Diff of the two buildlogs: -- --- b1/build.log 2023-05-13 14:53:49.719850268 +0000 +++ b2/build.log 2023-05-13 15:01:13.916370207 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Jun 14 09:12:14 -12 2024 -I: pbuilder-time-stamp: 1718399534 +I: Current time: Sun May 14 04:53:54 +14 2023 +I: pbuilder-time-stamp: 1683989634 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 [./sambamba_1.0+dfsg.orig.tar.xz] I: copying [./sambamba_1.0+dfsg-1.debian.tar.xz] I: Extracting source -gpgv: Signature made Wed Jan 18 23:30:28 2023 -12 +gpgv: Signature made Fri Jan 20 01:30:28 2023 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -28,135 +28,167 @@ dpkg-source: info: applying 2to3.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2377425/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/497675/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 +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 May 14 04:54 /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/497675/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/497675/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='bookworm' - HOME='/root' - HOST_ARCH='amd64' + 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]="x86_64-pc-linux-gnu") + 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=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='c4e3c51370f142cf852340a640af44fd' - 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='2377425' - PS1='# ' - PS2='> ' + INVOCATION_ID=2106b55855284f19aff17bfa1829bd0f + 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=497675 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.77oKKL1S/pbuilderrc_8CSc --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.77oKKL1S/b1 --logfile b1/build.log sambamba_1.0+dfsg-1.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/r-b-build.77oKKL1S/pbuilderrc_KedD --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.77oKKL1S/b2 --logfile b2/build.log --extrapackages usrmerge sambamba_1.0+dfsg-1.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 6.1.0-0.deb11.6-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.15-1~bpo11+1 (2023-03-16) x86_64 GNU/Linux + Linux i-capture-the-hostname 5.10.0-22-amd64 #1 SMP Debian 5.10.178-3 (2023-04-22) x86_64 GNU/Linux I: ls -l /bin total 5632 - -rwxr-xr-x 1 root root 1265648 Apr 23 2023 bash - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 - -rwxr-xr-x 3 root root 39224 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 39224 Sep 18 2022 bzip2 - -rwxr-xr-x 1 root root 14568 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 44016 Sep 20 2022 cat - -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp - -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod - -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown - -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp - -rwxr-xr-x 1 root root 125640 Jan 5 2023 dash - -rwxr-xr-x 1 root root 121904 Sep 20 2022 date - -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd - -rwxr-xr-x 1 root root 102200 Sep 20 2022 df - -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir - -rwxr-xr-x 1 root root 88656 Mar 22 2023 dmesg - lrwxrwxrwx 1 root root 8 Dec 19 2022 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Dec 19 2022 domainname -> hostname - -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo - -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep - -rwxr-xr-x 1 root root 35664 Sep 20 2022 false - -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep - -rwxr-xr-x 1 root root 85600 Mar 22 2023 findmnt - -rwsr-xr-x 1 root root 35128 Mar 22 2023 fusermount - -rwxr-xr-x 1 root root 203152 Jan 24 2023 grep - -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip - -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe - -rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip - -rwxr-xr-x 1 root root 22680 Dec 19 2022 hostname - -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln - -rwxr-xr-x 1 root root 53024 Mar 23 2023 login - -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls - -rwxr-xr-x 1 root root 207168 Mar 22 2023 lsblk - -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir - -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod - -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp - -rwxr-xr-x 1 root root 59712 Mar 22 2023 more - -rwsr-xr-x 1 root root 59704 Mar 22 2023 mount - -rwxr-xr-x 1 root root 18744 Mar 22 2023 mountpoint - -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv - lrwxrwxrwx 1 root root 8 Dec 19 2022 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 2 2023 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd - lrwxrwxrwx 1 root root 4 Apr 23 2023 rbash -> bash - -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink - -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm - -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir - -rwxr-xr-x 1 root root 27560 Nov 2 2022 run-parts - -rwxr-xr-x 1 root root 126424 Jan 5 2023 sed - lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash - -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep - -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty - -rwsr-xr-x 1 root root 72000 Mar 22 2023 su - -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync - -rwxr-xr-x 1 root root 531984 Apr 6 2023 tar - -rwxr-xr-x 1 root root 14520 Nov 2 2022 tempfile - -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch - -rwxr-xr-x 1 root root 35664 Sep 20 2022 true - -rwxr-xr-x 1 root root 14568 Mar 22 2023 ulockmgr_server - -rwsr-xr-x 1 root root 35128 Mar 22 2023 umount - -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname - -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress - -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir - -rwxr-xr-x 1 root root 72024 Mar 22 2023 wdctl - lrwxrwxrwx 1 root root 8 Dec 19 2022 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/2377425/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1265648 Apr 24 11:23 bash + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bunzip2 + -rwxr-xr-x 3 root root 39224 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 39224 Sep 19 2022 bzip2 + -rwxr-xr-x 1 root root 14568 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 44016 Sep 21 2022 cat + -rwxr-xr-x 1 root root 68656 Sep 21 2022 chgrp + -rwxr-xr-x 1 root root 64496 Sep 21 2022 chmod + -rwxr-xr-x 1 root root 72752 Sep 21 2022 chown + -rwxr-xr-x 1 root root 151152 Sep 21 2022 cp + -rwxr-xr-x 1 root root 125640 Jan 6 03:20 dash + -rwxr-xr-x 1 root root 121904 Sep 21 2022 date + -rwxr-xr-x 1 root root 89240 Sep 21 2022 dd + -rwxr-xr-x 1 root root 102200 Sep 21 2022 df + -rwxr-xr-x 1 root root 151344 Sep 21 2022 dir + -rwxr-xr-x 1 root root 88656 Mar 24 00:02 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 43856 Sep 21 2022 echo + -rwxr-xr-x 1 root root 41 Jan 25 04:43 egrep + -rwxr-xr-x 1 root root 35664 Sep 21 2022 false + -rwxr-xr-x 1 root root 41 Jan 25 04:43 fgrep + -rwxr-xr-x 1 root root 85600 Mar 24 00:02 findmnt + -rwsr-xr-x 1 root root 35128 Mar 23 22:35 fusermount + -rwxr-xr-x 1 root root 203152 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 98136 Apr 10 2022 gzip + -rwxr-xr-x 1 root root 22680 Dec 20 03:33 hostname + -rwxr-xr-x 1 root root 72824 Sep 21 2022 ln + -rwxr-xr-x 1 root root 53024 Mar 24 02:40 login + -rwxr-xr-x 1 root root 151344 Sep 21 2022 ls + -rwxr-xr-x 1 root root 207168 Mar 24 00:02 lsblk + -rwxr-xr-x 1 root root 97552 Sep 21 2022 mkdir + -rwxr-xr-x 1 root root 72912 Sep 21 2022 mknod + -rwxr-xr-x 1 root root 43952 Sep 21 2022 mktemp + -rwxr-xr-x 1 root root 59712 Mar 24 00:02 more + -rwsr-xr-x 1 root root 59704 Mar 24 00:02 mount + -rwxr-xr-x 1 root root 18744 Mar 24 00:02 mountpoint + -rwxr-xr-x 1 root root 142968 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 43952 Sep 21 2022 pwd + lrwxrwxrwx 1 root root 4 Apr 24 11:23 rbash -> bash + -rwxr-xr-x 1 root root 52112 Sep 21 2022 readlink + -rwxr-xr-x 1 root root 72752 Sep 21 2022 rm + -rwxr-xr-x 1 root root 56240 Sep 21 2022 rmdir + -rwxr-xr-x 1 root root 27560 Nov 3 2022 run-parts + -rwxr-xr-x 1 root root 126424 Jan 6 09:55 sed + lrwxrwxrwx 1 root root 9 May 14 04:54 sh -> /bin/bash + -rwxr-xr-x 1 root root 43888 Sep 21 2022 sleep + -rwxr-xr-x 1 root root 85008 Sep 21 2022 stty + -rwsr-xr-x 1 root root 72000 Mar 24 00:02 su + -rwxr-xr-x 1 root root 39824 Sep 21 2022 sync + -rwxr-xr-x 1 root root 531984 Apr 7 04:25 tar + -rwxr-xr-x 1 root root 14520 Nov 3 2022 tempfile + -rwxr-xr-x 1 root root 109616 Sep 21 2022 touch + -rwxr-xr-x 1 root root 35664 Sep 21 2022 true + -rwxr-xr-x 1 root root 14568 Mar 23 22:35 ulockmgr_server + -rwsr-xr-x 1 root root 35128 Mar 24 00:02 umount + -rwxr-xr-x 1 root root 43888 Sep 21 2022 uname + -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress + -rwxr-xr-x 1 root root 151344 Sep 21 2022 vdir + -rwxr-xr-x 1 root root 72024 Mar 24 00:02 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/497675/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -304,7 +336,7 @@ Get: 79 http://deb.debian.org/debian bookworm/main amd64 pkgconf amd64 1.8.1-1 [25.9 kB] Get: 80 http://deb.debian.org/debian bookworm/main amd64 pkg-config amd64 1.8.1-1 [13.7 kB] Get: 81 http://deb.debian.org/debian bookworm/main amd64 shunit2 all 2.1.8-3 [33.6 kB] -Fetched 74.5 MB in 2s (41.1 MB/s) +Fetched 74.5 MB in 14s (5393 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19596 files and directories currently installed.) @@ -644,8 +676,19 @@ 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/sambamba-1.0+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 > ../sambamba_1.0+dfsg-1_source.changes +I: user script /srv/workspace/pbuilder/497675/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/497675/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/sambamba-1.0+dfsg/ && 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 > ../sambamba_1.0+dfsg-1_source.changes dpkg-buildpackage: info: source package sambamba dpkg-buildpackage: info: source version 1.0+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -689,7 +732,7 @@ Run-time dependency liblz4 found: YES 1.9.4 Run-time dependency zlib found: YES 1.2.13 Program ldc2 found: YES (/usr/bin/ldc2) -Program mkdir found: YES (/bin/mkdir) +Program mkdir found: YES (/usr/bin/mkdir) WARNING: You should add the boolean check kwarg to the run_command call. It currently defaults to false, but it will default to true in future releases of meson. @@ -712,110 +755,119 @@ Found ninja-1.11.1 at /usr/bin/ninja make[1]: Leaving directory '/build/sambamba-1.0+dfsg' dh_auto_build -O--buildsystem=meson - cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 ninja -j16 -v -[1/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_intervaltree.d.o.deps -of=sambamba.p/sambamba_utils_common_intervaltree.d.o -c ../sambamba/utils/common/intervaltree.d -[2/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_file.d.o.deps -of=sambamba.p/sambamba_utils_common_file.d.o -c ../sambamba/utils/common/file.d + cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 ninja -j15 -v +[1/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_file.d.o.deps -of=sambamba.p/sambamba_utils_common_file.d.o -c ../sambamba/utils/common/file.d +[2/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_intervaltree.d.o.deps -of=sambamba.p/sambamba_utils_common_intervaltree.d.o -c ../sambamba/utils/common/intervaltree.d [3/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_main.d.o.deps -of=sambamba.p/sambamba_main.d.o -c ../sambamba/main.d -[4/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_pratt_parser.d.o.deps -of=sambamba.p/sambamba_utils_common_pratt_parser.d.o -c ../sambamba/utils/common/pratt_parser.d +[4/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_fixbins.d.o.deps -of=sambamba.p/sambamba_fixbins.d.o -c ../sambamba/fixbins.d [5/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_markdup2.d.o.deps -of=sambamba.p/sambamba_markdup2.d.o -c ../sambamba/markdup2.d -[6/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_overwrite.d.o.deps -of=sambamba.p/sambamba_utils_common_overwrite.d.o -c ../sambamba/utils/common/overwrite.d -[7/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_index.d.o.deps -of=sambamba.p/sambamba_index.d.o -c ../sambamba/index.d -[8/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_fixbins.d.o.deps -of=sambamba.p/sambamba_fixbins.d.o -c ../sambamba/fixbins.d -[9/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_readstorage.d.o.deps -of=sambamba.p/sambamba_utils_common_readstorage.d.o -c ../sambamba/utils/common/readstorage.d +[6/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_index.d.o.deps -of=sambamba.p/sambamba_index.d.o -c ../sambamba/index.d +[7/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_pratt_parser.d.o.deps -of=sambamba.p/sambamba_utils_common_pratt_parser.d.o -c ../sambamba/utils/common/pratt_parser.d +[8/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_readstorage.d.o.deps -of=sambamba.p/sambamba_utils_common_readstorage.d.o -c ../sambamba/utils/common/readstorage.d +[9/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_overwrite.d.o.deps -of=sambamba.p/sambamba_utils_common_overwrite.d.o -c ../sambamba/utils/common/overwrite.d [10/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_view_alignmentrangeprocessor.d.o.deps -of=sambamba.p/sambamba_utils_view_alignmentrangeprocessor.d.o -c ../sambamba/utils/view/alignmentrangeprocessor.d -[11/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_validate.d.o.deps -of=sambamba.p/sambamba_validate.d.o -c ../sambamba/validate.d -[12/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_tmpdir.d.o.deps -of=sambamba.p/sambamba_utils_common_tmpdir.d.o -c ../sambamba/utils/common/tmpdir.d -[13/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_base.d.o.deps -of=sambamba.p/BioD_bio_core_base.d.o -c ../BioD/bio/core/base.d -[14/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_block.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_block.d.o -c ../BioD/bio/core/bgzf/block.d -[15/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_chunk.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_chunk.d.o -c ../BioD/bio/core/bgzf/chunk.d -[16/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_compress.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_compress.d.o -c ../BioD/bio/core/bgzf/compress.d -[17/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_constants.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_constants.d.o -c ../BioD/bio/core/bgzf/constants.d -[18/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_subsample.d.o.deps -of=sambamba.p/sambamba_subsample.d.o -c ../sambamba/subsample.d -[19/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_outputstream.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_outputstream.d.o -c ../BioD/bio/core/bgzf/outputstream.d -[20/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_slice.d.o.deps -of=sambamba.p/sambamba_slice.d.o -c ../sambamba/slice.d -[21/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_ldc_gc_workaround.d.o.deps -of=sambamba.p/sambamba_utils_common_ldc_gc_workaround.d.o -c ../sambamba/utils/common/ldc_gc_workaround.d -[22/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_call.d.o.deps -of=sambamba.p/BioD_bio_core_call.d.o -c ../BioD/bio/core/call.d -[23/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_genotype.d.o.deps -of=sambamba.p/BioD_bio_core_genotype.d.o -c ../BioD/bio/core/genotype.d -[24/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_inputstream.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_inputstream.d.o -c ../BioD/bio/core/bgzf/inputstream.d -[25/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_decompress.d.o.deps -of=sambamba.p/BioD_bio_core_decompress.d.o -c ../BioD/bio/core/decompress.d -[26/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_kmer.d.o.deps -of=sambamba.p/BioD_bio_core_kmer.d.o -c ../BioD/bio/core/kmer.d -[27/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_region.d.o.deps -of=sambamba.p/BioD_bio_core_region.d.o -c ../BioD/bio/core/region.d -[28/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_progressbar.d.o.deps -of=sambamba.p/sambamba_utils_common_progressbar.d.o -c ../sambamba/utils/common/progressbar.d -[29/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_tinymap.d.o.deps -of=sambamba.p/BioD_bio_core_tinymap.d.o -c ../BioD/bio/core/tinymap.d +[11/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_tmpdir.d.o.deps -of=sambamba.p/sambamba_utils_common_tmpdir.d.o -c ../sambamba/utils/common/tmpdir.d +[12/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_validate.d.o.deps -of=sambamba.p/sambamba_validate.d.o -c ../sambamba/validate.d +[13/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_subsample.d.o.deps -of=sambamba.p/sambamba_subsample.d.o -c ../sambamba/subsample.d +[14/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_base.d.o.deps -of=sambamba.p/BioD_bio_core_base.d.o -c ../BioD/bio/core/base.d +[15/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_ldc_gc_workaround.d.o.deps -of=sambamba.p/sambamba_utils_common_ldc_gc_workaround.d.o -c ../sambamba/utils/common/ldc_gc_workaround.d +[16/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_chunk.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_chunk.d.o -c ../BioD/bio/core/bgzf/chunk.d +[17/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_compress.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_compress.d.o -c ../BioD/bio/core/bgzf/compress.d +[18/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_constants.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_constants.d.o -c ../BioD/bio/core/bgzf/constants.d +[19/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_slice.d.o.deps -of=sambamba.p/sambamba_slice.d.o -c ../sambamba/slice.d +[20/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_block.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_block.d.o -c ../BioD/bio/core/bgzf/block.d +[21/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_bed.d.o.deps -of=sambamba.p/sambamba_utils_common_bed.d.o -c ../sambamba/utils/common/bed.d +[22/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_progressbar.d.o.deps -of=sambamba.p/sambamba_utils_common_progressbar.d.o -c ../sambamba/utils/common/progressbar.d +[23/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_bgzf_outputstream.d.o.deps -of=sambamba.p/BioD_bio_core_bgzf_outputstream.d.o -c ../BioD/bio/core/bgzf/outputstream.d +[24/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_genotype.d.o.deps -of=sambamba.p/BioD_bio_core_genotype.d.o -c ../BioD/bio/core/genotype.d +[25/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_call.d.o.deps -of=sambamba.p/BioD_bio_core_call.d.o -c ../BioD/bio/core/call.d +[26/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_core_decompress.d.o.deps -of=sambamba.p/BioD_bio_core_decompress.d.o -c ../BioD/bio/core/decompress.d +[27/131] ldc2 -I=sambamba.p -I=. -I=.. 