Diff of the two buildlogs: -- --- b1/build.log 2021-11-30 14:50:53.901704457 +0000 +++ b2/build.log 2021-11-30 14:53:09.421064672 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Jan 2 09:13:06 -12 2023 -I: pbuilder-time-stamp: 1672693986 +I: Current time: Wed Dec 1 04:51:02 +14 2021 +I: pbuilder-time-stamp: 1638283862 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration @@ -17,7 +17,7 @@ I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error -gpgv: Signature made Sun Feb 10 02:14:17 2019 -12 +gpgv: Signature made Mon Feb 11 04:14:17 2019 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -35,136 +35,170 @@ dpkg-source: info: applying 2to3.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2846389/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1838647/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/1838647/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1838647/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 parallel=16' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="0" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.0.3(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='ab4e5b6e3cb74a889fce49c8c81c2ece' - 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='2846389' - PS1='# ' - PS2='> ' + INVOCATION_ID=7644d798c0dd4c7cac75162f172c023b + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=1838647 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.fzdr48HMdo/pbuilderrc_HNIw --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.fzdr48HMdo/b1 --logfile b1/build.log discosnp_2.3.0-2.dsc' - SUDO_GID='111' - SUDO_UID='106' - 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' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.fzdr48HMdo/pbuilderrc_A1Wq --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.fzdr48HMdo/b2 --logfile b2/build.log discosnp_2.3.0-2.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://78.137.99.97:3128 I: uname -a - Linux ionos15-amd64 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux + Linux i-capture-the-hostname 5.10.0-9-amd64 #1 SMP Debian 5.10.70-1 (2021-09-30) x86_64 GNU/Linux I: ls -l /bin total 5116 - -rwxr-xr-x 1 root root 1168776 Apr 17 2019 bash - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bunzip2 - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzcat - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzip2 - -rwxr-xr-x 1 root root 14328 Jul 10 2019 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore - -rwxr-xr-x 1 root root 43744 Feb 28 2019 cat - -rwxr-xr-x 1 root root 64320 Feb 28 2019 chgrp - -rwxr-xr-x 1 root root 64288 Feb 28 2019 chmod - -rwxr-xr-x 1 root root 72512 Feb 28 2019 chown - -rwxr-xr-x 1 root root 146880 Feb 28 2019 cp - -rwxr-xr-x 1 root root 121464 Jan 17 2019 dash - -rwxr-xr-x 1 root root 109408 Feb 28 2019 date - -rwxr-xr-x 1 root root 76712 Feb 28 2019 dd - -rwxr-xr-x 1 root root 93744 Feb 28 2019 df - -rwxr-xr-x 1 root root 138856 Feb 28 2019 dir - -rwxr-xr-x 1 root root 84288 Jan 9 2019 dmesg - lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname - -rwxr-xr-x 1 root root 39520 Feb 28 2019 echo - -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep - -rwxr-xr-x 1 root root 35424 Feb 28 2019 false - -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep - -rwxr-xr-x 1 root root 68880 Jan 9 2019 findmnt - -rwsr-xr-x 1 root root 34896 Apr 22 2020 fusermount - -rwxr-xr-x 1 root root 198976 Jan 7 2019 grep - -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip - -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe - -rwxr-xr-x 1 root root 98048 Jan 5 2019 gzip - -rwxr-xr-x 1 root root 26696 Sep 26 2018 hostname - -rwxr-xr-x 1 root root 68552 Feb 28 2019 ln - -rwxr-xr-x 1 root root 56760 Jul 26 2018 login - -rwxr-xr-x 1 root root 138856 Feb 28 2019 ls - -rwxr-xr-x 1 root root 108624 Jan 9 2019 lsblk - -rwxr-xr-x 1 root root 89088 Feb 28 2019 mkdir - -rwxr-xr-x 1 root root 68544 Feb 28 2019 mknod - -rwxr-xr-x 1 root root 43808 Feb 28 2019 mktemp - -rwxr-xr-x 1 root root 43008 Jan 9 2019 more - -rwsr-xr-x 1 root root 51280 Jan 9 2019 mount - -rwxr-xr-x 1 root root 14408 Jan 9 2019 mountpoint - -rwxr-xr-x 1 root root 138728 Feb 28 2019 mv - lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 39616 Feb 28 2019 pwd - lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash - -rwxr-xr-x 1 root root 47776 Feb 28 2019 readlink - -rwxr-xr-x 1 root root 68416 Feb 28 2019 rm - -rwxr-xr-x 1 root root 47776 Feb 28 2019 rmdir - -rwxr-xr-x 1 root root 23312 Jan 21 2019 run-parts - -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Dec 10 16:20 sh -> dash - -rwxr-xr-x 1 root root 39552 Feb 28 2019 sleep - -rwxr-xr-x 1 root root 80672 Feb 28 2019 stty - -rwsr-xr-x 1 root root 63568 Jan 9 2019 su - -rwxr-xr-x 1 root root 35488 Feb 28 2019 sync - -rwxr-xr-x 1 root root 445560 Apr 23 2019 tar - -rwxr-xr-x 1 root root 14440 Jan 21 2019 tempfile - -rwxr-xr-x 1 root root 97152 Feb 28 2019 touch - -rwxr-xr-x 1 root root 35424 Feb 28 2019 true - -rwxr-xr-x 1 root root 14328 Apr 22 2020 ulockmgr_server - -rwsr-xr-x 1 root root 34888 Jan 9 2019 umount - -rwxr-xr-x 1 root root 39584 Feb 28 2019 uname - -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress - -rwxr-xr-x 1 root root 138856 Feb 28 2019 vdir - -rwxr-xr-x 1 root root 34896 Jan 9 2019 wdctl - -rwxr-xr-x 1 root root 946 Jan 21 2019 which - lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat - -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp - -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff - -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep - -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep - -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce - -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep - -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless - -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore - -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew -I: user script /srv/workspace/pbuilder/2846389/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1168776 Apr 18 2019 bash + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bunzip2 + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzcat + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzip2 + -rwxr-xr-x 1 root root 14328 Jul 11 2019 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore + -rwxr-xr-x 1 root root 43744 Mar 1 2019 cat + -rwxr-xr-x 1 root root 64320 Mar 1 2019 chgrp + -rwxr-xr-x 1 root root 64288 Mar 1 2019 chmod + -rwxr-xr-x 1 root root 72512 Mar 1 2019 chown + -rwxr-xr-x 1 root root 146880 Mar 1 2019 cp + -rwxr-xr-x 1 root root 121464 Jan 18 2019 dash + -rwxr-xr-x 1 root root 109408 Mar 1 2019 date + -rwxr-xr-x 1 root root 76712 Mar 1 2019 dd + -rwxr-xr-x 1 root root 93744 Mar 1 2019 df + -rwxr-xr-x 1 root root 138856 Mar 1 2019 dir + -rwxr-xr-x 1 root root 84288 Jan 10 2019 dmesg + lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname + -rwxr-xr-x 1 root root 39520 Mar 1 2019 echo + -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep + -rwxr-xr-x 1 root root 35424 Mar 1 2019 false + -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep + -rwxr-xr-x 1 root root 68880 Jan 10 2019 findmnt + -rwsr-xr-x 1 root root 34896 Apr 23 2020 fusermount + -rwxr-xr-x 1 root root 198976 Jan 8 2019 grep + -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip + -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe + -rwxr-xr-x 1 root root 98048 Jan 6 2019 gzip + -rwxr-xr-x 1 root root 26696 Sep 27 2018 hostname + -rwxr-xr-x 1 root root 68552 Mar 1 2019 ln + -rwxr-xr-x 1 root root 56760 Jul 27 2018 login + -rwxr-xr-x 1 root root 138856 Mar 1 2019 ls + -rwxr-xr-x 1 root root 108624 Jan 10 2019 lsblk + -rwxr-xr-x 1 root root 89088 Mar 1 2019 mkdir + -rwxr-xr-x 1 root root 68544 Mar 1 2019 mknod + -rwxr-xr-x 1 root root 43808 Mar 1 2019 mktemp + -rwxr-xr-x 1 root root 43008 Jan 10 2019 more + -rwsr-xr-x 1 root root 51280 Jan 10 2019 mount + -rwxr-xr-x 1 root root 14408 Jan 10 2019 mountpoint + -rwxr-xr-x 1 root root 138728 Mar 1 2019 mv + lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 39616 Mar 1 2019 pwd + lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash + -rwxr-xr-x 1 root root 47776 Mar 1 2019 readlink + -rwxr-xr-x 1 root root 68416 Mar 1 2019 rm + -rwxr-xr-x 1 root root 47776 Mar 1 2019 rmdir + -rwxr-xr-x 1 root root 23312 Jan 22 2019 run-parts + -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Dec 1 04:51 sh -> bash + lrwxrwxrwx 1 root root 4 Nov 8 11:58 sh.distrib -> dash + -rwxr-xr-x 1 root root 39552 Mar 1 2019 sleep + -rwxr-xr-x 1 root root 80672 Mar 1 2019 stty + -rwsr-xr-x 1 root root 63568 Jan 10 2019 su + -rwxr-xr-x 1 root root 35488 Mar 1 2019 sync + -rwxr-xr-x 1 root root 445560 Apr 24 2019 tar + -rwxr-xr-x 1 root root 14440 Jan 22 2019 tempfile + -rwxr-xr-x 1 root root 97152 Mar 1 2019 touch + -rwxr-xr-x 1 root root 35424 Mar 1 2019 true + -rwxr-xr-x 1 root root 14328 Apr 23 2020 ulockmgr_server + -rwsr-xr-x 1 root root 34888 Jan 10 2019 umount + -rwxr-xr-x 1 root root 39584 Mar 1 2019 uname + -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress + -rwxr-xr-x 1 root root 138856 Mar 1 2019 vdir + -rwxr-xr-x 1 root root 34896 Jan 10 2019 wdctl + -rwxr-xr-x 1 root root 946 Jan 22 2019 which + lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat + -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp + -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff + -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep + -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep + -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce + -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep + -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless + -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore + -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew +I: user script /srv/workspace/pbuilder/1838647/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -302,7 +336,7 @@ Get: 86 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo-dev amd64 1:1.5.2-2+deb10u1 [208 kB] Get: 87 http://deb.debian.org/debian buster/main amd64 libjpeg-dev all 1:1.5.2-2+deb10u1 [57.7 kB] Get: 88 http://deb.debian.org/debian buster/main amd64 libhdf5-dev amd64 1.10.4+repack-10 [2598 kB] -Fetched 52.9 MB in 1s (79.3 MB/s) +Fetched 52.9 MB in 1s (61.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:amd64. (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 ... 19195 files and directories currently installed.) @@ -681,7 +715,8 @@ fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/discosnp-2.3.0/ && 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 > ../discosnp_2.3.0-2_source.changes +hostname: Name or service not known +I: Running cd /build/discosnp-2.3.