Fri Jul 5 09:03:01 UTC 2024 I: starting to build pbdagcon/bullseye/amd64 on jenkins on '2024-07-05 09:02' Fri Jul 5 09:03:01 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_14/12087/console.log Fri Jul 5 09:03:01 UTC 2024 I: Downloading source for bullseye/pbdagcon=0.3+git20180411.c14c422+dfsg-1 --2024-07-05 09:03:01-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/pbdagcon/pbdagcon_0.3%2bgit20180411.c14c422%2bdfsg-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2333 (2.3K) [text/prs.lines.tag] Saving to: ‘pbdagcon_0.3+git20180411.c14c422+dfsg-1.dsc’ 0K .. 100% 233M=0s 2024-07-05 09:03:01 (233 MB/s) - ‘pbdagcon_0.3+git20180411.c14c422+dfsg-1.dsc’ saved [2333/2333] Fri Jul 5 09:03:01 UTC 2024 I: pbdagcon_0.3+git20180411.c14c422+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: pbdagcon Binary: pbdagcon Architecture: any Version: 0.3+git20180411.c14c422+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/PacificBiosciences/pbdagcon Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/pbdagcon Vcs-Git: https://salsa.debian.org/med-team/pbdagcon.git Build-Depends: debhelper-compat (= 12), python3, zlib1g-dev, libhdf5-dev, libboost-dev, libtclap-dev, libpbseq-dev (>= 5.3.3), libpbbam-dev (>= 0.18.0+dfsg-1~), libpbdata-dev (>= 5.3.3), libpbcopper-dev (>= 1.3.0), libpbihdf-dev (>= 5.3.3), googletest Package-List: pbdagcon deb science optional arch=any Checksums-Sha1: 12afc3055828fc218ccab4e287d9e665ce6dec3a 79760 pbdagcon_0.3+git20180411.c14c422+dfsg.orig.tar.xz 6364501166005af8769b23bc277a662c46cc81f1 56564 pbdagcon_0.3+git20180411.c14c422+dfsg-1.debian.tar.xz Checksums-Sha256: f554fedfaa673cb22bebb28d941139e72a1a9284039929c92b16d9c58fc1f8b9 79760 pbdagcon_0.3+git20180411.c14c422+dfsg.orig.tar.xz 1aecdce31d709576fb0cc0ee3f822797e4b8daa36fd9c2d06e915b0d0a075305 56564 pbdagcon_0.3+git20180411.c14c422+dfsg-1.debian.tar.xz Files: 675f3ae464f2315b689464c5ce3dd1e7 79760 pbdagcon_0.3+git20180411.c14c422+dfsg.orig.tar.xz 89084f113cf50bcc6ce6d2b99df3bd2f 56564 pbdagcon_0.3+git20180411.c14c422+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl4wGkgRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtF6lg/9ECXct8c+eIRFyU6rbYg3gP0qcCCrUb5+ mwDp5KLcQOsCah8eYhHMaIpPRI7Udx5vnX/Cd3e5gBOu69yP3s7moJWYI/QPq2yz Ys/oR5LdCk3WsMxJnAXip1cGDfbQ0kkNhUBcvgTGv+jW+SOcOWC73LbygaPe7t2k alEyT3tWjXyadk+/mKxKS9T1iiojuDu18GYU/bGKSBQ71GC4dfC/UY9OD0SQ6hgG C5ZCYBHUdliuWYYeKp6/nNULBzLBjj4B3fIGCyW+6pnKuaGe9MuN+ANOyxzYwd63 ifJYKN5TlZm/tA4Oh8fSNxlgzHPs5PoMzeXfm4IKPO0HhiriPgBa0szz8OJyowe4 WY1n8chAy6nj98F5CB2YhXPa0oYmPl9uOXeoAZQY/hTleifwqukFIm3uFU5/M3Ei KfDv+3449DvmUn80Qr31ctrbtEUDvmmiAuW4XTdtkltsgmwIgFzoRdNmTg0TN0cw 8FWtOlu7sPWWOC+I+w+5BlAprVQtDiMnGdTKS8MHFwpKeU3WiKbVjykpJi02m+iw Brxe7pYzncS7OJJtjLdP/EbBxGeti1iwWOQEP9I10+eOopAdglrfuzAMncT7wYkn EqIUm+6UeMCsA6Bjy1hvFmth0XaAG2nuXdCli+I6ccZ9VdXYkvI0FIra1jGIHdr1 eSDYxBwWBxU= =t7P2 -----END PGP SIGNATURE----- Fri Jul 5 09:03:01 UTC 2024 I: Checking whether the package is not for us Fri Jul 5 09:03:01 UTC 2024 I: Starting 1st build on remote node ionos5-amd64.debian.net. Fri Jul 5 09:03:01 UTC 2024 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Fri Jul 5 09:04:19 UTC 2024 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Aug 7 03:26:00 -12 2025 I: pbuilder-time-stamp: 1754580360 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-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 [pbdagcon_0.3+git20180411.c14c422+dfsg-1.dsc] I: copying [./pbdagcon_0.3+git20180411.c14c422+dfsg.orig.tar.xz] I: copying [./pbdagcon_0.3+git20180411.c14c422+dfsg-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.WNChHTBy/trustedkeys.kbx': General error gpgv: Signature made Mon Jan 27 23:26:00 2020 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./pbdagcon_0.3+git20180411.c14c422+dfsg-1.dsc dpkg-source: info: extracting pbdagcon in pbdagcon-0.3+git20180411.c14c422+dfsg dpkg-source: info: unpacking pbdagcon_0.3+git20180411.c14c422+dfsg.orig.tar.xz dpkg-source: info: unpacking pbdagcon_0.3+git20180411.c14c422+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying compiler-flags.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying libdata_libpbihdf.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3731852/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=42 ' DISTRIBUTION='bullseye' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='90f1d75b6f5d46f28e390a8a13cb8cf0' 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='3731852' 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.ZARpsUjB/pbuilderrc_T8h9 --distribution bullseye --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZARpsUjB/b1 --logfile b1/build.log pbdagcon_0.3+git20180411.c14c422+dfsg-1.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.7.