Diff of the two buildlogs: -- --- b1/build.log 2024-08-09 12:29:03.240168741 +0000 +++ b2/build.log 2024-08-09 12:38:19.604553330 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Sep 11 06:50:26 -12 2025 -I: pbuilder-time-stamp: 1757616626 +I: Current time: Sat Aug 10 02:29:06 +14 2024 +I: pbuilder-time-stamp: 1723206546 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -17,8 +17,8 @@ I: copying [./hinge_0.5.0-6.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.zlo1Ny20/trustedkeys.kbx': General error -gpgv: Signature made Thu Mar 19 05:26:36 2020 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.Ft_gJQv6/trustedkeys.kbx': General error +gpgv: Signature made Fri Mar 20 07:26:36 2020 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -34,135 +34,166 @@ dpkg-source: info: applying spdlog-1.5.0.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3798329/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/631457/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 +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Aug 10 02:29 /bin/sh -> /bin/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/631457/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/631457/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=42 ' - DISTRIBUTION='bullseye' - HOME='/root' - HOST_ARCH='amd64' + 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]="1" [2]="4" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.1.4(1)-release' + BUILDDIR=/build/reproducible-path + 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,-fixfilepath parallel=20 ' + DIRSTACK=() + DISTRIBUTION=bullseye + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='42061ed2f7ec4ec2af8832dd43c59ce8' - 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='3798329' - PS1='# ' - PS2='> ' + INVOCATION_ID=52b723ef21904ba287135628052bc24d + 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=631457 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.wdVsav9k/pbuilderrc_GFfH --distribution bullseye --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.wdVsav9k/b1 --logfile b1/build.log hinge_0.5.0-6.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + 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/r-b-build.wdVsav9k/pbuilderrc_fuuw --distribution bullseye --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.wdVsav9k/b2 --logfile b2/build.log hinge_0.5.0-6.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://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.9.7+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.9.7-1~bpo12+1 (2024-07-03) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-23-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.99-1 (2024-07-15) x86_64 GNU/Linux I: ls -l /bin total 5476 - -rwxr-xr-x 1 root root 1234376 Mar 27 2022 bash - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzcat - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 18424 Jul 20 2020 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore - -rwxr-xr-x 1 root root 43936 Sep 23 2020 cat - -rwxr-xr-x 1 root root 72672 Sep 23 2020 chgrp - -rwxr-xr-x 1 root root 64448 Sep 23 2020 chmod - -rwxr-xr-x 1 root root 72672 Sep 23 2020 chown - -rwxr-xr-x 1 root root 151168 Sep 23 2020 cp - -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash - -rwxr-xr-x 1 root root 113664 Sep 23 2020 date - -rwxr-xr-x 1 root root 80968 Sep 23 2020 dd - -rwxr-xr-x 1 root root 93936 Sep 23 2020 df - -rwxr-xr-x 1 root root 147176 Sep 23 2020 dir - -rwxr-xr-x 1 root root 84440 Mar 27 2024 dmesg - lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname - -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo - -rwxr-xr-x 1 root root 28 Jan 24 2023 egrep - -rwxr-xr-x 1 root root 39680 Sep 23 2020 false - -rwxr-xr-x 1 root root 28 Jan 24 2023 fgrep - -rwxr-xr-x 1 root root 69032 Mar 27 2024 findmnt - -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount - -rwxr-xr-x 1 root root 203072 Jan 24 2023 grep - -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip - -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe - -rwxr-xr-x 1 root root 98048 Apr 9 2022 gzip - -rwxr-xr-x 1 root root 22600 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 72840 Sep 23 2020 ln - -rwxr-xr-x 1 root root 56952 Feb 7 2020 login - -rwxr-xr-x 1 root root 147176 Sep 23 2020 ls - -rwxr-xr-x 1 root root 149736 Mar 27 2024 lsblk - -rwxr-xr-x 1 root root 85184 Sep 23 2020 mkdir - -rwxr-xr-x 1 root root 76896 Sep 23 2020 mknod - -rwxr-xr-x 1 root root 48064 Sep 23 2020 mktemp - -rwxr-xr-x 1 root root 59632 Mar 27 2024 more - -rwsr-xr-x 1 root root 55528 Mar 27 2024 mount - -rwxr-xr-x 1 root root 18664 Mar 27 2024 mountpoint - -rwxr-xr-x 1 root root 147080 Sep 23 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Dec 16 2021 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd - lrwxrwxrwx 1 root root 4 Mar 27 2022 rbash -> bash - -rwxr-xr-x 1 root root 52032 Sep 23 2020 readlink - -rwxr-xr-x 1 root root 72704 Sep 23 2020 rm - -rwxr-xr-x 1 root root 52032 Sep 23 2020 rmdir - -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Sep 9 03:46 sh -> dash - -rwxr-xr-x 1 root root 43808 Sep 23 2020 sleep - -rwxr-xr-x 1 root root 84928 Sep 23 2020 stty - -rwsr-xr-x 1 root root 71912 Mar 27 2024 su - -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync - -rwxr-xr-x 1 root root 531928 Jan 19 2024 tar - -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 101408 Sep 23 2020 touch - -rwxr-xr-x 1 root root 39680 Sep 23 2020 true - -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server - -rwsr-xr-x 1 root root 35040 Mar 27 2024 umount - -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname - -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress - -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir - -rwxr-xr-x 1 root root 63744 Mar 27 2024 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat - -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp - -rwxr-xr-x 1 root root 5898 Apr 9 2022 zdiff - -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep - -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep - -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce - -rwxr-xr-x 1 root root 8049 Apr 9 2022 zgrep - -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless - -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore - -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew -I: user script /srv/workspace/pbuilder/3798329/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1234376 Mar 28 2022 bash + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzcat + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 18424 Jul 21 2020 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore + -rwxr-xr-x 1 root root 43936 Sep 24 2020 cat + -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp + -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod + -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown + -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp + -rwxr-xr-x 1 root root 125560 Dec 11 2020 dash + -rwxr-xr-x 1 root root 113664 Sep 24 2020 date + -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd + -rwxr-xr-x 1 root root 93936 Sep 24 2020 df + -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir + -rwxr-xr-x 1 root root 84440 Mar 29 00:09 dmesg + lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname + -rwxr-xr-x 1 root root 39712 Sep 24 2020 echo + -rwxr-xr-x 1 root root 28 Jan 25 2023 egrep + -rwxr-xr-x 1 root root 39680 Sep 24 2020 false + -rwxr-xr-x 1 root root 28 Jan 25 2023 fgrep + -rwxr-xr-x 1 root root 69032 Mar 29 00:09 findmnt + -rwsr-xr-x 1 root root 34896 Feb 27 2021 fusermount + -rwxr-xr-x 1 root root 203072 Jan 25 2023 grep + -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip + -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe + -rwxr-xr-x 1 root root 98048 Apr 10 2022 gzip + -rwxr-xr-x 1 root root 22600 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln + -rwxr-xr-x 1 root root 56952 Feb 8 2020 login + -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls + -rwxr-xr-x 1 root root 149736 Mar 29 00:09 lsblk + -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir + -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod + -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp + -rwxr-xr-x 1 root root 59632 Mar 29 00:09 more + -rwsr-xr-x 1 root root 55528 Mar 29 00:09 mount + -rwxr-xr-x 1 root root 18664 Mar 29 00:09 mountpoint + -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Dec 17 2021 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd + lrwxrwxrwx 1 root root 4 Mar 28 2022 rbash -> bash + -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink + -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm + -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir + -rwxr-xr-x 1 root root 27472 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed + lrwxrwxrwx 1 root root 9 Aug 10 02:29 sh -> /bin/bash + -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep + -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty + -rwsr-xr-x 1 root root 71912 Mar 29 00:09 su + -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync + -rwxr-xr-x 1 root root 531928 Jan 20 2024 tar + -rwxr-xr-x 1 root root 14456 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch + -rwxr-xr-x 1 root root 39680 Sep 24 2020 true + -rwxr-xr-x 1 root root 14328 Feb 27 2021 ulockmgr_server + -rwsr-xr-x 1 root root 35040 Mar 29 00:09 umount + -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname + -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress + -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir + -rwxr-xr-x 1 root root 63744 Mar 29 00:09 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat + -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp + -rwxr-xr-x 1 root root 5898 Apr 10 2022 zdiff + -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep + -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep + -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce + -rwxr-xr-x 1 root root 8049 Apr 10 2022 zgrep + -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless + -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore + -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew +I: user script /srv/workspace/pbuilder/631457/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -384,7 +415,7 @@ Get: 150 http://deb.debian.org/debian bullseye/main amd64 python3-pysam amd64 0.15.4+ds-3+b2 [1536 kB] Get: 151 http://deb.debian.org/debian bullseye/main amd64 python3-pbcore all 1.7.1+git20200430.a127b1e+dfsg-1 [2881 kB] Get: 152 http://deb.debian.org/debian bullseye/main amd64 python3-ujson amd64 4.0.2-1 [21.8 kB] -Fetched 108 MB in 5s (20.8 MB/s) +Fetched 108 MB in 7s (14.