Diff of the two buildlogs: -- --- b1/build.log 2022-08-29 09:33:23.220219650 +0000 +++ b2/build.log 2022-08-29 10:29:56.960667587 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Oct 1 03:53:12 -12 2023 -I: pbuilder-time-stamp: 1696175592 +I: Current time: Mon Aug 29 23:38:20 +14 2022 +I: pbuilder-time-stamp: 1661765900 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration @@ -17,7 +17,7 @@ I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error -gpgv: Signature made Tue Feb 5 20:30:46 2019 -12 +gpgv: Signature made Wed Feb 6 22:30:46 2019 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -29,136 +29,171 @@ dpkg-source: info: applying fix_gtest_depcheck.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1177715/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1836211/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' +lrwxrwxrwx 1 root root 4 Aug 29 23:48 /bin/sh -> 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/1836211/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1836211/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="0" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.0.3(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='c059621f198448809cde2e9aae9ee232' - 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='1177715' - PS1='# ' - PS2='> ' + INVOCATION_ID=5a85ef480d5d49f197b81c7fc0aedace + 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=1836211 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.hH9Ny0hObI/pbuilderrc_rP8y --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.hH9Ny0hObI/b1 --logfile b1/build.log pbbam_0.19.0+dfsg-4.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://85.184.249.68:3128' + 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.hH9Ny0hObI/pbuilderrc_ahD4 --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.hH9Ny0hObI/b2 --logfile b2/build.log pbbam_0.19.0+dfsg-4.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://78.137.99.97:3128 I: uname -a - Linux ionos5-amd64 5.18.0-0.deb11.3-amd64 #1 SMP PREEMPT_DYNAMIC Debian 5.18.14-1~bpo11+1 (2022-07-28) x86_64 GNU/Linux + Linux i-capture-the-hostname 5.10.0-17-amd64 #1 SMP Debian 5.10.136-1 (2022-08-13) x86_64 GNU/Linux I: ls -l /bin total 5116 - -rwxr-xr-x 1 root root 1168776 Apr 17 2019 bash - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bunzip2 - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzcat - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzip2 - -rwxr-xr-x 1 root root 14328 Jul 10 2019 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore - -rwxr-xr-x 1 root root 43744 Feb 28 2019 cat - -rwxr-xr-x 1 root root 64320 Feb 28 2019 chgrp - -rwxr-xr-x 1 root root 64288 Feb 28 2019 chmod - -rwxr-xr-x 1 root root 72512 Feb 28 2019 chown - -rwxr-xr-x 1 root root 146880 Feb 28 2019 cp - -rwxr-xr-x 1 root root 121464 Jan 17 2019 dash - -rwxr-xr-x 1 root root 109408 Feb 28 2019 date - -rwxr-xr-x 1 root root 76712 Feb 28 2019 dd - -rwxr-xr-x 1 root root 93744 Feb 28 2019 df - -rwxr-xr-x 1 root root 138856 Feb 28 2019 dir - -rwxr-xr-x 1 root root 84288 Jan 9 2019 dmesg - lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname - -rwxr-xr-x 1 root root 39520 Feb 28 2019 echo - -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep - -rwxr-xr-x 1 root root 35424 Feb 28 2019 false - -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep - -rwxr-xr-x 1 root root 68880 Jan 9 2019 findmnt - -rwsr-xr-x 1 root root 34896 Apr 22 2020 fusermount - -rwxr-xr-x 1 root root 198976 Jan 7 2019 grep - -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip - -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe - -rwxr-xr-x 1 root root 98048 Jan 5 2019 gzip - -rwxr-xr-x 1 root root 26696 Sep 26 2018 hostname - -rwxr-xr-x 1 root root 68552 Feb 28 2019 ln - -rwxr-xr-x 1 root root 56760 Jul 26 2018 login - -rwxr-xr-x 1 root root 138856 Feb 28 2019 ls - -rwxr-xr-x 1 root root 108624 Jan 9 2019 lsblk - -rwxr-xr-x 1 root root 89088 Feb 28 2019 mkdir - -rwxr-xr-x 1 root root 68544 Feb 28 2019 mknod - -rwxr-xr-x 1 root root 43808 Feb 28 2019 mktemp - -rwxr-xr-x 1 root root 43008 Jan 9 2019 more - -rwsr-xr-x 1 root root 51280 Jan 9 2019 mount - -rwxr-xr-x 1 root root 14408 Jan 9 2019 mountpoint - -rwxr-xr-x 1 root root 138728 Feb 28 2019 mv - lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 39616 Feb 28 2019 pwd - lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash - -rwxr-xr-x 1 root root 47776 Feb 28 2019 readlink - -rwxr-xr-x 1 root root 68416 Feb 28 2019 rm - -rwxr-xr-x 1 root root 47776 Feb 28 2019 rmdir - -rwxr-xr-x 1 root root 23312 Jan 21 2019 run-parts - -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Sep 9 02:47 sh -> dash - -rwxr-xr-x 1 root root 39552 Feb 28 2019 sleep - -rwxr-xr-x 1 root root 80672 Feb 28 2019 stty - -rwsr-xr-x 1 root root 63568 Jan 9 2019 su - -rwxr-xr-x 1 root root 35488 Feb 28 2019 sync - -rwxr-xr-x 1 root root 445560 Apr 23 2019 tar - -rwxr-xr-x 1 root root 14440 Jan 21 2019 tempfile - -rwxr-xr-x 1 root root 97152 Feb 28 2019 touch - -rwxr-xr-x 1 root root 35424 Feb 28 2019 true - -rwxr-xr-x 1 root root 14328 Apr 22 2020 ulockmgr_server - -rwsr-xr-x 1 root root 34888 Jan 9 2019 umount - -rwxr-xr-x 1 root root 39584 Feb 28 2019 uname - -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress - -rwxr-xr-x 1 root root 138856 Feb 28 2019 vdir - -rwxr-xr-x 1 root root 34896 Jan 9 2019 wdctl - -rwxr-xr-x 1 root root 946 Jan 21 2019 which - lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat - -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp - -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff - -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep - -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep - -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce - -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep - -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless - -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore - -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew -I: user script /srv/workspace/pbuilder/1177715/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1168776 Apr 18 2019 bash + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bunzip2 + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzcat + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzip2 + -rwxr-xr-x 1 root root 14328 Jul 11 2019 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore + -rwxr-xr-x 1 root root 43744 Mar 1 2019 cat + -rwxr-xr-x 1 root root 64320 Mar 1 2019 chgrp + -rwxr-xr-x 1 root root 64288 Mar 1 2019 chmod + -rwxr-xr-x 1 root root 72512 Mar 1 2019 chown + -rwxr-xr-x 1 root root 146880 Mar 1 2019 cp + -rwxr-xr-x 1 root root 121464 Jan 18 2019 dash + -rwxr-xr-x 1 root root 109408 Mar 1 2019 date + -rwxr-xr-x 1 root root 76712 Mar 1 2019 dd + -rwxr-xr-x 1 root root 93744 Mar 1 2019 df + -rwxr-xr-x 1 root root 138856 Mar 1 2019 dir + -rwxr-xr-x 1 root root 84288 Jan 10 2019 dmesg + lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname + -rwxr-xr-x 1 root root 39520 Mar 1 2019 echo + -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep + -rwxr-xr-x 1 root root 35424 Mar 1 2019 false + -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep + -rwxr-xr-x 1 root root 68880 Jan 10 2019 findmnt + -rwsr-xr-x 1 root root 34896 Apr 23 2020 fusermount + -rwxr-xr-x 1 root root 198976 Jan 8 2019 grep + -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip + -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe + -rwxr-xr-x 1 root root 98048 Jan 6 2019 gzip + -rwxr-xr-x 1 root root 26696 Sep 27 2018 hostname + -rwxr-xr-x 1 root root 68552 Mar 1 2019 ln + -rwxr-xr-x 1 root root 56760 Jul 27 2018 login + -rwxr-xr-x 1 root root 138856 Mar 1 2019 ls + -rwxr-xr-x 1 root root 108624 Jan 10 2019 lsblk + -rwxr-xr-x 1 root root 89088 Mar 1 2019 mkdir + -rwxr-xr-x 1 root root 68544 Mar 1 2019 mknod + -rwxr-xr-x 1 root root 43808 Mar 1 2019 mktemp + -rwxr-xr-x 1 root root 43008 Jan 10 2019 more + -rwsr-xr-x 1 root root 51280 Jan 10 2019 mount + -rwxr-xr-x 1 root root 14408 Jan 10 2019 mountpoint + -rwxr-xr-x 1 root root 138728 Mar 1 2019 mv + lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 39616 Mar 1 2019 pwd + lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash + -rwxr-xr-x 1 root root 47776 Mar 1 2019 readlink + -rwxr-xr-x 1 root root 68416 Mar 1 2019 rm + -rwxr-xr-x 1 root root 47776 Mar 1 2019 rmdir + -rwxr-xr-x 1 root root 23312 Jan 22 2019 run-parts + -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Aug 29 23:48 sh -> bash + lrwxrwxrwx 1 root root 4 Aug 7 22:25 sh.distrib -> dash + -rwxr-xr-x 1 root root 39552 Mar 1 2019 sleep + -rwxr-xr-x 1 root root 80672 Mar 1 2019 stty + -rwsr-xr-x 1 root root 63568 Jan 10 2019 su + -rwxr-xr-x 1 root root 35488 Mar 1 2019 sync + -rwxr-xr-x 1 root root 445560 Apr 24 2019 tar + -rwxr-xr-x 1 root root 14440 Jan 22 2019 tempfile + -rwxr-xr-x 1 root root 97152 Mar 1 2019 touch + -rwxr-xr-x 1 root root 35424 Mar 1 2019 true + -rwxr-xr-x 1 root root 14328 Apr 23 2020 ulockmgr_server + -rwsr-xr-x 1 root root 34888 Jan 10 2019 umount + -rwxr-xr-x 1 root root 39584 Mar 1 2019 uname + -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress + -rwxr-xr-x 1 root root 138856 Mar 1 2019 vdir + -rwxr-xr-x 1 root root 34896 Jan 10 2019 wdctl + -rwxr-xr-x 1 root root 946 Jan 22 2019 which + lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat + -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp + -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff + -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep + -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep + -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce + -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep + -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless + -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore + -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew +I: user script /srv/workspace/pbuilder/1836211/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -268,409 +303,51 @@ Get: 48 http://deb.debian.org/debian buster/main amd64 dwz amd64 0.12-3 [78.0 kB] Get: 49 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get: 50 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u3 [8293 kB] -Get: 51 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u3 [689 kB] -Get: 52 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] -Get: 53 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] -Get: 54 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] -Get: 55 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] -Get: 56 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] -Get: 57 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] -Get: 58 http://deb.debian.org/debian buster/main amd64 dh-exec amd64 0.23.1 [26.3 kB] -Get: 59 http://deb.debian.org/debian buster/main amd64 googletest amd64 1.8.1-3 [903 kB] -Get: 60 http://deb.debian.org/debian buster/main amd64 libboost1.67-dev amd64 