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.7.12-1~bpo12+1 (2024-05-06) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Mar 27 2022 bash -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 18424 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 43936 Sep 23 2020 cat -rwxr-xr-x 1 root root 72672 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 23 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 23 2020 chown -rwxr-xr-x 1 root root 151168 Sep 23 2020 cp -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash -rwxr-xr-x 1 root root 113664 Sep 23 2020 date -rwxr-xr-x 1 root root 80968 Sep 23 2020 dd -rwxr-xr-x 1 root root 93936 Sep 23 2020 df -rwxr-xr-x 1 root root 147176 Sep 23 2020 dir -rwxr-xr-x 1 root root 84440 Mar 27 2024 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Jan 24 2023 egrep -rwxr-xr-x 1 root root 39680 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 69032 Mar 27 2024 findmnt -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 203072 Jan 24 2023 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 98048 Apr 9 2022 gzip -rwxr-xr-x 1 root root 22600 Nov 6 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 23 2020 ln -rwxr-xr-x 1 root root 56952 Feb 7 2020 login -rwxr-xr-x 1 root root 147176 Sep 23 2020 ls -rwxr-xr-x 1 root root 149736 Mar 27 2024 lsblk -rwxr-xr-x 1 root root 85184 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 23 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 59632 Mar 27 2024 more -rwsr-xr-x 1 root root 55528 Mar 27 2024 mount -rwxr-xr-x 1 root root 18664 Mar 27 2024 mountpoint -rwxr-xr-x 1 root root 147080 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Dec 16 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Mar 27 2022 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 23 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 23 2020 rm -rwxr-xr-x 1 root root 52032 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jul 10 03:46 sh -> dash -rwxr-xr-x 1 root root 43808 Sep 23 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 23 2020 stty -rwsr-xr-x 1 root root 71912 Mar 27 2024 su -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync -rwxr-xr-x 1 root root 531928 Jan 19 2024 tar -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 23 2020 touch -rwxr-xr-x 1 root root 39680 Sep 23 2020 true -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Mar 27 2024 umount -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir -rwxr-xr-x 1 root root 63744 Mar 27 2024 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 5898 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8049 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/3731852/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 12), python3, zlib1g-dev, libhdf5-dev, libboost-dev, libtclap-dev, libpbseq-dev (>= 5.3.3), libpbbam-dev (>= 0.18.0+dfsg-1~), libpbdata-dev (>= 5.3.3), libpbcopper-dev (>= 1.3.0), libpbihdf-dev (>= 5.3.3), googletest dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19711 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 (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libtclap-dev; however: Package libtclap-dev is not installed. pbuilder-satisfydepends-dummy depends on libpbseq-dev (>= 5.3.3); however: Package libpbseq-dev is not installed. pbuilder-satisfydepends-dummy depends on libpbbam-dev (>= 0.18.0+dfsg-1~); however: Package libpbbam-dev is not installed. pbuilder-satisfydepends-dummy depends on libpbdata-dev (>= 5.3.3); however: Package libpbdata-dev is not installed. pbuilder-satisfydepends-dummy depends on libpbcopper-dev (>= 1.3.0); however: Package libpbcopper-dev is not installed. pbuilder-satisfydepends-dummy depends on libpbihdf-dev (>= 5.3.3); however: Package libpbihdf-dev is not installed. pbuilder-satisfydepends-dummy depends on googletest; however: Package googletest 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} googletest{a} groff-base{a} hdf5-helpers{a} intltool-debian{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libblasr-dev{a} libblasr5.3.4{a} libboost-dev{a} libboost1.74-dev{a} libbrotli1{a} libcurl3-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libhdf5-103-1{a} libhdf5-cpp-103-1{a} libhdf5-dev{a} libhdf5-fortran-102{a} libhdf5-hl-100{a} libhdf5-hl-cpp-100{a} libhdf5-hl-fortran-100{a} libhts-dev{a} libhts3{a} libicu67{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libldap-2.4-2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libmpdec3{a} libnghttp2-14{a} libpbbam-dev{a} libpbbam1.6.0{a} libpbcopper-dev{a} libpbcopper1.8.0{a} libpbdata-dev{a} libpbihdf-dev{a} libpbseq-dev{a} libpipeline1{a} libpsl5{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libssl-dev{a} libsub-override-perl{a} libsz2{a} libtclap-dev{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} po-debconf{a} python3{a} python3-minimal{a} python3.9{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix wget 0 packages upgraded, 88 newly installed, 0 to remove and 0 not upgraded. Need to get 53.0 MB of archives. After unpacking 307 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8+deb11u2 [146 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2+deb11u5 [98.2 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3+deb11u1 [273 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3+deb11u1 [128 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3+deb11u1 [69.2 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7+deb11u4 [693 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 googletest all 1.10.0.20201025-1.1 [629 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 hdf5-helpers amd64 1.10.6+repack-4+deb11u1 [40.4 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 libaec0 amd64 1.0.4-1 [20.3 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 libsz2 amd64 1.0.4-1 [6760 B] Get: 48 http://deb.debian.org/debian bullseye/main amd64 libaec-dev amd64 1.0.4-1 [18.7 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 libhdf5-103-1 amd64 1.10.6+repack-4+deb11u1 [1189 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 libhdf5-cpp-103-1 amd64 1.10.6+repack-4+deb11u1 [141 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1+deb11u1 [69.1 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1+deb11u1 [106 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3+deb11u1 [232 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1+deb11u1 [77.2 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2+deb11u1 [156 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libcurl3-gnutls amd64 7.74.0-1.3+deb11u12 [344 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 libhts3 amd64 1.11-4 [378 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libpbcopper1.8.0 amd64 1.8.0+dfsg-2+b1 [452 kB] Get: 63 http://deb.debian.org/debian bullseye/main amd64 libpbbam1.6.0 amd64 1.6.0+dfsg-2 [687 kB] Get: 64 http://deb.debian.org/debian bullseye/main amd64 libblasr5.3.4 amd64 5.3.4+dfsg-3 [1098 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 libpbcopper-dev amd64 1.8.0+dfsg-2+b1 [707 kB] Get: 66 http://deb.debian.org/debian bullseye/main amd64 libpbdata-dev amd64 5.3.4+dfsg-3 [41.0 kB] Get: 67 http://deb.debian.org/debian bullseye/main amd64 libblasr-dev amd64 5.3.4+dfsg-3 [2074 kB] Get: 68 http://deb.debian.org/debian bullseye/main amd64 libboost1.74-dev amd64 1.74.0-9 [9534 kB] Get: 69 http://deb.debian.org/debian bullseye/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get: 70 http://deb.debian.org/debian bullseye/main amd64 libcurl4-gnutls-dev amd64 7.74.0-1.3+deb11u12 [435 kB] Get: 71 http://deb.debian.org/debian bullseye/main amd64 libdeflate-dev amd64 1.7-1 [46.9 kB] Get: 72 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get: 73 http://deb.debian.org/debian bullseye/main amd64 libhdf5-fortran-102 amd64 1.10.6+repack-4+deb11u1 [105 kB] Get: 74 http://deb.debian.org/debian bullseye/main amd64 libhdf5-hl-100 amd64 1.10.6+repack-4+deb11u1 [81.8 kB] Get: 75 http://deb.debian.org/debian bullseye/main amd64 libhdf5-hl-fortran-100 amd64 1.10.6+repack-4+deb11u1 [56.8 kB] Get: 76 http://deb.debian.org/debian bullseye/main amd64 libhdf5-hl-cpp-100 amd64 1.10.6+repack-4+deb11u1 [37.7 kB] Get: 77 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2+deb11u2 [191 kB] Get: 78 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get: 79 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo-dev amd64 1:2.0.6-4 [278 kB] Get: 80 http://deb.debian.org/debian bullseye/main amd64 libjpeg-dev amd64 1:2.0.6-4 [67.8 kB] Get: 81 http://deb.debian.org/debian bullseye/main amd64 libhdf5-dev amd64 1.10.6+repack-4+deb11u1 [2438 kB] Get: 82 http://deb.debian.org/debian bullseye/main amd64 liblzma-dev amd64 5.2.5-2.1~deb11u1 [229 kB] Get: 83 http://deb.debian.org/debian bullseye/main amd64 libhts-dev amd64 1.11-4 [3858 kB] Get: 84 http://deb.debian.org/debian bullseye/main amd64 libssl-dev amd64 1.1.1w-0+deb11u1 [1820 kB] Get: 85 http://deb.debian.org/debian bullseye/main amd64 libpbbam-dev amd64 1.6.0+dfsg-2 [87.2 kB] Get: 86 http://deb.debian.org/debian bullseye/main amd64 libpbihdf-dev amd64 5.3.4+dfsg-3 [47.5 kB] Get: 87 http://deb.debian.org/debian bullseye/main amd64 libpbseq-dev amd64 5.3.4+dfsg-3 [5220 B] Get: 88 http://deb.debian.org/debian bullseye/main amd64 libtclap-dev amd64 1.2.3-1 [143 kB] Fetched 53.0 MB in 1s (46.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19711 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-8+deb11u2_amd64.deb ... Unpacking bsdextrautils (2.36.1-8+deb11u2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../1-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. 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Setting up libexpat1:amd64 (2.2.10-2+deb11u5) ... Setting up python3.9-minimal (3.9.2-1) ... 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 ... 20578 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_amd64.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package libmpdec3:amd64. Preparing to unpack .../2-libmpdec3_2.5.1-1_amd64.deb ... Unpacking libmpdec3:amd64 (2.5.1-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../3-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../4-libreadline8_8.1-1_amd64.deb ... Unpacking libreadline8:amd64 (8.1-1) ... Selecting previously unselected package libpython3.9-stdlib:amd64. Preparing to unpack .../5-libpython3.9-stdlib_3.9.2-1_amd64.deb ... Unpacking libpython3.9-stdlib:amd64 (3.9.2-1) ... Selecting previously unselected package python3.9. Preparing to unpack .../6-python3.9_3.9.2-1_amd64.deb ... Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../7-libpython3-stdlib_3.9.2-3_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.9.2-3) ... Setting up python3-minimal (3.9.2-3) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20999 files and directories currently installed.) Preparing to unpack .../00-python3_3.9.2-3_amd64.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.39-3+deb11u1_amd64.deb ... Unpacking libmagic-mgc (1:5.39-3+deb11u1) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../03-libmagic1_1%3a5.39-3+deb11u1_amd64.deb ... Unpacking libmagic1:amd64 (1:5.39-3+deb11u1) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.39-3+deb11u1_amd64.deb ... Unpacking file (1:5.39-3+deb11u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-4_amd64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../06-libsigsegv2_2.13-1_amd64.deb ... Unpacking libsigsegv2:amd64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../07-m4_1.4.18-5_amd64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. 