Mon Dec 27 12:44:33 UTC 2021 I: starting to build hilive/bullseye/amd64 on jenkins on '2021-12-27 12:44' Mon Dec 27 12:44:33 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_30/47555/console.log Mon Dec 27 12:44:33 UTC 2021 I: Downloading source for bullseye/hilive=2.0a-3 --2021-12-27 12:44:33-- http://cdn-fastly.deb.debian.org/debian/pool/main/h/hilive/hilive_2.0a-3.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2118 (2.1K) Saving to: ‘hilive_2.0a-3.dsc’ 0K .. 100% 141M=0s 2021-12-27 12:44:33 (141 MB/s) - ‘hilive_2.0a-3.dsc’ saved [2118/2118] Mon Dec 27 12:44:34 UTC 2021 I: hilive_2.0a-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: hilive Binary: hilive Architecture: any Version: 2.0a-3 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://gitlab.com/rki_bioinformatics/HiLive2 Standards-Version: 4.4.1 Vcs-Browser: https://salsa.debian.org/med-team/hilive Vcs-Git: https://salsa.debian.org/med-team/hilive.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 12), cmake, libboost-system-dev, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libhts-dev, libseqan2-dev, zlib1g-dev, liblz4-dev, chrpath, markdown Package-List: hilive deb science optional arch=any Checksums-Sha1: 5705773f60eef87916fe3612b26df04ae3959d32 161788 hilive_2.0a.orig.tar.gz fbe1ef06642fafe9547758eff3f8dde6ad874e66 9000 hilive_2.0a-3.debian.tar.xz Checksums-Sha256: a60e7675988b35d9ebf9472ca7515b40f790654c04e67d35fabf069d91d73bf6 161788 hilive_2.0a.orig.tar.gz 8da7ff9f1fa24befc2a2f14c190da2c1d1f0e924908adcd42710f8a53d97a4db 9000 hilive_2.0a-3.debian.tar.xz Files: 8d393041a814071b4ac6a3db1f1f10e6 161788 hilive_2.0a.orig.tar.gz 455831bc062fe258d0d11b61f583b0d9 9000 hilive_2.0a-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl4gRlURHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEMpA/+JEf5qZaIMlzreWMDxFW+4eCcMvjA18X6 TAv5/xgdu9iQl1B31zkHw8SXon1Tg2kYbc4A2MvP8iRiHMpEvbAO9B3z+NuIlX4P g2WXlplC05XtuYtUXRnQVbZJ74xdfm9OuCkz2EfRsdOFET2mp3W985VWpgFLulA9 R/qPQBAIJACDNL7t/9TweOj/ZTN5eu/lxZewZVHAZLiFrQDB9LQ/2O9RnSzje/cF dBHmLqGJsXzkw/JqU3WfgaAXhTbf3OU/CcR7Ks5nKFP85HvPPM23UnbgzcMhBIZQ F8bl4lEj1lrZ3hhbHtHo3J7Ar5iNuFqd7SrBNPMRAcVqjYZLHIzNcbNGfyGfglc8 hcfV3Xh7cICvJ3xfIAHoCyGGi8fXwviSDnZdNAmdgma+4HkKdikYe9mQ7Ty4SGY6 p6aNWL+X8dJc15MBQ2kg8yN/Oxzh+RLUtG6GdRY6ijHRmZLSkCHO1ppmQph6WlaT JXwic4L0d89wWO29DlLxC6LO7XWbOiToWSAmqA16EvA/MwJGvsHQNgfP855KNIVD 3J6TWteifJ7azGGNle9K64Xh5023JuajXaNMVE4+LIaYnxIaai8pDfBVRo+ABm0G tZwApDo1RS/nh9F6GqyjmcpG2faaUavQgrUoLsiQr1wRdmJrgCD1jD/sVjsUdMkM ITZHcB+VeOg= =0BPt -----END PGP SIGNATURE----- Mon Dec 27 12:44:34 UTC 2021 I: Checking whether the package is not for us Mon Dec 27 12:44:34 UTC 2021 I: Starting 1st build on remote node ionos5-amd64.debian.net. Mon Dec 27 12:44:34 UTC 2021 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Mon Dec 27 12:52:05 UTC 2021 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Jan 29 07:07:51 -12 2023 I: pbuilder-time-stamp: 1675019271 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [hilive_2.0a-3.dsc] I: copying [./hilive_2.0a.orig.tar.gz] I: copying [./hilive_2.0a-3.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.sBXDw0RA/trustedkeys.kbx': General error gpgv: Signature made Wed Jan 15 23:17:41 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 ./hilive_2.0a-3.dsc dpkg-source: info: extracting hilive in hilive-2.0a dpkg-source: info: unpacking hilive_2.0a.orig.tar.gz dpkg-source: info: unpacking hilive_2.0a-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying do_not_set_rpath.patch dpkg-source: info: applying use_FindSeQan.patch dpkg-source: info: applying use_dynamic_linking.patch dpkg-source: info: applying remove_march_native.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4165943/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=16' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='cf9687eab26b4b4490cd4e2f98dd00b7' 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='4165943' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.GBaxh9ADHQ/pbuilderrc_2Hos --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.GBaxh9ADHQ/b1 --logfile b1/build.log hilive_2.0a-3.