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19711 files and directories currently installed.) @@ -1013,7 +1044,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/hinge-0.5.0/ && 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 > ../hinge_0.5.0-6_source.changes +I: user script /srv/workspace/pbuilder/631457/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for bullseye +I: user script /srv/workspace/pbuilder/631457/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/hinge-0.5.0/ && 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 > ../hinge_0.5.0-6_source.changes dpkg-buildpackage: info: source package hinge dpkg-buildpackage: info: source version 0.5.0-6 dpkg-buildpackage: info: source distribution unstable @@ -1057,93 +1092,93 @@ -- Build files have been written to: /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu dh_auto_build - cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/hinge-0.5.0 -B/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make -f bin/CMakeFiles/man.dir/build.make bin/CMakeFiles/man.dir/depend +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make -f bin/lib/CMakeFiles/ini.dir/build.make bin/lib/CMakeFiles/ini.dir/depend +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/man.dir/DependInfo.cmake --color= make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/depend -make -f bin/lib/CMakeFiles/DB.dir/build.make bin/lib/CMakeFiles/DB.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/man.dir/DependInfo.cmake --color= -make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/depend +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/ini.dir/DependInfo.cmake --color= +make -f bin/lib/CMakeFiles/DB.dir/build.make bin/lib/CMakeFiles/DB.dir/depend +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/man.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/man.dir/depend.internal". +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/man.dir/depend.internal". +Scanning dependencies of target man +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/DependInfo.cmake --color= -make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.dir/depend -make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/depend -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/CMakeFiles/man.dir/build.make bin/CMakeFiles/man.dir/build cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DB.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/depend +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/LA.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/PAF.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/depend.internal". +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/depend.internal". +Scanning dependencies of target DW_banded make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/kmer_lookup.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/man.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/man.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/man.dir/depend.internal". +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DB.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DB.dir/depend.internal". +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DB.dir/depend.internal". +Scanning dependencies of target DB Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/ini.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/ini.dir/depend.internal". Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/ini.dir/depend.internal". -Scanning dependencies of target man Scanning dependencies of target ini -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DB.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DB.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DB.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/depend.internal". make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/LA.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/LA.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/LA.dir/depend.internal". +make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/build +[ 3%] Generating hinge.1 +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/PAF.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/PAF.dir/depend.internal". Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/PAF.dir/depend.internal". -make -f bin/CMakeFiles/man.dir/build.make bin/CMakeFiles/man.dir/build -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/kmer_lookup.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/kmer_lookup.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/kmer_lookup.dir/depend.internal". -Scanning dependencies of target DW_banded make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/lib/CMakeFiles/ini.dir/build.make bin/lib/CMakeFiles/ini.dir/build +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin && /usr/bin/pandoc --from markdown --to man -s /build/reproducible-path/hinge-0.5.0/src/hinge.1.md -o hinge.1 Scanning dependencies of target PAF -Scanning dependencies of target DB -Scanning dependencies of target kmer_lookup +make -f bin/lib/CMakeFiles/ini.dir/build.make bin/lib/CMakeFiles/ini.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -Scanning dependencies of target LA -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/LA.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/LA.dir/depend.internal". +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/LA.dir/depend.internal". make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/build -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make -f bin/lib/CMakeFiles/DB.dir/build.make bin/lib/CMakeFiles/DB.dir/build -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.dir/build +Scanning dependencies of target LA +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/build -make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/build -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -[ 3%] Generating hinge.1 -[ 6%] Building C object bin/lib/CMakeFiles/ini.dir/ini.c.o -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin && /usr/bin/pandoc --from markdown --to man -s /build/reproducible-path/hinge-0.5.0/src/hinge.1.md -o hinge.1 -[ 10%] Building CXX object bin/lib/CMakeFiles/ini.dir/INIReader.cpp.o -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/ini.dir/ini.