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-boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_experimental_hts_pileup.d.o.deps -of=sambamba.p/BioD_bio_std_experimental_hts_pileup.d.o -c ../BioD/bio/std/experimental/hts/pileup.d +[55/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_genotype_maf.d.o.deps -of=sambamba.p/BioD_bio_std_genotype_maf.d.o -c ../BioD/bio/std/genotype/maf.d +[56/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_file_fastq.d.o.deps -of=sambamba.p/BioD_bio_std_file_fastq.d.o -c ../BioD/bio/std/file/fastq.d +[57/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_experimental_hts_unpack.d.o.deps -of=sambamba.p/BioD_bio_std_experimental_hts_unpack.d.o -c ../BioD/bio/std/experimental/hts/unpack.d +[58/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_bai_bin.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_bai_bin.d.o -c ../BioD/bio/std/hts/bam/bai/bin.d [59/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_abstractreader.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_abstractreader.d.o -c ../BioD/bio/std/hts/bam/abstractreader.d -[60/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_baifile.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_baifile.d.o -c ../BioD/bio/std/hts/bam/baifile.d -[61/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_baseinfo.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_baseinfo.d.o -c ../BioD/bio/std/hts/bam/baseinfo.d -[62/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_constants.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_constants.d.o -c ../BioD/bio/std/hts/bam/constants.d -[63/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_md_core.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_md_core.d.o -c ../BioD/bio/std/hts/bam/md/core.d +[60/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_merge.d.o.deps -of=sambamba.p/sambamba_merge.d.o -c ../sambamba/merge.d +[61/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_baifile.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_baifile.d.o -c ../BioD/bio/std/hts/bam/baifile.d +[62/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_baseinfo.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_baseinfo.d.o -c ../BioD/bio/std/hts/bam/baseinfo.d +[63/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_constants.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_constants.d.o -c ../BioD/bio/std/hts/bam/constants.d [64/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_cigar.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_cigar.d.o -c ../BioD/bio/std/hts/bam/cigar.d -[65/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_merge.d.o.deps -of=sambamba.p/sambamba_merge.d.o -c ../sambamba/merge.d +[65/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_md_core.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_md_core.d.o -c ../BioD/bio/std/hts/bam/md/core.d [66/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_md_parse.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_md_parse.d.o -c ../BioD/bio/std/hts/bam/md/parse.d ../BioD/bio/std/hts/bam/md/parse.d(49): Deprecation: returning `this._cached_front` escapes a reference to parameter `this` ../BioD/bio/std/hts/bam/md/parse.d(48): perhaps annotate the function with `return` ../BioD/bio/std/hts/bam/md/parse.d(53): Deprecation: returning `this._cached_back` escapes a reference to parameter `this` ../BioD/bio/std/hts/bam/md/parse.d(52): perhaps annotate the function with `return` -[67/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_md_reconstruct.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_md_reconstruct.d.o -c ../BioD/bio/std/hts/bam/md/reconstruct.d -[68/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_pileup.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_pileup.d.o -c ../BioD/bio/std/hts/bam/pileup.d -[69/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_experimental_hts_bgzf.d.o.deps -of=sambamba.p/BioD_bio_std_experimental_hts_bgzf.d.o -c ../BioD/bio/std/experimental/hts/bgzf.d +[67/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_experimental_hts_bgzf.d.o.deps -of=sambamba.p/BioD_bio_std_experimental_hts_bgzf.d.o -c ../BioD/bio/std/experimental/hts/bgzf.d ../BioD/bio/std/experimental/hts/bgzf.d(91): Deprecation: package bio.core.utils is not accessible here, perhaps add 'static import bio.core.utils;' ../BioD/bio/std/experimental/hts/bgzf.d(91): Deprecation: module bio.core.utils.zlib is not accessible here, perhaps add 'static import bio.core.utils.zlib;' -[70/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_experimental_hts_bam_reader.d.o.deps -of=sambamba.p/BioD_bio_std_experimental_hts_bam_reader.d.o -c ../BioD/bio/std/experimental/hts/bam/reader.d -[71/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_sort.d.o.deps -of=sambamba.p/sambamba_sort.d.o -c ../sambamba/sort.d -[72/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_file_fai.d.o.deps -of=sambamba.p/BioD_bio_std_file_fai.d.o -c ../BioD/bio/std/file/fai.d -[73/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_readrange.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_readrange.d.o -c ../BioD/bio/std/hts/bam/readrange.d -[74/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_bai_indexing.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_bai_indexing.d.o -c ../BioD/bio/std/hts/bam/bai/indexing.d -[75/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_region.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_region.d.o -c ../BioD/bio/std/hts/bam/region.d -[76/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_referenceinfo.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_referenceinfo.d.o -c ../BioD/bio/std/hts/bam/referenceinfo.d -[77/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_file_fasta.d.o.deps -of=sambamba.p/BioD_bio_std_file_fasta.d.o -c ../BioD/bio/std/file/fasta.d -[78/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_md_operation.