Diff of the two buildlogs: -- --- b1/build.log 2021-09-07 00:56:12.045061640 +0000 +++ b2/build.log 2021-09-07 01:02:24.747653888 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Sep 6 12:52:22 -12 2021 -I: pbuilder-time-stamp: 1630975942 +I: Current time: Tue Sep 7 14:56:30 +14 2021 +I: pbuilder-time-stamp: 1630976190 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -16,8 +16,8 @@ I: copying [./sniffles_1.0.12b+ds-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.obsD74aw/trustedkeys.kbx': General error -gpgv: Signature made Fri Nov 27 10:37:57 2020 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.GSTEFUC7/trustedkeys.kbx': General error +gpgv: Signature made Sat Nov 28 12:37:57 2020 +14 gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1 gpgv: issuer "moeller@debian.org" gpgv: Can't check signature: No public key @@ -31,135 +31,169 @@ dpkg-source: info: applying stoppingRecursion.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/11463/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/6821/tmp/hooks/D01_modify_environment starting +debug: Running on wbq0. +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/6821/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/6821/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='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=3' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='armhf' + 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]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.1.4(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=4' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='73e04733942a4bf0ae231880893f8a22' - 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='11463' - PS1='# ' - PS2='> ' + INVOCATION_ID=69187564abc34f08a724cee234c7de79 + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + 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=6821 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.FhffHbEtjM/pbuilderrc_S9cb --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.FhffHbEtjM/b1 --logfile b1/build.log sniffles_1.0.12b+ds-1.dsc' - SUDO_GID='113' - SUDO_UID='107' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:8000/' + 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.FhffHbEtjM/pbuilderrc_cCiy --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.FhffHbEtjM/b2 --logfile b2/build.log sniffles_1.0.12b+ds-1.dsc' + SUDO_GID=113 + SUDO_UID=107 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:8000/ I: uname -a - Linux virt64c 5.10.0-8-arm64 #1 SMP Debian 5.10.46-4 (2021-08-03) aarch64 GNU/Linux + Linux i-capture-the-hostname 5.10.0-8-armmp #1 SMP Debian 5.10.46-4 (2021-08-03) armv7l GNU/Linux I: ls -l /bin total 3580 - -rwxr-xr-x 1 root root 816764 Aug 4 08:25 bash - -rwxr-xr-x 3 root root 26052 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 26052 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 26052 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 9636 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 26668 Sep 22 2020 cat - -rwxr-xr-x 1 root root 43104 Sep 22 2020 chgrp - -rwxr-xr-x 1 root root 38984 Sep 22 2020 chmod - -rwxr-xr-x 1 root root 43112 Sep 22 2020 chown - -rwxr-xr-x 1 root root 92616 Sep 22 2020 cp - -rwxr-xr-x 1 root root 75524 Dec 10 2020 dash - -rwxr-xr-x 1 root root 75880 Sep 22 2020 date - -rwxr-xr-x 1 root root 55436 Sep 22 2020 dd - -rwxr-xr-x 1 root root 59912 Sep 22 2020 df - -rwxr-xr-x 1 root root 96764 Sep 22 2020 dir - -rwxr-xr-x 1 root root 55012 Jul 28 07:09 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 22508 Sep 22 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 22496 Sep 22 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 47492 Jul 28 07:09 findmnt - -rwsr-xr-x 1 root root 26076 