Mon Jan 15 11:58:55 UTC 2024 I: starting to build flye/bookworm/armhf on jenkins on '2024-01-15 11:58' Mon Jan 15 11:58:55 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_6/9105/console.log Mon Jan 15 11:58:55 UTC 2024 I: Downloading source for bookworm/flye=2.9.1+dfsg-1 --2024-01-15 11:58:55-- http://cdn-fastly.deb.debian.org/debian/pool/main/f/flye/flye_2.9.1%2bdfsg-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2053 (2.0K) [text/prs.lines.tag] Saving to: ‘flye_2.9.1+dfsg-1.dsc’ 0K .. 100% 1.17M=0.002s 2024-01-15 11:58:55 (1.17 MB/s) - ‘flye_2.9.1+dfsg-1.dsc’ saved [2053/2053] Mon Jan 15 11:58:55 UTC 2024 I: flye_2.9.1+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: flye Binary: flye Architecture: any Version: 2.9.1+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/fenderglass/Flye Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/flye Vcs-Git: https://salsa.debian.org/med-team/flye.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-python, python3, python3-setuptools, liblemon-dev, libminimap2-dev, samtools, zlib1g-dev Package-List: flye deb science optional arch=any Checksums-Sha1: 562f4a90c38fc61f5b19e027133a3974b34d339c 22764912 flye_2.9.1+dfsg.orig.tar.xz 591cd473cc3a8a5bef23699303a40c4621459121 12592 flye_2.9.1+dfsg-1.debian.tar.xz Checksums-Sha256: 8796a435fa79ba437b5c6c3b5651e7565e31bca975e4ca52373aa0cc7369ca6f 22764912 flye_2.9.1+dfsg.orig.tar.xz 2b6a5f1a5632e7f4f817c82a775f4a9dae8ecbdd4c4e83cccc38f0bed4fe5e66 12592 flye_2.9.1+dfsg-1.debian.tar.xz Files: 1c7bcf3649ab97b7735112f6f4b57fec 22764912 flye_2.9.1+dfsg.orig.tar.xz 9cbc2569cd1dacb50cf1bd8d4372f81f 12592 flye_2.9.1+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmME6JMRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtH/BA/8C6g9etEGluMxQw3c1RlaJAZzp014IQsZ dyaFHru7d9fhmfnWSyIQmyK+gXzNmobfHwCM5Has++FL389aflyaDidFd88TCZPS bcgtkCsGXjueF+6WlCW7Hz2k7HHKW4WIu9TXLDNDVy/a41XTzTVBmmWSr+ijMTXd E+8Bg/RgC7NBg9i7ATf/ahA+mKi+0FlXHQQS877pTZumdumqZuVQNBB3SUdxmC3B E5Mqh49OcCUD3VlmM/gLXLxR2K26Lq/kFAMkIA2T7W75gRKpKDvoFSdKdKiGDlyN AfeYMr7V3KPeTIMO6Uv+UmDXQaOSpgiWfT4d0Lqz8TujaphRwsbRpLwqHkPGGxDb cB/0xnCenxqcjwPKtDzWHsK9x5lYebFdH9kC/i0Ze4dnuDEyp7/g7rv4lGBvaDiT nfy4uTr3AFka+zVs8j2yF5tfWpH15kgOHD/RBhzr5m2deAWYBmEwmbSkDkZrFYIa qwPj1F4CY3LwNN2sMp6YMUrvKmS9N9h9HBtfWzlv29Kc28K3l+TegHTT5J+C0BsK YyJXuKPjmMghHJ2Ep12WPW7KgUaZhz+LzJ/8aJojqCklPlGAexLv0iYNUH7CX8yW u0hO40pSao61NRbGewy4MhkCSepMdw7//HDNCd3iXWFF3S9Y4FeAgbe5UY0fZYty 3PGQSrfATVE= =lMWB -----END PGP SIGNATURE----- Mon Jan 15 11:58:55 UTC 2024 I: Checking whether the package is not for us Mon Jan 15 11:58:55 UTC 2024 I: Starting 1st build on remote node virt64b-armhf-rb.debian.net. Mon Jan 15 11:58:55 UTC 2024 I: Preparing to do remote build '1' on virt64b-armhf-rb.debian.net. Mon Jan 15 12:01:03 UTC 2024 I: Deleting $TMPDIR on virt64b-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Jan 14 23:59:06 -12 2024 I: pbuilder-time-stamp: 1705319946 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 [flye_2.9.1+dfsg-1.dsc] I: copying [./flye_2.9.1+dfsg.orig.tar.xz] I: copying [./flye_2.9.1+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Tue Aug 23 14:47:47 2022 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./flye_2.9.1+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting flye in flye-2.9.1+dfsg dpkg-source: info: unpacking flye_2.9.1+dfsg.orig.tar.xz dpkg-source: info: unpacking flye_2.9.1+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_libs.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/7361/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='1bae0c7aa28d4ee68bdc2b497f2e677b' 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='7361' 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.QHxqMDju/pbuilderrc_nZ7H --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.QHxqMDju/b1 --logfile b1/build.log flye_2.9.1+dfsg-1.