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_md_operation.d.o -c ../BioD/bio/std/hts/bam/md/operation.d +[68/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_sort.d.o.deps -of=sambamba.p/sambamba_sort.d.o -c ../sambamba/sort.d +[69/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_md_reconstruct.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_md_reconstruct.d.o -c ../BioD/bio/std/hts/bam/md/reconstruct.d +[70/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_pileup.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_pileup.d.o -c ../BioD/bio/std/hts/bam/pileup.d +[71/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_experimental_hts_bam_reader.d.o.deps -of=sambamba.p/BioD_bio_std_experimental_hts_bam_reader.d.o -c ../BioD/bio/std/experimental/hts/bam/reader.d +[72/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_file_fasta.d.o.deps -of=sambamba.p/BioD_bio_std_file_fasta.d.o -c ../BioD/bio/std/file/fasta.d +[73/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_file_fai.d.o.deps -of=sambamba.p/BioD_bio_std_file_fai.d.o -c ../BioD/bio/std/file/fai.d +[74/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_readrange.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_readrange.d.o -c ../BioD/bio/std/hts/bam/readrange.d +[75/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_bai_indexing.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_bai_indexing.d.o -c ../BioD/bio/std/hts/bam/bai/indexing.d +[76/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_region.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_region.d.o -c ../BioD/bio/std/hts/bam/region.d +[77/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_genotype_snp.d.o.deps -of=sambamba.p/BioD_bio_std_genotype_snp.d.o -c ../BioD/bio/std/genotype/snp.d +[78/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_referenceinfo.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_referenceinfo.d.o -c ../BioD/bio/std/hts/bam/referenceinfo.d +[79/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_filtering.d.o.deps -of=sambamba.p/sambamba_utils_common_filtering.d.o -c ../sambamba/utils/common/filtering.d +[80/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_reference.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_reference.d.o -c ../BioD/bio/std/hts/bam/reference.d +[81/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_splitter.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_splitter.d.o -c ../BioD/bio/std/hts/bam/splitter.d +[82/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_validation_samheader.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_validation_samheader.d.o -c ../BioD/bio/std/hts/bam/validation/samheader.d +[83/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_randomaccessmanager.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_randomaccessmanager.d.o -c ../BioD/bio/std/hts/bam/randomaccessmanager.d +[84/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_markdup.d.o.deps -of=sambamba.p/sambamba_markdup.d.o -c ../sambamba/markdup.d +[85/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_iontorrent_flowindex.d.o.deps -of=sambamba.p/BioD_bio_std_hts_iontorrent_flowindex.d.o -c ../BioD/bio/std/hts/iontorrent/flowindex.d +[86/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_md_operation.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_md_operation.d.o -c ../BioD/bio/std/hts/bam/md/operation.d ../BioD/bio/std/hts/bam/md/operation.d(57): Deprecation: returning `this._match` escapes a reference to parameter `this` ../BioD/bio/std/hts/bam/md/operation.d(56): perhaps annotate the function with `return` ../BioD/bio/std/hts/bam/md/operation.d(72): Deprecation: returning `this._deletion` escapes a reference to parameter `this` ../BioD/bio/std/hts/bam/md/operation.d(71): perhaps annotate the function with `return` -[79/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_splitter.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_splitter.d.o -c ../BioD/bio/std/hts/bam/splitter.d -[80/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_reference.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_reference.d.o -c ../BioD/bio/std/hts/bam/reference.d -[81/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_randomaccessmanager.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_randomaccessmanager.d.o -c ../BioD/bio/std/hts/bam/randomaccessmanager.d -[82/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_iontorrent_flowindex.d.o.deps -of=sambamba.p/BioD_bio_std_hts_iontorrent_flowindex.d.o -c ../BioD/bio/std/hts/iontorrent/flowindex.d -[83/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_genotype_snp.d.o.deps -of=sambamba.p/BioD_bio_std_genotype_snp.d.o -c ../BioD/bio/std/genotype/snp.d -[84/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_validation_samheader.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_validation_samheader.d.o -c ../BioD/bio/std/hts/bam/validation/samheader.d -[85/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_writer.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_writer.d.o -c ../BioD/bio/std/hts/bam/writer.d -[86/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_view.d.o.deps -of=sambamba.p/sambamba_view.d.o -c ../sambamba/view.d -[87/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_filtering.d.o.deps -of=sambamba.p/sambamba_utils_common_filtering.d.o -c ../sambamba/utils/common/filtering.d -[88/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_snpcallers_maq.d.o.deps -of=sambamba.p/BioD_bio_std_hts_snpcallers_maq.d.o -c ../BioD/bio/std/hts/snpcallers/maq.d -[89/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_snpcallers_simple.d.o.deps -of=sambamba.p/BioD_bio_std_hts_snpcallers_simple.d.o -c ../BioD/bio/std/hts/snpcallers/simple.d -[90/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_utils_array.d.o.deps -of=sambamba.p/BioD_bio_std_hts_utils_array.d.o -c ../BioD/bio/std/hts/utils/array.d -[91/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_utils_graph.d.o.deps -of=sambamba.p/BioD_bio_std_hts_utils_graph.d.o -c ../BioD/bio/std/hts/utils/graph.d -[92/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_sam_utils_recordparser.d.o.deps -of=sambamba.p/BioD_bio_std_hts_sam_utils_recordparser.d.o -c ../BioD/bio/std/hts/sam/utils/recordparser.d +[87/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_writer.