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://85.184.249.68:3128' I: uname -a Linux ionos5-amd64 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Aug 4 2021 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 Jul 28 2021 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 39680 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 69032 Jul 28 2021 findmnt -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 203072 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 98048 Mar 2 2021 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 Jul 28 2021 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 Jul 28 2021 more -rwsr-xr-x 1 root root 55528 Jul 28 2021 mount -rwxr-xr-x 1 root root 18664 Jul 28 2021 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 Apr 18 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 2021 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 Jan 23 03:47 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 Jul 28 2021 su -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync -rwxr-xr-x 1 root root 531928 Feb 16 2021 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 Jul 28 2021 umount -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir -rwxr-xr-x 1 root root 63744 Jul 28 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/4165943/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), cmake, libboost-system-dev, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libhts-dev, libseqan2-dev, zlib1g-dev, liblz4-dev, chrpath, markdown dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19655 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 cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libboost-system-dev; however: Package libboost-system-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-filesystem-dev; however: Package libboost-filesystem-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-iostreams-dev; however: Package libboost-iostreams-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-program-options-dev; however: Package libboost-program-options-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libseqan2-dev; however: Package libseqan2-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on liblz4-dev; however: Package liblz4-dev is not installed. pbuilder-satisfydepends-dummy depends on chrpath; however: Package chrpath is not installed. pbuilder-satisfydepends-dummy depends on markdown; however: Package markdown 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} chrpath{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libboost-filesystem-dev{a} libboost-filesystem1.74-dev{a} libboost-filesystem1.74.0{a} libboost-iostreams-dev{a} libboost-iostreams1.74-dev{a} libboost-program-options-dev{a} libboost-program-options1.74-dev{a} libboost-program-options1.74.0{a} libboost-regex1.74-dev{a} libboost-regex1.74.0{a} libboost-system-dev{a} libboost-system1.74-dev{a} libboost-system1.74.0{a} libboost1.74-dev{a} libbrotli1{a} libcurl3-gnutls{a} libcurl4{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libhts-dev{a} libhts3{a} libicu-dev{a} libicu67{a} libjsoncpp24{a} libldap-2.4-2{a} liblz4-dev{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps8{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libseqan2-dev{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} markdown{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 78 newly installed, 0 to remove and 0 not upgraded. Need to get 57.8 MB of archives. After unpacking 345 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 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 libncurses6 amd64 6.2+20201114-2 [102 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libprocps8 amd64 2:3.3.17-5 [63.9 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 procps amd64 2:3.3.17-5 [502 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 chrpath amd64 0.16-2+b1 [17.1 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 cmake-data all 3.18.4-2+deb11u1 [1725 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 libarchive13 amd64 3.4.3-2+b1 [343 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3 [232 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 libcurl4 amd64 7.74.0-1.3+deb11u1 [341 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2 [96.9 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 libjsoncpp24 amd64 1.9.4-4 [78.9 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 librhash0 amd64 1.4.1-2 [129 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 libuv1 amd64 1.40.0-2 [132 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 cmake amd64 3.18.4-2+deb11u1 [5593 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 icu-devtools amd64 67.1-7 [201 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libboost1.74-dev amd64 1.74.0-9 [9534 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libboost-filesystem1.74.0 amd64 1.74.0-9 [283 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 libboost-system1.74.0 amd64 1.74.0-9 [241 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 libboost-system1.74-dev amd64 1.74.0-9 [243 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 libboost-filesystem1.74-dev amd64 