1.67.0-13+deb10u1 [8388 kB] -Get: 61 http://deb.debian.org/debian buster/main amd64 libboost-dev amd64 1.67.0.1 [3864 B] -Get: 62 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] -Get: 63 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u3 [65.8 kB] -Get: 64 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u3 [122 kB] -Get: 65 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u3 [370 kB] -Get: 66 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u3 [158 kB] -Get: 67 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u2 [69.2 kB] -Get: 68 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u2 [106 kB] -Get: 69 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u6 [90.0 kB] -Get: 70 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u6 [224 kB] -Get: 71 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] -Get: 72 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] -Get: 73 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] -Get: 74 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] -Get: 75 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] -Get: 76 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 kB] -Get: 77 http://deb.debian.org/debian buster/main amd64 libgtest-dev amd64 1.8.1-3 [223 kB] -Get: 78 http://deb.debian.org/debian buster/main amd64 libhts2 amd64 1.9-12~deb10u1 [305 kB] -Get: 79 http://deb.debian.org/debian buster/main amd64 liblzma-dev amd64 5.2.4-1 [210 kB] -Get: 80 http://deb.debian.org/debian buster/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-1 [214 kB] -Get: 81 http://deb.debian.org/debian buster/main amd64 libhts-dev amd64 1.9-12~deb10u1 [4347 kB] -Get: 82 http://deb.debian.org/debian buster/main amd64 libssl-dev amd64 1.1.1n-0+deb10u1 [1808 kB] -Get: 83 http://deb.debian.org/debian buster/main amd64 ninja-build amd64 1.8.2-1 [93.6 kB] -Get: 84 http://deb.debian.org/debian buster/main amd64 python3-pkg-resources all 40.8.0-1 [153 kB] -Get: 85 http://deb.debian.org/debian buster/main amd64 meson all 0.49.2-1 [281 kB] -Get: 86 http://deb.debian.org/debian buster/main amd64 pkg-config amd64 0.29-6 [63.5 kB] -Get: 87 http://deb.debian.org/debian buster/main amd64 python-cram all 0.7-3 [17.0 kB] -Get: 88 http://deb.debian.org/debian buster/main amd64 samtools amd64 1.9-4 [443 kB] -Fetched 49.1 MB in 1s (80.3 MB/s) -debconf: delaying package configuration, since apt-utils is not installed -Selecting previously unselected package libbsd0:amd64. -(Reading database ... 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(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 ... 20945 files and directories currently installed.) -Preparing to unpack .../python3-minimal_3.7.3-1_amd64.deb ... -Unpacking python3-minimal (3.7.3-1) ... -Selecting previously unselected package libmpdec2:amd64. -Preparing to unpack .../libmpdec2_2.4.2-2_amd64.deb ... -Unpacking libmpdec2:amd64 (2.4.2-2) ... -Selecting previously unselected package libpython3.7-stdlib:amd64. -Preparing to unpack .../libpython3.7-stdlib_3.7.3-2+deb10u3_amd64.deb ... -Unpacking libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... -Selecting previously unselected package python3.7. -Preparing to unpack .../python3.7_3.7.3-2+deb10u3_amd64.deb ... -Unpacking python3.7 (3.7.3-2+deb10u3) ... -Selecting previously unselected package libpython3-stdlib:amd64. -Preparing to unpack .../libpython3-stdlib_3.7.3-1_amd64.deb ... -Unpacking libpython3-stdlib:amd64 (3.7.3-1) ... -Setting up python3-minimal (3.7.3-1) ... -Selecting previously unselected package python3. -(Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21357 files and directories currently installed.) -Preparing to unpack .../00-python3_3.7.3-1_amd64.deb ... -Unpacking python3 (3.7.3-1) ... -Selecting previously unselected package sensible-utils. -Preparing to unpack .../01-sensible-utils_0.0.12_all.deb ... -Unpacking sensible-utils (0.0.12) ... -Selecting previously unselected package libmagic-mgc. -Preparing to unpack .../02-libmagic-mgc_1%3a5.35-4+deb10u2_amd64.deb ... -Unpacking libmagic-mgc (1:5.35-4+deb10u2) ... -Selecting previously unselected package libmagic1:amd64. -Preparing to unpack .../03-libmagic1_1%3a5.35-4+deb10u2_amd64.deb ... -Unpacking libmagic1:amd64 (1:5.35-4+deb10u2) ... -Selecting previously unselected package file. -Preparing to unpack .../04-file_1%3a5.35-4+deb10u2_amd64.deb ... -Unpacking file (1:5.35-4+deb10u2) ... -Selecting previously unselected package gettext-base. -Preparing to unpack .../05-gettext-base_0.19.8.1-9_amd64.deb ... -Unpacking gettext-base (0.19.8.1-9) ... -Selecting previously unselected package libsigsegv2:amd64. -Preparing to unpack .../06-libsigsegv2_2.12-2_amd64.deb ... -Unpacking libsigsegv2:amd64 (2.12-2) ... -Selecting previously unselected package m4. -Preparing to unpack .../07-m4_1.4.18-2_amd64.deb ... -Unpacking m4 (1.4.18-2) ... -Selecting previously unselected package autoconf. -Preparing to unpack .../08-autoconf_2.69-11_all.deb ... -Unpacking autoconf (2.69-11) ... -Selecting previously unselected package autotools-dev. -Preparing to unpack .../09-autotools-dev_20180224.1_all.deb ... -Unpacking autotools-dev (20180224.1) ... -Selecting previously unselected package automake. -Preparing to unpack .../10-automake_1%3a1.16.1-4_all.deb ... -Unpacking automake (1:1.16.1-4) ... -Selecting previously unselected package autopoint. -Preparing to unpack .../11-autopoint_0.19.8.1-9_all.deb ... -Unpacking autopoint (0.19.8.1-9) ... -Selecting previously unselected package d-shlibs. -Preparing to unpack .../12-d-shlibs_0.84_all.deb ... -Unpacking d-shlibs (0.84) ... -Selecting previously unselected package libtool. -Preparing to unpack .../13-libtool_2.4.6-9_all.deb ... -Unpacking libtool (2.4.6-9) ... -Selecting previously unselected package dh-autoreconf. -Preparing to unpack .../14-dh-autoreconf_19_all.deb ... -Unpacking dh-autoreconf (19) ... -Selecting previously unselected package libarchive-zip-perl. -Preparing to unpack .../15-libarchive-zip-perl_1.64-1_all.deb ... -Unpacking libarchive-zip-perl (1.64-1) ... -Selecting previously unselected package libfile-stripnondeterminism-perl. -Preparing to unpack .../16-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... -Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... -Selecting previously unselected package dh-strip-nondeterminism. -Preparing to unpack .../17-dh-strip-nondeterminism_1.1.2-1_all.deb ... -Unpacking dh-strip-nondeterminism (1.1.2-1) ... -Selecting previously unselected package libelf1:amd64. -Preparing to unpack .../18-libelf1_0.176-1.1_amd64.deb ... -Unpacking libelf1:amd64 (0.176-1.1) ... -Selecting previously unselected package dwz. -Preparing to unpack .../19-dwz_0.12-3_amd64.deb ... -Unpacking dwz (0.12-3) ... -Selecting previously unselected package libglib2.0-0:amd64. -Preparing to unpack .../20-libglib2.0-0_2.58.3-2+deb10u3_amd64.deb ... -Unpacking libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... -Selecting previously unselected package libicu63:amd64. -Preparing to unpack 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po-debconf. -Preparing to unpack .../27-po-debconf_1.0.21_all.deb ... -Unpacking po-debconf (1.0.21) ... -Selecting previously unselected package debhelper. -Preparing to unpack .../28-debhelper_12.1.1_all.deb ... -Unpacking debhelper (12.1.1) ... -Selecting previously unselected package dh-exec. -Preparing to unpack .../29-dh-exec_0.23.1_amd64.deb ... -Unpacking dh-exec (0.23.1) ... -Selecting previously unselected package googletest:amd64. -Preparing to unpack .../30-googletest_1.8.1-3_amd64.deb ... -Unpacking googletest:amd64 (1.8.1-3) ... -Selecting previously unselected package libboost1.67-dev:amd64. -Preparing to unpack .../31-libboost1.67-dev_1.67.0-13+deb10u1_amd64.deb ... -Unpacking libboost1.67-dev:amd64 (1.67.0-13+deb10u1) ... -Selecting previously unselected package libboost-dev:amd64. -Preparing to unpack .../32-libboost-dev_1.67.0.1_amd64.deb ... -Unpacking libboost-dev:amd64 (1.67.0.1) ... -Selecting previously unselected package libkeyutils1:amd64. -Preparing to unpack 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unselected package librtmp1:amd64. -Preparing to unpack .../44-librtmp1_2.4+20151223.gitfa8646d.1-2_amd64.deb ... -Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... -Selecting previously unselected package libssh2-1:amd64. -Preparing to unpack .../45-libssh2-1_1.8.0-2.1_amd64.deb ... -Unpacking libssh2-1:amd64 (1.8.0-2.1) ... -Selecting previously unselected package libcurl3-gnutls:amd64. -Preparing to unpack .../46-libcurl3-gnutls_7.64.0-4+deb10u2_amd64.deb ... -Unpacking libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... -Selecting previously unselected package libdeflate0:amd64. -Preparing to unpack .../47-libdeflate0_1.2-1_amd64.deb ... -Unpacking libdeflate0:amd64 (1.2-1) ... -Selecting previously unselected package libgtest-dev:amd64. -Preparing to unpack .../48-libgtest-dev_1.8.1-3_amd64.deb ... -Unpacking libgtest-dev:amd64 (1.8.1-3) ... -Selecting previously unselected package libhts2:amd64. -Preparing to unpack .../49-libhts2_1.9-12~deb10u1_amd64.deb ... -Unpacking libhts2:amd64 (1.9-12~deb10u1) ... -Selecting previously unselected package liblzma-dev:amd64. -Preparing to unpack .../50-liblzma-dev_5.2.4-1_amd64.deb ... -Unpacking liblzma-dev:amd64 (5.2.4-1) ... -Selecting previously unselected package zlib1g-dev:amd64. -Preparing to unpack .../51-zlib1g-dev_1%3a1.2.11.dfsg-1_amd64.deb ... -Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-1) ... -Selecting previously unselected package libhts-dev:amd64. -Preparing to unpack .../52-libhts-dev_1.9-12~deb10u1_amd64.deb ... -Unpacking libhts-dev:amd64 (1.9-12~deb10u1) ... -Selecting previously unselected package libssl-dev:amd64. -Preparing to unpack .../53-libssl-dev_1.1.1n-0+deb10u1_amd64.deb ... -Unpacking libssl-dev:amd64 (1.1.1n-0+deb10u1) ... -Selecting previously unselected package ninja-build. -Preparing to unpack .../54-ninja-build_1.8.2-1_amd64.deb ... -Unpacking ninja-build (1.8.2-1) ... -Selecting previously unselected package python3-pkg-resources. -Preparing to unpack .../55-python3-pkg-resources_40.8.0-1_all.deb ... -Unpacking python3-pkg-resources (40.8.0-1) ... -Selecting previously unselected package meson. -Preparing to unpack .../56-meson_0.49.2-1_all.deb ... -Unpacking meson (0.49.2-1) ... -Selecting previously unselected package pkg-config. -Preparing to unpack .../57-pkg-config_0.29-6_amd64.deb ... -Unpacking pkg-config (0.29-6) ... -Selecting previously unselected package python-cram. -Preparing to unpack .../58-python-cram_0.7-3_all.deb ... -Unpacking python-cram (0.7-3) ... -Selecting previously unselected package samtools. -Preparing to unpack .../59-samtools_1.9-4_amd64.deb ... -Unpacking samtools (1.9-4) ... -Setting up libboost1.67-dev:amd64 (1.67.0-13+deb10u1) ... -Setting up libpipeline1:amd64 (1.5.1-2) ... -Setting up libkeyutils1:amd64 (1.6-6) ... -Setting up libpsl5:amd64 (0.20.2-2) ... -Setting