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_writer.d.o -c ../BioD/bio/std/hts/bam/writer.d +[88/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_view.d.o.deps -of=sambamba.p/sambamba_view.d.o -c ../sambamba/view.d +[89/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_depth.d.o.deps -of=sambamba.p/sambamba_depth.d.o -c ../sambamba/depth.d +../BioD/bio/std/hts/bam/md/parse.d(49): Deprecation: returning `this._cached_front` escapes a reference to parameter `this` +../BioD/bio/std/hts/bam/md/parse.d(48): perhaps annotate the function with `return` +../BioD/bio/std/hts/bam/md/parse.d(53): Deprecation: returning `this._cached_back` escapes a reference to parameter `this` +../BioD/bio/std/hts/bam/md/parse.d(52): perhaps annotate the function with `return` +[90/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_snpcallers_simple.d.o.deps -of=sambamba.p/BioD_bio_std_hts_snpcallers_simple.d.o -c ../BioD/bio/std/hts/snpcallers/simple.d +[91/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_utils_array.d.o.deps -of=sambamba.p/BioD_bio_std_hts_utils_array.d.o -c ../BioD/bio/std/hts/utils/array.d +[92/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_utils_graph.d.o.deps -of=sambamba.p/BioD_bio_std_hts_utils_graph.d.o -c ../BioD/bio/std/hts/utils/graph.d +[93/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_snpcallers_maq.d.o.deps -of=sambamba.p/BioD_bio_std_hts_snpcallers_maq.d.o -c ../BioD/bio/std/hts/snpcallers/maq.d +[94/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_thirdparty_msgpack.d.o.deps -of=sambamba.p/BioD_bio_std_hts_thirdparty_msgpack.d.o -c ../BioD/bio/std/hts/thirdparty/msgpack.d +[95/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_maf_block.d.o.deps -of=sambamba.p/BioD_bio_std_maf_block.d.o -c ../BioD/bio/std/maf/block.d +[96/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_utils_value.d.o.deps -of=sambamba.p/BioD_bio_std_hts_utils_value.d.o -c ../BioD/bio/std/hts/utils/value.d +[97/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_sam_utils_recordparser.d.o.deps -of=sambamba.p/BioD_bio_std_hts_sam_utils_recordparser.d.o -c ../BioD/bio/std/hts/sam/utils/recordparser.d sam_alignment.rl(51): Warning: statement is not reachable sam_alignment.rl(52): Warning: statement is not reachable sam_alignment.rl(59): Warning: statement is not reachable @@ -852,19 +904,26 @@ sam_alignment.rl(221): Warning: statement is not reachable sam_alignment.rl(250): Warning: statement is not reachable sam_alignment.rl(407): Warning: statement is not reachable -[93/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_thirdparty_msgpack.d.o.deps -of=sambamba.p/BioD_bio_std_hts_thirdparty_msgpack.d.o -c ../BioD/bio/std/hts/thirdparty/msgpack.d -[94/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_maf_block.d.o.deps -of=sambamba.p/BioD_bio_std_maf_block.d.o -c ../BioD/bio/std/maf/block.d -[95/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_utils_value.d.o.deps -of=sambamba.p/BioD_bio_std_hts_utils_value.d.o -c ../BioD/bio/std/hts/utils/value.d -[96/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_markdup.d.o.deps -of=sambamba.p/sambamba_markdup.d.o -c ../sambamba/markdup.d -[97/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_range_splitter.d.o.deps -of=sambamba.p/BioD_bio_std_range_splitter.d.o -c ../BioD/bio/std/range/splitter.d -[98/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_constants.d.o.deps -of=sambamba.p/BioD_bio_std_sff_constants.d.o -c ../BioD/bio/std/sff/constants.d -[99/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_index.d.o.deps -of=sambamba.p/BioD_bio_std_sff_index.d.o -c ../BioD/bio/std/sff/index.d -[100/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_read.d.o.deps -of=sambamba.p/BioD_bio_std_sff_read.d.o -c ../BioD/bio/std/sff/read.d +[98/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_range_splitter.d.o.deps -of=sambamba.p/BioD_bio_std_range_splitter.d.o -c ../BioD/bio/std/range/splitter.d +[99/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_constants.d.o.deps -of=sambamba.p/BioD_bio_std_sff_constants.d.o -c ../BioD/bio/std/sff/constants.d +[100/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_index.d.o.deps -of=sambamba.p/BioD_bio_std_sff_index.d.o -c ../BioD/bio/std/sff/index.d [101/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_maf_parser.d.o.deps -of=sambamba.p/BioD_bio_std_maf_parser.d.o -c ../BioD/bio/std/maf/parser.d -[102/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_maf_reader.d.o.deps -of=sambamba.p/BioD_bio_std_maf_reader.d.o -c ../BioD/bio/std/maf/reader.d -[103/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_utils_roundup.d.o.deps -of=sambamba.p/BioD_bio_std_sff_utils_roundup.d.o -c ../BioD/bio/std/sff/utils/roundup.d -[104/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_reader.d.o.deps -of=sambamba.p/BioD_bio_std_sff_reader.d.o -c ../BioD/bio/std/sff/reader.d -[105/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_sam_utils_fastrecordparser.d.o.deps -of=sambamba.p/BioD_bio_std_hts_sam_utils_fastrecordparser.d.o -c ../BioD/bio/std/hts/sam/utils/fastrecordparser.d +[102/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_read.d.o.deps -of=sambamba.p/BioD_bio_std_sff_read.d.o -c ../BioD/bio/std/sff/read.d +[103/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_maf_reader.d.o.deps -of=sambamba.p/BioD_bio_std_maf_reader.d.o -c ../BioD/bio/std/maf/reader.d +[104/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_utils_roundup.d.o.deps -of=sambamba.p/BioD_bio_std_sff_utils_roundup.d.o -c ../BioD/bio/std/sff/utils/roundup.d +[105/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_writer.d.o.deps -of=sambamba.p/BioD_bio_std_sff_writer.d.o -c ../BioD/bio/std/sff/writer.d +[106/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_readrange.d.o.deps -of=sambamba.p/BioD_bio_std_sff_readrange.d.o -c ../BioD/bio/std/sff/readrange.d +[107/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_reader.d.o.deps -of=sambamba.p/BioD_bio_std_sff_reader.d.o -c ../BioD/bio/std/sff/reader.d +[108/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_doformat.d.o.deps -of=sambamba.p/BioD_contrib_undead_doformat.d.o -c ../BioD/contrib/undead/doformat.d +../BioD/contrib/undead/doformat.d(128): Deprecation: use of imaginary type `ifloat` is deprecated, use `float` instead +../BioD/contrib/undead/doformat.d(129): Deprecation: use of imaginary type `idouble` is deprecated, use `double` instead +../BioD/contrib/undead/doformat.d(130): Deprecation: use of imaginary type `ireal` is deprecated, use `real` instead +../BioD/contrib/undead/doformat.d(131): Deprecation: use of complex type `cfloat` is deprecated, use `std.complex.Complex!