Mon Apr 15 01:33:31 UTC 2024 I: starting to build mosdepth/trixie/armhf on jenkins on '2024-04-15 01:33' Mon Apr 15 01:33:31 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_16/3176/console.log Mon Apr 15 01:33:31 UTC 2024 I: Downloading source for trixie/mosdepth=0.3.6+ds-1 --2024-04-15 01:33:31-- http://deb.debian.org/debian/pool/main/m/mosdepth/mosdepth_0.3.6%2bds-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1590 (1.6K) [text/prs.lines.tag] Saving to: ‘mosdepth_0.3.6+ds-1.dsc’ 0K . 100% 212M=0s 2024-04-15 01:33:31 (212 MB/s) - ‘mosdepth_0.3.6+ds-1.dsc’ saved [1590/1590] Mon Apr 15 01:33:31 UTC 2024 I: mosdepth_0.3.6+ds-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: mosdepth Binary: mosdepth, mosdepth-examples Architecture: any all Version: 0.3.6+ds-1 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Nilesh Patra Homepage: https://github.com/brentp/mosdepth Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/mosdepth Vcs-Git: https://salsa.debian.org/med-team/mosdepth.git Testsuite: autopkgtest Testsuite-Triggers: python3 Build-Depends: debhelper-compat (= 13), nim, nim-docopt-dev, nim-regex-dev, nim-hts-dev (>= 0.3.14+ds-2~), help2man, samtools, libhts-dev Package-List: mosdepth deb science optional arch=any mosdepth-examples deb science optional arch=all Checksums-Sha1: 76cf10767451d57a0b349071878c09a76eb6ad10 24244 mosdepth_0.3.6+ds.orig.tar.xz 2918734a24a45105577deab8f9fd9e9f20f36739 716368 mosdepth_0.3.6+ds-1.debian.tar.xz Checksums-Sha256: ed8f3d92ebf9311cf16e0ee6a160741ba1210ffb8cf6955a6800e65faf05a499 24244 mosdepth_0.3.6+ds.orig.tar.xz 04e074eaa3797993ac4ae0105a6a7b6bbf31fa7b52892b393ff3ea2ef1f5b6f9 716368 mosdepth_0.3.6+ds-1.debian.tar.xz Files: 55f7becbbae1a89826efc92d18025674 24244 mosdepth_0.3.6+ds.orig.tar.xz ce589f25aa5ba3d07e51e0d706cd1ce2 716368 mosdepth_0.3.6+ds-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iHUEARYIAB0WIQSglbZu4JAkvuai8HIqJ5BL1yQ+2gUCZW+SzQAKCRAqJ5BL1yQ+ 2v8qAP9wEbfwrBTi6nLYA4nzGoXcjkBO6PT989VnsAOZBgSdNgD8DApDT1f52NS7 b4Zh8vwf7q3cMSKX8BlvyWd3eucrWwo= =GswT -----END PGP SIGNATURE----- Mon Apr 15 01:33:31 UTC 2024 I: Checking whether the package is not for us Mon Apr 15 01:33:31 UTC 2024 I: Starting 1st build on remote node virt32b-armhf-rb.debian.net. Mon Apr 15 01:33:31 UTC 2024 I: Preparing to do remote build '1' on virt32b-armhf-rb.debian.net. Mon Apr 15 01:37:14 UTC 2024 I: Deleting $TMPDIR on virt32b-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Apr 14 13:33:38 -12 2024 I: pbuilder-time-stamp: 1713144818 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 [mosdepth_0.3.6+ds-1.dsc] I: copying [./mosdepth_0.3.6+ds.orig.tar.xz] I: copying [./mosdepth_0.3.6+ds-1.debian.tar.xz] I: Extracting source gpgv: Signature made Tue Dec 5 21:14:53 2023 gpgv: using EDDSA key A095B66EE09024BEE6A2F0722A27904BD7243EDA gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./mosdepth_0.3.6+ds-1.dsc: no acceptable signature found dpkg-source: info: extracting mosdepth in mosdepth-0.3.6+ds dpkg-source: info: unpacking mosdepth_0.3.6+ds.orig.tar.xz dpkg-source: info: unpacking mosdepth_0.3.6+ds-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/21348/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='trixie' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='1e23d7e66f944066b5fc46628d71e4af' 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='21348' 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.RnUcIJY3/pbuilderrc_klP2 --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.RnUcIJY3/b1 --logfile b1/build.log mosdepth_0.3.6+ds-1.dsc' SUDO_GID='112' SUDO_UID='106' 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 virt32b 6.1.0-20-armmp-lpae #1 SMP Debian 6.1.85-1 (2024-04-11) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Apr 14 11:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/21348/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), nim, nim-docopt-dev, nim-regex-dev, nim-hts-dev (>= 0.3.14+ds-2~), help2man, samtools, libhts-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 ... 