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/7361/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, python3, python3-setuptools, liblemon-dev, libminimap2-dev, samtools, zlib1g-dev 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 python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on liblemon-dev; however: Package liblemon-dev is not installed. pbuilder-satisfydepends-dummy depends on libminimap2-dev; however: Package libminimap2-dev is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev 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} libamd2{a} libarchive-zip-perl{a} libbrotli1{a} libcolamd2{a} libcurl3-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libglpk40{a} libhts3{a} libhtscodecs2{a} libicu72{a} libldap-2.5-0{a} liblemon-dev{a} liblemon1.3.1{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libminimap2-dev{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libpsl5{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libsub-override-perl{a} libsuitesparseconfig5{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} po-debconf{a} python3{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-pkg-resources{a} python3-setuptools{a} python3.11{a} python3.11-minimal{a} readline-common{a} samtools{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix wget 0 packages upgraded, 69 newly installed, 0 to remove and 0 not upgraded. Need to get 28.9 MB of archives. After unpacking 104 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 libsuitesparseconfig5 armhf 1:5.12.0+dfsg-2 [23.7 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf libamd2 armhf 1:5.12.0+dfsg-2 [30.1 kB] Get: 47 http://deb.debian.org/debian bookworm/main armhf libbrotli1 armhf 1.0.9-2+b6 [271 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf libcolamd2 armhf 1:5.12.0+dfsg-2 [28.3 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf libsasl2-modules-db armhf 2.1.28+dfsg-10 [19.0 kB] Get: 50 http://deb.debian.org/debian bookworm/main armhf libsasl2-2 armhf 2.1.28+dfsg-10 [52.3 kB] Get: 51 http://deb.debian.org/debian bookworm/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5 [158 kB] Get: 52 http://deb.debian.org/debian bookworm/main armhf libnghttp2-14 armhf 1.52.0-1+deb12u1 [62.1 kB] Get: 53 http://deb.debian.org/debian bookworm/main armhf libpsl5 armhf 0.21.2-1 [57.5 kB] Get: 54 http://deb.debian.org/debian bookworm/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 55 http://deb.debian.org/debian bookworm/main armhf libssh2-1 armhf 1.10.0-3+b1 [163 kB] Get: 56 http://deb.debian.org/debian bookworm/main armhf libcurl3-gnutls armhf 7.88.1-10+deb12u4 [346 kB] Get: 57 http://deb.debian.org/debian bookworm/main armhf libdeflate0 armhf 1.14-1 [52.2 kB] Get: 58 http://deb.debian.org/debian bookworm/main armhf libltdl7 armhf 2.4.7-5 [390 kB] Get: 59 http://deb.debian.org/debian bookworm/main armhf libglpk40 armhf 5.0-1 [335 kB] Get: 60 http://deb.debian.org/debian bookworm/main armhf libhtscodecs2 armhf 1.3.0-4 [60.4 kB] Get: 61 http://deb.debian.org/debian bookworm/main armhf libhts3 armhf 1.16+ds-3 [375 kB] Get: 62 http://deb.debian.org/debian bookworm/main armhf liblemon1.3.1 armhf 1.3.1+dfsg-6 [47.2 kB] Get: 63 http://deb.debian.org/debian bookworm/main armhf liblemon-dev armhf 1.3.1+dfsg-6 [322 kB] Get: 64 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] Get: 65 http://deb.debian.org/debian bookworm/main armhf libminimap2-dev armhf 2.24+dfsg-3+b1 [129 kB] Get: 66 http://deb.debian.org/debian bookworm/main armhf libncurses6 armhf 6.4-4 [81.1 kB] Get: 67 http://deb.debian.org/debian bookworm/main armhf python3-pkg-resources all 66.1.1-1 [296 kB] Get: 68 http://deb.debian.org/debian bookworm/main armhf python3-setuptools all 66.1.1-1 [521 kB] Get: 69 http://deb.debian.org/debian bookworm/main armhf samtools armhf 1.16.1-1 [575 kB] Fetched 28.9 MB in 19s (1506 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 libsuitesparseconfig5:armhf. Preparing to unpack .../34-libsuitesparseconfig5_1%3a5.12.0+dfsg-2_armhf.deb ... Unpacking libsuitesparseconfig5:armhf (1:5.12.0+dfsg-2) ... Selecting previously unselected package libamd2:armhf. Preparing to unpack .../35-libamd2_1%3a5.12.0+dfsg-2_armhf.deb ... Unpacking