Feb 26 2021 fusermount - -rwxr-xr-x 1 root root 124508 Nov 9 2020 grep - -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip - -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe - -rwxr-xr-x 1 root root 64212 Mar 2 2021 gzip - -rwxr-xr-x 1 root root 13784 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 43180 Sep 22 2020 ln - -rwxr-xr-x 1 root root 35068 Feb 7 2020 login - -rwxr-xr-x 1 root root 96764 Sep 22 2020 ls - -rwxr-xr-x 1 root root 99940 Jul 28 07:09 lsblk - -rwxr-xr-x 1 root root 51408 Sep 22 2020 mkdir - -rwxr-xr-x 1 root root 43184 Sep 22 2020 mknod - -rwxr-xr-x 1 root root 30780 Sep 22 2020 mktemp - -rwxr-xr-x 1 root root 34408 Jul 28 07:09 more - -rwsr-xr-x 1 root root 34400 Jul 28 07:09 mount - -rwxr-xr-x 1 root root 9824 Jul 28 07:09 mountpoint - -rwxr-xr-x 1 root root 88524 Sep 22 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 26652 Sep 22 2020 pwd - lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash - -rwxr-xr-x 1 root root 30740 Sep 22 2020 readlink - -rwxr-xr-x 1 root root 43104 Sep 22 2020 rm - -rwxr-xr-x 1 root root 30732 Sep 22 2020 rmdir - -rwxr-xr-x 1 root root 14144 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Aug 20 21:24 sh -> dash - -rwxr-xr-x 1 root root 22532 Sep 22 2020 sleep - -rwxr-xr-x 1 root root 55360 Sep 22 2020 stty - -rwsr-xr-x 1 root root 46704 Jul 28 07:09 su - -rwxr-xr-x 1 root root 22532 Sep 22 2020 sync - -rwxr-xr-x 1 root root 340872 Feb 16 2021 tar - -rwxr-xr-x 1 root root 9808 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 67696 Sep 22 2020 touch - -rwxr-xr-x 1 root root 22496 Sep 22 2020 true - -rwxr-xr-x 1 root root 9636 Feb 26 2021 ulockmgr_server - -rwsr-xr-x 1 root root 22108 Jul 28 07:09 umount - -rwxr-xr-x 1 root root 22520 Sep 22 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress - -rwxr-xr-x 1 root root 96764 Sep 22 2020 vdir - -rwxr-xr-x 1 root root 38512 Jul 28 07:09 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat - -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp - -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff - -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep - -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep - -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce - -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep - -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless - -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore - -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew -I: user script /srv/workspace/pbuilder/11463/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 816764 Aug 5 10:25 bash + -rwxr-xr-x 3 root root 26052 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 26052 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 26052 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 9636 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 26668 Sep 23 2020 cat + -rwxr-xr-x 1 root root 43104 Sep 23 2020 chgrp + -rwxr-xr-x 1 root root 38984 Sep 23 2020 chmod + -rwxr-xr-x 1 root root 43112 Sep 23 2020 chown + -rwxr-xr-x 1 root root 92616 Sep 23 2020 cp + -rwxr-xr-x 1 root root 75524 Dec 11 2020 dash + -rwxr-xr-x 1 root root 75880 Sep 23 2020 date + -rwxr-xr-x 1 root root 55436 Sep 23 2020 dd + -rwxr-xr-x 1 root root 59912 Sep 23 2020 df + -rwxr-xr-x 1 root root 96764 Sep 23 2020 dir + -rwxr-xr-x 1 root root 55012 Jul 29 09:09 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 22508 Sep 23 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 22496 Sep 23 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 47492 Jul 29 09:09 findmnt + -rwsr-xr-x 1 root root 26076 Feb 27 2021 fusermount + -rwxr-xr-x 1 root root 124508 Nov 10 2020 grep + -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip + -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe + -rwxr-xr-x 1 root root 64212 Mar 3 2021 gzip + -rwxr-xr-x 1 root root 13784 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 43180 Sep 23 2020 ln + -rwxr-xr-x 1 root root 35068 Feb 8 2020 login + -rwxr-xr-x 1 root root 96764 Sep 23 2020 ls + -rwxr-xr-x 1 root root 99940 Jul 29 09:09 lsblk + -rwxr-xr-x 1 root root 51408 Sep 23 2020 mkdir + -rwxr-xr-x 1 root root 43184 Sep 23 2020 mknod + -rwxr-xr-x 1 root root 30780 Sep 23 2020 mktemp + -rwxr-xr-x 1 root root 34408 Jul 29 09:09 more + -rwsr-xr-x 1 root root 34400 Jul 29 09:09 mount + -rwxr-xr-x 1 root root 9824 Jul 29 09:09 mountpoint + -rwxr-xr-x 1 root root 88524 Sep 23 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 26652 Sep 23 2020 pwd + lrwxrwxrwx 1 root root 4 Aug 5 10:25 rbash -> bash + -rwxr-xr-x 1 root root 30740 Sep 23 2020 readlink + -rwxr-xr-x 1 root root 43104 Sep 23 2020 rm + -rwxr-xr-x 1 root root 30732 Sep 23 2020 rmdir + -rwxr-xr-x 1 root root 14144 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 76012 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Sep 7 14:57 sh -> bash + lrwxrwxrwx 1 root root 4 Aug 21 23:27 sh.distrib -> dash + -rwxr-xr-x 1 root root 22532 Sep 23 2020 sleep + -rwxr-xr-x 1 root root 55360 Sep 23 2020 stty + -rwsr-xr-x 1 root root 46704 Jul 29 09:09 su + -rwxr-xr-x 1 root root 22532 Sep 23 2020 sync + -rwxr-xr-x 1 root root 340872 Feb 17 2021 tar + -rwxr-xr-x 1 root root 9808 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 67696 Sep 23 2020 touch + -rwxr-xr-x 1 root root 22496 Sep 23 2020 true + -rwxr-xr-x 1 root root 9636 Feb 27 2021 ulockmgr_server + -rwsr-xr-x 1 root root 22108 Jul 29 09:09 umount + -rwxr-xr-x 1 root root 22520 Sep 23 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress + -rwxr-xr-x 1 root root 96764 Sep 23 2020 vdir + -rwxr-xr-x 1 root root 38512 Jul 29 09:09 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat + -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp + -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff + -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep + -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep + -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce + -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep + -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless + -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore + -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew +I: user script /srv/workspace/pbuilder/6821/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -263,7 +297,7 @@ Get: 56 http://deb.debian.org/debian bullseye/main armhf pandoc-data all 2.9.2.1-1 [376 kB] Get: 57 http://deb.debian.org/debian bullseye/main armhf pandoc armhf 2.9.2.1-1+b1 [18.7 MB] Get: 58 http://deb.debian.org/debian bullseye/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] -Fetched 45.5 MB in 9s (5078 kB/s) +Fetched 45.5 MB in 12s (3785 kB/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 ... 19398 files and directories currently installed.) @@ -511,7 +545,8 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/sniffles-1.0.12b+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../sniffles_1.0.12b+ds-1_source.changes +hostname: Name or service not known +I: Running cd /build/sniffles-1.0.12b+ds/ && 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 > ../sniffles_1.0.12b+ds-1_source.changes dpkg-buildpackage: info: source package sniffles dpkg-buildpackage: info: source version 1.0.12b+ds-1 dpkg-buildpackage: info: source distribution unstable @@ -571,7 +606,7 @@ -- Build files have been written to: /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf make[1]: Leaving directory '/build/sniffles-1.0.12b+ds' dh_auto_build - cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/sniffles-1.0.12b+ds -B/build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/CMakeFiles /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks @@ -587,13 +622,17 @@ make -f src/CMakeFiles/sniffles.dir/build.make src/CMakeFiles/sniffles.dir/build make[3]: Entering directory '/build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf' [ 4%] Building CXX object src/CMakeFiles/sniffles.dir/tree/Breakpoint_Tree.cpp.o -[ 8%] Building CXX object src/CMakeFiles/sniffles.dir/Alignment.cpp.o -[ 13%] Building CXX object src/CMakeFiles/sniffles.dir/Genotyper/Genotyper.cpp.o cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/tree/Breakpoint_Tree.cpp.o -c /build/sniffles-1.0.12b+ds/src/tree/Breakpoint_Tree.cpp +[ 8%] Building CXX object src/CMakeFiles/sniffles.dir/Genotyper/Genotyper.cpp.o cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/Genotyper/Genotyper.cpp.o -c /build/sniffles-1.0.12b+ds/src/Genotyper/Genotyper.cpp -cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/Alignment.cpp.o -c /build/sniffles-1.0.12b+ds/src/Alignment.cpp [ 17%] Building CXX object src/CMakeFiles/sniffles.dir/BamParser.cpp.o +[ 17%] Building CXX object src/CMakeFiles/sniffles.dir/Alignment.cpp.o +cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/Alignment.cpp.o -c /build/sniffles-1.0.12b+ds/src/Alignment.cpp cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/BamParser.cpp.o -c /build/sniffles-1.0.12b+ds/src/BamParser.cpp +[ 21%] Building CXX object src/CMakeFiles/sniffles.dir/Sniffles.cpp.o +cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/Sniffles.cpp.o -c /build/sniffles-1.0.12b+ds/src/Sniffles.cpp +[ 26%] Building CXX object src/CMakeFiles/sniffles.dir/Ignore_Regions.cpp.o +cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/Ignore_Regions.cpp.o -c /build/sniffles-1.0.12b+ds/src/Ignore_Regions.cpp /build/sniffles-1.0.12b+ds/src/Genotyper/Genotyper.cpp: In member function 'void Genotyper::update_svs_output(std::map, std::vector >)': /build/sniffles-1.0.12b+ds/src/Genotyper/Genotyper.cpp:343:8: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result] 343 | system(move.c_str()); @@ -610,10 +649,6 @@ /build/sniffles-1.0.12b+ds/src/Genotyper/Genotyper.cpp:858:8: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result] 858 | system(del.c_str()); | ~~~~~~^~~~~~~~~~~~~ -[ 21%] Building CXX object src/CMakeFiles/sniffles.dir/Sniffles.cpp.o -cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/Sniffles.cpp.o -c /build/sniffles-1.0.12b+ds/src/Sniffles.cpp -[ 26%] Building CXX object src/CMakeFiles/sniffles.dir/Ignore_Regions.cpp.o -cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/Ignore_Regions.cpp.o -c /build/sniffles-1.0.12b+ds/src/Ignore_Regions.cpp [ 30%] Building CXX object src/CMakeFiles/sniffles.dir/tree/Intervall_bed.cpp.o cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/tree/Intervall_bed.cpp.o -c /build/sniffles-1.0.12b+ds/src/tree/Intervall_bed.cpp [ 34%] Building CXX object src/CMakeFiles/sniffles.dir/sub/Detect_Breakpoints.cpp.o @@ -638,6 +673,8 @@ | %lu [ 60%] Building CXX object src/CMakeFiles/sniffles.dir/print/VCFPrinter.cpp.o cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/print/VCFPrinter.cpp.o -c /build/sniffles-1.0.12b+ds/src/print/VCFPrinter.cpp +[ 65%] Building CXX object src/CMakeFiles/sniffles.dir/print/BedpePrinter.cpp.o +cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/print/BedpePrinter.cpp.o -c /build/sniffles-1.0.12b+ds/src/print/BedpePrinter.cpp In file included from /usr/include/c++/10/vector:72, from /build/sniffles-1.0.12b+ds/src/realign/../sub/Breakpoint.h:12, from /build/sniffles-1.0.12b+ds/src/realign/Realign.h:10, @@ -647,14 +684,6 @@ 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 -In file included