Diff of the two buildlogs: -- --- b1/build.log 2023-05-13 21:39:02.257906512 +0000 +++ b2/build.log 2023-05-13 22:25:07.688711571 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat May 13 09:21:14 -12 2023 -I: pbuilder-time-stamp: 1684012874 +I: Current time: Sun May 14 11:39:34 +14 2023 +I: pbuilder-time-stamp: 1684013974 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./staden-io-lib_1.14.15.orig.tar.gz] I: copying [./staden-io-lib_1.14.15-1.debian.tar.xz] I: Extracting source -gpgv: Signature made Mon Mar 13 19:04:22 2023 -12 +gpgv: Signature made Tue Mar 14 21:04:22 2023 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -30,135 +30,167 @@ dpkg-source: info: applying usedebianhtscodecs.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/21001/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/26191/tmp/hooks/D01_modify_environment starting +debug: Running on ff4a. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 May 14 11:40 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/26191/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/26191/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3' - DISTRIBUTION='bookworm' - HOME='/root' - HOST_ARCH='armhf' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="15" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='1196183c6d6d46e4b8ae303ae057eb1e' - 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='21001' - PS1='# ' - PS2='> ' + INVOCATION_ID=e3aaa90a0ef2436488a33cebbd7849be + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=26191 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.U4sCcuRD/pbuilderrc_xkKd --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.U4sCcuRD/b1 --logfile b1/build.log staden-io-lib_1.14.15-1.dsc' - SUDO_GID='113' - SUDO_UID='107' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.U4sCcuRD/pbuilderrc_qKov --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.U4sCcuRD/b2 --logfile b2/build.log --extrapackages usrmerge staden-io-lib_1.14.15-1.dsc' + SUDO_GID=113 + SUDO_UID=107 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux virt64c 5.10.0-22-arm64 #1 SMP Debian 5.10.178-3 (2023-04-22) aarch64 GNU/Linux + Linux i-capture-the-hostname 5.10.0-22-armmp-lpae #1 SMP Debian 5.10.178-3 (2023-04-22) armv7l GNU/Linux I: ls -l /bin total 5072 - -rwxr-xr-x 1 root root 838488 Apr 23 09:24 bash - -rwxr-xr-x 3 root root 67144 Sep 18 2022 bunzip2 - -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzcat - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep - -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzip2 - -rwxr-xr-x 1 root root 67112 Sep 18 2022 bzip2recover - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore - -rwxr-xr-x 1 root root 67632 Sep 20 2022 cat - -rwxr-xr-x 1 root root 67676 Sep 20 2022 chgrp - -rwxr-xr-x 1 root root 67644 Sep 20 2022 chmod - -rwxr-xr-x 1 root root 67684 Sep 20 2022 chown - -rwxr-xr-x 1 root root 133532 Sep 20 2022 cp - -rwxr-xr-x 1 root root 132868 Jan 5 01:20 dash - -rwxr-xr-x 1 root root 133220 Sep 20 2022 date - -rwxr-xr-x 1 root root 67732 Sep 20 2022 dd - -rwxr-xr-x 1 root root 68104 Sep 20 2022 df - -rwxr-xr-x 1 root root 133632 Sep 20 2022 dir - -rwxr-xr-x 1 root root 59128 Mar 22 21:02 dmesg - lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname - -rwxr-xr-x 1 root root 67560 Sep 20 2022 echo - -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep - -rwxr-xr-x 1 root root 67548 Sep 20 2022 false - -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep - -rwxr-xr-x 1 root root 55748 Mar 22 21:02 findmnt - -rwsr-xr-x 1 root root 26208 Mar 22 20:15 fusermount - -rwxr-xr-x 1 root root 128608 Jan 24 02:43 grep - -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip - -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe - -rwxr-xr-x 1 root root 64220 Apr 9 2022 gzip - -rwxr-xr-x 1 root root 67032 Dec 19 01:33 hostname - -rwxr-xr-x 1 root root 67720 Sep 20 2022 ln - -rwxr-xr-x 1 root root 35132 Mar 22 21:51 login - -rwxr-xr-x 1 root root 133632 Sep 20 2022 ls - -rwxr-xr-x 1 root root 136808 Mar 22 21:02 lsblk - -rwxr-xr-x 1 root root 67800 Sep 20 2022 mkdir - -rwxr-xr-x 1 root root 67764 Sep 20 2022 mknod - -rwxr-xr-x 1 root root 67596 Sep 20 2022 mktemp - -rwxr-xr-x 1 root root 38504 Mar 22 21:02 more - -rwsr-xr-x 1 root root 38496 Mar 22 21:02 mount - -rwxr-xr-x 1 root root 9824 Mar 22 21:02 mountpoint - -rwxr-xr-x 1 root root 133532 Sep 20 2022 mv - lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 67608 Sep 20 2022 pwd - lrwxrwxrwx 1 root root 4 Apr 23 09:24 rbash -> bash - -rwxr-xr-x 1 root root 67600 Sep 20 2022 readlink - -rwxr-xr-x 1 root root 67672 Sep 20 2022 rm - -rwxr-xr-x 1 root root 67600 Sep 20 2022 rmdir - -rwxr-xr-x 1 root root 67400 Nov 2 2022 run-parts - -rwxr-xr-x 1 root root 133372 Jan 5 07:55 sed - lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash - -rwxr-xr-x 1 root root 67584 Sep 20 2022 sleep - -rwxr-xr-x 1 root root 67644 Sep 20 2022 stty - -rwsr-xr-x 1 root root 50800 Mar 22 21:02 su - -rwxr-xr-x 1 root root 67584 Sep 20 2022 sync - -rwxr-xr-x 1 root root 336764 Apr 6 02:25 tar - -rwxr-xr-x 1 root root 67144 Nov 2 2022 tempfile - -rwxr-xr-x 1 root root 133224 Sep 20 2022 touch - -rwxr-xr-x 1 root root 67548 Sep 20 2022 true - -rwxr-xr-x 1 root root 9768 Mar 22 20:15 ulockmgr_server - -rwsr-xr-x 1 root root 22108 Mar 22 21:02 umount - -rwxr-xr-x 1 root root 67572 Sep 20 2022 uname - -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress - -rwxr-xr-x 1 root root 133632 Sep 20 2022 vdir - -rwxr-xr-x 1 root root 42608 Mar 22 21:02 wdctl - lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat - -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp - -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff - -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep - -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep - -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce - -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep - -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless - -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore - -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew -I: user script /srv/workspace/pbuilder/21001/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 838488 Apr 24 11:24 bash + -rwxr-xr-x 3 root root 67144 Sep 19 2022 bunzip2 + -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzcat + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep + -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzip2 + -rwxr-xr-x 1 root root 67112 Sep 19 2022 bzip2recover + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore + -rwxr-xr-x 1 root root 67632 Sep 21 2022 cat + -rwxr-xr-x 1 root root 67676 Sep 21 2022 chgrp + -rwxr-xr-x 1 root root 67644 Sep 21 2022 chmod + -rwxr-xr-x 1 root root 67684 Sep 21 2022 chown + -rwxr-xr-x 1 root root 133532 Sep 21 2022 cp + -rwxr-xr-x 1 root root 132868 Jan 6 03:20 dash + -rwxr-xr-x 1 root root 133220 Sep 21 2022 date + -rwxr-xr-x 1 root root 67732 Sep 21 2022 dd + -rwxr-xr-x 1 root root 68104 Sep 21 2022 df + -rwxr-xr-x 1 root root 133632 Sep 21 2022 dir + -rwxr-xr-x 1 root root 59128 Mar 23 23:02 dmesg + lrwxrwxrwx 1 root root 8 Dec 20 03:33 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Dec 20 03:33 domainname -> hostname + -rwxr-xr-x 1 root root 67560 Sep 21 2022 echo + -rwxr-xr-x 1 root root 41 Jan 25 04:43 egrep + -rwxr-xr-x 1 root root 67548 Sep 21 2022 false + -rwxr-xr-x 1 root root 41 Jan 25 04:43 fgrep + -rwxr-xr-x 1 root root 55748 Mar 23 23:02 findmnt + -rwsr-xr-x 1 root root 26208 Mar 23 22:15 fusermount + -rwxr-xr-x 1 root root 128608 Jan 25 04:43 grep + -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip + -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe + -rwxr-xr-x 1 root root 64220 Apr 10 2022 gzip + -rwxr-xr-x 1 root root 67032 Dec 20 03:33 hostname + -rwxr-xr-x 1 root root 67720 Sep 21 2022 ln + -rwxr-xr-x 1 root root 35132 Mar 23 23:51 login + -rwxr-xr-x 1 root root 133632 Sep 21 2022 ls + -rwxr-xr-x 1 root root 136808 Mar 23 23:02 lsblk + -rwxr-xr-x 1 root root 67800 Sep 21 2022 mkdir + -rwxr-xr-x 1 root root 67764 Sep 21 2022 mknod + -rwxr-xr-x 1 root root 67596 Sep 21 2022 mktemp + -rwxr-xr-x 1 root root 38504 Mar 23 23:02 more + -rwsr-xr-x 1 root root 38496 Mar 23 23:02 mount + -rwxr-xr-x 1 root root 9824 Mar 23 23:02 mountpoint + -rwxr-xr-x 1 root root 133532 Sep 21 2022 mv + lrwxrwxrwx 1 root root 8 Dec 20 03:33 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 3 20:25 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 67608 Sep 21 2022 pwd + lrwxrwxrwx 1 root root 4 Apr 24 11:24 rbash -> bash + -rwxr-xr-x 1 root root 67600 Sep 21 2022 readlink + -rwxr-xr-x 1 root root 67672 Sep 21 2022 rm + -rwxr-xr-x 1 root root 67600 Sep 21 2022 rmdir + -rwxr-xr-x 1 root root 67400 Nov 3 2022 run-parts + -rwxr-xr-x 1 root root 133372 Jan 6 09:55 sed + lrwxrwxrwx 1 root root 9 May 14 11:40 sh -> /bin/bash + -rwxr-xr-x 1 root root 67584 Sep 21 2022 sleep + -rwxr-xr-x 1 root root 67644 Sep 21 2022 stty + -rwsr-xr-x 1 root root 50800 Mar 23 23:02 su + -rwxr-xr-x 1 root root 67584 Sep 21 2022 sync + -rwxr-xr-x 1 root root 336764 Apr 7 04:25 tar + -rwxr-xr-x 1 root root 67144 Nov 3 2022 tempfile + -rwxr-xr-x 1 root root 133224 Sep 21 2022 touch + -rwxr-xr-x 1 root root 67548 Sep 21 2022 true + -rwxr-xr-x 1 root root 9768 Mar 23 22:15 ulockmgr_server + -rwsr-xr-x 1 root root 22108 Mar 23 23:02 umount + -rwxr-xr-x 1 root root 67572 Sep 21 2022 uname + -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress + -rwxr-xr-x 1 root root 133632 Sep 21 2022 vdir + -rwxr-xr-x 1 root root 42608 Mar 23 23:02 wdctl + lrwxrwxrwx 1 root root 8 Dec 20 03:33 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat + -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp + -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff + -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep + -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep + -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce + -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep + -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless + -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore + -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew +I: user script /srv/workspace/pbuilder/26191/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -253,7 +285,7 @@ Get: 44 http://deb.debian.org/debian bookworm/main armhf libhtscodecs-dev armhf 1.3.0-4 [2837 kB] Get: 45 http://deb.debian.org/debian bookworm/main armhf liblzma-dev armhf 5.4.1-0.2 [248 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] -Fetched 23.8 MB in 1s (30.2 MB/s) +Fetched 23.8 MB in 2s (10.