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../discosnp_2.3.0-2_source.changes dpkg-buildpackage: info: source package discosnp dpkg-buildpackage: info: source version 2.3.0-2 dpkg-buildpackage: info: source distribution unstable @@ -740,7 +775,7 @@ -- Build files have been written to: /build/discosnp-2.3.0/obj-x86_64-linux-gnu dh_auto_build - cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j15 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/discosnp-2.3.0 -B/build/discosnp-2.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/discosnp-2.3.0/obj-x86_64-linux-gnu/CMakeFiles /build/discosnp-2.3.0/obj-x86_64-linux-gnu/CMakeFiles/progress.marks @@ -753,58 +788,56 @@ make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/kissnp2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2/CMakeFiles/kissnp2.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/kissreads2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2/CMakeFiles/kissreads2.dir/DependInfo.cmake --color= -make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/read_file_names /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/read_file_names /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/read_file_names/CMakeFiles/read_file_names.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/kissreads2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2/CMakeFiles/kissreads2.dir/DependInfo.cmake --color= +make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/QHC /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/QHC /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/DependInfo.cmake --color= -Scanning dependencies of target read_file_names -Scanning dependencies of target quick_hierarchical_clustering Scanning dependencies of target kissnp2 make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -make -f tools/read_file_names/CMakeFiles/read_file_names.dir/build.make tools/read_file_names/CMakeFiles/read_file_names.dir/build -make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -make -f tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build.make tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build make -f tools/kissnp2/CMakeFiles/kissnp2.dir/build.make tools/kissnp2/CMakeFiles/kissnp2.dir/build +Scanning dependencies of target quick_hierarchical_clustering Scanning dependencies of target kissreads2 +make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' +make -f tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build.make tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make -f tools/kissreads2/CMakeFiles/kissreads2.dir/build.make tools/kissreads2/CMakeFiles/kissreads2.dir/build +Scanning dependencies of target read_file_names +make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' +make -f tools/read_file_names/CMakeFiles/read_file_names.dir/build.make tools/read_file_names/CMakeFiles/read_file_names.dir/build make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -[ 4%] Building CXX object tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/src/quick_hierarchical_clustering.cpp.o -[ 9%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/main.cpp.o +[ 4%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/Bubble.cpp.o +[ 14%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/Filter.cpp.o [ 14%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/Kissnp2.cpp.o -[ 19%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/Kissreads2.cpp.o -[ 23%] Building CXX object tools/read_file_names/CMakeFiles/read_file_names.dir/src/get_read_file_names.cpp.o -[ 28%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/fragment_info.cpp.o +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissnp2.dir/src/Bubble.cpp.o -c /build/discosnp-2.3.0/tools/kissnp2/src/Bubble.cpp +[ 19%] Building CXX object tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/src/quick_hierarchical_clustering.cpp.o +[ 23%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/commons.cpp.o +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissnp2.dir/src/Filter.cpp.o -c /build/discosnp-2.3.0/tools/kissnp2/src/Filter.cpp cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/QHC && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/QHC/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/quick_hierarchical_clustering.dir/src/quick_hierarchical_clustering.cpp.o -c /build/discosnp-2.3.0/tools/QHC/src/quick_hierarchical_clustering.cpp cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissnp2.dir/src/Kissnp2.cpp.o -c /build/discosnp-2.3.0/tools/kissnp2/src/Kissnp2.cpp -[ 33%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/Filter.cpp.o +[ 28%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/Kissreads2.cpp.o cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/Kissreads2.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/Kissreads2.cpp -[ 38%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/extension_algorithm.cpp.o -[ 42%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/interface_libchash.cpp.o -[ 52%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/couple.cpp.o -[ 52%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/commons.cpp.o +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/commons.