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/ini.c -[ 13%] Building C object bin/lib/CMakeFiles/DW_banded.dir/DW_banded.c.o -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/c++ -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -o CMakeFiles/ini.dir/INIReader.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/lib/INIReader.cpp -[ 17%] Building C object bin/lib/CMakeFiles/PAF.dir/paf.c.o -[ 20%] Building C object bin/lib/CMakeFiles/LA.dir/align.c.o -[ 24%] Building C object bin/lib/CMakeFiles/DB.dir/DB.c.o -[ 31%] Building C object bin/lib/CMakeFiles/DB.dir/QV.c.o +[ 6%] Building C object bin/lib/CMakeFiles/DW_banded.dir/DW_banded.c.o +[ 10%] Building C object bin/lib/CMakeFiles/ini.dir/ini.c.o cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/DW_banded.dir/DW_banded.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/DW_banded.c -[ 31%] Building C object bin/lib/CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/PAF.dir/paf.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/paf.c +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/kmer_lookup.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/kmer_lookup.dir/depend.internal". +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/kmer_lookup.dir/depend.internal". +Scanning dependencies of target kmer_lookup +[ 13%] Building C object bin/lib/CMakeFiles/DB.dir/DB.c.o +[ 17%] Building C object bin/lib/CMakeFiles/LA.dir/align.c.o cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/LA.dir/align.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/align.c +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/ini.dir/ini.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/ini.c cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/DB.dir/DB.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/DB.c -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/kmer_lookup.c +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/build +[ 20%] Building C object bin/lib/CMakeFiles/DB.dir/QV.c.o +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/DB.dir/QV.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/QV.c +[ 24%] Building CXX object bin/lib/CMakeFiles/ini.dir/INIReader.cpp.o +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/c++ -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -o CMakeFiles/ini.dir/INIReader.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/lib/INIReader.cpp +[ 27%] Building C object bin/lib/CMakeFiles/PAF.dir/paf.c.o +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/PAF.dir/paf.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/paf.c +[ 31%] Building C object bin/lib/CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/kmer_lookup.c make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' /build/reproducible-path/hinge-0.5.0/src/lib/DB.c: In function 'Load_QVs': /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:916:9: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -1159,6 +1194,11 @@ [ 34%] Linking C static library libPAF.a cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/PAF.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/PAF.dir/link.txt --verbose=1 +/usr/bin/ar qc libPAF.a CMakeFiles/PAF.dir/paf.c.o +/usr/bin/ranlib libPAF.a +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +[ 37%] Linking C static library libDW_banded.a +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/DW_banded.dir/cmake_clean_target.cmake /build/reproducible-path/hinge-0.5.0/src/lib/kmer_lookup.c: In function 'find_best_aln_range': /build/reproducible-path/hinge-0.5.0/src/lib/kmer_lookup.c:347:14: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 347 | q_coor = calloc( km_ptr->count, sizeof(seq_coor_t) ); @@ -1174,14 +1214,9 @@ /usr/include/stdlib.h:542:14: note: in a call to allocation function 'calloc' declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ -/usr/bin/ar qc libPAF.a CMakeFiles/PAF.dir/paf.c.o -/usr/bin/ranlib libPAF.a -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -[ 34%] Built target PAF -[ 37%] Linking C static library libDW_banded.a -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/DW_banded.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/DW_banded.dir/link.txt --verbose=1 /usr/bin/ar qc libDW_banded.a CMakeFiles/DW_banded.dir/DW_banded.c.o +[ 37%] Built target PAF /usr/bin/ranlib libDW_banded.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' [ 37%] Built target DW_banded @@ -1203,27 +1238,27 @@ make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' [ 44%] Building C object bin/lib/CMakeFiles/falcon.dir/falcon.c.o cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/falcon.dir/falcon.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/falcon.c -[ 48%] Linking C static library libfalcon.a +[ 48%] Linking CXX static library libini.a +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/ini.dir/cmake_clean_target.cmake +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/ini.dir/link.txt --verbose=1 +/usr/bin/ar qc libini.a CMakeFiles/ini.dir/ini.c.o CMakeFiles/ini.dir/INIReader.cpp.o +[ 51%] Linking C static library libfalcon.a cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/falcon.dir/cmake_clean_target.cmake +/usr/bin/ranlib libini.a cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/falcon.dir/link.txt --verbose=1 /usr/bin/ar qc libfalcon.a CMakeFiles/falcon.dir/falcon.c.o /usr/bin/ranlib libfalcon.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -[ 48%] Built target falcon -[ 51%] Linking C static library libDB.a +[ 51%] Built target ini +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +[ 51%] Built target falcon +[ 55%] Linking C static library libDB.a cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/DB.