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19329 files and directories currently installed.) @@ -451,8 +483,19 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +usrmerge is already the newest version (35). +0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/staden-io-lib-1.14.15/ && 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 > ../staden-io-lib_1.14.15-1_source.changes +I: user script /srv/workspace/pbuilder/26191/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +removed '/etc/unsupported-skip-usrmerge-conversion' +The system has been successfully converted. +I: user script /srv/workspace/pbuilder/26191/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/staden-io-lib-1.14.15/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../staden-io-lib_1.14.15-1_source.changes dpkg-buildpackage: info: source package staden-io-lib dpkg-buildpackage: info: source version 1.14.15-1 dpkg-buildpackage: info: source distribution unstable @@ -462,7 +505,7 @@ debian/rules clean dh clean --no-parallel debian/rules override_dh_auto_clean -make[1]: Entering directory '/build/staden-io-lib-1.14.15' +make[1]: ingresso nella directory «/build/staden-io-lib-1.14.15» dh_auto_clean rm -f tests/.done tests/data/ce\#sorted.sam tests/data/ce\#unsorted.sam rm -f config.sub config.guess @@ -478,7 +521,7 @@ # echo "Upstream has bumped ABI to ${UPSTREAMABI} but Debian is using libstaden-read${DEBABI} (see bug #710225)" ; \ # exit 1 ; \ #fi -make[1]: Leaving directory '/build/staden-io-lib-1.14.15' +make[1]: uscita dalla directory «/build/staden-io-lib-1.14.15» dh_autoreconf_clean -O--no-parallel dh_clean -O--no-parallel debian/rules binary @@ -535,12 +578,12 @@ configure.ac:10: installing './missing' io_lib/Makefile.am: installing './depcomp' debian/rules override_dh_auto_configure -make[1]: Entering directory '/build/staden-io-lib-1.14.15' +make[1]: ingresso nella directory «/build/staden-io-lib-1.14.15» export ac_cv_func_mmap_fixed_mapped=yes && dh_auto_configure ./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes -checking for a race-free mkdir -p... /bin/mkdir -p +checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes @@ -561,10 +604,10 @@ checking build system type... arm-unknown-linux-gnueabihf checking host system type... arm-unknown-linux-gnueabihf checking how to print strings... printf -checking for a sed that does not truncate output... /bin/sed -checking for grep that handles long lines and -e... /bin/grep -checking for egrep... /bin/grep -E -checking for fgrep... /bin/grep -F +checking for a sed that does not truncate output... /usr/bin/sed +checking for grep that handles long lines and -e... /usr/bin/grep +checking for egrep... /usr/bin/grep -E +checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B @@ -585,8 +628,8 @@ checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no -checking for a working dd... /bin/dd -checking how to truncate binary pipes... /bin/dd bs=4096 count=1 +checking for a working dd... /usr/bin/dd +checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for stdio.h... yes @@ -615,7 +658,7 @@ checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes -checking for grep that handles long lines and -e... (cached) /bin/grep +checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for C compiler warning flags... -Wall checking for gawk... (cached) mawk checking for curl-config... /usr/bin/curl-config @@ -631,7 +674,7 @@ checking for lzma_easy_buffer_encode in -llzma... yes checking for bsc_compress in -lbsc... no checking whether byte ordering is bigendian... no -checking for egrep... (cached) /bin/grep -E +checking for egrep... (cached) /usr/bin/grep -E checking for sys/wait.h that is POSIX.1 compatible... yes checking for fcntl.h... yes checking for limits.h... yes @@ -688,316 +731,316 @@ CFLAGS: -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security LDFLAGS: -Wl,-z,relro -Wl,-z,now LIBS: -lm -llzma -lbz2 -make[1]: Leaving directory '/build/staden-io-lib-1.14.15' +make[1]: uscita dalla directory «/build/staden-io-lib-1.14.15» dh_auto_build -O--no-parallel make -j1 -make[1]: Entering directory '/build/staden-io-lib-1.14.15' +make[1]: ingresso nella directory «/build/staden-io-lib-1.14.15» make all-recursive -make[2]: Entering directory '/build/staden-io-lib-1.14.15' +make[2]: ingresso nella directory «/build/staden-io-lib-1.14.15» Making all in io_lib -make[3]: Entering directory '/build/staden-io-lib-1.14.15/io_lib' -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-Read.lo `test -f 'Read.c' || echo './'`Read.c +make[3]: ingresso nella directory «/build/staden-io-lib-1.14.15/io_lib» +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-Read.lo `test -f 'Read.c' || echo './'`Read.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c Read.c -fPIC -DPIC -o .libs/libstaden_read_la-Read.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c Read.c -o libstaden_read_la-Read.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-scf_extras.lo `test -f 'scf_extras.c' || echo './'`scf_extras.c +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-scf_extras.lo `test -f 'scf_extras.c' || echo './'`scf_extras.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c scf_extras.c -fPIC -DPIC -o .libs/libstaden_read_la-scf_extras.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c scf_extras.c -o libstaden_read_la-scf_extras.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-translate.lo `test -f 'translate.c' || echo './'`translate.c +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-translate.lo `test -f 'translate.c' || echo './'`translate.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c translate.c -fPIC -DPIC -o .libs/libstaden_read_la-translate.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c translate.c -o libstaden_read_la-translate.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-compression.lo `test -f 'compression.c' || echo './'`compression.c +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-compression.lo `test -f 'compression.c' || echo './'`compression.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c compression.c -fPIC -DPIC -o .libs/libstaden_read_la-compression.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c compression.c -o libstaden_read_la-compression.