19635 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 nim; however: Package nim is not installed. pbuilder-satisfydepends-dummy depends on nim-docopt-dev; however: Package nim-docopt-dev is not installed. pbuilder-satisfydepends-dummy depends on nim-regex-dev; however: Package nim-regex-dev is not installed. pbuilder-satisfydepends-dummy depends on nim-hts-dev (>= 0.3.14+ds-2~); however: Package nim-hts-dev is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-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-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libbrotli1{a} libcurl3-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1{a} libfile-stripnondeterminism-perl{a} libhts-dev{a} libhts3{a} libhtscodecs2{a} libicu72{a} libldap-2.5-0{a} liblocale-gettext-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpcre3{a} libpipeline1{a} libpsl5{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} nim{a} nim-docopt-dev{a} nim-hts-dev{a} nim-regex-dev{a} nim-unicodedb-dev{a} nim-unicodeplus-dev{a} po-debconf{a} samtools{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl git libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix wget 0 packages upgraded, 58 newly installed, 0 to remove and 0 not upgraded. Need to get 29.1 MB of archives. After unpacking 99.0 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main armhf liblocale-gettext-perl armhf 1.07-6+b1 [14.6 kB] Get: 2 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.22 [22.4 kB] Get: 3 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-2+b1 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main armhf libmagic1 armhf 1:5.45-2+b1 [97.9 kB] Get: 5 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-2+b1 [42.2 kB] Get: 6 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.21-14+b1 [157 kB] Get: 7 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b1 [65.7 kB] Get: 8 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-3 [1088 kB] Get: 9 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.39.3-6 [81.2 kB] Get: 10 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.7-2 [33.3 kB] Get: 11 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.12.0-3 [1367 kB] Get: 12 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 13 http://deb.debian.org/debian trixie/main armhf autoconf all 2.71-3 [332 kB] Get: 14 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 16 http://deb.debian.org/debian trixie/main armhf autopoint all 0.21-14 [496 kB] Get: 17 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.15.3 [88.0 kB] Get: 18 http://deb.debian.org/debian trixie/main armhf libtool all 2.4.7-7 [517 kB] Get: 19 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian trixie/main armhf libsub-override-perl all 0.10-1 [10.6 kB] Get: 22 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 23 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 24 http://deb.debian.org/debian trixie/main armhf libelf1 armhf 0.190-1+b1 [171 kB] Get: 25 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1 [101 kB] Get: 26 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-4+b1 [9070 kB] Get: 27 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.9.14+dfsg-1.3+b2 [599 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.21-14+b1 [1230 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian trixie/main armhf debhelper all 13.15.3 [901 kB] Get: 32 http://deb.debian.org/debian trixie/main armhf help2man armhf 1.49.3 [198 kB] Get: 33 http://deb.debian.org/debian trixie/main armhf libbrotli1 armhf 1.1.0-2+b3 [284 kB] Get: 34 http://deb.debian.org/debian trixie/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-4+b1 [18.2 kB] Get: 35 http://deb.debian.org/debian trixie/main armhf libsasl2-2 armhf 2.1.28+dfsg1-4+b1 [50.1 kB] Get: 36 http://deb.debian.org/debian