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/DB.dir/link.txt --verbose=1 /usr/bin/ar qc libDB.a CMakeFiles/DB.dir/DB.c.o CMakeFiles/DB.dir/QV.c.o /usr/bin/ranlib libDB.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -[ 55%] Linking CXX static library libini.a -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/ini.dir/cmake_clean_target.cmake [ 55%] Built target DB -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/ini.dir/link.txt --verbose=1 -/usr/bin/ar qc libini.a CMakeFiles/ini.dir/ini.c.o CMakeFiles/ini.dir/INIReader.cpp.o -/usr/bin/ranlib libini.a -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -[ 55%] Built target ini [ 58%] Linking C static library libLA.a cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/LA.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/LA.dir/link.txt --verbose=1 @@ -1268,59 +1303,59 @@ make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' [ 65%] Built target LAInterface make -f bin/filter/CMakeFiles/Reads_filter.dir/build.make bin/filter/CMakeFiles/Reads_filter.dir/depend -make -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/depend -make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/depend -make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/filter /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/filter /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/filter/CMakeFiles/Reads_filter.dir/DependInfo.cmake --color= -make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/depend +make -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/maximal /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal/CMakeFiles/get_maximal_reads.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/consensus /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/consensus.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/consensus /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/draft_assembly.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/layout /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/hinging.dir/DependInfo.cmake --color= Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/filter/CMakeFiles/Reads_filter.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/filter/CMakeFiles/Reads_filter.dir/depend.internal". Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/filter/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/filter/CMakeFiles/Reads_filter.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/consensus.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/consensus.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/consensus.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/hinging.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/hinging.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/hinging.dir/depend.internal". Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal/CMakeFiles/get_maximal_reads.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal/CMakeFiles/get_maximal_reads.dir/depend.internal". -Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal/CMakeFiles/get_maximal_reads.dir/depend.internal". Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/draft_assembly.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/draft_assembly.dir/depend.internal". Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/draft_assembly.dir/depend.internal". -Scanning dependencies of target Reads_filter -Scanning dependencies of target consensus -Scanning dependencies of target draft_assembly +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal/CMakeFiles/get_maximal_reads.dir/depend.internal". Scanning dependencies of target get_maximal_reads +Scanning dependencies of target draft_assembly make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -Scanning dependencies of target hinging -make -f bin/filter/CMakeFiles/Reads_filter.dir/build.make bin/filter/CMakeFiles/Reads_filter.dir/build -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/build -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/build +Scanning dependencies of target Reads_filter make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/build -make -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/build -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/filter/CMakeFiles/Reads_filter.dir/build.make bin/filter/CMakeFiles/Reads_filter.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/consensus.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/consensus.dir/depend.internal". +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/consensus.dir/depend.internal". +Scanning dependencies of target consensus +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/hinging.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/hinging.dir/depend.internal". +Dependee "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/hinging.dir/depend.internal". +make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/build +[ 68%] Building CXX object bin/consensus/CMakeFiles/draft_assembly.dir/draft.cpp.o make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -[ 68%] Building CXX object bin/filter/CMakeFiles/Reads_filter.dir/filter.cpp.o -[ 72%] Building CXX object bin/consensus/CMakeFiles/consensus.dir/consensus.cpp.o -[ 79%] Building CXX object bin/consensus/CMakeFiles/draft_assembly.dir/draft.cpp.o -[ 79%] Building CXX object bin/maximal/CMakeFiles/get_maximal_reads.dir/maximal.cpp.o +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -o CMakeFiles/draft_assembly.dir/draft.