1.74.0-9 [304 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 libboost-filesystem-dev amd64 1.74.0.3 [4368 B] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libboost-regex1.74.0 amd64 1.74.0-9 [516 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libicu-dev amd64 67.1-7 [9597 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 libboost-regex1.74-dev amd64 1.74.0-9 [588 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libboost-iostreams1.74-dev amd64 1.74.0-9 [273 kB] Get: 63 http://deb.debian.org/debian bullseye/main amd64 libboost-iostreams-dev amd64 1.74.0.3 [4316 B] Get: 64 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options1.74.0 amd64 1.74.0-9 [356 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options1.74-dev amd64 1.74.0-9 [386 kB] Get: 66 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options-dev amd64 1.74.0.3 [4340 B] Get: 67 http://deb.debian.org/debian bullseye/main amd64 libboost-system-dev amd64 1.74.0.3 [4468 B] Get: 68 http://deb.debian.org/debian bullseye/main amd64 libcurl3-gnutls amd64 7.74.0-1.3+deb11u1 [338 kB] Get: 69 http://deb.debian.org/debian bullseye/main amd64 libcurl4-gnutls-dev amd64 7.74.0-1.3+deb11u1 [429 kB] Get: 70 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 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 libhts3 amd64 1.11-4 [378 kB] Get: 73 http://deb.debian.org/debian bullseye/main amd64 liblzma-dev amd64 5.2.5-2 [229 kB] Get: 74 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] Get: 75 http://deb.debian.org/debian bullseye/main amd64 libhts-dev amd64 1.11-4 [3858 kB] Get: 76 http://deb.debian.org/debian bullseye/main amd64 liblz4-dev amd64 1.9.3-2 [77.6 kB] Get: 77 http://deb.debian.org/debian bullseye/main amd64 libseqan2-dev all 2.4.0+dfsg-14 [1220 kB] Get: 78 http://deb.debian.org/debian bullseye/main amd64 markdown all 1.0.1-10.1 [17.5 kB] Fetched 57.8 MB in 4s (16.3 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 ... 19655 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_amd64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_amd64.deb ... 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Preparing to unpack .../77-markdown_1.0.1-10.1_all.deb ... Unpacking markdown (1.0.1-10.1) ... Setting up libexpat1:amd64 (2.2.10-2) ... Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up libboost-system1.74.0:amd64 (1.74.0-9) ... 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) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:amd64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libboost-program-options1.74.0:amd64 (1.74.0-9) ... 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) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up libboost-filesystem1.74.0:amd64 (1.74.0-9) ... Setting up file (1:5.39-3) ... Setting up libboost-program-options1.74-dev:amd64 (1.74.0-9) ... Setting up libseqan2-dev (2.4.0+dfsg-14) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libuv1:amd64 (1.40.0-2) ... Setting up libboost-program-options-dev:amd64 (1.74.0.3) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libboost-system1.74-dev:amd64 (1.74.0-9) ... Setting up libncurses6:amd64 (6.2+20201114-2) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up libboost-regex1.74.0:amd64 (1.74.0-9) ... Setting up autopoint (0.21-4) ... Setting up icu-devtools (67.1-7) ... Setting up liblz4-dev:amd64 (1.9.3-2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Setting up libjsoncpp24:amd64 (1.9.4-4) ... Setting up liblzma-dev:amd64 (5.2.5-2) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ... Setting up sensible-utils (0.0.14) ... Setting up librhash0:amd64 (1.4.1-2) ... 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Setting up libcurl4-gnutls-dev:amd64 (7.74.0-1.3+deb11u1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up libboost-regex1.74-dev:amd64 (1.74.0-9) ... Setting up groff-base (1.22.4-6) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:amd64 (7.74.0-1.3+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 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 libboost-iostreams1.74-dev:amd64 (1.74.0-9) ... Setting up dh-autoreconf (20) ... Setting up cmake (3.18.4-2+deb11u1) ... Setting up debhelper (13.3.4) ... Setting up libboost-iostreams-dev:amd64 (1.74.0.3) ... Processing triggers for libc-bin (2.31-13+deb11u2) ... 