(float)` instead +../BioD/contrib/undead/doformat.d(132): Deprecation: use of complex type `cdouble` is deprecated, use `std.complex.Complex!(double)` instead +../BioD/contrib/undead/doformat.d(133): Deprecation: use of complex type `creal` is deprecated, use `std.complex.Complex!(real)` instead +[109/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_cstream.d.o.deps -of=sambamba.p/BioD_contrib_undead_cstream.d.o -c ../BioD/contrib/undead/cstream.d +[110/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_utf.d.o.deps -of=sambamba.p/BioD_contrib_undead_utf.d.o -c ../BioD/contrib/undead/utf.d +[111/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_sam_utils_fastrecordparser.d.o.deps -of=sambamba.p/BioD_bio_std_hts_sam_utils_fastrecordparser.d.o -c ../BioD/bio/std/hts/sam/utils/fastrecordparser.d sam_alignment.rl(51): Warning: statement is not reachable sam_alignment.rl(59): Warning: statement is not reachable sam_alignment.rl(68): Warning: statement is not reachable @@ -901,43 +960,25 @@ sam_alignment.rl(221): Warning: statement is not reachable sam_alignment.rl(250): Warning: statement is not reachable sam_alignment.rl(407): Warning: statement is not reachable -[106/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_readrange.d.o.deps -of=sambamba.p/BioD_bio_std_sff_readrange.d.o -c ../BioD/bio/std/sff/readrange.d -[107/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_sff_writer.d.o.deps -of=sambamba.p/BioD_bio_std_sff_writer.d.o -c ../BioD/bio/std/sff/writer.d -[108/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_doformat.d.o.deps -of=sambamba.p/BioD_contrib_undead_doformat.d.o -c ../BioD/contrib/undead/doformat.d -../BioD/contrib/undead/doformat.d(128): Deprecation: use of imaginary type `ifloat` is deprecated, use `float` instead -../BioD/contrib/undead/doformat.d(129): Deprecation: use of imaginary type `idouble` is deprecated, use `double` instead -../BioD/contrib/undead/doformat.d(130): Deprecation: use of imaginary type `ireal` is deprecated, use `real` instead -../BioD/contrib/undead/doformat.d(131): Deprecation: use of complex type `cfloat` is deprecated, use `std.complex.Complex!(float)` instead -../BioD/contrib/undead/doformat.d(132): Deprecation: use of complex type `cdouble` is deprecated, use `std.complex.Complex!(double)` instead -../BioD/contrib/undead/doformat.d(133): Deprecation: use of complex type `creal` is deprecated, use `std.complex.Complex!(real)` instead -[109/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_depth.d.o.deps -of=sambamba.p/sambamba_depth.d.o -c ../sambamba/depth.d -../BioD/bio/std/hts/bam/md/parse.d(49): Deprecation: returning `this._cached_front` escapes a reference to parameter `this` -../BioD/bio/std/hts/bam/md/parse.d(48): perhaps annotate the function with `return` -../BioD/bio/std/hts/bam/md/parse.d(53): Deprecation: returning `this._cached_back` escapes a reference to parameter `this` -../BioD/bio/std/hts/bam/md/parse.d(52): perhaps annotate the function with `return` -[110/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_utf.d.o.deps -of=sambamba.p/BioD_contrib_undead_utf.d.o -c ../BioD/contrib/undead/utf.d -[111/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_cstream.d.o.deps -of=sambamba.p/BioD_contrib_undead_cstream.d.o -c ../BioD/contrib/undead/cstream.d -[112/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/utils_version_.d.o.deps -of=sambamba.p/utils_version_.d.o -c ../utils/version_.d -[113/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_iontorrent_flowcall.d.o.deps -of=sambamba.p/BioD_bio_std_hts_iontorrent_flowcall.d.o -c ../BioD/bio/std/hts/iontorrent/flowcall.d -[114/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/thirdparty_unstablesort.d.o.deps -of=sambamba.p/thirdparty_unstablesort.d.o -c ../thirdparty/unstablesort.d -[115/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/thirdparty_mergesort.d.o.deps -of=sambamba.p/thirdparty_mergesort.d.o -c ../thirdparty/mergesort.d +[112/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_reader.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_reader.d.o -c ../BioD/bio/std/hts/bam/reader.d +[113/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/utils_version_.d.o.deps -of=sambamba.p/utils_version_.d.o -c ../utils/version_.d +[114/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/thirdparty_mergesort.d.o.deps -of=sambamba.p/thirdparty_mergesort.d.o -c ../thirdparty/mergesort.d +[115/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_internal_file.d.o.deps -of=sambamba.p/BioD_contrib_undead_internal_file.d.o -c ../BioD/contrib/undead/internal/file.d [116/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/_build_sambamba-1.0+dfsg_obj-x86_64-linux-gnu_utils_ldc_version_info_.d.o.deps -of=sambamba.p/_build_sambamba-1.0+dfsg_obj-x86_64-linux-gnu_utils_ldc_version_info_.d.o -c /build/sambamba-1.0+dfsg/obj-x86_64-linux-gnu/utils/ldc_version_info_.d -[117/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_read.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_read.d.o -c ../BioD/bio/std/hts/bam/read.d +[117/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_iontorrent_flowcall.d.o.deps -of=sambamba.p/BioD_bio_std_hts_iontorrent_flowcall.d.o -c ../BioD/bio/std/hts/iontorrent/flowcall.d +[118/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/thirdparty_unstablesort.d.o.deps -of=sambamba.p/thirdparty_unstablesort.d.o -c ../thirdparty/unstablesort.d +[119/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/utils_lz4.d.o.deps -of=sambamba.p/utils_lz4.d.o -c ../utils/lz4.d +[120/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_queryparser.d.o.deps -of=sambamba.p/sambamba_utils_common_queryparser.d.o -c ../sambamba/utils/common/queryparser.d +[121/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/utils_strip_bcf_header.d.o.deps -of=sambamba.p/utils_strip_bcf_header.d.o -c ../utils/strip_bcf_header.d +[122/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_validation_alignment.