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/consensus/draft.cpp +Scanning dependencies of target hinging +[ 72%] Building CXX object bin/filter/CMakeFiles/Reads_filter.dir/filter.cpp.o +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/build cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/filter && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -o CMakeFiles/Reads_filter.dir/filter.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/filter/filter.cpp +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +[ 75%] Building CXX object bin/maximal/CMakeFiles/get_maximal_reads.dir/maximal.cpp.o +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -o CMakeFiles/get_maximal_reads.dir/maximal.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/maximal/maximal.cpp +[ 79%] Building CXX object bin/consensus/CMakeFiles/consensus.dir/consensus.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -o CMakeFiles/consensus.dir/consensus.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/consensus/consensus.cpp [ 82%] Building CXX object bin/layout/CMakeFiles/hinging.dir/hinging.cpp.o -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -o CMakeFiles/get_maximal_reads.dir/maximal.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/maximal/maximal.cpp -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -o CMakeFiles/draft_assembly.dir/draft.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/consensus/draft.cpp cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -o CMakeFiles/hinging.dir/hinging.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/layout/hinging.cpp [ 86%] Linking CXX executable consensus cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus && /usr/bin/cmake -E cmake_link_script CMakeFiles/consensus.dir/link.txt --verbose=1 @@ -1354,138 +1389,138 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install - cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/hinge-0.5.0/debian/hinge AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j20 install DESTDIR=/build/reproducible-path/hinge-0.5.0/debian/hinge AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/hinge-0.5.0 -B/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make -f bin/CMakeFiles/man.dir/build.make bin/CMakeFiles/man.dir/depend -make -f bin/lib/CMakeFiles/ini.dir/build.make bin/lib/CMakeFiles/ini.dir/depend -make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/depend -make -f bin/lib/CMakeFiles/DB.dir/build.make bin/lib/CMakeFiles/DB.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/lib/CMakeFiles/ini.dir/build.make bin/lib/CMakeFiles/ini.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/CMakeFiles/man.dir/DependInfo.cmake --color= -make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/depend +make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/ini.dir/DependInfo.cmake --color= -make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/DependInfo.cmake --color= -make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/depend +make -f bin/lib/CMakeFiles/DB.dir/build.make bin/lib/CMakeFiles/DB.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/DB.dir/DependInfo.cmake --color= +make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/LA.dir/DependInfo.cmake --color= +make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.dir/depend +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/PAF.dir/DependInfo.cmake --color= +make -f bin/CMakeFiles/man.dir/build.make bin/CMakeFiles/man.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/kmer_lookup.dir/DependInfo.cmake --color= +make[3]: Nothing to be done for 'bin/CMakeFiles/man.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/CMakeFiles/man.dir/build.make bin/CMakeFiles/man.dir/build +make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/depend +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/kmer_lookup.dir/DependInfo.cmake --color= make -f bin/lib/CMakeFiles/ini.dir/build.make bin/lib/CMakeFiles/ini.dir/build make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/build make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'bin/CMakeFiles/man.dir/build'. +make[3]: Nothing to be done for 'bin/lib/CMakeFiles/ini.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/build +make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'bin/lib/CMakeFiles/ini.dir/build'. +make[3]: Nothing to be done for 'bin/lib/CMakeFiles/DW_banded.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +[ 3%] Built target man make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'bin/lib/CMakeFiles/LA.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'bin/lib/CMakeFiles/PAF.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.dir/build +make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/build make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'bin/lib/CMakeFiles/PAF.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/build make -f bin/lib/CMakeFiles/DB.dir/build.make bin/lib/CMakeFiles/DB.dir/build -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'bin/lib/CMakeFiles/kmer_lookup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'bin/lib/CMakeFiles/DB.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +[ 10%] Built target DW_banded +[ 20%] Built target ini +[ 27%] Built target kmer_lookup +make -f bin/lib/CMakeFiles/falcon.dir/build.make bin/lib/CMakeFiles/falcon.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'bin/lib/CMakeFiles/DW_banded.