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/hilive-2.0a/ && 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 > ../hilive_2.0a-3_source.changes dpkg-buildpackage: info: source package hilive dpkg-buildpackage: info: source version 2.0a-3 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_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/hilive-2.0a' dh_auto_configure -- -DSEQAN_PATH=/usr/lib/seqan/ cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DSEQAN_PATH=/usr/lib/seqan/ .. -- The CXX compiler identification is GNU 10.2.1 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found Boost: /usr/lib/x86_64-linux-gnu/cmake/Boost-1.74.0/BoostConfig.cmake (found version "1.74.0") found components: system filesystem program_options iostreams -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Performing Test CXX14_BUILTIN -- Performing Test CXX14_BUILTIN - Success -- Looking for C++ include execinfo.h -- Looking for C++ include execinfo.h - found -- Found Seqan: /usr/include (found version "2.4.0") -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/hilive-2.0a/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/hilive-2.0a' dh_auto_build cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/hilive-2.0a -B/build/hilive-2.0a/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles /build/hilive-2.0a/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' make -f CMakeFiles/HiLiveLibs.dir/build.make CMakeFiles/HiLiveLibs.dir/depend make[3]: Entering directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' cd /build/hilive-2.0a/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hilive-2.0a /build/hilive-2.0a /build/hilive-2.0a/obj-x86_64-linux-gnu /build/hilive-2.0a/obj-x86_64-linux-gnu /build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/HiLiveLibs.dir/DependInfo.cmake --color= Dependee "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/HiLiveLibs.dir/DependInfo.cmake" is newer than depender "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/HiLiveLibs.dir/depend.internal". Dependee "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/HiLiveLibs.dir/depend.internal". Scanning dependencies of target HiLiveLibs make[3]: Leaving directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' make -f CMakeFiles/HiLiveLibs.dir/build.make CMakeFiles/HiLiveLibs.dir/build make[3]: Entering directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' [ 6%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/tools_static.cpp.o [ 12%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/tools.cpp.o /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/HiLiveLibs.dir/lib/tools_static.cpp.o -c /build/hilive-2.0a/lib/tools_static.cpp [ 18%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/alnread.cpp.o [ 25%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/alnstream.cpp.o /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/HiLiveLibs.dir/lib/tools.cpp.o -c /build/hilive-2.0a/lib/tools.cpp [ 31%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/alnout.cpp.o /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/HiLiveLibs.dir/lib/alnread.cpp.o -c /build/hilive-2.0a/lib/alnread.cpp /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/HiLiveLibs.dir/lib/alnstream.cpp.o -c /build/hilive-2.0a/lib/alnstream.cpp /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/HiLiveLibs.dir/lib/alnout.cpp.o -c /build/hilive-2.0a/lib/alnout.cpp [ 37%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/illumina_parsers.cpp.o /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/HiLiveLibs.dir/lib/illumina_parsers.cpp.o -c /build/hilive-2.0a/lib/illumina_parsers.cpp [ 43%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/kindex.cpp.o [ 50%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/parallel.cpp.o /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/HiLiveLibs.dir/lib/kindex.cpp.o -c /build/hilive-2.0a/lib/kindex.cpp /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/HiLiveLibs.dir/lib/parallel.cpp.o -c /build/hilive-2.0a/lib/parallel.cpp [ 56%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/argument_parser.cpp.o /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/HiLiveLibs.dir/lib/argument_parser.cpp.o -c /build/hilive-2.0a/lib/argument_parser.cpp /build/hilive-2.0a/lib/alnstream.cpp: In member function 'uint64_t oAlnStream::lz4write(const char*, uint64_t)': /build/hilive-2.0a/lib/alnstream.cpp:23:68: warning: 'int LZ4_compress(const char*, char*, int)' is deprecated: use LZ4_compress_default() instead [-Wdeprecated-declarations] 23 | uint32_t compressed_size = LZ4_compress (source, buf.data(), size); | ^ In file included from /build/hilive-2.0a/lib/headers.h:5, from /build/hilive-2.0a/lib/alnstream.h:4, from /build/hilive-2.0a/lib/alnstream.cpp:1: /usr/include/lz4.h:697:75: note: declared here 697 | LZ4_DEPRECATED("use LZ4_compress_default() instead") LZ4LIB_API int LZ4_compress (const char* src, char* dest, int srcSize); | ^~~~~~~~~~~~ /build/hilive-2.0a/lib/alnstream.cpp: In member function 'ReadAlignment* iAlnStream::get_alignment()': /build/hilive-2.0a/lib/alnstream.cpp:359:12: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 359 | fread(buffer.data(),1,buf_size,fstream); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/hilive-2.0a/lib/alnstream.cpp:389:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 389 | fread(buffer.data(),1,buf_size,fstream); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 62%] Linking CXX static library libHiLiveLibs.a /usr/bin/cmake -P CMakeFiles/HiLiveLibs.