Diff of the two buildlogs: -- --- b1/build.log 2021-10-29 19:38:24.388168248 +0000 +++ b2/build.log 2021-10-29 19:41:30.121847309 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Oct 29 07:35:30 -12 2021 -I: pbuilder-time-stamp: 1635536130 +I: Current time: Fri Dec 2 16:01:26 +14 2022 +I: pbuilder-time-stamp: 1669946486 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -16,8 +16,8 @@ I: copying [./libbiod_0.2.3+git20191120.b8eecef-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.gaRVNm82/trustedkeys.kbx': General error -gpgv: Signature made Tue Jan 14 09:23:11 2020 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.HQa9DPsd/trustedkeys.kbx': General error +gpgv: Signature made Wed Jan 15 11:23:11 2020 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tillea@rki.de" gpgv: Can't check signature: No public key @@ -31,135 +31,169 @@ dpkg-source: info: applying 03_add-meson-build.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2020155/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1240122/tmp/hooks/D01_modify_environment starting +debug: Running on ionos5-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' +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/1240122/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1240122/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,-fixfilepath parallel=15' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.1.4(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=16' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='5cafb55fa1b94bacb2d74bdb506fbd78' - 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='2020155' - PS1='# ' - PS2='> ' + INVOCATION_ID=47a3efd4579b42c79f3c081a01ee8381 + 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=1240122 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.G7Z0qrWn8q/pbuilderrc_S43B --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.G7Z0qrWn8q/b1 --logfile b1/build.log libbiod_0.2.3+git20191120.b8eecef-2.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://78.137.99.97:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.G7Z0qrWn8q/pbuilderrc_Lr1z --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.G7Z0qrWn8q/b2 --logfile b2/build.log libbiod_0.2.3+git20191120.b8eecef-2.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://85.184.249.68:3128 I: uname -a - Linux ionos11-amd64 5.10.0-9-amd64 #1 SMP Debian 5.10.70-1 (2021-09-30) x86_64 GNU/Linux + Linux i-capture-the-hostname 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux I: ls -l /bin total 5476 - -rwxr-xr-x 1 root root 1234376 Aug 4 08:25 bash - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzcat - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 18424 Jul 20 2020 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore - -rwxr-xr-x 1 root root 43936 Sep 23 2020 cat - -rwxr-xr-x 1 root root 72672 Sep 23 2020 chgrp - -rwxr-xr-x 1 root root 64448 Sep 23 2020 chmod - -rwxr-xr-x 1 root root 72672 Sep 23 2020 chown - -rwxr-xr-x 1 root root 151168 Sep 23 2020 cp - -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash - -rwxr-xr-x 1 root root 113664 Sep 23 2020 date - -rwxr-xr-x 1 root root 80968 Sep 23 2020 dd - -rwxr-xr-x 1 root root 93936 Sep 23 2020 df - -rwxr-xr-x 1 root root 147176 Sep 23 2020 dir - -rwxr-xr-x 1 root root 84440 Jul 28 07:09 dmesg - lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname - -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 39680 Sep 23 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 69032 Jul 28 07:09 findmnt - -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount - -rwxr-xr-x 1 root root 203072 Nov 9 2020 grep - -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip - -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe - -rwxr-xr-x 1 root root 98048 Mar 2 2021 gzip - -rwxr-xr-x 1 root root 22600 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 72840 Sep 23 2020 ln - -rwxr-xr-x 1 root root 56952 Feb 7 2020 login - -rwxr-xr-x 1 root root 147176 Sep 23 2020 ls - -rwxr-xr-x 1 root root 149736 Jul 28 07:09 lsblk - -rwxr-xr-x 1 root root 85184 Sep 23 2020 mkdir - -rwxr-xr-x 1 root root 76896 Sep 23 2020 mknod - -rwxr-xr-x 1 root root 48064 Sep 23 2020 mktemp - -rwxr-xr-x 1 root root 59632 Jul 28 07:09 more - -rwsr-xr-x 1 root root 55528 Jul 28 07:09 mount - -rwxr-xr-x 1 root root 18664 Jul 28 07:09 mountpoint - -rwxr-xr-x 1 root root 147080 Sep 23 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd - lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash - -rwxr-xr-x 1 root root 52032 Sep 23 2020 readlink - -rwxr-xr-x 1 root root 72704 Sep 23 2020 rm - -rwxr-xr-x 1 root root 52032 Sep 23 2020 rmdir - -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Oct 20 23:41 sh -> dash - -rwxr-xr-x 1 root root 43808 Sep 23 2020 sleep - -rwxr-xr-x 1 root root 84928 Sep 23 2020 stty - -rwsr-xr-x 1 root root 71912 Jul 28 07:09 su - -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync - -rwxr-xr-x 1 root root 531928 Feb 16 2021 tar - -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 101408 Sep 23 2020 touch - -rwxr-xr-x 1 root root 39680 Sep 23 2020 true - -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server - -rwsr-xr-x 1 root root 35040 Jul 28 07:09 umount - -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress - -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir - -rwxr-xr-x 1 root root 63744 Jul 28 07:09 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat - -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp - -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff - -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep - -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep - -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce - -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep - -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless - -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore - -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew -I: user script /srv/workspace/pbuilder/2020155/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1234376 Aug 5 2021 bash + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzcat + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 18424 Jul 21 2020 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore + -rwxr-xr-x 1 root root 43936 Sep 24 2020 cat + -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp + -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod + -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown + -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp + -rwxr-xr-x 1 root root 125560 Dec 11 2020 dash + -rwxr-xr-x 1 root root 113664 Sep 24 2020 date + -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd + -rwxr-xr-x 1 root root 93936 Sep 24 2020 df + -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir + -rwxr-xr-x 1 root root 84440 Jul 29 2021 dmesg + lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname + -rwxr-xr-x 1 root root 39712 Sep 24 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 39680 Sep 24 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 69032 Jul 29 2021 findmnt + -rwsr-xr-x 1 root root 34896 Feb 27 2021 fusermount + -rwxr-xr-x 1 root root 203072 Nov 10 2020 grep + -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip + -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe + -rwxr-xr-x 1 root root 98048 Mar 3 2021 gzip + -rwxr-xr-x 1 root root 22600 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln + -rwxr-xr-x 1 root root 56952 Feb 8 2020 login + -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls + -rwxr-xr-x 1 root root 149736 Jul 29 2021 lsblk + -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir + -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod + -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp + -rwxr-xr-x 1 root root 59632 Jul 29 2021 more + -rwsr-xr-x 1 root root 55528 Jul 29 2021 mount + -rwxr-xr-x 1 root root 18664 Jul 29 2021 mountpoint + -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd + lrwxrwxrwx 1 root root 4 Aug 5 2021 rbash -> bash + -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink + -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm + -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir + -rwxr-xr-x 1 root root 27472 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Dec 2 16:01 sh -> bash + lrwxrwxrwx 1 root root 4 Nov 24 08:04 sh.distrib -> dash + -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep + -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty + -rwsr-xr-x 1 root root 71912 Jul 29 2021 su + -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync + -rwxr-xr-x 1 root root 531928 Feb 17 2021 tar + -rwxr-xr-x 1 root root 14456 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch + -rwxr-xr-x 1 root root 39680 Sep 24 2020 true + -rwxr-xr-x 1 root root 14328 Feb 27 2021 ulockmgr_server + -rwsr-xr-x 1 root root 35040 Jul 29 2021 umount + -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress + -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir + -rwxr-xr-x 1 root root 63744 Jul 29 2021 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat + -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp + -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff + -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep + -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep + -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce + -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep + -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless + -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore + -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew +I: user script /srv/workspace/pbuilder/1240122/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -262,7 +296,7 @@ Get: 57 http://deb.debian.org/debian bullseye/main amd64 meson all 0.56.2-1 [437 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 pkg-config amd64 0.29.2-1 [65.1 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] -Fetched 62.9 MB in 1s (42.0 MB/s) +Fetched 62.9 MB in 1s (81.