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -[ 3%] Built target man -[ 27%] Built target PAF -[ 27%] Built target ini -[ 27%] Built target LA -[ 44%] Built target kmer_lookup +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/falcon.dir/DependInfo.cmake --color= [ 44%] Built target DB -[ 51%] Built target DW_banded +[ 51%] Built target LA +[ 34%] Built target PAF make -f bin/lib/CMakeFiles/LAInterface.dir/build.make bin/lib/CMakeFiles/LAInterface.dir/depend -make -f bin/lib/CMakeFiles/falcon.dir/build.make bin/lib/CMakeFiles/falcon.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/LAInterface.dir/DependInfo.cmake --color= +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/lib/CMakeFiles/falcon.dir/build.make bin/lib/CMakeFiles/falcon.dir/build +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/lib/CMakeFiles/falcon.dir/DependInfo.cmake --color= +make[3]: Nothing to be done for 'bin/lib/CMakeFiles/falcon.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make -f bin/lib/CMakeFiles/LAInterface.dir/build.make bin/lib/CMakeFiles/LAInterface.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'bin/lib/CMakeFiles/LAInterface.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/lib/CMakeFiles/falcon.dir/build.make bin/lib/CMakeFiles/falcon.dir/build -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'bin/lib/CMakeFiles/falcon.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -[ 58%] Built target LAInterface +[ 58%] Built target falcon +[ 65%] Built target LAInterface make -f bin/filter/CMakeFiles/Reads_filter.dir/build.make bin/filter/CMakeFiles/Reads_filter.dir/depend -make -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/depend -make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/filter /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/filter /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/filter/CMakeFiles/Reads_filter.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/maximal /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/maximal/CMakeFiles/get_maximal_reads.dir/DependInfo.cmake --color= -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/layout /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/hinging.dir/DependInfo.cmake --color= -[ 65%] Built target falcon make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/depend make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/consensus /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/consensus.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/consensus /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/consensus/CMakeFiles/draft_assembly.dir/DependInfo.cmake --color= +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +cd /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/layout /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/bin/layout/CMakeFiles/hinging.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/build -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/filter/CMakeFiles/Reads_filter.dir/build.make bin/filter/CMakeFiles/Reads_filter.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'bin/maximal/CMakeFiles/get_maximal_reads.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/filter/CMakeFiles/Reads_filter.dir/build.make bin/filter/CMakeFiles/Reads_filter.dir/build +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'bin/filter/CMakeFiles/Reads_filter.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/build +make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'bin/consensus/CMakeFiles/consensus.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/build -make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/build -make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'bin/consensus/CMakeFiles/draft_assembly.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'bin/consensus/CMakeFiles/consensus.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' +make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'bin/layout/CMakeFiles/hinging.dir/build'. make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' -[ 79%] Built target get_maximal_reads +[ 72%] Built target get_maximal_reads [ 79%] Built target Reads_filter -[ 93%] Built target draft_assembly +[ 86%] Built target hinging [ 93%] Built target consensus -[100%] Built target hinging +[100%] Built target draft_assembly make[2]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/hinge-0.5.0/obj-x86_64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall @@ -1496,61 +1531,61 @@ /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping3.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2_pileup_region.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/Visualise_graph.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/add_groundtruth.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw_pileup_region.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parallel_draw.sh --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_draft_annotation.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/repeat_annotate_reads.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pruning_and_clipping.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parallel_draw_large.sh --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/longest_path.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_parse_alignment.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pipeline_nctc.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/download_NCTC_pipeline.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_with_gt.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping2.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pileup.ipynb +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_alignment.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_draft_path.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pruning_and_clipping_nanopore.