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/HiLiveLibs.dir/link.txt --verbose=1 /usr/bin/ar qc libHiLiveLibs.a CMakeFiles/HiLiveLibs.dir/lib/tools_static.cpp.o CMakeFiles/HiLiveLibs.dir/lib/tools.cpp.o CMakeFiles/HiLiveLibs.dir/lib/alnread.cpp.o CMakeFiles/HiLiveLibs.dir/lib/alnstream.cpp.o CMakeFiles/HiLiveLibs.dir/lib/alnout.cpp.o CMakeFiles/HiLiveLibs.dir/lib/illumina_parsers.cpp.o CMakeFiles/HiLiveLibs.dir/lib/kindex.cpp.o CMakeFiles/HiLiveLibs.dir/lib/parallel.cpp.o CMakeFiles/HiLiveLibs.dir/lib/argument_parser.cpp.o /usr/bin/ranlib libHiLiveLibs.a make[3]: Leaving directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' [ 62%] Built target HiLiveLibs make -f CMakeFiles/hilive-out.dir/build.make CMakeFiles/hilive-out.dir/depend make[3]: Entering directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' cd /build/hilive-2.0a/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hilive-2.0a /build/hilive-2.0a /build/hilive-2.0a/obj-x86_64-linux-gnu /build/hilive-2.0a/obj-x86_64-linux-gnu /build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/hilive-out.dir/DependInfo.cmake --color= make -f CMakeFiles/hilive-build.dir/build.make CMakeFiles/hilive-build.dir/depend make[3]: Entering directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' cd 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Dependee "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/hilive-out.dir/depend.internal". make[3]: Entering directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' Scanning dependencies of target hilive-out make[3]: Leaving directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' make -f CMakeFiles/hilive-out.dir/build.make CMakeFiles/hilive-out.dir/build Dependee "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/hilive.dir/DependInfo.cmake" is newer than depender "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/hilive.dir/depend.internal". Dependee "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/hilive.dir/depend.internal". make[3]: Entering directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' Scanning dependencies of target hilive make[3]: Leaving directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' make -f CMakeFiles/hilive.dir/build.make CMakeFiles/hilive.dir/build [ 68%] Building CXX object CMakeFiles/hilive-build.dir/tools/build_index.cpp.o make[3]: Entering directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/hilive-build.dir/tools/build_index.cpp.o -c /build/hilive-2.0a/tools/build_index.cpp [ 75%] Building CXX object CMakeFiles/hilive-out.dir/tools/hilive_out.cpp.o /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/hilive-out.dir/tools/hilive_out.cpp.o -c /build/hilive-2.0a/tools/hilive_out.cpp [ 81%] Building CXX object CMakeFiles/hilive.dir/tools/hilive.cpp.o /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/hilive-2.0a/obj-x86_64-linux-gnu -I/build/hilive-2.0a/lib -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -std=c++14 -o CMakeFiles/hilive.dir/tools/hilive.cpp.o -c /build/hilive-2.0a/tools/hilive.cpp [ 87%] Linking CXX executable hilive-out /usr/bin/cmake -E cmake_link_script CMakeFiles/hilive-out.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/hilive-out.dir/tools/hilive_out.cpp.o -o hilive-out libHiLiveLibs.a /usr/lib/x86_64-linux-gnu/libz.so -llz4 /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.74.0 -lrt /usr/lib/x86_64-linux-gnu/libz.so -llz4 -lrt make[3]: Leaving directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' [ 87%] Built target hilive-out [ 93%] Linking CXX executable hilive-build /usr/bin/cmake -E cmake_link_script CMakeFiles/hilive-build.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/hilive-build.dir/tools/build_index.cpp.o -o hilive-build libHiLiveLibs.a /usr/lib/x86_64-linux-gnu/libz.so -llz4 /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.74.0 -lrt /usr/lib/x86_64-linux-gnu/libz.so -llz4 -lrt make[3]: Leaving directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' [ 93%] Built target hilive-build [100%] Linking CXX executable hilive /usr/bin/cmake -E cmake_link_script CMakeFiles/hilive.