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/commons.cpp +[ 33%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/main.cpp.o +[ 38%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/fragment_info.cpp.o cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissnp2.dir/src/main.cpp.o -c /build/discosnp-2.3.0/tools/kissnp2/src/main.cpp -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/extension_algorithm.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/extension_algorithm.cpp +[ 42%] Building CXX object tools/read_file_names/CMakeFiles/read_file_names.dir/src/get_read_file_names.cpp.o +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/fragment_info.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/fragment_info.cpp +[ 47%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/extension_algorithm.cpp.o cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/read_file_names && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/read_file_names/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/read_file_names.dir/src/get_read_file_names.cpp.o -c /build/discosnp-2.3.0/tools/read_file_names/src/get_read_file_names.cpp -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissnp2.dir/src/Filter.cpp.o -c /build/discosnp-2.3.0/tools/kissnp2/src/Filter.cpp +[ 52%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/fragment_index.cpp.o +[ 57%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/interface_libchash.cpp.o +[ 61%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/couple.cpp.o +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/extension_algorithm.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/extension_algorithm.cpp +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/fragment_index.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/fragment_index.cpp cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/couple.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/couple.cpp -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/fragment_info.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/fragment_info.cpp -[ 57%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/Bubble.cpp.o -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/commons.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/commons.cpp -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissnp2.dir/src/Bubble.cpp.o -c /build/discosnp-2.3.0/tools/kissnp2/src/Bubble.cpp -[ 61%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/main.cpp.o -[ 66%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/list.cpp.o cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/interface_libchash.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/interface_libchash.cpp +[ 66%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/list.cpp.o cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/list.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/list.cpp -[ 71%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/fragment_index.cpp.o -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/main.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/main.cpp -[ 76%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/libchash.cpp.o -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/fragment_index.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/fragment_index.cpp +[ 71%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/libchash.cpp.o cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/libchash.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/libchash.cpp /build/discosnp-2.3.0/tools/kissreads2/src/libchash.cpp: In function 'HTItem* HashFind(HashTable*, u_long)': /build/discosnp-2.3.0/tools/kissreads2/src/libchash.cpp:193:12: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] @@ -896,13 +929,15 @@ /build/discosnp-2.3.0/tools/kissreads2/src/libchash.cpp:627:3: note: in expansion of macro 'READ_UL' READ_UL(fp, (*pbinSparse)[i].bmOccupied[j]); ^~~~~~~ -[ 80%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/outputs.cpp.o -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/outputs.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/outputs.cpp -[ 85%] Linking CXX executable ../../bin/quick_hierarchical_clustering +[ 76%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/main.cpp.o +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/main.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/main.cpp +[ 80%] Linking CXX executable ../../bin/quick_hierarchical_clustering cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/QHC && /usr/bin/cmake -E cmake_link_script CMakeFiles/quick_hierarchical_clustering.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/quick_hierarchical_clustering.dir/src/quick_hierarchical_clustering.cpp.o -o ../../bin/quick_hierarchical_clustering -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: -lgatbcore -lhdf5 -lz make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -[ 85%] Built target quick_hierarchical_clustering +[ 80%] Built target quick_hierarchical_clustering +[ 85%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/outputs.cpp.o +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/discosnp-2.3.0/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/kissreads2.dir/src/outputs.cpp.o -c /build/discosnp-2.3.0/tools/kissreads2/src/outputs.cpp [ 90%] Linking CXX executable ../../bin/read_file_names cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/read_file_names && /usr/bin/cmake -E cmake_link_script CMakeFiles/read_file_names.