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Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package libicu67:amd64. Preparing to unpack .../21-libicu67_67.1-7_amd64.deb ... Unpacking libicu67:amd64 (67.1-7) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../22-libxml2_2.9.10+dfsg-6.7+deb11u4_amd64.deb ... Unpacking libxml2:amd64 (2.9.10+dfsg-6.7+deb11u4) ... Selecting previously unselected package gettext. Preparing to unpack .../23-gettext_0.21-4_amd64.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../24-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../25-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../26-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package googletest. Preparing to unpack .../27-googletest_1.10.0.20201025-1.1_all.deb ... Unpacking googletest (1.10.0.20201025-1.1) ... Selecting previously unselected package hdf5-helpers. Preparing to unpack .../28-hdf5-helpers_1.10.6+repack-4+deb11u1_amd64.deb ... Unpacking hdf5-helpers (1.10.6+repack-4+deb11u1) ... Selecting previously unselected package libaec0:amd64. Preparing to unpack .../29-libaec0_1.0.4-1_amd64.deb ... Unpacking libaec0:amd64 (1.0.4-1) ... Selecting previously unselected package libsz2:amd64. Preparing to unpack .../30-libsz2_1.0.4-1_amd64.deb ... Unpacking libsz2:amd64 (1.0.4-1) ... Selecting previously unselected package libaec-dev:amd64. Preparing to unpack .../31-libaec-dev_1.0.4-1_amd64.deb ... Unpacking libaec-dev:amd64 (1.0.4-1) ... Selecting previously unselected package libhdf5-103-1:amd64. Preparing to unpack .../32-libhdf5-103-1_1.10.6+repack-4+deb11u1_amd64.deb ... Unpacking libhdf5-103-1:amd64 (1.10.6+repack-4+deb11u1) ... Selecting previously unselected package libhdf5-cpp-103-1:amd64. Preparing to unpack .../33-libhdf5-cpp-103-1_1.10.6+repack-4+deb11u1_amd64.deb ... Unpacking libhdf5-cpp-103-1:amd64 (1.10.6+repack-4+deb11u1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../34-libbrotli1_1.0.9-2+b2_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../35-libsasl2-modules-db_2.1.27+dfsg-2.1+deb11u1_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../36-libsasl2-2_2.1.27+dfsg-2.1+deb11u1_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../37-libldap-2.4-2_2.4.57+dfsg-3+deb11u1_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../38-libnghttp2-14_1.43.0-1+deb11u1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.43.0-1+deb11u1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../39-libpsl5_0.21.0-1.2_amd64.deb ... Unpacking libpsl5:amd64 (0.21.0-1.2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../40-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../41-libssh2-1_1.9.0-2+deb11u1_amd64.deb ... Unpacking libssh2-1:amd64 (1.9.0-2+deb11u1) ... Selecting previously unselected package libcurl3-gnutls:amd64. Preparing to unpack .../42-libcurl3-gnutls_7.74.0-1.3+deb11u12_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u12) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../43-libdeflate0_1.7-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.7-1) ... Selecting previously unselected package libhts3:amd64. Preparing to unpack .../44-libhts3_1.11-4_amd64.deb ... Unpacking libhts3:amd64 (1.11-4) ... Selecting previously unselected package libpbcopper1.8.0:amd64. Preparing to unpack .../45-libpbcopper1.8.0_1.8.0+dfsg-2+b1_amd64.deb ... Unpacking libpbcopper1.8.0:amd64 (1.8.0+dfsg-2+b1) ... Selecting previously unselected package libpbbam1.6.0:amd64. Preparing to unpack .../46-libpbbam1.6.0_1.6.0+dfsg-2_amd64.deb ... Unpacking libpbbam1.6.0:amd64 (1.6.0+dfsg-2) ... Selecting previously unselected package libblasr5.3.4. Preparing to unpack .../47-libblasr5.3.4_5.3.4+dfsg-3_amd64.deb ... Unpacking libblasr5.3.4 (5.3.4+dfsg-3) ... Selecting previously unselected package libpbcopper-dev:amd64. Preparing to unpack .../48-libpbcopper-dev_1.8.0+dfsg-2+b1_amd64.deb ... Unpacking libpbcopper-dev:amd64 (1.8.0+dfsg-2+b1) ... Selecting previously unselected package libpbdata-dev. Preparing to unpack .../49-libpbdata-dev_5.3.4+dfsg-3_amd64.deb ... Unpacking libpbdata-dev (5.3.4+dfsg-3) ... Selecting previously unselected package libblasr-dev. Preparing to unpack .../50-libblasr-dev_5.3.4+dfsg-3_amd64.deb ... Unpacking libblasr-dev (5.3.4+dfsg-3) ... Selecting previously unselected package libboost1.74-dev:amd64. Preparing to unpack .../51-libboost1.74-dev_1.74.0-9_amd64.deb ... Unpacking libboost1.74-dev:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-dev:amd64. Preparing to unpack .../52-libboost-dev_1.74.0.3_amd64.deb ... Unpacking libboost-dev:amd64 (1.74.0.3) ... Selecting previously unselected package libcurl4-gnutls-dev:amd64. Preparing to unpack .../53-libcurl4-gnutls-dev_7.74.0-1.3+deb11u12_amd64.deb ... Unpacking libcurl4-gnutls-dev:amd64 (7.74.0-1.3+deb11u12) ... Selecting previously unselected package libdeflate-dev:amd64. Preparing to unpack .../54-libdeflate-dev_1.7-1_amd64.deb ... Unpacking libdeflate-dev:amd64 (1.7-1) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../55-libgfortran5_10.2.1-6_amd64.deb ... Unpacking libgfortran5:amd64 (10.2.1-6) ... Selecting previously unselected package libhdf5-fortran-102:amd64. Preparing to unpack .../56-libhdf5-fortran-102_1.10.6+repack-4+deb11u1_amd64.deb ... Unpacking libhdf5-fortran-102:amd64 (1.10.6+repack-4+deb11u1) ... Selecting previously unselected package libhdf5-hl-100:amd64. Preparing to unpack .../57-libhdf5-hl-100_1.10.6+repack-4+deb11u1_amd64.deb ... Unpacking libhdf5-hl-100:amd64 (1.10.6+repack-4+deb11u1) ... Selecting previously unselected package libhdf5-hl-fortran-100:amd64. Preparing to unpack .../58-libhdf5-hl-fortran-100_1.10.6+repack-4+deb11u1_amd64.deb ... Unpacking libhdf5-hl-fortran-100:amd64 (1.10.6+repack-4+deb11u1) ... Selecting previously unselected package libhdf5-hl-cpp-100:amd64. Preparing to unpack .../59-libhdf5-hl-cpp-100_1.10.6+repack-4+deb11u1_amd64.deb ... Unpacking libhdf5-hl-cpp-100:amd64 (1.10.6+repack-4+deb11u1) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../60-zlib1g-dev_1%3a1.2.11.dfsg-2+deb11u2_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../61-libjpeg62-turbo_1%3a2.0.6-4_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.0.6-4) ... Selecting previously unselected package libjpeg62-turbo-dev:amd64. Preparing to unpack .../62-libjpeg62-turbo-dev_1%3a2.0.6-4_amd64.deb ... Unpacking libjpeg62-turbo-dev:amd64 (1:2.0.6-4) ... Selecting previously unselected package libjpeg-dev:amd64. Preparing to unpack .../63-libjpeg-dev_1%3a2.0.6-4_amd64.deb ... Unpacking libjpeg-dev:amd64 (1:2.0.6-4) ... Selecting previously unselected package libhdf5-dev. Preparing to unpack .../64-libhdf5-dev_1.10.6+repack-4+deb11u1_amd64.deb ... Unpacking libhdf5-dev (1.10.6+repack-4+deb11u1) ... Selecting previously unselected package liblzma-dev:amd64. Preparing to unpack .../65-liblzma-dev_5.2.5-2.1~deb11u1_amd64.deb ... Unpacking liblzma-dev:amd64 (5.2.5-2.1~deb11u1) ... Selecting previously unselected package libhts-dev:amd64. Preparing to unpack .../66-libhts-dev_1.11-4_amd64.deb ... Unpacking libhts-dev:amd64 (1.11-4) ... Selecting previously unselected package libssl-dev:amd64. Preparing to unpack .../67-libssl-dev_1.1.1w-0+deb11u1_amd64.deb ... Unpacking libssl-dev:amd64 (1.1.1w-0+deb11u1) ... Selecting previously unselected package libpbbam-dev. Preparing to unpack .../68-libpbbam-dev_1.6.0+dfsg-2_amd64.deb ... Unpacking libpbbam-dev (1.6.0+dfsg-2) ... Selecting previously unselected package libpbihdf-dev. Preparing to unpack .../69-libpbihdf-dev_5.3.4+dfsg-3_amd64.deb ... Unpacking libpbihdf-dev (5.3.4+dfsg-3) ... Selecting previously unselected package libpbseq-dev. Preparing to unpack .../70-libpbseq-dev_5.3.4+dfsg-3_amd64.deb ... Unpacking libpbseq-dev (5.3.4+dfsg-3) ... Selecting previously unselected package libtclap-dev. Preparing to unpack .../71-libtclap-dev_1.2.3-1_amd64.deb ... Unpacking libtclap-dev (1.2.3-1) ... Setting up media-types (4.0.0) ... Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up libboost1.74-dev:amd64 (1.74.0-9) ... Setting up bsdextrautils (2.36.1-8+deb11u2) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up hdf5-helpers (1.10.6+repack-4+deb11u1) ... Setting up libicu67:amd64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3+deb11u1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up libnghttp2-14:amd64 (1.43.0-1+deb11u1) ... Setting up libmagic1:amd64 (1:5.39-3+deb11u1) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3+deb11u1) ... Setting up googletest (1.10.0.20201025-1.1) ... Setting up libaec0:amd64 (1.0.4-1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.0.6-4) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up libssl-dev:amd64 (1.1.1w-0+deb11u1) ... Setting up autopoint (0.21-4) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up libtclap-dev (1.2.3-1) ... Setting up liblzma-dev:amd64 (5.2.5-2.1~deb11u1) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libpbcopper1.8.0:amd64 (1.8.0+dfsg-2+b1) ... Setting up libssh2-1:amd64 (1.9.0-2+deb11u1) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up libdeflate-dev:amd64 (1.7-1) ... Setting up libelf1:amd64 (0.183-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7+deb11u4) ... Setting up libsz2:amd64 (1.0.4-1) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up libreadline8:amd64 (8.1-1) ... Setting up libaec-dev:amd64 (1.0.4-1) ... Setting up libjpeg-dev:amd64 (1:2.0.6-4) ... Setting up libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Setting up m4 (1.4.18-5) ... Setting up libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u12) ... Setting up libcurl4-gnutls-dev:amd64 (7.74.0-1.3+deb11u12) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libpbcopper-dev:amd64 (1.8.0+dfsg-2+b1) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up libhdf5-103-1:amd64 (1.10.6+repack-4+deb11u1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up libhdf5-cpp-103-1:amd64 (1.10.6+repack-4+deb11u1) ... Setting up libpython3.9-stdlib:amd64 (3.9.2-1) ... Setting up libpython3-stdlib:amd64 (3.9.2-3) ... Setting up libhdf5-hl-100:amd64 (1.10.6+repack-4+deb11u1) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libhts3:amd64 (1.11-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpbdata-dev (5.3.4+dfsg-3) ... Setting up libhts-dev:amd64 (1.11-4) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up libhdf5-hl-cpp-100:amd64 (1.10.6+repack-4+deb11u1) ... Setting up libhdf5-fortran-102:amd64 (1.10.6+repack-4+deb11u1) ... Setting up libhdf5-hl-fortran-100:amd64 (1.10.6+repack-4+deb11u1) ... Setting up libpbbam1.6.0:amd64 (1.6.0+dfsg-2) ... Setting up python3.9 (3.9.2-1) ... Setting up debhelper (13.3.4) ... Setting up python3 (3.9.2-3) ... Setting up libblasr5.3.4 (5.3.4+dfsg-3) ... Setting up libblasr-dev (5.3.4+dfsg-3) ... Setting up libhdf5-dev (1.10.6+repack-4+deb11u1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libpbbam-dev (1.6.0+dfsg-2) ... Setting up libpbihdf-dev (5.3.4+dfsg-3) ... Setting up libpbseq-dev (5.3.4+dfsg-3) ... Processing triggers for libc-bin (2.31-13+deb11u10) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.25.3-1.