from /usr/include/c++/10/vector:67, - from /build/sniffles-1.0.12b+ds/src/realign/../sub/Breakpoint.h:12, - from /build/sniffles-1.0.12b+ds/src/realign/Realign.h:10, - from /build/sniffles-1.0.12b+ds/src/realign/Realign.cpp:8: -/usr/include/c++/10/bits/stl_vector.h: In member function 'void Realigner::init()': -/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1198 | _M_realloc_insert(end(), __x); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/sniffles-1.0.12b+ds/src/print/VCFPrinter.cpp: In member function 'virtual void VCFPrinter::print_body(Breakpoint*&, BamTools::RefVector)': /build/sniffles-1.0.12b+ds/src/print/VCFPrinter.cpp:376:21: warning: format '%i' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] 376 | fprintf(file, "%i", SV->get_length() * -1); @@ -675,10 +704,18 @@ | | | | int long int | %li -[ 65%] Building CXX object src/CMakeFiles/sniffles.dir/print/BedpePrinter.cpp.o -cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/print/BedpePrinter.cpp.o -c /build/sniffles-1.0.12b+ds/src/print/BedpePrinter.cpp +In file included from /usr/include/c++/10/vector:67, + from /build/sniffles-1.0.12b+ds/src/realign/../sub/Breakpoint.h:12, + from /build/sniffles-1.0.12b+ds/src/realign/Realign.h:10, + from /build/sniffles-1.0.12b+ds/src/realign/Realign.cpp:8: +/usr/include/c++/10/bits/stl_vector.h: In member function 'void Realigner::init()': +/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1198 | _M_realloc_insert(end(), __x); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 69%] Building CXX object src/CMakeFiles/sniffles.dir/print/IPrinter.cpp.o cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/print/IPrinter.cpp.o -c /build/sniffles-1.0.12b+ds/src/print/IPrinter.cpp +[ 73%] Building CXX object src/CMakeFiles/sniffles.dir/tree/BinTree.cpp.o +cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/tree/BinTree.cpp.o -c /build/sniffles-1.0.12b+ds/src/tree/BinTree.cpp /build/sniffles-1.0.12b+ds/src/print/BedpePrinter.cpp: In member function 'virtual void BedpePrinter::print_body(Breakpoint*&, BamTools::RefVector)': /build/sniffles-1.0.12b+ds/src/print/BedpePrinter.cpp:99:21: warning: format '%i' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] 99 | fprintf(file, "%i", SV->get_length()); @@ -705,6 +742,8 @@ | | | | int long int | %li +[ 78%] Building CXX object src/CMakeFiles/sniffles.dir/print/NGMPrinter.cpp.o +cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/print/NGMPrinter.cpp.o -c /build/sniffles-1.0.12b+ds/src/print/NGMPrinter.cpp /build/sniffles-1.0.12b+ds/src/print/IPrinter.cpp: In function 'void write_read(Alignment*, FILE*&)': /build/sniffles-1.0.12b+ds/src/print/IPrinter.cpp:21:29: warning: unknown conversion type character 'r' in format [-Wformat=] 21 | fprintf(ref_allel_reads, "%ref_plus", '\t'); @@ -742,16 +781,14 @@ /build/sniffles-1.0.12b+ds/src/print/IPrinter.cpp:31:27: warning: too many arguments for format [-Wformat-extra-args] 31 | fprintf(ref_allel_reads, "%ref_plus", '\n'); | ^~~~~~~~~~~ -[ 73%] Building CXX object src/CMakeFiles/sniffles.dir/tree/BinTree.cpp.o -cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/tree/BinTree.cpp.o -c /build/sniffles-1.0.12b+ds/src/tree/BinTree.cpp -[ 78%] Building CXX object src/CMakeFiles/sniffles.dir/print/NGMPrinter.cpp.o -cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/print/NGMPrinter.cpp.o -c /build/sniffles-1.0.12b+ds/src/print/NGMPrinter.cpp [ 82%] Building CXX object src/CMakeFiles/sniffles.dir/plane-sweep/PlaneSweep_slim.cpp.o cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/plane-sweep/PlaneSweep_slim.cpp.o -c /build/sniffles-1.0.12b+ds/src/plane-sweep/PlaneSweep_slim.cpp [ 86%] Building CXX object src/CMakeFiles/sniffles.dir/cluster/Cluster_SVs.cpp.o cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/cluster/Cluster_SVs.cpp.o -c /build/sniffles-1.0.12b+ds/src/cluster/Cluster_SVs.cpp [ 91%] Building CXX object src/CMakeFiles/sniffles.dir/force_calling/Force_calling.cpp.o cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/force_calling/Force_calling.cpp.o -c /build/sniffles-1.0.12b+ds/src/force_calling/Force_calling.cpp +[ 95%] Building CXX object src/CMakeFiles/sniffles.dir/force_calling/VCF_parser.cpp.o +cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/force_calling/VCF_parser.cpp.o -c /build/sniffles-1.0.12b+ds/src/force_calling/VCF_parser.cpp /build/sniffles-1.0.12b+ds/src/cluster/Cluster_SVs.cpp: In member function 'void Cluster_SVS::update_SVs(std::vector&)': /build/sniffles-1.0.12b+ds/src/cluster/Cluster_SVs.cpp:84:8: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result] 84 | system(move.c_str()); @@ -760,8 +797,6 @@ /build/sniffles-1.0.12b+ds/src/cluster/Cluster_SVs.cpp:154:8: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result] 154 | system(del.c_str()); | ~~~~~~^~~~~~~~~~~~~ -[ 95%] Building CXX object src/CMakeFiles/sniffles.dir/force_calling/VCF_parser.cpp.o -cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/usr/include/bamtools -I/build/sniffles-1.0.12b+ds/src/../lib/bamtools-2.3.0/src -I/build/sniffles-1.0.12b+ds/src/../lib/tclap-1.2.1/include -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/sniffles.dir/force_calling/VCF_parser.cpp.o -c /build/sniffles-1.0.12b+ds/src/force_calling/VCF_parser.cpp [100%] Linking CXX executable ../../bin/sniffles-core-1.0.12/sniffles cd /build/sniffles-1.0.12b+ds/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/sniffles.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/sniffles-1.0.12b+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/sniffles.dir/tree/Breakpoint_Tree.cpp.o CMakeFiles/sniffles.dir/Genotyper/Genotyper.cpp.o CMakeFiles/sniffles.dir/Alignment.cpp.o CMakeFiles/sniffles.dir/BamParser.cpp.o CMakeFiles/sniffles.dir/Sniffles.cpp.o CMakeFiles/sniffles.dir/Ignore_Regions.cpp.o CMakeFiles/sniffles.dir/tree/Intervall_bed.cpp.o CMakeFiles/sniffles.dir/sub/Detect_Breakpoints.cpp.o CMakeFiles/sniffles.dir/sub/Breakpoint.cpp.o CMakeFiles/sniffles.dir/tree/IntervallTree.cpp.o CMakeFiles/sniffles.dir/tree/IntervallList.cpp.o CMakeFiles/sniffles.dir/realign/SWCPU.cpp.o CMakeFiles/sniffles.dir/realign/Realign.cpp.o CMakeFiles/sniffles.dir/print/VCFPrinter.cpp.o CMakeFiles/sniffles.dir/print/BedpePrinter.cpp.o CMakeFiles/sniffles.dir/print/IPrinter.cpp.o CMakeFiles/sniffles.dir/tree/BinTree.cpp.o CMakeFiles/sniffles.dir/print/NGMPrinter.cpp.o CMakeFiles/sniffles.dir/plane-sweep/PlaneSweep_slim.cpp.o CMakeFiles/sniffles.dir/cluster/Cluster_SVs.cpp.o CMakeFiles/sniffles.dir/force_calling/Force_calling.cpp.o CMakeFiles/sniffles.dir/force_calling/VCF_parser.cpp.o -o ../../bin/sniffles-core-1.0.12/sniffles -lbamtools -lz @@ -815,8 +850,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'sniffles-dbgsym' in '../sniffles-dbgsym_1.0.12b+ds-1_armhf.deb'. dpkg-deb: building package 'sniffles' in '../sniffles_1.0.12b+ds-1_armhf.deb'. +dpkg-deb: building package 'sniffles-dbgsym' in '../sniffles-dbgsym_1.0.12b+ds-1_armhf.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../sniffles_1.0.12b+ds-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -824,12 +859,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/6821/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/6821/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/11463 and its subdirectories -I: Current time: Mon Sep 6 12:56:08 -12 2021 -I: pbuilder-time-stamp: 1630976168 +I: removing directory /srv/workspace/pbuilder/6821 and its subdirectories +I: Current time: Tue Sep 7 15:02:20 +14 2021 +I: pbuilder-time-stamp: 1630976540