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/fasta_to_fastq.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw_pileup_region_find_bridges.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/clip_ends.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/create_bandage_file.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_draft_path_norevcomp.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_create_gfa_compute_n50.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/fasta_to_fastq.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_single_strand.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/create_hgraph_nogt.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draft_assembly_not_perfect.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pipeline_consensus_norevcomp.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_annotate_clip_ends.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_NCTC_json.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/clip_ends.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/compute_n50_from_draft.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2_pileup_w_repeat.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/interface_utils.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/random_condensation.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_create_gfa_compute_n50.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/merge_hinges.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/repeat_annotate_reads.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parallel_draw.sh +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pruning_and_clipping.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/create_hgraph_nogt.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw_pileup_region.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/longest_path.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/add_groundtruth_json.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_with_gt.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_read.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_draft_path_norevcomp.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draft_assembly_not_perfect.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_parse_read.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2_pileup.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2_pileup_w_repeat.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_consensus_gfa.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_qv.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_and_annotate.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_draft_path.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/create_hgraph.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pileup.ipynb --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/unitig.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_alignment.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping2.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pipeline_consensus.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/split_las.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_read.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_NCTC_json.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draft_assembly.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pipeline_nctc.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/correct_head.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_qv.py --- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pipeline_consensus_norevcomp.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/random_condensation.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/connected.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/compute_n50_from_draft.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/create_hgraph.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_parse_read.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_draft_annotation.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parallel_draw_large.sh +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/Visualise_graph.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/unitig.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping3.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw_pileup_region_find_bridges.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/merge_hinges.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_and_annotate.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_parse_alignment.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2_pileup_region.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/download_NCTC_pipeline.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pipeline_consensus.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2_pileup.py +-- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/add_groundtruth.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/share/man/man1/hinge.1 -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/bin/hinge -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/Reads_filter @@ -1593,12 +1628,14 @@ 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/631457/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/631457/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/3798329 and its subdirectories -I: Current time: Thu Sep 11 06:52:02 -12 2025 -I: pbuilder-time-stamp: 1757616722 +I: removing directory /srv/workspace/pbuilder/631457 and its subdirectories +I: Current time: Sat Aug 10 02:38:17 +14 2024 +I: pbuilder-time-stamp: 1723207097