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+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 > ../pbdagcon_0.3+git20180411.c14c422+dfsg-1_source.changes dpkg-buildpackage: info: source package pbdagcon dpkg-buildpackage: info: source version 0.3+git20180411.c14c422+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 amd64 fakeroot debian/rules clean dh clean dh_auto_clean make -j42 clean make[1]: Entering directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg' make -C src/cpp clean make[2]: Entering directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/src/cpp' rm -f *.d rm -f *.o rm -f pbdagcon rm -f dazcon make[2]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/src/cpp' make -C test/cpp clean make[2]: Entering directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/test/cpp' rm -f .//*.o rm -f *.o rm -f test_* make[2]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/test/cpp' make[1]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg' dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg' ./configure.py --shared uname -s uname='Linux' writing to '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/defines.mk' """ DALIGNER_INCLUDE ?= ${DALIGNER_SRC} DALIGNER_SRC ?= /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include DAZZ_DB_INCLUDE ?= ${DAZZ_DB_SRC} DAZZ_DB_SRC ?= /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include GTEST_INCLUDE ?= /usr/src/googletest/googletest/include GTEST_SRC ?= /usr/src/googletest/googletest/src HDF5_LIB ?= /usr/lib/x86_64-linux-gnu/hdf5/serial HDF5_LIBFLAGS ?= -lhdf5_cpp -lhdf5 HTSLIB_LIBS ?= -lhts LIBBLASR_INCLUDE ?= /usr/include/pbseq/alignment LIBBLASR_LIBFLAGS ?= -lblasr LIBPBDATA_INCLUDE ?= /usr/include/pbseq/pbdata LIBPBIHDF_INCLUDE ?= /usr/include/pbseq/hdf PBBAM_INCLUDE ?= /usr/include/pbseq PBBAM_LIBFLAGS ?= -lpbbam PTHREAD_LIBFLAGS ?= -lpthread ZLIB_LIBFLAGS ?= -lz LDLIBS+=-lrt """ make[1]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg' dh_auto_build make -j42 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg' make -C src/cpp make[2]: Entering directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/src/cpp' g++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wall -Wuninitialized -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o Alignment.o Alignment.cpp g++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wall -Wuninitialized -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o AlnGraphBoost.o AlnGraphBoost.cpp g++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wall -Wuninitialized -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o BlasrM5AlnProvider.o BlasrM5AlnProvider.cpp g++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wall -Wuninitialized -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o main.o main.cpp g++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wall -Wuninitialized -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o SimpleAligner.o SimpleAligner.cpp cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -O3 -Wall -Wextra -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o DB.o /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -O3 -Wall -Wextra -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o QV.o /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/QV.c cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -O3 -Wall -Wextra -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o align.o /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include/align.c g++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wall -Wuninitialized -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o DazAlnProvider.o DazAlnProvider.cpp g++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wall -Wuninitialized -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -isystem.//third-party -c -o dazcon.o dazcon.cpp cc1: warning: command-line option '-std=c++11' is valid for C++/ObjC++ but not for C cc1: warning: command-line option '-std=c++11' is valid for C++/ObjC++ but not for C cc1: warning: command-line option '-std=c++11' is valid for C++/ObjC++ but not for C /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c: In function 'Open_QVs': /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c:2415:16: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2415 | (void) fscanf(istub,DB_NFILE,&nfiles); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c:2419:20: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2419 | { (void) fscanf(istub,DB_FDATA,&last,fname,prolog); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c:2424:20: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2424 | { (void) fscanf(istub,DB_FDATA,&last,fname,prolog); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o pbdagcon Alignment.o AlnGraphBoost.o BlasrM5AlnProvider.o main.o SimpleAligner.o -Wl,-z,relro -L /usr/lib/x86_64-linux-gnu/hdf5/serial -lrt -lblasr -lpbbam -lhdf5_cpp -lhdf5 -lhts -lz -lpthread g++ -o dazcon Alignment.o AlnGraphBoost.o DB.o QV.o align.o DazAlnProvider.o dazcon.o -Wl,-z,relro -L /usr/lib/x86_64-linux-gnu/hdf5/serial -lrt -lblasr -lpbbam -lhdf5_cpp -lhdf5 -lhts -lz -lpthread make[2]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/src/cpp' make[1]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg' dh_auto_test make -j42 check make[1]: Entering directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg' make -C src/cpp make[2]: Entering directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/src/cpp' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/src/cpp' make -C test/cpp make[2]: Entering directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/test/cpp' g++ -O3 -std=c++14 -g -Wall -Wextra -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -isystem /usr/src/googletest/googletest/include -isystem /usr/src/googletest/googletest/src/.. -c -o gtest-all.o /usr/src/googletest/googletest/src/gtest-all.cc g++ -O3 -std=c++14 -g -Wall -Wextra -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -isystem /usr/src/googletest/googletest/include -isystem /usr/src/googletest/googletest/src/.. -c -o gtest_main.o /usr/src/googletest/googletest/src/gtest_main.cc g++ -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o AlnGraphBoost.o .