~~~~~~~~~~~~^~~~ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/kseq.c -o build/temp.linux-armhf-cpython-311/src/kseq.o -Wno-unused-result arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/module.c -o build/temp.linux-armhf-cpython-311/src/module.o -Wno-unused-result arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/read.c -o build/temp.linux-armhf-cpython-311/src/read.o -Wno-unused-result arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/sequence.c -o build/temp.linux-armhf-cpython-311/src/sequence.o -Wno-unused-result arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/util.c -o build/temp.linux-armhf-cpython-311/src/util.o -Wno-unused-result arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.11 -c src/zran.c -o build/temp.linux-armhf-cpython-311/src/zran.o -Wno-unused-result src/zran.c: In function ‘_zran_inflate’: src/zran.c:1640:35: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘uint64_t’ {aka ‘long long unsigned int’} [-Wsign-compare] 1640 | if ((FTELL(index->fd) >= index->compressed_size) && | ^~ arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/pyfastx-0.8.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-cpython-311/src/fakeys.o build/temp.linux-armhf-cpython-311/src/fasta.o build/temp.linux-armhf-cpython-311/src/fastq.o build/temp.linux-armhf-cpython-311/src/fastx.o build/temp.linux-armhf-cpython-311/src/fqkeys.o build/temp.linux-armhf-cpython-311/src/index.o build/temp.linux-armhf-cpython-311/src/kseq.o build/temp.linux-armhf-cpython-311/src/module.o build/temp.linux-armhf-cpython-311/src/read.o build/temp.linux-armhf-cpython-311/src/sequence.o build/temp.linux-armhf-cpython-311/src/util.o build/temp.linux-armhf-cpython-311/src/zran.o -L/usr/lib/arm-linux-gnueabihf -o /build/reproducible-path/pyfastx-0.8.4/.pybuild/cpython3_3.11/build/pyfastx.cpython-311-arm-linux-gnueabihf.so -lz -lsqlite3 dh_auto_test -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py test running test WARNING: Testing via this command is deprecated and will be removed in a future version. Users looking for a generic test entry point independent of test runner are encouraged to use tox. running egg_info creating pyfastx.egg-info writing pyfastx.egg-info/PKG-INFO writing dependency_links to pyfastx.egg-info/dependency_links.txt writing entry points to pyfastx.egg-info/entry_points.txt writing top-level names to pyfastx.egg-info/top_level.txt writing manifest file 'pyfastx.egg-info/SOURCES.txt' reading manifest file 'pyfastx.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'pyfastx.egg-info/SOURCES.txt' running build_ext copying /build/reproducible-path/pyfastx-0.8.4/.pybuild/cpython3_3.11/build/pyfastx.cpython-311-arm-linux-gnueabihf.so -> test_build (tests.test_fastq.FastqTest.test_build) ... ok test_exception (tests.test_fastq.FastqTest.test_exception) ... ok test_fastq (tests.test_fastq.FastqTest.test_fastq) ... ok test_full_name (tests.test_fastq.FastqTest.test_full_name) ... ok test_iter_object (tests.test_fastq.FastqTest.test_iter_object) ... ok test_iter_tuple (tests.test_fastq.FastqTest.test_iter_tuple) ... ok test_negative (tests.test_fastq.FastqTest.test_negative) ... ok test_read_len (tests.test_fastq.FastqTest.test_read_len) ... ok test_repr (tests.test_fastq.FastqTest.test_repr) ... ok test_id_exception (tests.test_fakeys.IdentifierTest.test_id_exception) ... ok test_key_identifier (tests.test_fakeys.IdentifierTest.test_key_identifier) ... /usr/lib/python3/dist-packages/pyfaidx/__init__.py:1090: ResourceWarning: unclosed file <_io.FileIO name='/build/reproducible-path/pyfastx-0.8.4/tests/data/test.fa' mode='rb' closefd=True> self.records = OrderedDict([(rname, _record_constructor(rname, self)) for rname in self.faidx.index.keys()]) ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_key_repr (tests.test_fakeys.IdentifierTest.test_key_repr) ... FAIL test_key_slice (tests.test_fakeys.IdentifierTest.test_key_slice) ... ok test_keys_filter (tests.test_fakeys.IdentifierTest.test_keys_filter) ... /usr/lib/python3/dist-packages/pyfaidx/__init__.py:544: ResourceWarning: unclosed file <_io.FileIO name='/build/reproducible-path/pyfastx-0.8.4/tests/data/test.fa' mode='rb' closefd=True> rname = filter(self.filt_function, ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_keys_sort (tests.test_fakeys.IdentifierTest.test_keys_sort) ... ok test_build (tests.test_fasta.FastaTest.test_build) ... ok test_exception (tests.test_fasta.FastaTest.test_exception) ... ok test_fasta (tests.test_fasta.FastaTest.test_fasta) ... FAIL test_iter_full_name (tests.test_fasta.FastaTest.test_iter_full_name) ... ok test_iter_object (tests.test_fasta.FastaTest.test_iter_object) ... ok test_iter_tuple (tests.test_fasta.FastaTest.test_iter_tuple) ... ok test_key_func (tests.test_fasta.FastaTest.test_key_func) ... ok test_module (tests.test_fasta.FastaTest.test_module) ... /usr/lib/python3/dist-packages/pyfaidx/__init__.py:1090: ResourceWarning: unclosed file <_io.BufferedReader name='/build/reproducible-path/pyfastx-0.8.4/tests/data/test.fa'> self.records = OrderedDict([(rname, _record_constructor(rname, self)) for rname in self.faidx.index.keys()]) ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_no_upper (tests.test_fasta.FastaTest.test_no_upper) ... ok test_seq_fetch (tests.test_fasta.FastaTest.test_seq_fetch) ... ok test_seq_flank (tests.test_fasta.FastaTest.test_seq_flank) ... ok test_seq_type (tests.test_fasta.FastaTest.test_seq_type) ... ok test_statistics (tests.test_fasta.FastaTest.test_statistics) ... ok test_read (tests.test_read.ReadTest.test_read) ... ok test_read_description (tests.test_read.ReadTest.test_read_description) ... ok test_read_raw (tests.test_read.ReadTest.test_read_raw) ... ok test_repr (tests.test_read.ReadTest.test_repr) ... ok test_exception (tests.test_fastx.FastxTest.test_exception) ... ok test_fasta_iter (tests.test_fastx.FastxTest.test_fasta_iter) ... ok test_fasta_upper (tests.test_fastx.FastxTest.test_fasta_upper) ... ok test_fastq_iter (tests.test_fastx.FastxTest.test_fastq_iter) ... ok test_fastx_repr (tests.test_fastx.FastxTest.test_fastx_repr) ... ok test_full_compo (tests.test_sequence.SequenceTest.test_full_compo) ... ok test_seq_by_index (tests.test_sequence.SequenceTest.test_seq_by_index) ... ok test_seq_by_key (tests.test_sequence.SequenceTest.test_seq_by_key) ... /usr/lib/python3/dist-packages/pyfaidx/__init__.py:544: ResourceWarning: unclosed file <_io.BufferedReader name='/build/reproducible-path/pyfastx-0.8.4/tests/data/test.fa'> rname = filter(self.filt_function, ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_seq_content (tests.test_sequence.SequenceTest.test_seq_content) ... FAIL test_seq_exception (tests.test_sequence.SequenceTest.test_seq_exception) ... ok test_seq_iter (tests.test_sequence.SequenceTest.test_seq_iter) ... ok test_seq_raw (tests.test_sequence.SequenceTest.test_seq_raw) ... ok test_seq_repr (tests.test_sequence.SequenceTest.test_seq_repr) ... ok test_seq_reverse_complement (tests.test_sequence.SequenceTest.test_seq_reverse_complement) ... ok test_seq_slice (tests.test_sequence.SequenceTest.test_seq_slice) ... ok test_exception (tests.test_fqkeys.FastxTest.test_exception) ... ok test_fastq_key (tests.test_fqkeys.FastxTest.test_fastq_key) ... FAIL ====================================================================== FAIL: test_key_repr (tests.test_fakeys.IdentifierTest.test_key_repr) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/pyfastx-0.8.4/tests/test_fakeys.py", line 42, in test_key_repr self.assertEqual(repr(ids), " contains {} keys".format(len(ids))) AssertionError: ' contains 968 keys' != ' contains 211 keys' - contains 968 keys ? ^^^ + contains 211 keys ? ^^^ ====================================================================== FAIL: test_fasta (tests.test_fasta.FastaTest.test_fasta) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/pyfastx-0.8.4/tests/test_fasta.py", line 87, in test_fasta self.assertEqual(self.fastx.composition, expect) AssertionError: {'A': 28, 'C': 28, 'G': 28, 'T': 28} != {'A': 24534, 'C': 18694, 'G': 18855, 'T': 24179} - {'A': 28, 'C': 28, 'G': 28, 'T': 28} ? ^ ^ ^ ^ + {'A': 24534, 'C': 18694, 'G': 18855, 'T': 24179} ? ^^^^ ^ +++ ^ +++ ^^^^ ====================================================================== FAIL: test_seq_content (tests.test_sequence.SequenceTest.test_seq_content) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/pyfastx-0.8.4/tests/test_sequence.py", line 137, in test_seq_content self.assertEqual(result.composition, content) AssertionError: {'A': 28, 'C': 28, 'G': 28, 'T': 28} != {'A': 88, 'C': 53, 'G': 41, 'T': 72} - {'A': 28, 'C': 28, 'G': 28, 'T': 28} ? ^ ^^ ^^ - + {'A': 88, 'C': 53, 'G': 41, 'T': 72} ? ^ ^^ ^^ + ====================================================================== FAIL: test_fastq_key (tests.test_fqkeys.FastxTest.test_fastq_key) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/pyfastx-0.8.4/tests/test_fqkeys.py", line 32, in test_fastq_key self.assertEqual(repr(keys), " contains {} keys".format(self.count)) AssertionError: ' contains 968 keys' != ' contains 800 keys' - contains 968 keys ? -- + contains 800 keys ? ++ ---------------------------------------------------------------------- Ran 49 tests in 18.762s FAILED (failures=4) Test failed: pyfastx: 0.8.4; zlib: 1.2.13; sqlite: 3.40.1; zran: 1.3.2 error: Test failed: E: pybuild pybuild:388: test: plugin distutils failed with: exit code=1: python3.11 setup.py test dh_auto_test: error: pybuild --test -i python{version} -p 3.11 returned exit code 13 make: *** [debian/rules:8: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package 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/22627 and its subdirectories Sun Jan 14 11:25:07 UTC 2024 W: No second build log, what happened?