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-ztr.lo `test -f 'ztr.c' || echo './'`ztr.c +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-ztr.lo `test -f 'ztr.c' || echo './'`ztr.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c ztr.c -fPIC -DPIC -o .libs/libstaden_read_la-ztr.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c ztr.c -o libstaden_read_la-ztr.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-ztr_translate.lo `test -f 'ztr_translate.c' || echo './'`ztr_translate.c +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-ztr_translate.lo `test -f 'ztr_translate.c' || echo './'`ztr_translate.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c ztr_translate.c -fPIC -DPIC -o .libs/libstaden_read_la-ztr_translate.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c ztr_translate.c -o libstaden_read_la-ztr_translate.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-deflate_interlaced.lo `test -f 'deflate_interlaced.c' || echo './'`deflate_interlaced.c +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-deflate_interlaced.lo `test -f 'deflate_interlaced.c' || echo './'`deflate_interlaced.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c deflate_interlaced.c -fPIC -DPIC -o .libs/libstaden_read_la-deflate_interlaced.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c deflate_interlaced.c -o libstaden_read_la-deflate_interlaced.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-fpoint.lo `test -f 'fpoint.c' || echo './'`fpoint.c +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-fpoint.lo `test -f 'fpoint.c' || echo './'`fpoint.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c fpoint.c -fPIC -DPIC -o .libs/libstaden_read_la-fpoint.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c fpoint.c -o libstaden_read_la-fpoint.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-seqIOABI.lo `test -f 'seqIOABI.c' || echo './'`seqIOABI.c +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-seqIOABI.lo `test -f 'seqIOABI.c' || echo './'`seqIOABI.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c seqIOABI.c -fPIC -DPIC -o .libs/libstaden_read_la-seqIOABI.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c seqIOABI.c -o libstaden_read_la-seqIOABI.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libstaden_read_la-seqIOALF.lo `test -f 'seqIOALF.c' || echo './'`seqIOALF.c +/bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/usr/include/htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 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libstaden_read_la-bgzip.o >/dev/null 2>&1 -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -version-info 15:2:1 -Wl,-z,relro -Wl,-z,now -o libstaden-read.la -rpath /usr/lib/arm-linux-gnueabihf libstaden_read_la-Read.lo libstaden_read_la-scf_extras.lo libstaden_read_la-translate.lo libstaden_read_la-compression.lo libstaden_read_la-ztr.lo libstaden_read_la-ztr_translate.lo libstaden_read_la-deflate_interlaced.lo libstaden_read_la-fpoint.lo libstaden_read_la-seqIOABI.lo libstaden_read_la-seqIOALF.lo libstaden_read_la-expFileIO.lo libstaden_read_la-seqIOPlain.lo libstaden_read_la-misc_scf.lo libstaden_read_la-read_scf.lo libstaden_read_la-write_scf.lo libstaden_read_la-sff.lo libstaden_read_la-srf.lo libstaden_read_la-array.lo libstaden_read_la-compress.lo libstaden_read_la-error.lo libstaden_read_la-files.lo libstaden_read_la-find.lo libstaden_read_la-mach-io.lo 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-fstack-protector-strong -Wformat -Werror=format-security -version-info 15:2:1 -Wl,-z,relro -Wl,-z,now -o libstaden-read.la -rpath /usr/lib/arm-linux-gnueabihf libstaden_read_la-Read.lo libstaden_read_la-scf_extras.lo libstaden_read_la-translate.lo libstaden_read_la-compression.lo libstaden_read_la-ztr.lo libstaden_read_la-ztr_translate.lo libstaden_read_la-deflate_interlaced.lo libstaden_read_la-fpoint.lo libstaden_read_la-seqIOABI.lo libstaden_read_la-seqIOALF.lo libstaden_read_la-expFileIO.lo libstaden_read_la-seqIOPlain.lo libstaden_read_la-misc_scf.lo libstaden_read_la-read_scf.lo libstaden_read_la-write_scf.lo libstaden_read_la-sff.lo libstaden_read_la-srf.lo libstaden_read_la-array.lo libstaden_read_la-compress.lo libstaden_read_la-error.lo libstaden_read_la-files.lo libstaden_read_la-find.lo libstaden_read_la-mach-io.lo libstaden_read_la-open_trace_file.lo libstaden_read_la-read_alloc.lo libstaden_read_la-strings.lo libstaden_read_la-traceType.lo libstaden_read_la-xalloc.lo 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.libs/libstaden_read_la-sam_header.o .libs/libstaden_read_la-cram_codecs.o .libs/libstaden_read_la-cram_encode.o .libs/libstaden_read_la-cram_decode.o .libs/libstaden_read_la-cram_stats.o .libs/libstaden_read_la-cram_io.o .libs/libstaden_read_la-cram_index.o .libs/libstaden_read_la-zfio.o .libs/libstaden_read_la-dstring.o .libs/libstaden_read_la-string_alloc.o .libs/libstaden_read_la-md5.o .libs/libstaden_read_la-crc32.o .libs/libstaden_read_la-scram.o .libs/libstaden_read_la-thread_pool.o .libs/libstaden_read_la-binning.o .libs/libstaden_read_la-cram_bambam.o .libs/libstaden_read_la-bgzip.o -lz -lcurl -lhtscodecs -lm -llzma -lbz2 -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,libstaden-read.so.14 -o .libs/libstaden-read.so.14.1.2 libtool: link: (cd ".libs" && rm -f "libstaden-read.so.14" && ln -s "libstaden-read.so.14.1.2" "libstaden-read.so.14") libtool: link: (cd ".libs" && rm -f "libstaden-read.so" && ln -s "libstaden-read.so.14.1.2" "libstaden-read.so") libtool: link: ar cr .libs/libstaden-read.a libstaden_read_la-Read.o libstaden_read_la-scf_extras.o