libamd2:armhf (1:5.12.0+dfsg-2) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../36-libbrotli1_1.0.9-2+b6_armhf.deb ... Unpacking libbrotli1:armhf (1.0.9-2+b6) ... Selecting previously unselected package libcolamd2:armhf. Preparing to unpack .../37-libcolamd2_1%3a5.12.0+dfsg-2_armhf.deb ... Unpacking libcolamd2:armhf (1:5.12.0+dfsg-2) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../38-libsasl2-modules-db_2.1.28+dfsg-10_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../39-libsasl2-2_2.1.28+dfsg-10_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.28+dfsg-10) ... Selecting previously unselected package libldap-2.5-0:armhf. Preparing to unpack .../40-libldap-2.5-0_2.5.13+dfsg-5_armhf.deb ... Unpacking libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../41-libnghttp2-14_1.52.0-1+deb12u1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.52.0-1+deb12u1) ... Selecting previously unselected package libpsl5:armhf. Preparing to unpack .../42-libpsl5_0.21.2-1_armhf.deb ... Unpacking libpsl5:armhf (0.21.2-1) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../43-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:armhf. Preparing to unpack .../44-libssh2-1_1.10.0-3+b1_armhf.deb ... Unpacking libssh2-1:armhf (1.10.0-3+b1) ... Selecting previously unselected package libcurl3-gnutls:armhf. Preparing to unpack .../45-libcurl3-gnutls_7.88.1-10+deb12u4_armhf.deb ... Unpacking libcurl3-gnutls:armhf (7.88.1-10+deb12u4) ... Selecting previously unselected package libdeflate0:armhf. Preparing to unpack .../46-libdeflate0_1.14-1_armhf.deb ... Unpacking libdeflate0:armhf (1.14-1) ... Selecting previously unselected package libltdl7:armhf. Preparing to unpack .../47-libltdl7_2.4.7-5_armhf.deb ... Unpacking libltdl7:armhf (2.4.7-5) ... Selecting previously unselected package libglpk40:armhf. Preparing to unpack .../48-libglpk40_5.0-1_armhf.deb ... Unpacking libglpk40:armhf (5.0-1) ... Selecting previously unselected package libhtscodecs2:armhf. Preparing to unpack .../49-libhtscodecs2_1.3.0-4_armhf.deb ... Unpacking libhtscodecs2:armhf (1.3.0-4) ... Selecting previously unselected package libhts3:armhf. Preparing to unpack .../50-libhts3_1.16+ds-3_armhf.deb ... Unpacking libhts3:armhf (1.16+ds-3) ... Selecting previously unselected package liblemon1.3.1:armhf. Preparing to unpack .../51-liblemon1.3.1_1.3.1+dfsg-6_armhf.deb ... Unpacking liblemon1.3.1:armhf (1.3.1+dfsg-6) ... Selecting previously unselected package liblemon-dev. Preparing to unpack .../52-liblemon-dev_1.3.1+dfsg-6_armhf.deb ... Unpacking liblemon-dev (1.3.1+dfsg-6) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../53-zlib1g-dev_1%3a1.2.13.dfsg-1_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Selecting previously unselected package libminimap2-dev. Preparing to unpack .../54-libminimap2-dev_2.24+dfsg-3+b1_armhf.deb ... Unpacking libminimap2-dev (2.24+dfsg-3+b1) ... Selecting previously unselected package libncurses6:armhf. Preparing to unpack .../55-libncurses6_6.4-4_armhf.deb ... Unpacking libncurses6:armhf (6.4-4) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../56-python3-pkg-resources_66.1.1-1_all.deb ... Unpacking python3-pkg-resources (66.1.1-1) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../57-python3-setuptools_66.1.1-1_all.deb ... Unpacking python3-setuptools (66.1.1-1) ... Selecting previously unselected package samtools. Preparing to unpack .../58-samtools_1.16.1-1_armhf.deb ... Unpacking samtools (1.16.1-1) ... Setting up libhtscodecs2:armhf (1.3.0-4) ... Setting up media-types (10.0.0) ... Setting up libpipeline1:armhf (1.5.7-1) ... Setting up libpsl5:armhf (0.21.2-1) ... 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 libbrotli1:armhf (1.0.9-2+b6) ... Setting up libnghttp2-14:armhf (1.52.0-1+deb12u1) ... Setting up libmagic1:armhf (1:5.44-3) ... Setting up libdeflate0:armhf (1.14-1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Setting up autotools-dev (20220109.1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:armhf (6.4-4) ... Setting up autopoint (0.21-12) ... Setting up libltdl7:armhf (2.4.7-5) ... Setting up libsasl2-2:armhf (2.1.28+dfsg-10) ... 