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19655 files and directories currently installed.) @@ -522,7 +556,8 @@ fakeroot is already the newest version (1.25.3-1.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/libbiod-0.2.3+git20191120.b8eecef/ && 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 > ../libbiod_0.2.3+git20191120.b8eecef-2_source.changes +hostname: Name or service not known +I: Running cd /build/libbiod-0.2.3+git20191120.b8eecef/ && 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 > ../libbiod_0.2.3+git20191120.b8eecef-2_source.changes dpkg-buildpackage: info: source package libbiod dpkg-buildpackage: info: source version 0.2.3+git20191120.b8eecef-2 dpkg-buildpackage: info: source distribution unstable @@ -573,86 +608,78 @@ Found ninja-1.10.1 at /usr/bin/ninja make[1]: Leaving directory '/build/libbiod-0.2.3+git20191120.b8eecef' dh_auto_build -O--buildsystem=meson - cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 ninja -j15 -v -[1/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/contrib_undead_doformat.d.o -c ../contrib/undead/doformat.d -[2/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_bgzf_chunk.d.o -c ../bio/core/bgzf/chunk.d -[3/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_bgzf_constants.d.o -c ../bio/core/bgzf/constants.d -[4/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_base.d.o -c ../bio/core/base.d + cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 ninja -j16 -v +[1/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_bgzf_constants.d.o -c ../bio/core/bgzf/constants.d +[2/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/contrib_undead_doformat.d.o -c ../contrib/undead/doformat.d +[3/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_bgzf_chunk.d.o -c ../bio/core/bgzf/chunk.d +[4/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining 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ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_algo.d.o -c ../bio/core/utils/algo.d -[10/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_exception.d.o -c ../bio/core/utils/exception.d -[11/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_region.d.o -c ../bio/core/region.d +[6/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_base.d.o -c ../bio/core/base.d +[7/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_kmer.d.o -c ../bio/core/kmer.d +[8/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_region.d.o -c ../bio/core/region.d +[9/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_genotype.d.o -c ../bio/core/genotype.d +[10/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_call.d.o -c ../bio/core/call.d +[11/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_exception.d.o -c 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../bio/core/utils/roundbuf.d +[17/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_outbuffer.d.o -c ../bio/core/utils/outbuffer.d +[18/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/contrib_undead_cstream.d.o -c ../contrib/undead/cstream.d +[19/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_range.d.o -c ../bio/core/utils/range.d +[20/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_format.d.o -c ../bio/core/utils/format.d +[21/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_zlib.d.o -c ../bio/core/utils/zlib.d +[22/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_switchendianness.d.o -c ../bio/core/utils/switchendianness.d +[23/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_constants.d.o -c ../bio/std/experimental/hts/constants.d +[24/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_sequence.d.o -c ../bio/core/sequence.d +[25/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. 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-g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_bgzf_outputstream.d.o -c ../bio/core/bgzf/outputstream.d +[30/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_reads.d.o -c ../bio/std/experimental/hts/reads.d +[31/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_bgzf_virtualoffset.d.o -c ../bio/core/bgzf/virtualoffset.d +[32/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_stream.d.o -c ../bio/core/utils/stream.d +[33/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_header.d.o -c ../bio/std/experimental/hts/bam/header.d +[34/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_pileup.d.o -c ../bio/std/experimental/hts/pileup.d +[35/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_utils_tmpfile.d.o -c ../bio/core/utils/tmpfile.d +[36/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/contrib_undead_internal_file.d.o -c ../contrib/undead/internal/file.d [37/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_genotype_maf.d.o -c ../bio/std/genotype/maf.d [38/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_bai_bin.d.o -c ../bio/std/hts/bam/bai/bin.d [39/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_file_fastq.d.o -c ../bio/std/file/fastq.d -[40/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_writer.d.o -c ../bio/std/experimental/hts/bam/writer.d -[41/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_constants.d.o -c ../bio/std/hts/bam/constants.d -[42/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_md_core.d.o -c ../bio/std/hts/bam/md/core.d -[43/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_baifile.d.o -c ../bio/std/hts/bam/baifile.d +[40/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_constants.d.o -c ../bio/std/hts/bam/constants.d +[41/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_writer.d.o -c ../bio/std/experimental/hts/bam/writer.d +[42/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_abstractreader.d.o -c ../bio/std/hts/bam/abstractreader.d +[43/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_md_core.d.o -c ../bio/std/hts/bam/md/core.d [44/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_unpack.d.o -c ../bio/std/experimental/hts/unpack.d [45/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_baseinfo.d.o -c ../bio/std/hts/bam/baseinfo.d -[46/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_bgzf_inputstream.d.o -c ../bio/core/bgzf/inputstream.d -[47/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_abstractreader.d.o -c ../bio/std/hts/bam/abstractreader.d +[46/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf_writer.d.o -c ../bio/std/experimental/hts/bgzf_writer.d +[47/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_core_bgzf_inputstream.d.o -c ../bio/core/bgzf/inputstream.d [48/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_cigar.d.o -c ../bio/std/hts/bam/cigar.d -[49/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf_writer.d.o -c ../bio/std/experimental/hts/bgzf_writer.d -[50/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_md_reconstruct.d.o -c ../bio/std/hts/bam/md/reconstruct.d -[51/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_pileup.d.o -c ../bio/std/hts/bam/pileup.d +[49/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_md_reconstruct.d.o -c ../bio/std/hts/bam/md/reconstruct.d +[50/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_pileup.d.o -c ../bio/std/hts/bam/pileup.d +[51/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_baifile.d.o -c ../bio/std/hts/bam/baifile.d [52/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_md_parse.d.o -c ../bio/std/hts/bam/md/parse.d ../bio/std/hts/bam/md/parse.d(49): Deprecation: returning this._cached_front escapes a reference to parameter this ../bio/std/hts/bam/md/parse.d(49): perhaps annotate the parameter with return ../bio/std/hts/bam/md/parse.d(53): Deprecation: returning this._cached_back escapes a reference to parameter this ../bio/std/hts/bam/md/parse.d(53): perhaps annotate the parameter with return [53/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_readrange.d.o -c ../bio/std/hts/bam/readrange.d -[54/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_reference.d.o -c ../bio/std/hts/bam/reference.d -[55/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_region.d.o -c ../bio/std/hts/bam/region.d -[56/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_referenceinfo.d.o -c ../bio/std/hts/bam/referenceinfo.d -[57/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/contrib_undead_stream.d.o -c ../contrib/undead/stream.d -[58/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_splitter.d.o -c ../bio/std/hts/bam/splitter.d -[59/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_randomaccessmanager.d.o -c ../bio/std/hts/bam/randomaccessmanager.d -[60/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf.d.o -c ../bio/std/experimental/hts/bgzf.d -../bio/std/experimental/hts/bgzf.d(202): Deprecation: function std.typecons.Nullable!ulong.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. -../bio/std/experimental/hts/bgzf.d(212): Deprecation: function std.typecons.Nullable!ulong.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. -../bio/std/experimental/hts/bgzf.d(418): Deprecation: function std.typecons.Nullable!int.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. -../bio/std/experimental/hts/bgzf.d(425): Deprecation: function std.typecons.Nullable!int.