up mime-support (3.62) ... -Setting up libmagic-mgc (1:5.35-4+deb10u2) ... -Setting up libarchive-zip-perl (1.64-1) ... -Setting up libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... -No schema files found: doing nothing. -Setting up libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... -Setting up libmagic1:amd64 (1:5.35-4+deb10u2) ... -Setting up libdeflate0:amd64 (1.2-1) ... -Setting up gettext-base (0.19.8.1-9) ... -Setting up file (1:5.35-4+deb10u2) ... -Setting up libldap-common (2.4.47+dfsg-3+deb10u6) ... -Setting up googletest:amd64 (1.8.1-3) ... -Setting up libicu63:amd64 (63.1-6+deb10u3) ... -Setting up ninja-build (1.8.2-1) ... -Setting up libkrb5support0:amd64 (1.17-3+deb10u3) ... -Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... -Setting up autotools-dev (20180224.1) ... -Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... -Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... -Setting up libsigsegv2:amd64 (2.12-2) ... -Setting up libssl-dev:amd64 (1.1.1n-0+deb10u1) ... -Setting up autopoint (0.19.8.1-9) ... -Setting up pkg-config (0.29-6) ... -Setting up d-shlibs (0.84) ... -Setting up libk5crypto3:amd64 (1.17-3+deb10u3) ... -Setting up libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... -Setting up liblzma-dev:amd64 (5.2.4-1) ... -Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-1) ... -Setting up sensible-utils (0.0.12) ... -Setting up libuchardet0:amd64 (0.0.6-3) ... -Setting up libssh2-1:amd64 (1.8.0-2.1) ... -Setting up libkrb5-3:amd64 (1.17-3+deb10u3) ... -Setting up libboost-dev:amd64 (1.67.0.1) ... -Setting up libmpdec2:amd64 (2.4.2-2) ... -Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... -Setting up libelf1:amd64 (0.176-1.1) ... -Setting up readline-common (7.0-5) ... -Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u3) ... -Setting up libreadline7:amd64 (7.0-5) ... -Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... -Setting up libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... -Setting up libgtest-dev:amd64 (1.8.1-3) ... -Setting up libtool (2.4.6-9) ... -Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u6) ... -Setting up m4 (1.4.18-2) ... -Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... -Setting up bsdmainutils (11.1.2+b1) ... -update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode -update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode -Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u3) ... -Setting up libcroco3:amd64 (0.6.12-3) ... -Setting up autoconf (2.69-11) ... -Setting up dwz (0.12-3) ... -Setting up groff-base (1.22.4-3+deb10u1) ... -Setting up libpython3-stdlib:amd64 (3.7.3-1) ... -Setting up automake (1:1.16.1-4) ... -update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode -Setting up python3.7 (3.7.3-2+deb10u3) ... -Setting up gettext (0.19.8.1-9) ... -Setting up python2.7 (2.7.16-2+deb10u1) ... -Setting up libpython2-stdlib:amd64 (2.7.16-1) ... -Setting up libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... -Setting up python3 (3.7.3-1) ... -Setting up man-db (2.8.5-2) ... -Not building database; man-db/auto-update is not 'true'. -Setting up python2 (2.7.16-1) ... -Setting up intltool-debian (0.35.0+20060710.5) ... -Setting up libpython-stdlib:amd64 (2.7.16-1) ... -Setting up python (2.7.16-1) ... -Setting up python3-pkg-resources (40.8.0-1) ... -Setting up libhts2:amd64 (1.9-12~deb10u1) ... -Setting up po-debconf (1.0.21) ... -Setting up libhts-dev:amd64 (1.9-12~deb10u1) ... -Setting up meson (0.49.2-1) ... -Setting up python-cram (0.7-3) ... -Setting up samtools (1.9-4) ... -Setting up dh-autoreconf (19) ... -Setting up dh-strip-nondeterminism (1.1.2-1) ... -Setting up debhelper (12.1.1) ... -Setting up dh-exec (0.23.1) ... -Processing triggers for libc-bin (2.28-10+deb10u1) ... +Err http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u3 + Connection failed [IP: 78.137.99.97 3128] +Err http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u3 + Connection failed [IP: 78.137.99.97 3128] +Err http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 + Connection failed [IP: 78.137.99.97 3128] +Get: 51 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] +Get: 52 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] +Get: 53 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] +Get: 54 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] +Get: 55 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] +Get: 56 http://deb.debian.org/debian buster/main amd64 dh-exec amd64 0.23.1 [26.3 kB] +Get: 57 http://deb.debian.org/debian buster/main amd64 googletest amd64 1.8.1-3 [903 kB] +Get: 58 http://deb.debian.org/debian buster/main amd64 libboost1.67-dev amd64 1.67.0-13+deb10u1 [8388 kB] +Get: 59 http://deb.debian.org/debian buster/main amd64 libboost-dev amd64 1.67.0.1 [3864 B] +Get: 60 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] +Get: 61 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u3 [65.8 kB] +Get: 62 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u3 [122 kB] +Get: 63 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u3 [370 kB] +Get: 64 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u3 [158 kB] +Get: 65 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u2 [69.2 kB] +Get: 66 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u2 [106 kB] +Get: 67 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u6 [90.0 kB] +Get: 68 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u6 [224 kB] +Get: 69 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] +Get: 70 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] +Get: 71 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] +Get: 72 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] +Get: 73 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] +Get: 74 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 kB] +Get: 75 http://deb.debian.org/debian buster/main amd64 libgtest-dev amd64 1.8.1-3 [223 kB] +Get: 76 http://deb.debian.org/debian buster/main amd64 libhts2 amd64 1.9-12~deb10u1 [305 kB] +Get: 77 http://deb.debian.org/debian buster/main amd64 liblzma-dev amd64 5.2.4-1 [210 kB] +Get: 78 http://deb.debian.org/debian buster/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-1 [214 kB] +Get: 79 http://deb.debian.org/debian buster/main amd64 libhts-dev amd64 1.9-12~deb10u1 [4347 kB] +Get: 80 http://deb.debian.org/debian buster/main amd64 libssl-dev amd64 1.1.1n-0+deb10u1 [1808 kB] +Get: 81 http://deb.debian.org/debian buster/main amd64 ninja-build amd64 1.8.2-1 [93.6 kB] +Get: 82 http://deb.debian.org/debian buster/main amd64 python3-pkg-resources all 40.8.0-1 [153 kB] +Get: 83 http://deb.debian.org/debian buster/main amd64 meson all 0.49.2-1 [281 kB] +Get: 84 http://deb.debian.org/debian buster/main amd64 pkg-config amd64 0.29-6 [63.5 kB] +Get: 85 http://deb.debian.org/debian buster/main amd64 python-cram all 0.7-3 [17.0 kB] +Get: 86 http://deb.debian.org/debian buster/main amd64 samtools amd64 1.9-4 [443 kB] +Fetched 40.0 MB in 23min 59s (27.8 kB/s) +E: Failed to fetch http://deb.debian.org/debian/pool/main/i/icu/libicu63_63.1-6+deb10u3_amd64.deb: Connection failed [IP: 78.137.99.97 3128] +E: Unable to fetch some packages; try '-o APT::Get::Fix-Missing=true' to continue with missing packages Reading package lists... Building dependency tree... Reading state information... @@ -678,686 +355,11 @@ Initializing package states... Writing extended state information... Building tag database... - -> Finished parsing the build-deps -Reading package lists... -Building dependency tree... -Reading state information... -fakeroot is already the newest version (1.23-1). -0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. -I: Building the package -I: Running cd /build/pbbam-0.19.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../pbbam_0.19.0+dfsg-4_source.changes -dpkg-buildpackage: info: source package pbbam -dpkg-buildpackage: info: source version 0.19.0+dfsg-4 -dpkg-buildpackage: info: source distribution unstable -dpkg-buildpackage: info: source changed by Andreas Tille - dpkg-source --before-build . -dpkg-buildpackage: info: host architecture amd64 - fakeroot debian/rules clean -dh clean --buildsystem=meson - debian/rules override_dh_auto_clean -make[1]: Entering directory '/build/pbbam-0.19.0+dfsg' -dh_auto_clean -find -name "*.deb.t" -delete -rm -f -r /build/pbbam-0.19.0+dfsg/gendata -make[1]: Leaving directory '/build/pbbam-0.19.0+dfsg' - dh_autoreconf_clean -O--buildsystem=meson - dh_clean -O--buildsystem=meson - debian/rules build -dh build --buildsystem=meson - dh_update_autotools_config -O--buildsystem=meson - dh_autoreconf -O--buildsystem=meson - dh_auto_configure -O--buildsystem=meson - cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 meson .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/x86_64-linux-gnu -The Meson build system -Version: 0.49.2 -Source dir: /build/pbbam-0.19.0+dfsg -Build dir: /build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu -Build type: native build -Project name: PacBioBAM -Project version: 0.19.0 -Appending CXXFLAGS from environment: '-g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security' -Appending LDFLAGS from environment: '-Wl,-z,relro -Wl,-z,now' -Appending CPPFLAGS from environment: '-Wdate-time -D_FORTIFY_SOURCE=2' -Native C++ compiler: c++ (gcc 8.3.0 "c++ (Debian 8.3.0-6) 8.3.0") -Build machine cpu family: x86_64 -Build machine cpu: x86_64 -Compiler for C++ supports arguments -Wduplicated-cond: YES -Compiler for C++ supports arguments -Wduplicated-branches: YES -Compiler for C++ supports arguments -Wlogical-op: YES -Compiler for C++ supports arguments -Wrestrict: YES -Compiler for C++ supports arguments -Wnull-dereference: YES -Compiler for C++ supports arguments -Wuseless-cast: YES -Compiler for C++ supports arguments -Wdouble-promotion: YES -Compiler for C++ supports arguments -Wshadow: YES -Compiler for C++ supports arguments -Wformat=1: YES -Dependency threads found: YES -Dependency Boost found: YES 1.67 -Found pkg-config: /usr/bin/pkg-config (0.29) -Dependency zlib found: YES 1.2.11 -Dependency htslib found: YES 1.9 -Program python found: YES (/usr/bin/python) -Program tools/check-formatting found: YES (/build/pbbam-0.19.0+dfsg/tools/check-formatting) -Program cram found: YES (/usr/bin/cram) -Dependency GTest found: YES (prebuilt) -Configuring group.fofn using configuration -Configuring PbbamTestData.h using configuration -Configuring synthetic_movie_all.subreadset.xml using configuration -Configuring Bam2SamVersion.h using configuration -Configuring bam2sam.t using configuration -Configuring PbIndexVersion.h using configuration -Configuring PbIndexDumpVersion.h using configuration -Configuring pbindexdump_json.t using configuration -Configuring pbindexdump_cpp.t using configuration -Configuring PbMergeVersion.h using configuration -Configuring pbmerge_pacbio_ordering.t using configuration -Configuring pbmerge_aligned_ordering.t using configuration -Configuring pbmerge_mixed_ordering.t using configuration -Configuring pbmerge_dataset.t using configuration -Configuring pbmerge_fofn.t using configuration -Configuring PbBamifyVersion.h using configuration -Program samtools found: YES (/usr/bin/samtools) -Configuring pbbamify.t using configuration -Build targets in project: 8 -Option buildtype is: plain [default: release] -Found ninja-1.8.2 at /usr/bin/ninja - dh_auto_build -O--buildsystem=meson - cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 ninja -j16 -v -[1/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbbam@sha/Accuracy.cpp.o' -MF 'src/25a6634@@pbbam@sha/Accuracy.cpp.o.d' -o 'src/25a6634@@pbbam@sha/Accuracy.cpp.o' -c ../src/Accuracy.cpp -[2/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbbam@sha/CigarOperation.cpp.o' -MF 'src/25a6634@@pbbam@sha/CigarOperation.cpp.o.d' -o 'src/25a6634@@pbbam@sha/CigarOperation.cpp.o' -c ../src/CigarOperation.cpp -[3/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbbam@sha/Config.cpp.o' -MF 'src/25a6634@@pbbam@sha/Config.cpp.o.d' -o 'src/25a6634@@pbbam@sha/Config.cpp.o' -c ../src/Config.cpp -[4/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbbam@sha/Cigar.cpp.o' -MF 'src/25a6634@@pbbam@sha/Cigar.cpp.o.d' -o 'src/25a6634@@pbbam@sha/Cigar.cpp.o' -c ../src/Cigar.cpp -[5/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbbam@sha/ChemistryTable.cpp.o' -MF 'src/25a6634@@pbbam@sha/ChemistryTable.cpp.o.d' -o 'src/25a6634@@pbbam@sha/ChemistryTable.cpp.o' -c ../src/ChemistryTable.cpp -[6/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbbam@sha/DataSetElement.cpp.o' -MF 'src/25a6634@@pbbam@sha/DataSetElement.cpp.o.d' -o 'src/25a6634@@pbbam@sha/DataSetElement.cpp.o' -c ../src/DataSetElement.cpp -[7/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbbam@sha/DataSet.cpp.o' -MF 'src/25a6634@@pbbam@sha/DataSet.cpp.o.d' -o 'src/25a6634@@pbbam@sha/DataSet.cpp.o' -c ../src/DataSet.cpp -[8/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbbam@sha/AlignmentPrinter.cpp.o' -MF 'src/25a6634@@pbbam@sha/AlignmentPrinter.cpp.o.d' -o 'src/25a6634@@pbbam@sha/AlignmentPrinter.cpp.o' -c ../src/AlignmentPrinter.cpp -[9/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbbam@sha/BaiIndexedBamReader.cpp.o' -MF 'src/25a6634@@pbbam@sha/BaiIndexedBamReader.cpp.o.d' -o 'src/25a6634@@pbbam@sha/BaiIndexedBamReader.cpp.o' -c ../src/BaiIndexedBamReader.cpp -[10/161] c++ -Isrc/25a6634@@pbbam@sha -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g 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'src/25a6634@@pbbam@sha/DataSetXsd.cpp.o' 'src/25a6634@@pbbam@sha/EntireFileQuery.cpp.o' 'src/25a6634@@pbbam@sha/FastaReader.cpp.o' 'src/25a6634@@pbbam@sha/FastaSequenceQuery.cpp.o' 'src/25a6634@@pbbam@sha/FastqReader.cpp.o' 'src/25a6634@@pbbam@sha/FileProducer.cpp.o' 'src/25a6634@@pbbam@sha/FileUtils.cpp.o' 'src/25a6634@@pbbam@sha/FofnReader.cpp.o' 'src/25a6634@@pbbam@sha/Frames.cpp.o' 'src/25a6634@@pbbam@sha/GenomicInterval.cpp.o' 'src/25a6634@@pbbam@sha/GenomicIntervalQuery.cpp.o' 'src/25a6634@@pbbam@sha/IndexedBamWriter.cpp.o' 'src/25a6634@@pbbam@sha/IndexedFastaReader.cpp.o' 'src/25a6634@@pbbam@sha/MD5.cpp.o' 'src/25a6634@@pbbam@sha/MemoryUtils.cpp.o' 'src/25a6634@@pbbam@sha/PbiBuilder.cpp.o' 'src/25a6634@@pbbam@sha/PbiFile.cpp.o' 'src/25a6634@@pbbam@sha/PbiFilter.cpp.o' 'src/25a6634@@pbbam@sha/PbiFilterQuery.cpp.o' 'src/25a6634@@pbbam@sha/PbiFilterTypes.cpp.o' 'src/25a6634@@pbbam@sha/PbiIndexedBamReader.cpp.o' 'src/25a6634@@pbbam@sha/PbiIndexIO.cpp.o' 'src/25a6634@@pbbam@sha/PbiRawData.cpp.o' 'src/25a6634@@pbbam@sha/ProgramInfo.cpp.o' 'src/25a6634@@pbbam@sha/QNameQuery.cpp.o' 'src/25a6634@@pbbam@sha/QualityValue.cpp.o' 'src/25a6634@@pbbam@sha/ReadAccuracyQuery.cpp.o' 'src/25a6634@@pbbam@sha/ReadGroupInfo.cpp.o' 'src/25a6634@@pbbam@sha/SamTagCodec.cpp.o' 'src/25a6634@@pbbam@sha/SamWriter.cpp.o' 'src/25a6634@@pbbam@sha/SequenceInfo.cpp.o' 'src/25a6634@@pbbam@sha/SubreadLengthQuery.cpp.o' 'src/25a6634@@pbbam@sha/Validator.cpp.o' 'src/25a6634@@pbbam@sha/ValidationErrors.cpp.o' 'src/25a6634@@pbbam@sha/ValidationException.cpp.o' 'src/25a6634@@pbbam@sha/Version.cpp.o' 'src/25a6634@@pbbam@sha/VirtualZmwBamRecord.cpp.o' 'src/25a6634@@pbbam@sha/VirtualZmwCompositeReader.cpp.o' 'src/25a6634@@pbbam@sha/VirtualZmwReader.cpp.o' 'src/25a6634@@pbbam@sha/VirtualRegionTypeMap.cpp.o' 'src/25a6634@@pbbam@sha/XmlReader.cpp.o' 'src/25a6634@@pbbam@sha/XmlWriter.cpp.o' 'src/25a6634@@pbbam@sha/WhitelistedZmwReadStitcher.cpp.o' 'src/25a6634@@pbbam@sha/ZmwGroupQuery.cpp.o' 'src/25a6634@@pbbam@sha/ZmwReadStitcher.cpp.o' 'src/25a6634@@pbbam@sha/ZmwQuery.cpp.o' 'src/25a6634@@pbbam@sha/ZmwTypeMap.cpp.o' 'src/25a6634@@pbbam@sha/vcf_VcfVariant.cpp.o' 'src/25a6634@@pbbam@sha/vcf_VcfFormat.cpp.o' 'src/25a6634@@pbbam@sha/vcf_VcfHeader.cpp.o' 'src/25a6634@@pbbam@sha/vcf_VcfReader.cpp.o' 'src/25a6634@@pbbam@sha/vcf_VcfSort.cpp.o' 'src/25a6634@@pbbam@sha/vcf_VcfQuery.cpp.o' 'src/25a6634@@pbbam@sha/vcf_VcfWriter.cpp.o' 'src/25a6634@@pbbam@sha/pugixml_pugixml.cpp.o' -Wl,--no-undefined -Wl,--as-needed -shared -fPIC -Wl,--start-group -Wl,-soname,libpbbam.so.0.19.0 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libhts.so -Wl,--end-group -pthread -[86/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_BarcodeQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_BarcodeQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_BarcodeQuery.cpp.o' -c ../tests/src/test_BarcodeQuery.cpp -[87/161] /usr/bin/meson --internal symbolextractor src/libpbbam.so.0.19.0 'src/25a6634@@pbbam@sha/libpbbam.so.0.19.0.symbols' -[88/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplTags.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplTags.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplTags.cpp.o' -c ../tests/src/test_BamRecordImplTags.cpp -[89/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_BamRecord.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_BamRecord.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_BamRecord.cpp.o' -c ../tests/src/test_BamRecord.cpp -[90/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_DataSetXsd.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_DataSetXsd.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_DataSetXsd.cpp.o' -c ../tests/src/test_DataSetXsd.cpp -[91/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_BamWriter.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_BamWriter.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_BamWriter.cpp.o' -c ../tests/src/test_BamWriter.cpp -[92/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_DataSetCore.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_DataSetCore.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_DataSetCore.cpp.o' -c ../tests/src/test_DataSetCore.cpp -[93/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplCore.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplCore.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplCore.cpp.o' -c ../tests/src/test_BamRecordImplCore.cpp -[94/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_Fastq.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_Fastq.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_Fastq.cpp.o' -c ../tests/src/test_Fastq.cpp -[95/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_Frames.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_Frames.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_Frames.cpp.o' -c ../tests/src/test_Frames.cpp -[96/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_EndToEnd.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_EndToEnd.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_EndToEnd.cpp.o' -c ../tests/src/test_EndToEnd.cpp -[97/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_FileUtils.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_FileUtils.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_FileUtils.cpp.o' -c ../tests/src/test_FileUtils.cpp -[98/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_DataSetQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_DataSetQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_DataSetQuery.cpp.o' -c ../tests/src/test_DataSetQuery.cpp -[99/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_EntireFileQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_EntireFileQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_EntireFileQuery.cpp.o' -c ../tests/src/test_EntireFileQuery.cpp -[100/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_Intervals.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_Intervals.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_Intervals.cpp.o' -c ../tests/src/test_Intervals.cpp -[101/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_Fasta.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_Fasta.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_Fasta.cpp.o' -c ../tests/src/test_Fasta.cpp -[102/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_QualityValues.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_QualityValues.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_QualityValues.cpp.o' -c ../tests/src/test_QualityValues.cpp -[103/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_GenomicIntervalQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_GenomicIntervalQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_GenomicIntervalQuery.cpp.o' -c ../tests/src/test_GenomicIntervalQuery.cpp -[104/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_Pulse2BaseCache.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_Pulse2BaseCache.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_Pulse2BaseCache.cpp.o' -c ../tests/src/test_Pulse2BaseCache.cpp -[105/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_IndexedBamWriter.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_IndexedBamWriter.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_IndexedBamWriter.cpp.o' -c 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-D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_IndexedFastaReader.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_IndexedFastaReader.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_IndexedFastaReader.cpp.o' -c ../tests/src/test_IndexedFastaReader.cpp -[108/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_StringUtils.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_StringUtils.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_StringUtils.cpp.o' -c ../tests/src/test_StringUtils.cpp -[109/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordMapping.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordMapping.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordMapping.cpp.o' -c ../tests/src/test_BamRecordMapping.cpp -[110/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_TimeUtils.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_TimeUtils.