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 libssh2-1:armhf (1.10.0-3+b1) ... 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 libsuitesparseconfig5:armhf (1:5.12.0+dfsg-2) ... 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 libamd2:armhf (1:5.12.0+dfsg-2) ... Setting up gettext (0.21-12) ... Setting up libcolamd2:armhf (1:5.12.0+dfsg-2) ... Setting up libtool (2.4.7-5) ... Setting up libreadline8:armhf (8.2-1.3) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libglpk40:armhf (5.0-1) ... Setting up libminimap2-dev (2.24+dfsg-3+b1) ... Setting up liblemon1.3.1:armhf (1.3.1+dfsg-6) ... 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 liblemon-dev (1.3.1+dfsg-6) ... Setting up libcurl3-gnutls:armhf (7.88.1-10+deb12u4) ... 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 libhts3:armhf (1.16+ds-3) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up samtools (1.16.1-1) ... 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-setuptools (66.1.1-1) ... 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/flye-2.9.1+dfsg/ && 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 > ../flye_2.9.1+dfsg-1_source.changes dpkg-buildpackage: info: source package flye dpkg-buildpackage: info: source version 2.9.1+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/flye-2.9.1+dfsg' dh_auto_clean I: pybuild base:240: python3.11 setup.py clean running clean removing '/build/reproducible-path/flye-2.9.1+dfsg/.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 find src -name "*.o" -delete rm -f bin/flye-modules rm -rf flye.egg-info/ make[1]: Leaving directory '/build/reproducible-path/flye-2.9.1+dfsg' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base: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 creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye copying flye/six.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye copying flye/main.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye copying flye/__version__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye copying flye/__build__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye copying flye/__init__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/assembly copying flye/assembly/assemble.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/assembly copying flye/assembly/repeat_graph.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/assembly copying flye/assembly/scaffolder.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/assembly copying flye/assembly/__init__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/assembly creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config copying flye/config/configurator.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config copying flye/config/py_cfg.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config copying flye/config/__init__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/polishing copying flye/polishing/bubbles.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/polishing copying flye/polishing/consensus.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/polishing copying flye/polishing/alignment.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/polishing copying flye/polishing/polish.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/polishing copying flye/polishing/__init__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/polishing creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/utils copying flye/utils/bytes2human.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/utils copying flye/utils/sam_parser.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/utils copying flye/utils/utils.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/utils copying flye/utils/fasta_parser.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/utils copying flye/utils/__init__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/utils creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/repeat_graph copying flye/repeat_graph/repeat_graph.