libstaden_read_la-translate.o libstaden_read_la-compression.o libstaden_read_la-ztr.o libstaden_read_la-ztr_translate.o libstaden_read_la-deflate_interlaced.o libstaden_read_la-fpoint.o libstaden_read_la-seqIOABI.o libstaden_read_la-seqIOALF.o libstaden_read_la-expFileIO.o libstaden_read_la-seqIOPlain.o libstaden_read_la-misc_scf.o libstaden_read_la-read_scf.o libstaden_read_la-write_scf.o libstaden_read_la-sff.o libstaden_read_la-srf.o libstaden_read_la-array.o libstaden_read_la-compress.o libstaden_read_la-error.o libstaden_read_la-files.o libstaden_read_la-find.o libstaden_read_la-mach-io.o libstaden_read_la-open_trace_file.o libstaden_read_la-read_alloc.o libstaden_read_la-strings.o libstaden_read_la-traceType.o libstaden_read_la-xalloc.o libstaden_read_la-vlen.o libstaden_read_la-hash_table.o libstaden_read_la-jenkins_lookup3.o libstaden_read_la-mFILE.o 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«/build/staden-io-lib-1.14.15/progs» gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o convert_trace.o convert_trace.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o convert_trace convert_trace.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o convert_trace convert_trace.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/convert_trace convert_trace.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o makeSCF.o makeSCF.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o makeSCF makeSCF.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o makeSCF makeSCF.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/makeSCF makeSCF.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o extract_seq.o extract_seq.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o extract_seq extract_seq.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o extract_seq extract_seq.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/extract_seq extract_seq.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o extract_qual.o extract_qual.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o extract_qual extract_qual.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o extract_qual extract_qual.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/extract_qual extract_qual.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o extract_fastq.o extract_fastq.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o extract_fastq extract_fastq.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o extract_fastq extract_fastq.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/extract_fastq extract_fastq.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o index_tar.o index_tar.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o index_tar index_tar.o -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o index_tar index_tar.o -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat 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+/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o srf_filter srf_filter.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/srf_filter srf_filter.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o srf_info.o srf_info.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o srf_info srf_info.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o srf_info srf_info.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/srf_info srf_info.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o srf_list.o srf_list.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o srf_list srf_list.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o srf_list srf_list.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/srf_list srf_list.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o hash_exp.o hash_exp.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o hash_exp hash_exp.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o hash_exp hash_exp.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/hash_exp hash_exp.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cram_dump.o cram_dump.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o cram_dump cram_dump.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o cram_dump cram_dump.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/cram_dump cram_dump.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cram_index.o cram_index.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o cram_index cram_index.o ../io_lib/libstaden-read.la -lm 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-lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o scramble scramble.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/scramble scramble.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I../htscodecs -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -c -o scram_merge.o scram_merge.c -/bin/bash ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o scram_merge scram_merge.o 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--mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o cram_filter cram_filter.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 +/bin/sh ../libtool --tag=CC --mode=link gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o cram_filter cram_filter.o ../io_lib/libstaden-read.la -lm -llzma -lbz2 libtool: link: gcc -Wall -g -O2 -ffile-prefix-map=/build/staden-io-lib-1.14.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/cram_filter cram_filter.