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_TimeUtils.cpp.o' -c ../tests/src/test_TimeUtils.cpp -[111/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_QNameQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_QNameQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_QNameQuery.cpp.o' -c ../tests/src/test_QNameQuery.cpp -[112/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_PacBioIndex.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_PacBioIndex.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_PacBioIndex.cpp.o' -c ../tests/src/test_PacBioIndex.cpp -[113/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_VcfFile.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_VcfFile.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_VcfFile.cpp.o' -c ../tests/src/test_VcfFile.cpp -[114/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_ReadGroupInfo.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_ReadGroupInfo.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_ReadGroupInfo.cpp.o' -c ../tests/src/test_ReadGroupInfo.cpp -[115/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_ReadAccuracyQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_ReadAccuracyQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_ReadAccuracyQuery.cpp.o' -c ../tests/src/test_ReadAccuracyQuery.cpp -[116/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_SequenceUtils.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_SequenceUtils.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_SequenceUtils.cpp.o' -c ../tests/src/test_SequenceUtils.cpp -[117/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_SubreadLengthQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_SubreadLengthQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_SubreadLengthQuery.cpp.o' -c ../tests/src/test_SubreadLengthQuery.cpp -[118/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_SamWriter.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_SamWriter.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_SamWriter.cpp.o' -c ../tests/src/test_SamWriter.cpp -[119/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_VcfReader.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_VcfReader.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_VcfReader.cpp.o' -c ../tests/src/test_VcfReader.cpp -[120/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_DataSetIO.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_DataSetIO.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_DataSetIO.cpp.o' -c ../tests/src/test_DataSetIO.cpp -[121/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_Compare.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_Compare.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_Compare.cpp.o' -c ../tests/src/test_Compare.cpp -[122/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_VcfFormat.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_VcfFormat.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_VcfFormat.cpp.o' -c ../tests/src/test_VcfFormat.cpp -[123/161] /usr/bin/python ../tests/scripts/generate_data.py /build/pbbam-0.19.0+dfsg/tests/data /build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu/tests -Generating test data in /build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu/tests - - Creating file: truncated.bam...done. - - Creating file: normal.fa...done. - - Creating file: chunking_missingfilters.subreadset.xml...done. - - Creating file: normal.fq...done. - - Creating file: chunking_emptyfilters.subreadset.xml...done. - - Creating symlink: missing_pbi.bam...done. - - Creating symlink: aligned.bam.bai...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.2.subreads.bam.pbi...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.1.subreads.bam...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.2.subreads.bam...done. - - Creating symlink: aligned2.bam.pbi...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.3.subreads.bam.pbi...done. - - Creating symlink: aligned2.bam.bai...done. - - Creating symlink: aligned2.bam...done. - - Creating symlink: aligned.bam...done. - - Creating symlink: aligned.bam.pbi...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.1.subreads.bam.pbi...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.3.subreads.bam...done. -[124/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_VcfHeader.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_VcfHeader.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_VcfHeader.cpp.o' -c ../tests/src/test_VcfHeader.cpp -[125/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_Version.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_Version.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_Version.cpp.o' -c ../tests/src/test_Version.cpp -[126/161] c++ -Itools/f9d35d4@@bam2sam@exe -Itools -I../tools -Iinclude -I../include -I../tools/bam2sam -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@bam2sam@exe/bam2sam_src_Bam2Sam.cpp.o' -MF 'tools/f9d35d4@@bam2sam@exe/bam2sam_src_Bam2Sam.cpp.o.d' -o 'tools/f9d35d4@@bam2sam@exe/bam2sam_src_Bam2Sam.cpp.o' -c ../tools/bam2sam/src/Bam2Sam.cpp -[127/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_PbiFilterQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_PbiFilterQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_PbiFilterQuery.cpp.o' -c ../tests/src/test_PbiFilterQuery.cpp -[128/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_VcfVariant.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_VcfVariant.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_VcfVariant.cpp.o' -c ../tests/src/test_VcfVariant.cpp -[129/161] c++ -Itools/f9d35d4@@bam2sam@exe -Itools -I../tools -Iinclude -I../include -I../tools/bam2sam -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@bam2sam@exe/bam2sam_src_main.cpp.o' -MF 'tools/f9d35d4@@bam2sam@exe/bam2sam_src_main.cpp.o.d' -o 'tools/f9d35d4@@bam2sam@exe/bam2sam_src_main.cpp.o' -c ../tools/bam2sam/src/main.cpp -[130/161] c++ -Itools/f9d35d4@@pbindex@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbindex -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbindex@exe/pbindex_src_PbIndex.cpp.o' -MF 'tools/f9d35d4@@pbindex@exe/pbindex_src_PbIndex.cpp.o.d' -o 'tools/f9d35d4@@pbindex@exe/pbindex_src_PbIndex.cpp.o' -c ../tools/pbindex/src/PbIndex.cpp -[131/161] c++ -Itools/f9d35d4@@pbindex@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbindex -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbindex@exe/pbindex_src_main.cpp.o' -MF 'tools/f9d35d4@@pbindex@exe/pbindex_src_main.cpp.o.d' -o 'tools/f9d35d4@@pbindex@exe/pbindex_src_main.cpp.o' -c ../tools/pbindex/src/main.cpp -[132/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_VcfSort.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_VcfSort.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_VcfSort.cpp.o' -c ../tests/src/test_VcfSort.cpp -[133/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_VcfQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_VcfQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_VcfQuery.cpp.o' -c ../tests/src/test_VcfQuery.cpp -[134/161] c++ -Itools/f9d35d4@@bam2sam@exe -Itools -I../tools -Iinclude -I../include -I../tools/bam2sam -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@bam2sam@exe/common_OptionParser.cpp.o' -MF 'tools/f9d35d4@@bam2sam@exe/common_OptionParser.cpp.o.d' -o 'tools/f9d35d4@@bam2sam@exe/common_OptionParser.cpp.o' -c ../tools/common/OptionParser.cpp -[135/161] c++ -Itools/f9d35d4@@pbindexdump@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbindexdump -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_CppFormatter.cpp.o' -MF 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_CppFormatter.cpp.o.d' -o 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_CppFormatter.cpp.o' -c ../tools/pbindexdump/src/CppFormatter.cpp -[136/161] c++ -Itools/f9d35d4@@pbindexdump@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbindexdump -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_PbIndexDump.cpp.o' -MF 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_PbIndexDump.cpp.o.d' -o 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_PbIndexDump.cpp.o' -c ../tools/pbindexdump/src/PbIndexDump.cpp -[137/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_Validator.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_Validator.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_Validator.cpp.o' -c ../tests/src/test_Validator.cpp -[138/161] c++ -o tools/bam2sam 'tools/f9d35d4@@bam2sam@exe/common_OptionParser.cpp.o' 'tools/f9d35d4@@bam2sam@exe/bam2sam_src_main.cpp.o' 'tools/f9d35d4@@bam2sam@exe/bam2sam_src_Bam2Sam.cpp.o' -Wl,--no-undefined -Wl,--as-needed -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Wl,--start-group /usr/lib/x86_64-linux-gnu/libhts.so /usr/lib/x86_64-linux-gnu/libz.so -Wl,--end-group -pthread -[139/161] c++ -Itools/f9d35d4@@pbindex@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbindex -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbindex@exe/common_OptionParser.cpp.o' -MF 'tools/f9d35d4@@pbindex@exe/common_OptionParser.cpp.o.d' -o 'tools/f9d35d4@@pbindex@exe/common_OptionParser.cpp.o' -c ../tools/common/OptionParser.cpp -[140/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_ZmwQuery.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_ZmwQuery.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_ZmwQuery.cpp.o' -c ../tests/src/test_ZmwQuery.cpp -[141/161] c++ -o tools/pbindex 'tools/f9d35d4@@pbindex@exe/common_OptionParser.cpp.o' 'tools/f9d35d4@@pbindex@exe/pbindex_src_main.cpp.o' 'tools/f9d35d4@@pbindex@exe/pbindex_src_PbIndex.cpp.o' -Wl,--no-undefined -Wl,--as-needed -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/libpbbam.so.0.19.0 /usr/lib/x86_64-linux-gnu/libhts.so /usr/lib/x86_64-linux-gnu/libz.so -Wl,--end-group '-Wl,-rpath,$ORIGIN/../src' -Wl,-rpath-link,/build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu/src -[142/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_VcfWriter.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_VcfWriter.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_VcfWriter.cpp.o' -c ../tests/src/test_VcfWriter.cpp -[143/161] c++ -Itools/f9d35d4@@pbindexdump@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbindexdump -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_main.cpp.o' -MF 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_main.cpp.o.d' -o 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_main.cpp.o' -c ../tools/pbindexdump/src/main.cpp -[144/161] c++ -Itools/f9d35d4@@pbindexdump@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbindexdump -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbindexdump@exe/common_OptionParser.cpp.o' -MF 'tools/f9d35d4@@pbindexdump@exe/common_OptionParser.cpp.o.d' -o 'tools/f9d35d4@@pbindexdump@exe/common_OptionParser.cpp.o' -c ../tools/common/OptionParser.cpp -[145/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_WhitelistedZmwReadStitcher.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_WhitelistedZmwReadStitcher.