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/repeat_graph copying flye/repeat_graph/graph_alignment.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/repeat_graph copying flye/repeat_graph/__init__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/repeat_graph creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/short_plasmids copying flye/short_plasmids/utils.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/short_plasmids copying flye/short_plasmids/plasmids.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/short_plasmids copying flye/short_plasmids/unmapped_reads.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/short_plasmids copying flye/short_plasmids/__init__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/short_plasmids copying flye/short_plasmids/circular_sequences.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/short_plasmids creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/trestle copying flye/trestle/trestle.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/trestle copying flye/trestle/divergence.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/trestle copying flye/trestle/__init__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/trestle copying flye/trestle/trestle_config.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/trestle copying flye/trestle/graph_resolver.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/trestle creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/tests copying flye/tests/__init__.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/tests copying flye/tests/test_toy.py -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/tests creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/pacbio_substitutions.mat -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/pacbio_homopolymers.mat -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/nano_r94_substitutions.mat -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_defaults.cfg -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_subasm.cfg -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/pacbio_chm13_homopolymers.mat -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/nano_r94_g36_homopolymers.mat -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/nano_r94_g36_substitutions.mat -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_hifi.cfg -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_corrected_reads.cfg -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/nano_r94_homopolymers.mat -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/pacbio_chm13_substitutions.mat -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_raw_reads.cfg -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_nano_hq.cfg -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/config/bin_cfg creating /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/tests/data copying flye/tests/data/ecoli_500kb.fasta -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/tests/data copying flye/tests/data/ecoli_500kb_reads.fastq.gz -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/tests/data copying flye/tests/data/ecoli_500kb_reads_hifi.fastq.gz -> /build/reproducible-path/flye-2.9.1+dfsg/.pybuild/cpython3_3.11/build/flye/tests/data make[1]: Entering directory '/build/reproducible-path/flye-2.9.1+dfsg' make release -C src -j 4 make[2]: Entering directory '/build/reproducible-path/flye-2.9.1+dfsg/src' g++ -c -g -O2 -ffile-prefix-map=/build/reproducible-path/flye-2.9.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/reproducible-path/flye-2.9.1+dfsg/lib/libcuckoo -I/build/reproducible-path/flye-2.9.1+dfsg/lib/interval_tree -I/build/reproducible-path/flye-2.9.1+dfsg/lib/lemon -Wall -Wextra -pthread -std=c++11 -g -Wno-missing-field-initializers -O3 -DNDEBUG assemble/chimera.cpp -o assemble/chimera.o g++ -c -g -O2 -ffile-prefix-map=/build/reproducible-path/flye-2.9.