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 -make[3]: Leaving directory '/build/staden-io-lib-1.14.15/progs' +make[3]: uscita dalla directory «/build/staden-io-lib-1.14.15/progs» Making all in tests -make[3]: Entering directory '/build/staden-io-lib-1.14.15/tests' +make[3]: ingresso nella 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.libs/cram_io_test cram_io_test.o ../io_lib/.libs/libstaden-read.so -lm -llzma -lbz2 -make[3]: Leaving directory '/build/staden-io-lib-1.14.15/tests' -make[3]: Entering directory '/build/staden-io-lib-1.14.15' -make[3]: Leaving directory '/build/staden-io-lib-1.14.15' -make[2]: Leaving directory '/build/staden-io-lib-1.14.15' -make[1]: Leaving directory '/build/staden-io-lib-1.14.15' +make[3]: uscita dalla directory «/build/staden-io-lib-1.14.15/tests» +make[3]: ingresso nella directory «/build/staden-io-lib-1.14.15» +make[3]: uscita dalla directory «/build/staden-io-lib-1.14.15» +make[2]: uscita dalla directory «/build/staden-io-lib-1.14.15» +make[1]: uscita dalla directory «/build/staden-io-lib-1.14.15» debian/rules override_dh_auto_test-indep -make[1]: Entering directory '/build/staden-io-lib-1.14.15' +make[1]: ingresso nella directory «/build/staden-io-lib-1.14.15» echo "Do not run test suite for architecture independent builds" Do not run test suite for architecture independent builds -make[1]: Leaving directory '/build/staden-io-lib-1.14.15' +make[1]: uscita dalla directory «/build/staden-io-lib-1.14.15» dh_auto_test -O--no-parallel -Nstaden-io-lib-examples make -j1 check "TESTSUITEFLAGS=-j1 --verbose" VERBOSE=1 -make[1]: Entering directory '/build/staden-io-lib-1.14.15' +make[1]: ingresso nella directory «/build/staden-io-lib-1.14.15» Making check in io_lib -make[2]: Entering directory '/build/staden-io-lib-1.14.15/io_lib' -make[2]: Nothing to be done for 'check'. -make[2]: Leaving directory '/build/staden-io-lib-1.14.15/io_lib' +make[2]: ingresso nella directory «/build/staden-io-lib-1.14.15/io_lib» +make[2]: Nessuna operazione da eseguire per «check». +make[2]: uscita dalla directory «/build/staden-io-lib-1.14.15/io_lib» Making check in progs -make[2]: Entering directory '/build/staden-io-lib-1.14.15/progs' -make[2]: Nothing to be done for 'check'. -make[2]: Leaving directory '/build/staden-io-lib-1.14.15/progs' +make[2]: ingresso nella directory «/build/staden-io-lib-1.14.15/progs» +make[2]: Nessuna operazione da eseguire per «check». +make[2]: uscita dalla directory «/build/staden-io-lib-1.14.15/progs» Making check in tests -make[2]: Entering directory '/build/staden-io-lib-1.14.15/tests' +make[2]: ingresso nella directory «/build/staden-io-lib-1.14.15/tests» make check-TESTS -make[3]: Entering directory '/build/staden-io-lib-1.14.15/tests' +make[3]: ingresso nella directory «/build/staden-io-lib-1.14.15/tests» PASS: srf2fasta.test PASS: srf2fastq.test PASS: srf_info.test @@ -5663,7 +5706,6 @@ Note this CRAM version is a technology demonstration only. Future versions of Scramble may not be able to read these files. -Unsorted mode enabled ../progs/scramble -t4 -q test.out/longref.cram test.out/longref.sam ./compare_sam.pl test.out/longref.sam ./data/longref.sam PASS: scram_mt40.test @@ -5685,22 +5727,22 @@ =================== All 11 tests passed =================== -make[3]: Leaving directory '/build/staden-io-lib-1.14.15/tests' -make[2]: Leaving directory '/build/staden-io-lib-1.14.15/tests' -make[2]: Entering directory '/build/staden-io-lib-1.14.15' -make[2]: Leaving directory '/build/staden-io-lib-1.14.15' -make[1]: Leaving directory '/build/staden-io-lib-1.14.15' +make[3]: uscita dalla directory «/build/staden-io-lib-1.14.15/tests» +make[2]: uscita dalla directory «/build/staden-io-lib-1.14.15/tests» +make[2]: ingresso nella directory «/build/staden-io-lib-1.14.15» +make[2]: uscita dalla directory «/build/staden-io-lib-1.14.15» +make[1]: uscita dalla directory «/build/staden-io-lib-1.14.15» create-stamp debian/debhelper-build-stamp dh_testroot -O--no-parallel dh_prep -O--no-parallel dh_auto_install -O--no-parallel make -j1 install DESTDIR=/build/staden-io-lib-1.14.15/debian/tmp AM_UPDATE_INFO_DIR=no -make[1]: Entering directory '/build/staden-io-lib-1.14.15' +make[1]: ingresso nella directory «/build/staden-io-lib-1.14.15» Making install in io_lib -make[2]: Entering directory '/build/staden-io-lib-1.14.15/io_lib' -make[3]: Entering directory '/build/staden-io-lib-1.14.15/io_lib' - /bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/lib/arm-linux-gnueabihf' - /bin/bash ../libtool --mode=install /usr/bin/install -c libstaden-read.la '/build/staden-io-lib-1.14.15/debian/tmp/usr/lib/arm-linux-gnueabihf' +make[2]: ingresso nella directory «/build/staden-io-lib-1.14.15/io_lib» +make[3]: ingresso nella directory «/build/staden-io-lib-1.14.15/io_lib» + /usr/bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/lib/arm-linux-gnueabihf' + /bin/sh ../libtool --mode=install /usr/bin/install -c libstaden-read.la '/build/staden-io-lib-1.14.15/debian/tmp/usr/lib/arm-linux-gnueabihf' libtool: install: /usr/bin/install -c .libs/libstaden-read.so.14.1.2 /build/staden-io-lib-1.14.15/debian/tmp/usr/lib/arm-linux-gnueabihf/libstaden-read.so.14.1.2 libtool: install: (cd /build/staden-io-lib-1.14.15/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libstaden-read.so.14.1.2 libstaden-read.so.14 || { rm -f libstaden-read.so.14 && ln -s libstaden-read.so.14.1.2 libstaden-read.so.14; }; }) libtool: install: (cd /build/staden-io-lib-1.14.15/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libstaden-read.so.14.1.2 libstaden-read.so || { rm -f libstaden-read.so && ln -s libstaden-read.so.14.1.2 libstaden-read.so; }; }) @@ -5709,14 +5751,14 @@ libtool: install: chmod 644 /build/staden-io-lib-1.14.15/debian/tmp/usr/lib/arm-linux-gnueabihf/libstaden-read.a libtool: install: ranlib /build/staden-io-lib-1.14.15/debian/tmp/usr/lib/arm-linux-gnueabihf/libstaden-read.a libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf' -make[3]: Nothing to be done for 'install-data-am'. -make[3]: Leaving directory '/build/staden-io-lib-1.14.15/io_lib' -make[2]: Leaving directory '/build/staden-io-lib-1.14.15/io_lib' +make[3]: Nessuna operazione da eseguire per «install-data-am». +make[3]: uscita dalla directory «/build/staden-io-lib-1.14.15/io_lib» +make[2]: uscita dalla directory «/build/staden-io-lib-1.14.15/io_lib» Making install in progs -make[2]: Entering directory '/build/staden-io-lib-1.14.15/progs' -make[3]: Entering directory '/build/staden-io-lib-1.14.15/progs' - /bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/bin' - /bin/bash ../libtool --mode=install /usr/bin/install -c convert_trace makeSCF extract_seq extract_qual extract_fastq index_tar scf_dump scf_info scf_update get_comment hash_tar hash_extract hash_list trace_dump hash_sff append_sff ztr_dump srf_dump_all srf_index_hash srf_extract_linear srf_extract_hash srf2fastq srf2fasta srf_filter srf_info srf_list hash_exp cram_dump cram_index scramble scram_merge scram_pileup scram_flagstat scram_test cram_size cram_filter '/build/staden-io-lib-1.14.15/debian/tmp/usr/bin' +make[2]: ingresso nella directory «/build/staden-io-lib-1.14.15/progs» +make[3]: ingresso nella directory «/build/staden-io-lib-1.14.15/progs» + /usr/bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/bin' + /bin/sh ../libtool --mode=install /usr/bin/install -c convert_trace makeSCF extract_seq extract_qual extract_fastq index_tar scf_dump scf_info scf_update get_comment hash_tar hash_extract hash_list trace_dump hash_sff append_sff ztr_dump srf_dump_all srf_index_hash srf_extract_linear srf_extract_hash srf2fastq srf2fasta srf_filter srf_info srf_list hash_exp cram_dump cram_index scramble scram_merge scram_pileup scram_flagstat scram_test cram_size cram_filter '/build/staden-io-lib-1.14.15/debian/tmp/usr/bin' libtool: warning: '../io_lib/libstaden-read.la' has not been installed in '/usr/lib/arm-linux-gnueabihf' libtool: install: /usr/bin/install -c .libs/convert_trace /build/staden-io-lib-1.14.15/debian/tmp/usr/bin/convert_trace libtool: warning: '../io_lib/libstaden-read.la' has not been installed in '/usr/lib/arm-linux-gnueabihf' @@ -5788,34 +5830,34 @@ libtool: install: /usr/bin/install -c .libs/cram_size /build/staden-io-lib-1.14.15/debian/tmp/usr/bin/cram_size libtool: warning: '../io_lib/libstaden-read.la' has not been installed in '/usr/lib/arm-linux-gnueabihf' libtool: install: /usr/bin/install -c .libs/cram_filter /build/staden-io-lib-1.14.15/debian/tmp/usr/bin/cram_filter -make[3]: Nothing to be done for 'install-data-am'. -make[3]: Leaving directory '/build/staden-io-lib-1.14.15/progs' -make[2]: Leaving directory '/build/staden-io-lib-1.14.15/progs' +make[3]: Nessuna operazione da eseguire per «install-data-am». +make[3]: uscita dalla directory «/build/staden-io-lib-1.14.15/progs» +make[2]: uscita dalla directory «/build/staden-io-lib-1.14.15/progs» Making install in tests -make[2]: Entering directory '/build/staden-io-lib-1.14.15/tests' -make[3]: Entering directory '/build/staden-io-lib-1.14.15/tests' -make[3]: Nothing to be done for 'install-exec-am'. -make[3]: Nothing to be done for 'install-data-am'. -make[3]: Leaving directory '/build/staden-io-lib-1.14.15/tests' -make[2]: Leaving directory '/build/staden-io-lib-1.14.15/tests' -make[2]: Entering directory '/build/staden-io-lib-1.14.15' -make[3]: Entering directory '/build/staden-io-lib-1.14.15' - /bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/bin' +make[2]: ingresso nella directory «/build/staden-io-lib-1.14.15/tests» +make[3]: ingresso nella directory «/build/staden-io-lib-1.14.15/tests» +make[3]: Nessuna operazione da eseguire per «install-exec-am». +make[3]: Nessuna operazione da eseguire per «install-data-am». +make[3]: uscita dalla directory «/build/staden-io-lib-1.14.15/tests» +make[2]: uscita dalla directory «/build/staden-io-lib-1.14.15/tests» +make[2]: ingresso nella directory «/build/staden-io-lib-1.14.15» +make[3]: ingresso nella directory «/build/staden-io-lib-1.14.15» + /usr/bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/bin' /usr/bin/install -c io_lib-config '/build/staden-io-lib-1.14.15/debian/tmp/usr/bin' - /bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/share/man/man1' + /usr/bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 man/man1/srf_index_hash.1 man/man1/srf_info.1 man/man1/srf_list.1 man/man1/srf2fasta.1 man/man1/srf2fastq.1 man/man1/scramble.1 '/build/staden-io-lib-1.14.15/debian/tmp/usr/share/man/man1' - /bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/share/man/man3' + /usr/bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/share/man/man3' /usr/bin/install -c -m 644 man/man3/read_scf_header.3 man/man3/read_allocate.3 man/man3/ExperimentFile.3 man/man3/write_reading.3 man/man3/write_scf.3 man/man3/read_deallocate.3 man/man3/fwrite_reading.3 man/man3/read2scf.3 man/man3/scf2read.3 man/man3/fwrite_scf.3 man/man3/write_scf_header.3 man/man3/read_reading.3 man/man3/read_scf.3 man/man3/exp2read.3 man/man3/fread_reading.3 man/man3/read2exp.3 man/man3/fread_scf.3 '/build/staden-io-lib-1.14.15/debian/tmp/usr/share/man/man3' - /bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/share/man/man4' + /usr/bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/share/man/man4' /usr/bin/install -c -m 644 man/man4/Read.4 '/build/staden-io-lib-1.14.15/debian/tmp/usr/share/man/man4' - /bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/include/io_lib' + /usr/bin/mkdir -p '/build/staden-io-lib-1.14.15/debian/tmp/usr/include/io_lib' /usr/bin/install -c -m 644 io_lib/Read.h io_lib/scf_extras.h io_lib/translate.h io_lib/abi.h io_lib/fpoint.h io_lib/seqIOABI.h io_lib/alf.h io_lib/expFileIO.h io_lib/plain.h io_lib/scf.h io_lib/sff.h io_lib/array.h io_lib/compress.h io_lib/error.h io_lib/mach-io.h io_lib/misc.h io_lib/open_trace_file.h io_lib/tar_format.h io_lib/traceType.h io_lib/xalloc.h io_lib/mFILE.h io_lib/stdio_hack.h io_lib/vlen.h io_lib/hash_table.h io_lib/jenkins_lookup3.h io_lib/os.h io_lib/compression.h io_lib/ztr.h io_lib/deflate_interlaced.h io_lib/srf.h io_lib/pooled_alloc.h io_lib/cram.h io_lib/cram_structs.h io_lib/cram_io.h io_lib/cram_encode.h io_lib/cram_decode.h io_lib/cram_codecs.h io_lib/cram_index.h io_lib/cram_stats.h io_lib/cram_bambam.h '/build/staden-io-lib-1.14.15/debian/tmp/usr/include/io_lib' /usr/bin/install -c -m 644 io_lib/zfio.h io_lib/scram.h io_lib/bam.h io_lib/sam_header.h io_lib/dstring.h io_lib/string_alloc.h io_lib/md5.h io_lib/thread_pool.h io_lib/binning.h io_lib/bgzip.h io_lib/version.h '/build/staden-io-lib-1.14.15/debian/tmp/usr/include/io_lib' -make[3]: Leaving directory '/build/staden-io-lib-1.14.15' -make[2]: Leaving directory '/build/staden-io-lib-1.14.15' -make[1]: Leaving directory '/build/staden-io-lib-1.14.15' +make[3]: uscita dalla directory «/build/staden-io-lib-1.14.15» +make[2]: uscita dalla directory «/build/staden-io-lib-1.14.15» +make[1]: uscita dalla directory «/build/staden-io-lib-1.14.15» debian/rules override_dh_install-arch -make[1]: Entering directory '/build/staden-io-lib-1.14.15' +make[1]: ingresso nella directory «/build/staden-io-lib-1.14.15» dh_install -a mkdir -p /build/staden-io-lib-1.14.15/debian/libstaden-read-dev/usr/bin mv /build/staden-io-lib-1.14.15/debian/staden-io-lib-utils/usr/bin/io_lib-config /build/staden-io-lib-1.14.15/debian/libstaden-read-dev/usr/bin @@ -5849,9 +5891,9 @@ cp /build/staden-io-lib-1.14.15/io_lib_config.h /build/staden-io-lib-1.14.15/debian/libstaden-read-dev/usr/include/io_lib/ # make sure io_lib-config --libs will not return -pie (see #825461) find debian/*/usr/bin -name io_lib-config -exec sed -i -e 's/ *-fPIE//' -e 's/ *-pie//' \{\} \; -make[1]: Leaving directory '/build/staden-io-lib-1.14.15' +make[1]: uscita dalla directory «/build/staden-io-lib-1.14.15» debian/rules override_dh_install-indep -make[1]: Entering directory '/build/staden-io-lib-1.14.15' +make[1]: ingresso nella directory «/build/staden-io-lib-1.14.15» dh_install -i mkdir -p debian/staden-io-lib-examples/usr/share/doc/staden-io-lib/test # fix path to staden-io-lib executable in examples @@ -5860,7 +5902,7 @@ done # remove autogenerated big data files rm -f debian/staden-io-lib-examples/usr/share/doc/staden-io-lib/test/data/ce\#*sorted.sam -make[1]: Leaving directory '/build/staden-io-lib-1.14.15' +make[1]: uscita dalla directory «/build/staden-io-lib-1.14.15» dh_installdocs -O--no-parallel dh_installchangelogs -O--no-parallel dh_installman -O--no-parallel @@ -5871,10 +5913,10 @@ dh_strip_nondeterminism -O--no-parallel dh_compress -O--no-parallel debian/rules override_dh_fixperms-indep -make[1]: Entering directory '/build/staden-io-lib-1.14.15' +make[1]: ingresso nella directory «/build/staden-io-lib-1.14.15» dh_fixperms chmod +x debian/staden-io-lib-examples/usr/share/doc/staden-io-lib/test/*.test debian/staden-io-lib-examples/usr/share/doc/staden-io-lib/test/*.pl -make[1]: Leaving directory '/build/staden-io-lib-1.14.15' +make[1]: uscita dalla directory «/build/staden-io-lib-1.14.15» dh_fixperms -O--no-parallel -Nstaden-io-lib-examples dh_missing -O--no-parallel -Nstaden-io-lib-examples dh_dwz -a -O--no-parallel @@ -5885,12 +5927,12 @@ dh_gencontrol -O--no-parallel dh_md5sums -O--no-parallel dh_builddeb -O--no-parallel -dpkg-deb: building package 'staden-io-lib-utils' in '../staden-io-lib-utils_1.14.15-1_armhf.deb'. -dpkg-deb: building package 'libstaden-read14-dbgsym' in '../libstaden-read14-dbgsym_1.14.15-1_armhf.deb'. -dpkg-deb: building package 'libstaden-read-dev' in '../libstaden-read-dev_1.14.15-1_armhf.deb'. -dpkg-deb: building package 'staden-io-lib-utils-dbgsym' in '../staden-io-lib-utils-dbgsym_1.14.15-1_armhf.deb'. -dpkg-deb: building package 'staden-io-lib-examples' in '../staden-io-lib-examples_1.14.15-1_all.deb'. -dpkg-deb: building package 'libstaden-read14' in '../libstaden-read14_1.14.15-1_armhf.deb'. +dpkg-deb: generazione del pacchetto "staden-io-lib-utils" in "../staden-io-lib-utils_1.14.15-1_armhf.deb". +dpkg-deb: generazione del pacchetto "libstaden-read14-dbgsym" in "../libstaden-read14-dbgsym_1.14.15-1_armhf.deb". +dpkg-deb: generazione del pacchetto "libstaden-read-dev" in "../libstaden-read-dev_1.14.15-1_armhf.deb". +dpkg-deb: generazione del pacchetto "staden-io-lib-examples" in "../staden-io-lib-examples_1.14.15-1_all.deb". +dpkg-deb: generazione del pacchetto "staden-io-lib-utils-dbgsym" in "../staden-io-lib-utils-dbgsym_1.14.15-1_armhf.deb". +dpkg-deb: generazione del pacchetto "libstaden-read14" in "../libstaden-read14_1.14.15-1_armhf.deb". dpkg-genbuildinfo --build=binary -O../staden-io-lib_1.14.15-1_armhf.buildinfo dpkg-genchanges --build=binary -O../staden-io-lib_1.14.15-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -5898,12 +5940,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/26191/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/26191/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/21001 and its subdirectories -I: Current time: Sat May 13 09:38:56 -12 2023 -I: pbuilder-time-stamp: 1684013936 +I: removing directory /srv/workspace/pbuilder/26191 and its subdirectories +I: Current time: Sun May 14 12:24:58 +14 2023 +I: pbuilder-time-stamp: 1684016698