trixie/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5+b3 [158 kB] Get: 37 http://deb.debian.org/debian trixie/main armhf libnghttp2-14 armhf 1.59.0-1 [62.0 kB] Get: 38 http://deb.debian.org/debian trixie/main armhf libpsl5 armhf 0.21.2-1+b1 [57.8 kB] Get: 39 http://deb.debian.org/debian trixie/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 40 http://deb.debian.org/debian trixie/main armhf libssh2-1 armhf 1.11.0-4 [197 kB] Get: 41 http://deb.debian.org/debian trixie/main armhf libcurl3-gnutls armhf 8.5.0-2 [378 kB] Get: 42 http://deb.debian.org/debian trixie/main armhf libcurl4-gnutls-dev armhf 8.5.0-2 [490 kB] Get: 43 http://deb.debian.org/debian trixie/main armhf libdeflate0 armhf 1.20-1 [35.9 kB] Get: 44 http://deb.debian.org/debian trixie/main armhf libdeflate-dev armhf 1.20-1 [44.0 kB] Get: 45 http://deb.debian.org/debian trixie/main armhf libhtscodecs2 armhf 1.6.0-1+b1 [61.3 kB] Get: 46 http://deb.debian.org/debian trixie/main armhf libhts3 armhf 1.19+ds-1 [394 kB] Get: 47 http://deb.debian.org/debian trixie/main armhf liblzma-dev armhf 5.6.1+really5.4.5-1 [281 kB] Get: 48 http://deb.debian.org/debian trixie/main armhf zlib1g-dev armhf 1:1.3.dfsg-3+b1 [904 kB] Get: 49 http://deb.debian.org/debian trixie/main armhf libhts-dev armhf 1.19+ds-1 [1598 kB] Get: 50 http://deb.debian.org/debian trixie/main armhf libncurses6 armhf 6.4+20240113-1 [81.8 kB] Get: 51 http://deb.debian.org/debian trixie/main armhf libpcre3 armhf 2:8.39-15+b1 [316 kB] Get: 52 http://deb.debian.org/debian trixie/main armhf nim armhf 1.6.14-1 [3905 kB] Get: 53 http://deb.debian.org/debian trixie/main armhf nim-unicodedb-dev all 0.9.0-2 [423 kB] Get: 54 http://deb.debian.org/debian trixie/main armhf nim-unicodeplus-dev all 0.5.1-2 [5340 B] Get: 55 http://deb.debian.org/debian trixie/main armhf nim-regex-dev all 0.17.0+ds-2 [41.2 kB] Get: 56 http://deb.debian.org/debian trixie/main armhf nim-docopt-dev all 0.6.8-3 [10.6 kB] Get: 57 http://deb.debian.org/debian trixie/main armhf nim-hts-dev all 0.3.19+ds-1 [35.7 kB] Get: 58 http://deb.debian.org/debian trixie/main armhf samtools armhf 1.19.2-1 [614 kB] Fetched 29.1 MB in 1s (38.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19635 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-6+b1_armhf.deb ... Unpacking liblocale-gettext-perl (1.07-6+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-2+b1_armhf.deb ... Unpacking libmagic-mgc (1:5.45-2+b1) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../03-libmagic1_1%3a5.45-2+b1_armhf.deb ... Unpacking libmagic1:armhf (1:5.45-2+b1) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-2+b1_armhf.deb ... Unpacking file (1:5.45-2+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-14+b1_armhf.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../06-libuchardet0_0.0.8-1+b1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.23.0-3_armhf.deb ... Unpacking groff-base (1.23.0-3) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.39.3-6_armhf.deb ... Unpacking bsdextrautils (2.39.3-6) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../09-libpipeline1_1.5.7-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.12.0-3_armhf.deb ... Unpacking man-db (2.12.0-3) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-4_armhf.deb ... Unpacking m4 (1.4.19-4) ... 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_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... 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_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... 