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_WhitelistedZmwReadStitcher.cpp.o' -c ../tests/src/test_WhitelistedZmwReadStitcher.cpp -[146/161] c++ -Itools/f9d35d4@@pbbamify@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbbamify -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbbamify@exe/common_OptionParser.cpp.o' -MF 'tools/f9d35d4@@pbbamify@exe/common_OptionParser.cpp.o.d' -o 'tools/f9d35d4@@pbbamify@exe/common_OptionParser.cpp.o' -c ../tools/common/OptionParser.cpp -[147/161] c++ -Itools/f9d35d4@@pbmerge@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbmerge -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbmerge@exe/common_OptionParser.cpp.o' -MF 'tools/f9d35d4@@pbmerge@exe/common_OptionParser.cpp.o.d' -o 'tools/f9d35d4@@pbmerge@exe/common_OptionParser.cpp.o' -c ../tools/common/OptionParser.cpp -[148/161] c++ -Itools/f9d35d4@@pbindexdump@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbindexdump -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_JsonFormatter.cpp.o' -MF 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_JsonFormatter.cpp.o.d' -o 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_JsonFormatter.cpp.o' -c ../tools/pbindexdump/src/JsonFormatter.cpp -[149/161] c++ -o tools/pbindexdump 'tools/f9d35d4@@pbindexdump@exe/common_OptionParser.cpp.o' 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_CppFormatter.cpp.o' 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_JsonFormatter.cpp.o' 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_PbIndexDump.cpp.o' 'tools/f9d35d4@@pbindexdump@exe/pbindexdump_src_main.cpp.o' -Wl,--no-undefined -Wl,--as-needed -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/libpbbam.so.0.19.0 /usr/lib/x86_64-linux-gnu/libhts.so /usr/lib/x86_64-linux-gnu/libz.so -Wl,--end-group '-Wl,-rpath,$ORIGIN/../src' -Wl,-rpath-link,/build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu/src -[150/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_PbiFilter.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_PbiFilter.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_PbiFilter.cpp.o' -c ../tests/src/test_PbiFilter.cpp -[151/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_ZmwReadStitcher.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_ZmwReadStitcher.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_ZmwReadStitcher.cpp.o' -c ../tests/src/test_ZmwReadStitcher.cpp -[152/161] c++ -Itools/f9d35d4@@pbbamify@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbbamify -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_main.cpp.o' -MF 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_main.cpp.o.d' -o 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_main.cpp.o' -c ../tools/pbbamify/src/main.cpp -[153/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_Tags.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_Tags.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_Tags.cpp.o' -c ../tests/src/test_Tags.cpp -[154/161] c++ -Itools/f9d35d4@@pbbamify@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbbamify -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_QueryLookup.cpp.o' -MF 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_QueryLookup.cpp.o.d' -o 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_QueryLookup.cpp.o' -c ../tools/pbbamify/src/QueryLookup.cpp -[155/161] c++ -Itools/f9d35d4@@pbbamify@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbbamify -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_PbBamify.cpp.o' -MF 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_PbBamify.cpp.o.d' -o 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_PbBamify.cpp.o' -c ../tools/pbbamify/src/PbBamify.cpp -[156/161] c++ -o tools/pbbamify 'tools/f9d35d4@@pbbamify@exe/common_OptionParser.cpp.o' 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_main.cpp.o' 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_PbBamify.cpp.o' 'tools/f9d35d4@@pbbamify@exe/pbbamify_src_QueryLookup.cpp.o' -Wl,--no-undefined -Wl,--as-needed -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/libpbbam.so.0.19.0 /usr/lib/x86_64-linux-gnu/libhts.so /usr/lib/x86_64-linux-gnu/libz.so -Wl,--end-group '-Wl,-rpath,$ORIGIN/../src' -Wl,-rpath-link,/build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu/src -[157/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordClipping.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordClipping.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordClipping.cpp.o' -c ../tests/src/test_BamRecordClipping.cpp -[158/161] c++ -Itools/f9d35d4@@pbmerge@exe -Itools -I../tools -Iinclude -I../include -I../tools/pbmerge -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tools/f9d35d4@@pbmerge@exe/pbmerge_src_main.cpp.o' -MF 'tools/f9d35d4@@pbmerge@exe/pbmerge_src_main.cpp.o.d' -o 'tools/f9d35d4@@pbmerge@exe/pbmerge_src_main.cpp.o' -c ../tools/pbmerge/src/main.cpp -[159/161] c++ -o tools/pbmerge 'tools/f9d35d4@@pbmerge@exe/common_OptionParser.cpp.o' 'tools/f9d35d4@@pbmerge@exe/pbmerge_src_main.cpp.o' -Wl,--no-undefined -Wl,--as-needed -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/libpbbam.so.0.19.0 /usr/lib/x86_64-linux-gnu/libhts.so /usr/lib/x86_64-linux-gnu/libz.so -Wl,--end-group '-Wl,-rpath,$ORIGIN/../src' -Wl,-rpath-link,/build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu/src -[160/161] c++ -Itests/59830eb@@pbbam_test@exe -Itests -I../tests -Iinclude -I../include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplVariableData.cpp.o' -MF 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplVariableData.cpp.o.d' -o 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplVariableData.cpp.o' -c ../tests/src/test_BamRecordImplVariableData.cpp -[161/161] c++ -o tests/pbbam_test 'tests/59830eb@@pbbam_test@exe/src_test_Accuracy.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_AlignmentPrinter.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamFile.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamHeader.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamRecord.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordBuilder.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordClipping.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplCore.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplTags.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordImplVariableData.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamRecordMapping.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BamWriter.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_BarcodeQuery.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Cigar.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Compare.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_DataSetCore.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_DataSetIO.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_DataSetQuery.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_DataSetXsd.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_EndToEnd.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_EntireFileQuery.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Fasta.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Fastq.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_FileUtils.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Frames.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_GenomicIntervalQuery.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_IndexedBamWriter.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_IndexedFastaReader.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Intervals.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_LongCigar.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_PacBioIndex.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_PbiFilter.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_PbiFilterQuery.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_QNameQuery.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_QualityValues.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Pulse2BaseCache.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_ReadAccuracyQuery.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_ReadGroupInfo.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_SamWriter.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_SequenceUtils.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_StringUtils.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_SubreadLengthQuery.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Tags.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_TimeUtils.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Validator.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_VcfFile.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_VcfFormat.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_VcfHeader.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_VcfReader.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_VcfSort.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_VcfQuery.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_VcfVariant.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_VcfWriter.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_Version.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_WhitelistedZmwReadStitcher.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_ZmwReadStitcher.cpp.o' 'tests/59830eb@@pbbam_test@exe/src_test_ZmwQuery.cpp.o' -Wl,--no-undefined -Wl,--as-needed -g -O2 -ffile-prefix-map=/build/pbbam-0.19.