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/hilive-2.0a=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/hilive.dir/tools/hilive.cpp.o -o hilive libHiLiveLibs.a /usr/lib/x86_64-linux-gnu/libz.so -llz4 /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.74.0 -lrt /usr/lib/x86_64-linux-gnu/libz.so -llz4 -lrt make[3]: Leaving directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' [100%] Built target hilive make[2]: Leaving directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/hilive-2.0a/obj-x86_64-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install debian/rules override_dh_install make[1]: Entering directory '/build/hilive-2.0a' chrpath --delete obj-x86_64-linux-gnu/hilive* dh_install make[1]: Leaving directory '/build/hilive-2.0a' debian/rules override_dh_installdocs make[1]: Entering directory '/build/hilive-2.0a' markdown README.md > README.html dh_installdocs rm README.html make[1]: Leaving directory '/build/hilive-2.0a' dh_installchangelogs 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 'hilive' in '../hilive_2.0a-3_amd64.deb'. dpkg-deb: building package 'hilive-dbgsym' in '../hilive-dbgsym_2.0a-3_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../hilive_2.0a-3_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: not including original 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/4165943 and its subdirectories I: Current time: Sun Jan 29 07:15:19 -12 2023 I: pbuilder-time-stamp: 1675019719 Mon Dec 27 12:52:06 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Mon Dec 27 12:52:06 UTC 2021 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Mon Dec 27 13:01:45 UTC 2021 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Mon Dec 27 13:01:46 UTC 2021 I: hilive_2.0a-3_amd64.changes: Format: 1.8 Date: Thu, 16 Jan 2020 11:56:44 +0100 Source: hilive Binary: hilive hilive-dbgsym Architecture: amd64 Version: 2.0a-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: hilive - realtime alignment of Illumina reads Changes: hilive (2.0a-3) unstable; urgency=medium . [ Andreas Tille ] * Really install documentation . [ Juhani Numminen ] * Remove undesired build flag -march=native . [ Andreas Tille ] * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse. * Remove obsolete field Name from debian/upstream/metadata (already present in machine-readable debian/copyright). Checksums-Sha1: 17b9dacf6aab9dc8ec5e459c1d5052f3b2ed7722 10328976 hilive-dbgsym_2.0a-3_amd64.deb 8b98edef3b0c493877e11096b249be9d7312735b 6782 hilive_2.0a-3_amd64.buildinfo ac91d553f17209e7ea106aecbbfb3185c0961d9e 540924 hilive_2.0a-3_amd64.deb Checksums-Sha256: 214df5eebf38b1997ad268db451ab252e7a1f72c0cb1292b760eac5fa2c07d6a 10328976 hilive-dbgsym_2.0a-3_amd64.deb f82aa2aafbe593dcc11c4e6854e098ad2ac655884a24e71cab7933d69a7d4482 6782 hilive_2.0a-3_amd64.buildinfo 455ae5eea34faa4a6eaa51e197769c8ae778a9e74afad94a0247168686155737 540924 hilive_2.0a-3_amd64.deb Files: b05e58822736093980e0b8a10cfe4173 10328976 debug optional hilive-dbgsym_2.0a-3_amd64.deb f98bbf87ab05bbf1d756898ea60b0f23 6782 science optional hilive_2.0a-3_amd64.buildinfo ce3ea721dd8f80832dfb9d1e58ef2501 540924 science optional hilive_2.0a-3_amd64.deb Mon Dec 27 13:01:47 UTC 2021 I: will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.GBaxh9ADHQ/hilive_2.0a-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.GBaxh9ADHQ/hilive_2.0a-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.GBaxh9ADHQ/hilive_2.0a-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.GBaxh9ADHQ/b1/hilive_2.0a-3_amd64.changes /srv/reproducible-results/rbuild-debian/tmp.GBaxh9ADHQ/b2/hilive_2.0a-3_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: 0.401s) 0.401s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.141s) 0.141s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Mon Dec 27 13:01:48 UTC 2021 I: found no differences in the changes files, and a .buildinfo file also exists. Mon Dec 27 13:01:48 UTC 2021 I: hilive from bullseye built successfully and reproducibly on amd64. Mon Dec 27 13:01:50 UTC 2021 I: Submitting .buildinfo files to external archives: Mon Dec 27 13:01:50 UTC 2021 I: Submitting 8.0K b1/hilive_2.0a-3_amd64.buildinfo.asc Mon Dec 27 13:01:51 UTC 2021 I: Submitting 8.0K b2/hilive_2.0a-3_amd64.buildinfo.asc Mon Dec 27 13:01:52 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Dec 27 13:01:52 UTC 2021 I: Done submitting .buildinfo files. Mon Dec 27 13:01:52 UTC 2021 I: Removing signed hilive_2.0a-3_amd64.buildinfo.asc files: removed './b1/hilive_2.0a-3_amd64.buildinfo.asc' removed './b2/hilive_2.0a-3_amd64.buildinfo.asc'