//../../src/cpp/AlnGraphBoost.cpp g++ -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o Alignment.o .//../../src/cpp/Alignment.cpp g++ -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o SimpleAligner.o .//../../src/cpp/SimpleAligner.cpp g++ -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o AlnGraphBoostTest.o AlnGraphBoostTest.cpp mkdir xml g++ -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o AlignmentTest.o AlignmentTest.cpp g++ -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o SimpleAlignerTest.o SimpleAlignerTest.cpp cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o DB.o /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o QV.o /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/QV.c cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o align.o /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include/align.c g++ -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o DazAlnProvider.o .//../../src/cpp/DazAlnProvider.cpp g++ -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -I. -I./ -I.//../../src/cpp -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include -I/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/daligner-include -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -I/usr/include/pbseq -I/usr/src/googletest/googletest/include -Ithird-party -c -o TargetHitTest.o TargetHitTest.cpp cc1: warning: command-line option '-std=c++11' is valid for C++/ObjC++ but not for C cc1: warning: command-line option '-std=c++11' is valid for C++/ObjC++ but not for C cc1: warning: command-line option '-std=c++11' is valid for C++/ObjC++ but not for C /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c: In function 'Open_QVs': /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c:2415:16: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2415 | (void) fscanf(istub,DB_NFILE,&nfiles); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c:2419:20: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2419 | { (void) fscanf(istub,DB_FDATA,&last,fname,prolog); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/debian/dazzdb-include/DB.c:2424:20: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2424 | { (void) fscanf(istub,DB_FDATA,&last,fname,prolog); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o test-alngraph gtest-all.o gtest_main.o AlnGraphBoost.o Alignment.o SimpleAligner.o AlnGraphBoostTest.o -Wl,-z,relro -L /usr/lib/x86_64-linux-gnu/hdf5/serial -lrt -lblasr -lpbbam -lhdf5_cpp -lhdf5 -lhts -lz -lpthread g++ -o test-alignment gtest-all.o gtest_main.o AlnGraphBoost.o Alignment.o SimpleAligner.o AlignmentTest.o -Wl,-z,relro -L /usr/lib/x86_64-linux-gnu/hdf5/serial -lrt -lblasr -lpbbam -lhdf5_cpp -lhdf5 -lhts -lz -lpthread g++ -o test-simple_aligner gtest-all.o gtest_main.o AlnGraphBoost.o Alignment.o SimpleAligner.o SimpleAlignerTest.o -Wl,-z,relro -L /usr/lib/x86_64-linux-gnu/hdf5/serial -lrt -lblasr -lpbbam -lhdf5_cpp -lhdf5 -lhts -lz -lpthread g++ -o test-target_hit gtest-all.o gtest_main.o DB.o QV.o align.o Alignment.o DazAlnProvider.o TargetHitTest.o -Wl,-z,relro -L /usr/lib/x86_64-linux-gnu/hdf5/serial -lrt -lblasr -lpbbam -lhdf5_cpp -lhdf5 -lhts -lz -lpthread LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-target_hit --gtest_output=xml:xml/test-target_hit.xml Running main() from /usr/src/googletest/googletest/src/gtest_main.cc [==========] Running 3 tests from 1 test suite. [----------] Global test environment set-up. [----------] 3 tests from TargetHitTest [ RUN ] TargetHitTest.single_overlap_perfect [ OK ] TargetHitTest.single_overlap_perfect (0 ms) [ RUN ] TargetHitTest.single_overlap_inaccurate [ OK ] TargetHitTest.single_overlap_inaccurate (0 ms) [ RUN ] TargetHitTest.multi_overlap_inaccurate [ OK ] TargetHitTest.multi_overlap_inaccurate (0 ms) [----------] 3 tests from TargetHitTest (0 ms total) [----------] Global test environment tear-down [==========] 3 tests from 1 test suite ran. (0 ms total) [ PASSED ] 3 tests. LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-alignment --gtest_output=xml:xml/test-alignment.xml LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-simple_aligner --gtest_output=xml:xml/test-simple_aligner.xml LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-alngraph --gtest_output=xml:xml/test-alngraph.xml Running main() from /usr/src/googletest/googletest/src/gtest_main.cc [==========] Running 4 tests from 1 test suite. [----------] Global test environment set-up. [----------] 4 tests from Alignment [ RUN ] Alignment.Normalize [ OK ] Alignment.Normalize (0 ms) [ RUN ] Alignment.ParseBasic [ OK ] Alignment.ParseBasic (1 ms) [ RUN ] Alignment.ParseQuery [ OK ] Alignment.ParseQuery (0 ms) [ RUN ] Alignment.Trim [ OK ] Alignment.Trim (0 ms) [----------] 4 