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/libpbbam.so.0.19.0 -lgtest -lgtest_main /usr/lib/x86_64-linux-gnu/libhts.so /usr/lib/x86_64-linux-gnu/libz.so -Wl,--end-group -pthread '-Wl,-rpath,$ORIGIN/../src' -Wl,-rpath-link,/build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu/src - debian/rules override_dh_auto_test -make[1]: Entering directory '/build/pbbam-0.19.0+dfsg' -sed \ --e 's/$BAM2SAM/samtools view/g' \ --e 's/\-\-header\-only/-H/g' \ --e 's/\-\-no\-header//g' \ --e 's|@PacBioBAM_BinDir@/||g' \ --e 's|$TOOLS_BIN/||g' \ --e 's|@PacBioBAM_TestsDir@|/build/pbbam-0.19.0+dfsg/tests|g' \ --e 's|@PacBioBAM_VERSION@|0.19.0+dfsg|g' \ --e 's|@GeneratedTestDataDir@|/build/pbbam-0.19.0+dfsg/gendata|g' \ --e '/@PG/s|+dfsg||g' \ --e 's/$SAMTOOLS/samtools/g' \ -tests/src/cram/pbmerge_pacbio_ordering.t.in > tests/src/cram/pbmerge_pacbio_ordering.deb.t -sed \ --e 's/$BAM2SAM/samtools view/g' \ --e 's/\-\-header\-only/-H/g' \ --e 's/\-\-no\-header//g' \ --e 's|@PacBioBAM_BinDir@/||g' \ --e 's|$TOOLS_BIN/||g' \ --e 's|@PacBioBAM_TestsDir@|/build/pbbam-0.19.0+dfsg/tests|g' \ --e 's|@PacBioBAM_VERSION@|0.19.0+dfsg|g' \ --e 's|@GeneratedTestDataDir@|/build/pbbam-0.19.0+dfsg/gendata|g' \ --e '/@PG/s|+dfsg||g' \ --e 's/$SAMTOOLS/samtools/g' \ -tests/src/cram/pbmerge_mixed_ordering.t.in > tests/src/cram/pbmerge_mixed_ordering.deb.t -sed \ --e 's/$BAM2SAM/samtools view/g' \ --e 's/\-\-header\-only/-H/g' \ --e 's/\-\-no\-header//g' \ --e 's|@PacBioBAM_BinDir@/||g' \ --e 's|$TOOLS_BIN/||g' \ --e 's|@PacBioBAM_TestsDir@|/build/pbbam-0.19.0+dfsg/tests|g' \ --e 's|@PacBioBAM_VERSION@|0.19.0+dfsg|g' \ --e 's|@GeneratedTestDataDir@|/build/pbbam-0.19.0+dfsg/gendata|g' \ --e '/@PG/s|+dfsg||g' \ --e 's/$SAMTOOLS/samtools/g' \ -tests/src/cram/pbmerge_aligned_ordering.t.in > tests/src/cram/pbmerge_aligned_ordering.deb.t -sed \ --e 's/$BAM2SAM/samtools view/g' \ --e 's/\-\-header\-only/-H/g' \ --e 's/\-\-no\-header//g' \ --e 's|@PacBioBAM_BinDir@/||g' \ --e 's|$TOOLS_BIN/||g' \ --e 's|@PacBioBAM_TestsDir@|/build/pbbam-0.19.0+dfsg/tests|g' \ --e 's|@PacBioBAM_VERSION@|0.19.0+dfsg|g' \ --e 's|@GeneratedTestDataDir@|/build/pbbam-0.19.0+dfsg/gendata|g' \ --e '/@PG/s|+dfsg||g' \ --e 's/$SAMTOOLS/samtools/g' \ -tests/src/cram/pbindexdump_json.t.in > tests/src/cram/pbindexdump_json.deb.t -sed \ --e 's/$BAM2SAM/samtools view/g' \ --e 's/\-\-header\-only/-H/g' \ --e 's/\-\-no\-header//g' \ --e 's|@PacBioBAM_BinDir@/||g' \ --e 's|$TOOLS_BIN/||g' \ --e 's|@PacBioBAM_TestsDir@|/build/pbbam-0.19.0+dfsg/tests|g' \ --e 's|@PacBioBAM_VERSION@|0.19.0+dfsg|g' \ --e 's|@GeneratedTestDataDir@|/build/pbbam-0.19.0+dfsg/gendata|g' \ --e '/@PG/s|+dfsg||g' \ --e 's/$SAMTOOLS/samtools/g' \ -tests/src/cram/pbindexdump_cpp.t.in > tests/src/cram/pbindexdump_cpp.deb.t -sed \ --e 's/$BAM2SAM/samtools view/g' \ --e 's/\-\-header\-only/-H/g' \ --e 's/\-\-no\-header//g' \ --e 's|@PacBioBAM_BinDir@/||g' \ --e 's|$TOOLS_BIN/||g' \ --e 's|@PacBioBAM_TestsDir@|/build/pbbam-0.19.0+dfsg/tests|g' \ --e 's|@PacBioBAM_VERSION@|0.19.0+dfsg|g' \ --e 's|@GeneratedTestDataDir@|/build/pbbam-0.19.0+dfsg/gendata|g' \ --e '/@PG/s|+dfsg||g' \ --e 's/$SAMTOOLS/samtools/g' \ -tests/src/cram/pbmerge_fofn.t.in > tests/src/cram/pbmerge_fofn.deb.t -sed \ --e 's/$BAM2SAM/samtools view/g' \ --e 's/\-\-header\-only/-H/g' \ --e 's/\-\-no\-header//g' \ --e 's|@PacBioBAM_BinDir@/||g' \ --e 's|$TOOLS_BIN/||g' \ --e 's|@PacBioBAM_TestsDir@|/build/pbbam-0.19.0+dfsg/tests|g' \ --e 's|@PacBioBAM_VERSION@|0.19.0+dfsg|g' \ --e 's|@GeneratedTestDataDir@|/build/pbbam-0.19.0+dfsg/gendata|g' \ --e '/@PG/s|+dfsg||g' \ --e 's/$SAMTOOLS/samtools/g' \ -tests/src/cram/pbbamify.t.in > tests/src/cram/pbbamify.deb.t -sed \ --e 's/$BAM2SAM/samtools view/g' \ --e 's/\-\-header\-only/-H/g' \ --e 's/\-\-no\-header//g' \ --e 's|@PacBioBAM_BinDir@/||g' \ --e 's|$TOOLS_BIN/||g' \ --e 's|@PacBioBAM_TestsDir@|/build/pbbam-0.19.0+dfsg/tests|g' \ --e 's|@PacBioBAM_VERSION@|0.19.0+dfsg|g' \ --e 's|@GeneratedTestDataDir@|/build/pbbam-0.19.0+dfsg/gendata|g' \ --e '/@PG/s|+dfsg||g' \ --e 's/$SAMTOOLS/samtools/g' \ -tests/src/cram/pbmerge_dataset.t.in > tests/src/cram/pbmerge_dataset.deb.t -dh_auto_configure -O--buildsystem=meson - cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 meson .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/x86_64-linux-gnu -Directory already configured. - -Just run your build command (e.g. ninja) and Meson will regenerate as necessary. -If ninja fails, run "ninja reconfigure" or "meson --reconfigure" -to force Meson to regenerate. - -If build failures persist, run "meson setup --wipe" to rebuild from scratch -using the same options as passed when configuring the build. -To change option values, run "meson configure" instead. -mkdir -p /build/pbbam-0.19.0+dfsg/gendata -python tests/scripts/generate_data.py /build/pbbam-0.19.0+dfsg/tests/data /build/pbbam-0.19.0+dfsg/gendata -Generating test data in /build/pbbam-0.19.0+dfsg/gendata - - Creating file: truncated.bam...done. - - Creating file: normal.fa...done. - - Creating file: chunking_missingfilters.subreadset.xml...done. - - Creating file: normal.fq...done. - - Creating file: chunking_emptyfilters.subreadset.xml...done. - - Creating symlink: missing_pbi.bam...done. - - Creating symlink: aligned.bam.bai...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.2.subreads.bam.pbi...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.1.subreads.bam...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.2.subreads.bam...done. - - Creating symlink: aligned2.bam.pbi...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.3.subreads.bam.pbi...done. - - Creating symlink: aligned2.bam.bai...done. - - Creating symlink: aligned2.bam...done. - - Creating symlink: aligned.bam...done. - - Creating symlink: aligned.bam.pbi...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.1.subreads.bam.pbi...done. - - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.3.subreads.bam...done. -# Fix broken PATH -synthetic_movie_all_path=`find $PWD -name synthetic_movie_all.subreadset.xml` ; \ -sed -i -e "s?.GENERATEDDATADIR/synthetic_movie_all.subreadset.xml?${synthetic_movie_all_path}?" tests/src/cram/pbbamify* -BINDIR=`dirname $(find $PWD -name pbmerge -type f -executable)`; \ -LIBDIR=`find $PWD -name lib -type d`; \ -PATH="$BINDIR:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" LD_LIBRARY_PATH="$LIBDIR:" \ -cram -v --preserve-env tests/src/cram/pbmerge_pacbio_ordering.deb.t tests/src/cram/pbmerge_mixed_ordering.deb.t tests/src/cram/pbmerge_aligned_ordering.deb.t tests/src/cram/pbindexdump_json.deb.t tests/src/cram/pbindexdump_cpp.deb.t tests/src/cram/pbmerge_fofn.deb.t tests/src/cram/pbbamify.deb.t tests/src/cram/pbmerge_dataset.deb.t -tests/src/cram/pbmerge_pacbio_ordering.deb.t: passed -tests/src/cram/pbmerge_mixed_ordering.deb.t: passed -tests/src/cram/pbmerge_aligned_ordering.deb.t: passed -tests/src/cram/pbindexdump_json.deb.t: passed -tests/src/cram/pbindexdump_cpp.deb.t: passed -tests/src/cram/pbmerge_fofn.deb.t: passed -tests/src/cram/pbbamify.deb.t: passed -tests/src/cram/pbmerge_dataset.deb.t: passed -# Ran 8 tests, 0 skipped, 0 failed. -make[1]: Leaving directory '/build/pbbam-0.19.0+dfsg' - create-stamp debian/debhelper-build-stamp - fakeroot debian/rules binary -dh binary --buildsystem=meson - dh_testroot -O--buildsystem=meson - dh_prep -O--buildsystem=meson - dh_auto_install -O--buildsystem=meson - cd obj-x86_64-linux-gnu && DESTDIR=/build/pbbam-0.19.0\+dfsg/debian/tmp LC_ALL=C.UTF-8 ninja install -[0/1] Regenerating build files. -The Meson build system -Version: 0.49.2 -Source dir: /build/pbbam-0.19.0+dfsg -Build dir: /build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu -Build type: native build -Project name: PacBioBAM -Project version: 0.19.0 -Native C++ compiler: c++ (gcc 8.3.0 "c++ (Debian 8.3.0-6) 8.3.0") -Build machine cpu family: x86_64 -Build machine cpu: x86_64 -Compiler for C++ supports arguments -Wduplicated-cond: YES -Compiler for C++ supports arguments -Wduplicated-branches: YES -Compiler for C++ supports arguments -Wlogical-op: YES -Compiler for C++ supports arguments -Wrestrict: YES -Compiler for C++ supports arguments -Wnull-dereference: YES -Compiler for C++ supports arguments -Wuseless-cast: YES -Compiler for C++ supports arguments -Wdouble-promotion: YES -Compiler for C++ supports arguments -Wshadow: YES -Compiler for C++ supports arguments -Wformat=1: YES -Dependency threads found: YES (cached) -Dependency boost found: YES (cached) -Dependency zlib found: YES (cached) -Dependency htslib found: YES (cached) -Program python found: YES (/usr/bin/python) -Program tools/check-formatting found: YES (/build/pbbam-0.19.0+dfsg/tools/check-formatting) -Program cram found: YES (/usr/bin/cram) -Dependency gtest found: YES (cached) -Configuring group.fofn using configuration -Configuring PbbamTestData.h using configuration -Configuring synthetic_movie_all.subreadset.xml using configuration -Configuring Bam2SamVersion.h using configuration -Configuring bam2sam.t using configuration -Configuring PbIndexVersion.h using configuration -Configuring PbIndexDumpVersion.h using configuration -Configuring pbindexdump_json.t using configuration -Configuring pbindexdump_cpp.t using configuration -Configuring PbMergeVersion.h using configuration -Configuring pbmerge_pacbio_ordering.t using configuration -Configuring pbmerge_aligned_ordering.t using configuration -Configuring pbmerge_mixed_ordering.t using configuration -Configuring pbmerge_dataset.t using configuration -Configuring pbmerge_fofn.t using configuration -Configuring PbBamifyVersion.h using configuration -Program samtools found: YES (/usr/bin/samtools) -Configuring pbbamify.t using configuration -Build targets in project: 8 -Option buildtype is: plain [default: release] -Found ninja-1.8.2 at /usr/bin/ninja -[1/2] Generating pbbam_generate_data with a custom command. -[1/2] Installing files. -Installing src/libpbbam.so.0.19.0 to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu -Installing tools/bam2sam to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/bin -Installing tools/pbindex to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/bin -Installing tools/pbindexdump to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/bin -Installing tools/pbmerge to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/bin -Installing tools/pbbamify to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/bin -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Accuracy.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/AlignmentPrinter.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BaiIndexedBamReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamFile.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamHeader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamRecord.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamRecordBuilder.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamRecordImpl.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamRecordTag.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamRecordView.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamTagCodec.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BamWriter.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/BarcodeQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Cigar.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/CigarOperation.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/ClipType.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Compare.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/CompositeBamReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/CompositeFastaReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Config.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/DataSet.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/DataSetTypes.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/DataSetXsd.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/EntireFileQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/FastaReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/FastaSequence.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/FastaSequenceQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/FastqReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/FastqSequence.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/FrameEncodingType.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Frames.