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_validation_alignment.d.o -c ../BioD/bio/std/hts/bam/validation/alignment.d +[123/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_sam_reader.d.o.deps -of=sambamba.p/BioD_bio_std_hts_sam_reader.d.o -c ../BioD/bio/std/hts/sam/reader.d +[124/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_read.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_read.d.o -c ../BioD/bio/std/hts/bam/read.d ../BioD/bio/std/hts/bam/md/parse.d(49): Deprecation: returning `this._cached_front` escapes a reference to parameter `this` ../BioD/bio/std/hts/bam/md/parse.d(48): perhaps annotate the function with `return` ../BioD/bio/std/hts/bam/md/parse.d(53): Deprecation: returning `this._cached_back` escapes a reference to parameter `this` ../BioD/bio/std/hts/bam/md/parse.d(52): perhaps annotate the function with `return` -[118/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/utils_lz4.d.o.deps -of=sambamba.p/utils_lz4.d.o -c ../utils/lz4.d -[119/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_internal_file.d.o.deps -of=sambamba.p/BioD_contrib_undead_internal_file.d.o -c ../BioD/contrib/undead/internal/file.d -[120/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_utils_common_queryparser.d.o.deps -of=sambamba.p/sambamba_utils_common_queryparser.d.o -c ../sambamba/utils/common/queryparser.d -[121/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/utils_strip_bcf_header.d.o.deps -of=sambamba.p/utils_strip_bcf_header.d.o -c ../utils/strip_bcf_header.d -[122/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_sam_reader.d.o.deps -of=sambamba.p/BioD_bio_std_hts_sam_reader.d.o -c ../BioD/bio/std/hts/sam/reader.d -[123/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_reader.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_reader.d.o -c ../BioD/bio/std/hts/bam/reader.d -[124/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_tagvalue.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_tagvalue.d.o -c ../BioD/bio/std/hts/bam/tagvalue.d -[125/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_multireader.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_multireader.d.o -c ../BioD/bio/std/hts/bam/multireader.d -[126/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_validation_alignment.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_validation_alignment.d.o -c ../BioD/bio/std/hts/bam/validation/alignment.d -[127/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_sam_header.d.o.deps -of=sambamba.p/BioD_bio_std_hts_sam_header.d.o -c ../BioD/bio/std/hts/sam/header.d -[128/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_stream.d.o.deps -of=sambamba.p/BioD_contrib_undead_stream.d.o -c ../BioD/contrib/undead/stream.d +[125/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_tagvalue.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_tagvalue.d.o -c ../BioD/bio/std/hts/bam/tagvalue.d +[126/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_contrib_undead_stream.d.o.deps -of=sambamba.p/BioD_contrib_undead_stream.d.o -c ../BioD/contrib/undead/stream.d ../BioD/contrib/undead/stream.d(450): Deprecation: use of imaginary type `ifloat` is deprecated, use `float` instead ../BioD/contrib/undead/stream.d(451): Deprecation: use of imaginary type `idouble` is deprecated, use `double` instead ../BioD/contrib/undead/stream.d(452): Deprecation: use of imaginary type `ireal` is deprecated, use `real` instead @@ -969,7 +1010,9 @@ ../BioD/contrib/undead/stream.d(2530): Deprecation: use of complex type `cfloat` is deprecated, use `std.complex.Complex!(float)` instead ../BioD/contrib/undead/stream.d(2531): Deprecation: use of complex type `cdouble` is deprecated, use `std.complex.Complex!(double)` instead ../BioD/contrib/undead/stream.d(2532): Deprecation: use of complex type `creal` is deprecated, use `std.complex.Complex!(real)` instead -[129/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_utils_samheadermerger.d.o.deps -of=sambamba.p/BioD_bio_std_hts_utils_samheadermerger.d.o -c ../BioD/bio/std/hts/utils/samheadermerger.d +[127/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_bam_multireader.d.o.deps -of=sambamba.p/BioD_bio_std_hts_bam_multireader.d.o -c ../BioD/bio/std/hts/bam/multireader.d +[128/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_utils_samheadermerger.d.o.deps -of=sambamba.p/BioD_bio_std_hts_utils_samheadermerger.d.o -c ../BioD/bio/std/hts/utils/samheadermerger.d +[129/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/BioD_bio_std_hts_sam_header.d.o.deps -of=sambamba.p/BioD_bio_std_hts_sam_header.d.o -c ../BioD/bio/std/hts/sam/header.d [130/131] ldc2 -I=sambamba.p -I=. -I=.. -I../BioD -enable-color -wi -O -g -release -wi -g -release -boundscheck=off -J../ -J. -J../BioD -JBioD -makedeps=sambamba.p/sambamba_pileup.d.o.deps -of=sambamba.p/sambamba_pileup.d.o -c ../sambamba/pileup.d ../BioD/bio/std/hts/bam/md/parse.d(49): Deprecation: returning `this._cached_front` escapes a reference to parameter `this` ../BioD/bio/std/hts/bam/md/parse.d(48): perhaps annotate the function with `return` @@ -1019,8 +1062,8 @@ dh_gencontrol -O--buildsystem=meson dh_md5sums -O--buildsystem=meson dh_builddeb -O--buildsystem=meson -dpkg-deb: building package 'sambamba' in '../sambamba_1.0+dfsg-1_amd64.deb'. dpkg-deb: building package 'sambamba-dbgsym' in '../sambamba-dbgsym_1.0+dfsg-1_amd64.deb'. +dpkg-deb: building package 'sambamba' in '../sambamba_1.0+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../sambamba_1.0+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../sambamba_1.0+dfsg-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1028,12 +1071,14 @@ 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/497675/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/497675/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/2377425 and its subdirectories -I: Current time: Fri Jun 14 09:16:52 -12 2024 -I: pbuilder-time-stamp: 1718399812 +I: removing directory /srv/workspace/pbuilder/497675 and its subdirectories +I: Current time: Sun May 14 05:01:13 +14 2023 +I: pbuilder-time-stamp: 1683990073