tests from Alignment (1 ms total) [----------] Global test environment tear-down [==========] 4 tests from 1 test suite ran. (1 ms total) [ PASSED ] 4 tests. Running main() from /usr/src/googletest/googletest/src/gtest_main.cc [==========] Running 1 test from 1 test suite. [----------] Global test environment set-up. [----------] 1 test from SimpleAligner [ RUN ] SimpleAligner.align Running main() from /usr/src/googletest/googletest/src/gtest_main.cc [==========] Running 2 tests from 1 test suite. [----------] Global test environment set-up. [----------] 2 tests from AlnGraphBoostTest [ RUN ] AlnGraphBoostTest.RawConsensus [ OK ] AlnGraphBoostTest.RawConsensus (0 ms) [ RUN ] AlnGraphBoostTest.DanglingNodes [ OK ] AlnGraphBoostTest.DanglingNodes (0 ms) [----------] 2 tests from AlnGraphBoostTest (0 ms total) [----------] Global test environment tear-down [ OK ] SimpleAligner.align (0 ms) [----------] 1 test from SimpleAligner (0 ms total) [----------] Global test environment tear-down [==========] 2 tests from 1 test suite ran. (0 ms total) [ PASSED ] 2 tests. [==========] 1 test from 1 test suite ran. (0 ms total) [ PASSED ] 1 test. make[2]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/test/cpp' make[1]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'pbdagcon' in '../pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.deb'. dpkg-deb: building package 'pbdagcon-dbgsym' in '../pbdagcon-dbgsym_0.3+git20180411.c14c422+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3731852 and its subdirectories I: Current time: Thu Aug 7 03:27:16 -12 2025 I: pbuilder-time-stamp: 1754580436 Fri Jul 5 09:04:20 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Fri Jul 5 09:04:20 UTC 2024 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Fri Jul 5 09:15:43 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Fri Jul 5 09:15:43 UTC 2024 I: pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.changes: Format: 1.8 Date: Tue, 28 Jan 2020 11:13:47 +0100 Source: pbdagcon Binary: pbdagcon pbdagcon-dbgsym Architecture: amd64 Version: 0.3+git20180411.c14c422+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: pbdagcon - sequence consensus using directed acyclic graphs Closes: 937254 949542 Changes: pbdagcon (0.3+git20180411.c14c422+dfsg-1) unstable; urgency=medium . * Add myself to Uploaders to have at least one human uploader after Afif removed himself. * Run 2to3 on Python2 files to try a Python3 port Closes: #937254 * New upstream version * debhelper-compat 12 * Standards-Version: 4.5.0 * Build-Depends: s/python/python3/ * Build-Depends: libpbcopper-dev, libpbihdf-dev * Replace outdated code copies of DAZZ_DB Closes: #949542 * Latest libpbihdf and libpbdata are header only libs * Drop outdated copy of DAZZ_DB here * Recommend creating a real library in README.source * Versioned (Build-)Depends Checksums-Sha1: 52353913b8931fed672c18709e7c7c60f6bf5d99 5666716 pbdagcon-dbgsym_0.3+git20180411.c14c422+dfsg-1_amd64.deb c23918140b57769837cd240abb21e4a5234c0dc9 7702 pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.buildinfo 9a1c300625632c61a3bc0d4a0a2e3c57b47191e0 343696 pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.deb Checksums-Sha256: 6e5f2631a153f022fae4848194c55601d0999f63d2f7bf2c8b62a5ab23790593 5666716 pbdagcon-dbgsym_0.3+git20180411.c14c422+dfsg-1_amd64.deb 21d1dee80daa61e2241819196cbd30e7c9c14d03ef68eb1e570637b5bbbf50f4 7702 pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.buildinfo dfda8c1eb0e9c806d9b3063f24594ee6ed1c7c167bf9f9eecaf7f13197b66071 343696 pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.deb Files: 5da57fc011089c122d423723e48b594e 5666716 debug optional pbdagcon-dbgsym_0.3+git20180411.c14c422+dfsg-1_amd64.deb b680c06ca0c27d7d9c2f60822d2ca8b7 7702 science optional pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.buildinfo 5f7cb39cc0b50eedbeb1c5e0d38624ff 343696 science optional pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.deb Fri Jul 5 09:15:45 UTC 2024 I: diffoscope 270 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_14-12087.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ZARpsUjB/pbdagcon_0.3+git20180411.c14c422+dfsg-1.diffoscope.html --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ZARpsUjB/b1/pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ZARpsUjB/b2/pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.330s) 0.330s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.081s) 0.081s 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: 592ms CPU time consumed: 594ms Fri Jul 5 09:15:46 UTC 2024 I: diffoscope 270 found no differences in the changes files, and a .buildinfo file also exists. Fri Jul 5 09:15:46 UTC 2024 I: pbdagcon from bullseye built successfully and reproducibly on amd64. Fri Jul 5 09:15:48 UTC 2024 I: Submitting .buildinfo files to external archives: Fri Jul 5 09:15:48 UTC 2024 I: Submitting 12K b1/pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.buildinfo.asc Fri Jul 5 09:15:49 UTC 2024 I: Submitting 12K b2/pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.buildinfo.asc Fri Jul 5 09:15:49 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri Jul 5 09:15:49 UTC 2024 I: Done submitting .buildinfo files. Fri Jul 5 09:15:49 UTC 2024 I: Removing signed pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.buildinfo.asc files: removed './b1/pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.buildinfo.asc' removed './b2/pbdagcon_0.3+git20180411.c14c422+dfsg-1_amd64.buildinfo.asc'