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/reproducible-path/flye-2.9.1+dfsg/lib/libcuckoo -I/build/reproducible-path/flye-2.9.1+dfsg/lib/interval_tree -I/build/reproducible-path/flye-2.9.1+dfsg/lib/lemon -Wall -Wextra -pthread -std=c++11 -g -Wno-missing-field-initializers -O3 -DNDEBUG assemble/extender.cpp -o assemble/extender.o g++ -c -g -O2 -ffile-prefix-map=/build/reproducible-path/flye-2.9.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/reproducible-path/flye-2.9.1+dfsg/lib/libcuckoo -I/build/reproducible-path/flye-2.9.1+dfsg/lib/interval_tree -I/build/reproducible-path/flye-2.9.1+dfsg/lib/lemon -Wall -Wextra -pthread -std=c++11 -g -Wno-missing-field-initializers -O3 -DNDEBUG assemble/main_assemble.cpp -o assemble/main_assemble.o g++ -c -g -O2 -ffile-prefix-map=/build/reproducible-path/flye-2.9.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/reproducible-path/flye-2.9.1+dfsg/lib/libcuckoo -I/build/reproducible-path/flye-2.9.1+dfsg/lib/interval_tree -I/build/reproducible-path/flye-2.9.1+dfsg/lib/lemon -Wall -Wextra -pthread -std=c++11 -g -Wno-missing-field-initializers -O3 -DNDEBUG assemble/parameters_estimator.cpp -o assemble/parameters_estimator.o In file included from assemble/extender.h:9, from assemble/extender.cpp:14: assemble/../sequence/sequence_container.h:270:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘1099511627776’ to ‘0’ [-Woverflow] 270 | const size_t MAX_SEQUENCE = 1ULL << (8 * 5); | ~~~~~^~~~~~~~~~ In file included from assemble/../sequence/kmer.h:11, from assemble/../sequence/vertex_index.h:17, from assemble/parameters_estimator.h:5, from assemble/parameters_estimator.cpp:5: assemble/../sequence/sequence_container.h:270:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘1099511627776’ to ‘0’ [-Woverflow] 270 | const size_t MAX_SEQUENCE = 1ULL << (8 * 5); | ~~~~~^~~~~~~~~~ assemble/../sequence/kmer.h:14:30: error: static assertion failed: 32-bit architectures are not supported 14 | static_assert(sizeof(size_t) == 8, "32-bit architectures are not supported"); | ~~~~~~~~~~~~~~~^~~~ assemble/../sequence/kmer.h:14:30: note: the comparison reduces to ‘(4 == 8)’ In file included from assemble/../sequence/vertex_index.h:17, from assemble/../sequence/overlap.h:14, from assemble/extender.h:10: assemble/../sequence/kmer.h:14:30: error: static assertion failed: 32-bit architectures are not supported 14 | static_assert(sizeof(size_t) == 8, "32-bit architectures are not supported"); | ~~~~~~~~~~~~~~~^~~~ assemble/../sequence/kmer.h:14:30: note: the comparison reduces to ‘(4 == 8)’ In file included from assemble/../sequence/kmer.h:11, from assemble/../sequence/vertex_index.h:17, from assemble/../sequence/overlap.h:14, from assemble/chimera.h:7, from assemble/chimera.cpp:14: assemble/../sequence/sequence_container.h:270:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘1099511627776’ to ‘0’ [-Woverflow] 270 | const size_t MAX_SEQUENCE = 1ULL << (8 * 5); | ~~~~~^~~~~~~~~~ assemble/../sequence/vertex_index.h: In member function ‘size_t VertexIndex::IndexChunk::get() const’: assemble/../sequence/vertex_index.h:102:44: warning: left shift count >= width of type [-Wshift-count-overflow] 102 | return ((size_t)hi << 32) + (size_t)low; | ~~~~~~~~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘void VertexIndex::IndexChunk::set(size_t)’: assemble/../sequence/vertex_index.h:107:34: warning: right shift count >= width of type [-Wshift-count-overflow] 107 | hi = val >> 32; | ~~~~^~~~~ assemble/../sequence/kmer.h:14:30: error: static assertion failed: 32-bit architectures are not supported 14 | static_assert(sizeof(size_t) == 8, "32-bit architectures are not supported"); | ~~~~~~~~~~~~~~~^~~~ assemble/../sequence/kmer.h:14:30: note: the comparison reduces to ‘(4 == 8)’ assemble/../sequence/vertex_index.h: In member function ‘size_t VertexIndex::IndexChunk::get() const’: assemble/../sequence/vertex_index.h:102:44: warning: left shift count >= width of type [-Wshift-count-overflow] 102 | return ((size_t)hi << 32) + (size_t)low; | ~~~~~~~~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘void VertexIndex::IndexChunk::set(size_t)’: assemble/../sequence/vertex_index.h:107:34: warning: right shift count >= width of type [-Wshift-count-overflow] 107 | hi = val >> 32; | ~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘size_t VertexIndex::IndexChunk::get() const’: assemble/../sequence/vertex_index.h:102:44: warning: left shift count >= width of type [-Wshift-count-overflow] 102 | return ((size_t)hi << 32) + (size_t)low; | ~~~~~~~~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘void VertexIndex::IndexChunk::set(size_t)’: assemble/../sequence/vertex_index.h:107:34: warning: right shift count >= width of type [-Wshift-count-overflow] 107 | hi = val >> 32; | ~~~~^~~~~ In file included from assemble/../sequence/kmer.h:11, from assemble/../sequence/vertex_index.h:17, from assemble/main_assemble.cpp:12: assemble/../sequence/sequence_container.h:270:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘1099511627776’ to ‘0’ [-Woverflow] 270 | const size_t MAX_SEQUENCE = 1ULL << (8 * 5); | ~~~~~^~~~~~~~~~ assemble/../sequence/kmer.h:14:30: error: static assertion failed: 32-bit architectures are not supported 14 | static_assert(sizeof(size_t) == 8, "32-bit architectures are not supported"); | ~~~~~~~~~~~~~~~^~~~ assemble/../sequence/kmer.h:14:30: note: the comparison reduces to ‘(4 == 8)’ assemble/../sequence/vertex_index.h: In member function ‘size_t VertexIndex::IndexChunk::get() const’: assemble/../sequence/vertex_index.h:102:44: warning: left shift count >= width of type [-Wshift-count-overflow] 102 | return ((size_t)hi << 32) + (size_t)low; | ~~~~~~~~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘void VertexIndex::IndexChunk::set(size_t)’: assemble/../sequence/vertex_index.h:107:34: warning: right shift count >= width of type [-Wshift-count-overflow] 107 | hi = val >> 32; | ~~~~^~~~~ make[2]: *** [Makefile:34: assemble/parameters_estimator.o] Error 1 make[2]: *** Waiting for unfinished jobs.... make[2]: *** [Makefile:34: assemble/chimera.o] Error 1 make[2]: *** [Makefile:34: assemble/main_assemble.o] Error 1 make[2]: *** [Makefile:34: assemble/extender.o] Error 1 make[2]: Leaving directory '/build/reproducible-path/flye-2.9.1+dfsg/src' make[1]: *** [Makefile:33: all] Error 2 make[1]: Leaving directory '/build/reproducible-path/flye-2.9.1+dfsg' Traceback (most recent call last): File "/build/reproducible-path/flye-2.9.1+dfsg/setup.py", line 38, in run subprocess.check_call(["make"]) File "/usr/lib/python3.11/subprocess.py", line 413, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['make']' returned non-zero exit status 2. During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/build/reproducible-path/flye-2.9.1+dfsg/setup.py", line 69, in setup(name='flye', File "/usr/lib/python3/dist-packages/setuptools/__init__.py", line 108, in setup return distutils.core.setup(**attrs) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3/dist-packages/setuptools/_distutils/core.py", line 185, in setup return run_commands(dist) ^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3/dist-packages/setuptools/_distutils/core.py", line 201, in run_commands dist.run_commands() File "/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py", line 969, in run_commands self.run_command(cmd) File "/usr/lib/python3/dist-packages/setuptools/dist.py", line 1213, in run_command super().run_command(command) File "/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py", line 988, in run_command cmd_obj.run() File "/build/reproducible-path/flye-2.9.1+dfsg/setup.py", line 40, in run sys.exit("Compilation error: ", e) TypeError: exit expected at most 1 argument, got 2 E: pybuild pybuild:388: build: plugin distutils failed with: exit code=1: /usr/bin/python3 setup.py build dh_auto_build: error: pybuild --build -i python{version} -p 3.11 returned exit code 13 make: *** [debian/rules:12: 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/7361 and its subdirectories Mon Jan 15 12:01:06 UTC 2024 W: No second build log, what happened?