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/discosnp-2.3.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/read_file_names.dir/src/get_read_file_names.cpp.o -o ../../bin/read_file_names -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: -lgatbcore -lhdf5 -lz @@ -928,7 +963,7 @@ dh_testroot dh_prep dh_auto_install - cd obj-x86_64-linux-gnu && make -j16 install DESTDIR=/build/discosnp-2.3.0/debian/discosnp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j15 install DESTDIR=/build/discosnp-2.3.0/debian/discosnp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/discosnp-2.3.0 -B/build/discosnp-2.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/discosnp-2.3.0/obj-x86_64-linux-gnu/CMakeFiles /build/discosnp-2.3.0/obj-x86_64-linux-gnu/CMakeFiles/progress.marks @@ -939,37 +974,37 @@ make -f tools/read_file_names/CMakeFiles/read_file_names.dir/build.make tools/read_file_names/CMakeFiles/read_file_names.dir/depend make -f tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build.make tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/depend make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/kissnp2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2/CMakeFiles/kissnp2.dir/DependInfo.cmake --color= +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/kissreads2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2/CMakeFiles/kissreads2.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/read_file_names /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/read_file_names /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/read_file_names/CMakeFiles/read_file_names.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' +cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/kissnp2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissnp2/CMakeFiles/kissnp2.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/QHC /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/QHC /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/DependInfo.cmake --color= -cd /build/discosnp-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/discosnp-2.3.0 /build/discosnp-2.3.0/tools/kissreads2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2 /build/discosnp-2.3.0/obj-x86_64-linux-gnu/tools/kissreads2/CMakeFiles/kissreads2.dir/DependInfo.cmake --color= -make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -make -f tools/read_file_names/CMakeFiles/read_file_names.dir/build.make tools/read_file_names/CMakeFiles/read_file_names.dir/build make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -make -f tools/kissnp2/CMakeFiles/kissnp2.dir/build.make tools/kissnp2/CMakeFiles/kissnp2.dir/build -make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tools/read_file_names/CMakeFiles/read_file_names.dir/build'. +make -f tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build.make tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -make -f tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build.make tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build +make -f tools/kissnp2/CMakeFiles/kissnp2.dir/build.make tools/kissnp2/CMakeFiles/kissnp2.dir/build +make -f tools/read_file_names/CMakeFiles/read_file_names.dir/build.make tools/read_file_names/CMakeFiles/read_file_names.dir/build make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make -f tools/kissreads2/CMakeFiles/kissreads2.dir/build.make tools/kissreads2/CMakeFiles/kissreads2.dir/build make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build'. make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tools/read_file_names/CMakeFiles/read_file_names.dir/build'. +make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/kissnp2/CMakeFiles/kissnp2.dir/build'. make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/kissreads2/CMakeFiles/kissreads2.dir/build'. make[3]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' -[ 9%] Built target read_file_names -[ 28%] Built target quick_hierarchical_clustering -[ 76%] Built target kissreads2 -[100%] Built target kissnp2 +[ 9%] Built target quick_hierarchical_clustering +[ 19%] Built target read_file_names +[ 42%] Built target kissnp2 +[100%] Built target kissreads2 make[2]: Leaving directory '/build/discosnp-2.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/discosnp-2.3.0/obj-x86_64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall @@ -1023,8 +1058,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'discosnp' in '../discosnp_2.3.0-2_amd64.deb'. dpkg-deb: building package 'discosnp-dbgsym' in '../discosnp-dbgsym_2.3.0-2_amd64.deb'. +dpkg-deb: building package 'discosnp' in '../discosnp_2.3.0-2_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../discosnp_2.3.0-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1032,12 +1067,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/1838647/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1838647/tmp/hooks/B01_cleanup finished 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/2846389 and its subdirectories -I: Current time: Mon Jan 2 09:13:59 -12 2023 -I: pbuilder-time-stamp: 1672694039 +I: removing directory /srv/workspace/pbuilder/1838647 and its subdirectories +I: Current time: Wed Dec 1 04:53:09 +14 2021 +I: pbuilder-time-stamp: 1638283989