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/GenomicInterval.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/GenomicIntervalQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/IndexedBamWriter.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/IndexedFastaReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Interval.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/IRecordWriter.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/LocalContextFlags.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/MakeUnique.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/MD5.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/MoveAppend.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Orientation.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PbiBasicTypes.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PbiBuilder.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PbiFile.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PbiFilter.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PbiFilterQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PbiFilterTypes.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PbiIndexedBamReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PbiRawData.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Position.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/ProgramInfo.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PulseBehavior.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/PulseExclusionReason.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/QNameQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/QualityValue.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/QualityValues.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/ReadAccuracyQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/ReadGroupInfo.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/RecordType.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/SamTagCodec.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/SamWriter.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/SequenceInfo.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Strand.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/StringUtilities.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/SubreadLengthQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Tag.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/TagCollection.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Unused.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/Validator.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/ZmwGroupQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/ZmwQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/ZmwType.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/ZmwTypeMap.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/exception/BundleChemistryMappingException.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/exception -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/exception/InvalidSequencingChemistryException.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/exception -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/exception/ValidationException.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/exception -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/Accuracy.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/BamHeader.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/BamRecord.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/BamRecordBuilder.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/BamRecordImpl.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/BamRecordView.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/Cigar.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/CigarOperation.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/Compare.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/CompositeBamReader.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/CompositeFastaReader.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/DataSet.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/DataSetBaseTypes.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/DataSetBaseTypes.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/DataSetElement.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/DataSetElement.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/DataSetListElement.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/DataSetListElement.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/DataSetTypes.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/FastaSequence.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/FastqSequence.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/Frames.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/GenomicInterval.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/Interval.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/PbiBasicTypes.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/PbiFilter.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/PbiFilterTypes.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/PbiRawData.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/ProgramInfo.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/QualityValue.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/QualityValues.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/QueryBase.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/QueryBase.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/ReadGroupInfo.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/SequenceInfo.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/Tag.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/internal/Validator.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/VcfVariant.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/VcfFile.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/VcfFormat.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/VcfHeader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/VcfHeaderTypes.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/VcfReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/VcfSort.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/VcfQuery.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/VcfWriter.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/internal/VcfVariant.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/internal/VcfFile.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/internal/VcfHeader.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/vcf/internal/VcfHeaderTypes.inl to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/vcf/internal -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/VirtualPolymeraseBamRecord.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/VirtualPolymeraseCompositeReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/VirtualPolymeraseReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/VirtualRegion.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/VirtualRegionType.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/VirtualRegionTypeMap.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/VirtualZmwBamRecord.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/WhitelistedZmwReadStitcher.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/ZmwReadStitcher.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/include/pbbam/virtual/ZmwWhitelistVirtualReader.h to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/include/pbbam/virtual -Installing /build/pbbam-0.19.0+dfsg/obj-x86_64-linux-gnu/meson-private/pbbam.pc to /build/pbbam-0.19.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig - debian/rules override_dh_install -make[1]: Entering directory '/build/pbbam-0.19.0+dfsg' -dh_install -d-shlibmove --commit \ - --multiarch \ - --devunversioned \ - --exclude-la \ - --exclude-a \ - --override s/libhts2-dev/libhts-dev/ \ - --movedev debian/tmp/usr/include/* usr/include \ - --movedev "debian/tmp/usr/lib/*/pkgconfig/*.pc" usr/lib/x86_64-linux-gnu/pkgconfig \ - debian/tmp/usr/lib/*/*.so -Library package automatic movement utility - --> libhts-dev package exists. -set -e -install -d -m 755 debian/libpbbam-dev/usr/lib/x86_64-linux-gnu -install -d -m 755 debian/libpbbam0.19.0/usr/lib/x86_64-linux-gnu -mv debian/tmp/usr/lib/x86_64-linux-gnu/libpbbam.so debian/libpbbam-dev/usr/lib/x86_64-linux-gnu -mv /build/pbbam-0.19.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libpbbam.so.0.19.0 debian/libpbbam0.19.0/usr/lib/x86_64-linux-gnu -PKGDEV=libpbbam-dev -PKGSHL=libpbbam0.19.0 -install -d -m 755 debian/libpbbam-dev/usr/include -mv debian/tmp/usr/include/pbbam debian/libpbbam-dev/usr/include -install -d -m 755 debian/libpbbam-dev/usr/lib/x86_64-linux-gnu/pkgconfig -mv debian/tmp/usr/lib/*/pkgconfig/*.pc debian/libpbbam-dev/usr/lib/x86_64-linux-gnu/pkgconfig -make[1]: Leaving directory '/build/pbbam-0.19.0+dfsg' - dh_installdocs -O--buildsystem=meson - debian/rules override_dh_installchangelogs -make[1]: Entering directory '/build/pbbam-0.19.0+dfsg' -dh_installchangelogs CHANGELOG.md -make[1]: Leaving directory '/build/pbbam-0.19.0+dfsg' - dh_installinit -O--buildsystem=meson - dh_installsystemduser -O--buildsystem=meson - dh_perl -O--buildsystem=meson - dh_link -O--buildsystem=meson - dh_strip_nondeterminism -O--buildsystem=meson - dh_compress -O--buildsystem=meson - dh_fixperms -O--buildsystem=meson - dh_missing -O--buildsystem=meson - dh_dwz -O--buildsystem=meson - dh_strip -O--buildsystem=meson - dh_makeshlibs -O--buildsystem=meson - dh_shlibdeps -O--buildsystem=meson - dh_installdeb -O--buildsystem=meson - dh_gencontrol -O--buildsystem=meson -dpkg-gencontrol: warning: package libpbbam-dev: substitution variable ${devlibs:Depends} unused, but is defined - dh_md5sums -O--buildsystem=meson - dh_builddeb -O--buildsystem=meson -dpkg-deb: building package 'pbbamtools' in '../pbbamtools_0.19.0+dfsg-4_amd64.deb'. -dpkg-deb: building package 'libpbbam0.19.0-dbgsym' in '../libpbbam0.19.0-dbgsym_0.19.0+dfsg-4_amd64.deb'. -dpkg-deb: building package 'libpbbam0.19.0' in '../libpbbam0.19.0_0.19.0+dfsg-4_amd64.deb'. -dpkg-deb: building package 'pbbamtools-dbgsym' in '../pbbamtools-dbgsym_0.19.0+dfsg-4_amd64.deb'. -dpkg-deb: building package 'libpbbam-dev' in '../libpbbam-dev_0.19.0+dfsg-4_amd64.deb'. - dpkg-genbuildinfo --build=binary - dpkg-genchanges --build=binary >../pbbam_0.19.0+dfsg-4_amd64.changes -dpkg-genchanges: info: binary-only upload (no source code included) - dpkg-source --after-build . -dpkg-buildpackage: info: binary-only upload (no source included) -dpkg-genchanges: info: not including original source code in upload -I: copying local configuration +E: pbuilder-satisfydepends failed. 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/1177715 and its subdirectories -I: Current time: Sun Oct 1 03:56:23 -12 2023 -I: pbuilder-time-stamp: 1696175783 +I: removing directory /srv/workspace/pbuilder/1836211 and its subdirectories