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Setting up libsasl2-modules-db:armhf (2.1.28+dfsg1-4+b1) ... Setting up libpcre3:armhf (2:8.39-15+b1) ... Setting up autotools-dev (20220109.1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:armhf (6.4+20240113-1) ... Setting up autopoint (0.21-14) ... Setting up libsasl2-2:armhf (2.1.28+dfsg1-4+b1) ... Setting up autoconf (2.71-3) ... Setting up liblzma-dev:armhf (5.6.1+really5.4.5-1) ... Setting up zlib1g-dev:armhf (1:1.3.dfsg-3+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:armhf (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up libssh2-1:armhf (1.11.0-4) ... Setting up nim (1.6.14-1) ... Setting up libdeflate-dev:armhf (1.20-1) ... Setting up libelf1:armhf (0.190-1+b1) ... Setting up libxml2:armhf (2.9.14+dfsg-1.3+b2) ... Setting up liblocale-gettext-perl (1.07-6+b1) ... 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 nim-unicodeplus-dev (0.5.1-2) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3) ... Setting up dh-autoreconf (20) ... Setting up nim-hts-dev (0.3.19+ds-1) ... Setting up nim-regex-dev (0.17.0+ds-2) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.23.0-3) ... Setting up nim-docopt-dev (0.6.8-3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3-gnutls:armhf (8.5.0-2) ... Setting up libcurl4-gnutls-dev:armhf (8.5.0-2) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libhts3:armhf (1.19+ds-1) ... Setting up libhts-dev:armhf (1.19+ds-1) ... Setting up debhelper (13.15.3) ... Setting up samtools (1.19.2-1) ... Processing triggers for libc-bin (2.37-15) ... 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/mosdepth-0.3.6+ds/ && 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 > ../mosdepth_0.3.6+ds-1_source.changes dpkg-buildpackage: info: source package mosdepth dpkg-buildpackage: info: source version 0.3.6+ds-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/mosdepth-0.3.6+ds' rm -f debian/mosdepth.1 rm -f mosdepth rm -rf nimcache rm -f tests/big.bam.csi rm -f tests/ovl.bam tests/ovl.bam.bai tests/overlapping-pairs.bam.bai tests/overlapping-pairs.bam tests/overlapping-pairs.bam tests/empty-tids.bam.bai tests/empty-tids.bam tests/big.bam tests/nanopore.bam tests/nanopore.bam.bai make[1]: Leaving directory '/build/reproducible-path/mosdepth-0.3.6+ds' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/mosdepth-0.3.6+ds' nim c --debuginfo:on -d:release -p:/usr/share/nimble/unicodeplus -p:/usr/share/nimble/unicodedb -p:/usr/share/nimble/regex -p:/usr/share/nimble/docopt -p:/usr/share/nimble/hts --nimcache:/build/reproducible-path/mosdepth-0.3.6+ds/nimcache mosdepth.nim Hint: used config file '/etc/nim/nim.cfg' [Conf] Hint: used config file '/etc/nim/config.nims' [Conf] Hint: used config file '/build/reproducible-path/mosdepth-0.3.6+ds/nim.cfg' [Conf] ........................................................................................................................................ /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(262, 18) template/generic instantiation of `tag` from here /usr/share/nimble/hts/hts/bam/auxtags.nim(63, 7) Warning: unreachable code after 'return' statement or '{.noReturn.}' proc [UnreachableCode] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(262, 18) template/generic instantiation of `tag` from here /usr/share/nimble/hts/hts/bam/auxtags.nim(66, 7) Warning: unreachable code after 'return' statement or '{.noReturn.}' proc [UnreachableCode] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(262, 18) template/generic instantiation of `tag` from here /usr/share/nimble/hts/hts/bam/auxtags.nim(74, 7) Warning: unreachable code after 'return' statement or '{.noReturn.}' proc [UnreachableCode] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(606, 15) Warning: open; wopen_bgzi is deprecated [Deprecated] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(609, 17) Warning: open; wopen_bgzi is deprecated [Deprecated] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(612, 19) Warning: open; wopen_bgzi is deprecated [Deprecated] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(625, 15) Warning: open; wopen_bgzi is deprecated [Deprecated] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(879, 13) Warning: implicit conversion to 'cstring' from a non-const location: $args[""]; this will become a compile time error in the future [CStringConv] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(543, 6) Hint: 'to_tuples' is declared but not used [XDeclaredButNotUsed] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(9, 8) Warning: imported and not used: 'strformat' [UnusedImport] /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim(11, 8) Warning: imported and not used: 'times' [UnusedImport] CC: ../../../usr/lib/nim/lib/std/private/digitsutils.nim CC: ../../../usr/lib/nim/lib/system/assertions.nim CC: ../../../usr/lib/nim/lib/system/dollars.nim CC: ../../../usr/lib/nim/lib/system/io.nim CC: ../../../usr/lib/nim/lib/system.nim CC: ../../../usr/share/nimble/hts/hts/private/hts_concat.nim CC: ../../../usr/lib/nim/lib/pure/parseutils.nim CC: ../../../usr/lib/nim/lib/pure/unicode.nim CC: ../../../usr/lib/nim/lib/pure/math.nim CC: ../../../usr/lib/nim/lib/pure/algorithm.nim CC: ../../../usr/lib/nim/lib/pure/strutils.nim CC: ../../../usr/lib/nim/lib/pure/strformat.nim CC: ../../../usr/share/nimble/hts/hts/bam.nim CC: ../../../usr/lib/nim/lib/pure/collections/sequtils.nim CC: ../../../usr/share/nimble/hts/hts/vcf.nim CC: ../../../usr/share/nimble/hts/hts/bgzf.nim CC: ../../../usr/share/nimble/hts/hts/csi.nim CC: ../../../usr/share/nimble/hts/hts/bgzf/bgzi.nim CC: ../../../usr/share/nimble/hts/hts.nim CC: ../../../usr/lib/nim/lib/pure/hashes.nim CC: ../../../usr/lib/nim/lib/pure/collections/tables.nim CC: int2str.nim CC: ../../../usr/lib/nim/lib/pure/times.nim CC: ../../../usr/lib/nim/lib/pure/os.nim CC: ../../../usr/lib/nim/lib/pure/collections/sets.nim CC: ../../../usr/share/nimble/unicodedb/unicodedb/properties_data.nim CC: ../../../usr/share/nimble/unicodedb/unicodedb/properties.nim CC: ../../../usr/share/nimble/regex/regex/common.nim CC: ../../../usr/share/nimble/regex/regex/nodetype.nim CC: ../../../usr/share/nimble/regex/regex/exptransformation.nim CC: ../../../usr/share/nimble/regex/regex/nfa.nim CC: ../../../usr/share/nimble/unicodedb/unicodedb/types_data.nim CC: ../../../usr/share/nimble/unicodedb/unicodedb/types.nim CC: ../../../usr/share/nimble/unicodeplus/unicodeplus.nim CC: ../../../usr/share/nimble/regex/regex/nodematch.nim CC: ../../../usr/share/nimble/regex/regex/litopt.nim CC: ../../../usr/share/nimble/regex/regex/nfatype.nim CC: ../../../usr/share/nimble/regex/regex/nfafindall.nim CC: ../../../usr/share/nimble/regex/regex/nfamatch.nim CC: ../../../usr/share/nimble/docopt/docopt/util.nim CC: ../../../usr/share/nimble/docopt/docopt.nim CC: depthstat.nim CC: mosdepth.nim Hint: [Link] Hint: gc: refc; opt: speed; options: -d:release 87256 lines; 66.076s; 119.059MiB peakmem; proj: /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth.nim; out: /build/reproducible-path/mosdepth-0.3.6+ds/mosdepth [SuccessX] help2man --no-info --no-discard-stderr --help-option="-h" ./mosdepth > debian/mosdepth.1 rm -f tests/missing.bed for f in debian/missing-sources/*; do \ outp=tests/`echo $f | sed -e 's/sam/bam/' -e 's/debian\/missing\-sources\///'` ; \ cat $f | samtools view -Sb - > $outp ; \ if [ "$outp" = "tests/big.bam" ] ; then \ samtools index $outp -c ; \ continue ; \ fi ; \ samtools index $outp ; \ done make[1]: Leaving directory '/build/reproducible-path/mosdepth-0.3.6+ds' create-stamp debian/debhelper-build-stamp dh_prep dh_install dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing debian/rules override_dh_dwz make[1]: Entering directory '/build/reproducible-path/mosdepth-0.3.6+ds' dh_dwz || true make[1]: Leaving directory '/build/reproducible-path/mosdepth-0.3.6+ds' dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'mosdepth-dbgsym' in '../mosdepth-dbgsym_0.3.6+ds-1_armhf.deb'. dpkg-deb: building package 'mosdepth' in '../mosdepth_0.3.6+ds-1_armhf.deb'. dpkg-deb: building package 'mosdepth-examples' in '../mosdepth-examples_0.3.6+ds-1_all.deb'. dpkg-genbuildinfo --build=binary -O../mosdepth_0.3.6+ds-1_armhf.buildinfo dpkg-genchanges --build=binary -O../mosdepth_0.3.6+ds-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/21348 and its subdirectories I: Current time: Sun Apr 14 13:37:04 -12 2024 I: pbuilder-time-stamp: 1713145024 Mon Apr 15 01:37:16 UTC 2024 I: 1st build successful. Starting 2nd build on remote node virt64z-armhf-rb.debian.net. Mon Apr 15 01:37:16 UTC 2024 I: Preparing to do remote build '2' on virt64z-armhf-rb.debian.net. Mon Apr 15 01:40:21 UTC 2024 I: Deleting $TMPDIR on virt64z-armhf-rb.debian.net. Mon Apr 15 01:40:23 UTC 2024 I: mosdepth_0.3.6+ds-1_armhf.changes: Format: 1.8 Date: Wed, 06 Dec 2023 02:39:09 +0530 Source: mosdepth Binary: mosdepth mosdepth-dbgsym mosdepth-examples Architecture: armhf all Version: 0.3.6+ds-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: mosdepth - BAM/CRAM depth calculation biological sequencing mosdepth-examples - Test data for mosdepth Closes: 1054602 Changes: mosdepth (0.3.6+ds-1) unstable; urgency=medium . [ Andreas Tille ] * Standards-Version: 4.6.2 (routine-update) . [ Nilesh Patra ] * Add Depends on libhts-dev (Closes: #1054602) * New upstream version 0.3.6+ds Checksums-Sha1: 8407a2fb0bd70b14df9b55a73440c5bc3373a10b 1248424 mosdepth-dbgsym_0.3.6+ds-1_armhf.deb d147d6ec2d4e939d33f935ecee3bce915c374e4c 1019956 mosdepth-examples_0.3.6+ds-1_all.deb 92a39092f233cfcc5a17eddccd002e3dfa8188bf 6661 mosdepth_0.3.6+ds-1_armhf.buildinfo 1380691cf8e958c7af43bb137b60058b5e928b58 156536 mosdepth_0.3.6+ds-1_armhf.deb Checksums-Sha256: 8773782a094e7f33b02833b929ea544a6b2753e72c4a49be80ba5c1420775acb 1248424 mosdepth-dbgsym_0.3.6+ds-1_armhf.deb 48bde27502e6ffe642dc0c077b4c9821e6dee91f11d5a4f7aeafc7ebfc91a916 1019956 mosdepth-examples_0.3.6+ds-1_all.deb 7b311b1e08e5108e419076ceae52745a5b4299eac3ca2a49a1cf4411737e3303 6661 mosdepth_0.3.6+ds-1_armhf.buildinfo 6c86505ffb41a43c9a290c9e433fc699aaf53d0715745886f1f4a86e0e1d3c33 156536 mosdepth_0.3.6+ds-1_armhf.deb Files: d8860bbde0354fd29fbcba1dae242abe 1248424 debug optional mosdepth-dbgsym_0.3.6+ds-1_armhf.deb 26fc3402148b9f25199e82f7ddc15c42 1019956 science optional mosdepth-examples_0.3.6+ds-1_all.deb 2adf1b1c609ba26878802561e83e5190 6661 science optional mosdepth_0.3.6+ds-1_armhf.buildinfo 882f748cff3f98d1af744e295c2d74b0 156536 science optional mosdepth_0.3.6+ds-1_armhf.deb Mon Apr 15 01:40:24 UTC 2024 I: diffoscope 264 will be used to compare the two builds: Running as unit: rb-diffoscope-armhf_16-3176.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.RnUcIJY3/mosdepth_0.3.6+ds-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.RnUcIJY3/mosdepth_0.3.6+ds-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.RnUcIJY3/mosdepth_0.3.6+ds-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.RnUcIJY3/b1/mosdepth_0.3.6+ds-1_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.RnUcIJY3/b2/mosdepth_0.3.6+ds-1_armhf.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.424s) 0.424s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.050s) 0.050s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 842ms CPU time consumed: 813ms Mon Apr 15 01:40:26 UTC 2024 I: diffoscope 264 found no differences in the changes files, and a .buildinfo file also exists. Mon Apr 15 01:40:26 UTC 2024 I: mosdepth from trixie built successfully and reproducibly on armhf. Mon Apr 15 01:40:27 UTC 2024 I: Submitting .buildinfo files to external archives: Mon Apr 15 01:40:27 UTC 2024 I: Submitting 8.0K b1/mosdepth_0.3.6+ds-1_armhf.buildinfo.asc Mon Apr 15 01:40:28 UTC 2024 I: Submitting 8.0K b2/mosdepth_0.3.6+ds-1_armhf.buildinfo.asc Mon Apr 15 01:40:30 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Apr 15 01:40:30 UTC 2024 I: Done submitting .buildinfo files. Mon Apr 15 01:40:30 UTC 2024 I: Removing signed mosdepth_0.3.6+ds-1_armhf.buildinfo.asc files: removed './b1/mosdepth_0.3.6+ds-1_armhf.buildinfo.asc' removed './b2/mosdepth_0.3.6+ds-1_armhf.buildinfo.asc'