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. -[61/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_md_operation.d.o -c ../bio/std/hts/bam/md/operation.d +[54/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_region.d.o -c ../bio/std/hts/bam/region.d +[55/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_referenceinfo.d.o -c ../bio/std/hts/bam/referenceinfo.d +[56/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_splitter.d.o -c ../bio/std/hts/bam/splitter.d +[57/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_reference.d.o -c ../bio/std/hts/bam/reference.d +[58/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_validation_samheader.d.o -c ../bio/std/hts/bam/validation/samheader.d +[59/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_writer.d.o -c ../bio/std/hts/bam/writer.d +[60/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_md_operation.d.o -c ../bio/std/hts/bam/md/operation.d ../bio/std/hts/bam/md/operation.d(57): Deprecation: returning this._match escapes a reference to parameter this ../bio/std/hts/bam/md/operation.d(57): perhaps annotate the parameter with return ../bio/std/hts/bam/md/operation.d(72): Deprecation: returning this._deletion escapes a reference to parameter this ../bio/std/hts/bam/md/operation.d(72): perhaps annotate the parameter with return -[62/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_validation_samheader.d.o -c ../bio/std/hts/bam/validation/samheader.d -[63/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_bai_indexing.d.o -c ../bio/std/hts/bam/bai/indexing.d -[64/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowindex.d.o -c ../bio/std/hts/iontorrent/flowindex.d -[65/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_writer.d.o -c ../bio/std/hts/bam/writer.d -[66/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_file_fai.d.o -c ../bio/std/file/fai.d -[67/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_reader.d.o -c ../bio/std/experimental/hts/bam/reader.d +[61/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowindex.d.o -c ../bio/std/hts/iontorrent/flowindex.d +[62/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_randomaccessmanager.d.o -c ../bio/std/hts/bam/randomaccessmanager.d +[63/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_reader.d.o -c ../bio/std/experimental/hts/bam/reader.d ../bio/std/experimental/hts/bam/reader.d(237): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bam/reader.d(245): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bam/reader.d(246): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. @@ -680,11 +707,24 @@ ../bio/std/experimental/hts/bam/reader.d(392): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bam/reader.d(412): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bam/reader.d(491): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. -[68/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_genotype_snp.d.o -c ../bio/std/genotype/snp.d -[69/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_file_fasta.d.o -c ../bio/std/file/fasta.d -[70/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_snpcallers_simple.d.o -c ../bio/std/hts/snpcallers/simple.d -[71/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_utils_array.d.o -c ../bio/std/hts/utils/array.d -[72/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_sam_utils_recordparser.d.o -c ../bio/std/hts/sam/utils/recordparser.d +[64/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf.d.o -c ../bio/std/experimental/hts/bgzf.d +../bio/std/experimental/hts/bgzf.d(202): Deprecation: function std.typecons.Nullable!ulong.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. +../bio/std/experimental/hts/bgzf.d(212): Deprecation: function std.typecons.Nullable!ulong.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. +../bio/std/experimental/hts/bgzf.d(418): Deprecation: function std.typecons.Nullable!int.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. +../bio/std/experimental/hts/bgzf.d(425): Deprecation: function std.typecons.Nullable!int.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. +[65/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/contrib_undead_stream.d.o -c ../contrib/undead/stream.d +[66/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_bai_indexing.d.o -c ../bio/std/hts/bam/bai/indexing.d +[67/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_genotype_snp.d.o -c ../bio/std/genotype/snp.d +[68/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_snpcallers_simple.d.o -c ../bio/std/hts/snpcallers/simple.d +[69/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_snpcallers_maq.d.o -c ../bio/std/hts/snpcallers/maq.d +../bio/core/tinymap.d(61): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. +../bio/core/tinymap.d(76): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. +../bio/core/tinymap.d(101): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. +[70/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_utils_array.d.o -c ../bio/std/hts/utils/array.d +[71/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_utils_graph.d.o -c ../bio/std/hts/utils/graph.d +[72/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_file_fai.d.o -c ../bio/std/file/fai.d +[73/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_maf_block.d.o -c ../bio/std/maf/block.d +[74/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_sam_utils_recordparser.d.o -c ../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 @@ -721,36 +761,36 @@ 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 -[73/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_utils_graph.d.o -c ../bio/std/hts/utils/graph.d -[74/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_maf_block.d.o -c ../bio/std/maf/block.d -[75/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_snpcallers_maq.d.o -c ../bio/std/hts/snpcallers/maq.d -../bio/core/tinymap.d(61): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. -../bio/core/tinymap.d(76): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. -../bio/core/tinymap.d(101): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. -[76/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_thirdparty_msgpack.d.o -c ../bio/std/hts/thirdparty/msgpack.d +[75/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_thirdparty_msgpack.d.o -c ../bio/std/hts/thirdparty/msgpack.d ../bio/std/hts/thirdparty/msgpack.d(1116): Deprecation: returning this.vecList_ escapes a reference to parameter this ../bio/std/hts/thirdparty/msgpack.d(1116): perhaps annotate the parameter with return -[77/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_range_splitter.d.o -c ../bio/std/range/splitter.d -[78/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_constants.d.o -c ../bio/std/sff/constants.d -[79/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_utils_value.d.o -c ../bio/std/hts/utils/value.d -[80/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_index.d.o -c ../bio/std/sff/index.d +[76/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_file_fasta.d.o -c ../bio/std/file/fasta.d +[77/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_constants.d.o -c ../bio/std/sff/constants.d +[78/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_utils_value.d.o -c ../bio/std/hts/utils/value.d +[79/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_index.d.o -c ../bio/std/sff/index.d +[80/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_range_splitter.d.o -c ../bio/std/range/splitter.d [81/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_read.d.o -c ../bio/std/sff/read.d -[82/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_maf_reader.d.o -c ../bio/std/maf/reader.d -[83/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_maf_parser.d.o -c ../bio/std/maf/parser.d -[84/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_utils_roundup.d.o -c ../bio/std/sff/utils/roundup.d -[85/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_read.d.o -c ../bio/std/hts/bam/read.d -[86/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_reader.d.o -c ../bio/std/hts/bam/reader.d -[87/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_readrange.d.o -c ../bio/std/sff/readrange.d -[88/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_reader.d.o -c ../bio/std/sff/reader.d -[89/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_utf.d.o -c ../contrib/undead/utf.d -[90/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_writer.d.o -c ../bio/std/sff/writer.d -[91/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_constants.d.o -c ../bio/core/bgzf/constants.d +[82/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_utils_roundup.d.o -c ../bio/std/sff/utils/roundup.d +[83/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_reader.d.o -c ../bio/std/sff/reader.d +[84/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_readrange.d.o -c ../bio/std/sff/readrange.d +[85/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_reader.d.o -c ../bio/std/hts/bam/reader.d +[86/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_maf_reader.d.o -c ../bio/std/maf/reader.d +[87/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_utf.d.o -c ../contrib/undead/utf.d +[88/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_maf_parser.d.o -c ../bio/std/maf/parser.d +[89/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_constants.d.o -c ../bio/core/bgzf/constants.d +[90/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_base.d.o -c ../bio/core/base.d +[91/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_chunk.d.o -c ../bio/core/bgzf/chunk.d [92/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_compress.d.o -c ../bio/core/bgzf/compress.d -[93/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_base.d.o -c ../bio/core/base.d -[94/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_chunk.d.o -c ../bio/core/bgzf/chunk.d -[95/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowcall.d.o -c ../bio/std/hts/iontorrent/flowcall.d -[96/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_block.d.o -c ../bio/core/bgzf/block.d -[97/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_sam_utils_fastrecordparser.d.o -c ../bio/std/hts/sam/utils/fastrecordparser.d +[93/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_sff_writer.d.o -c ../bio/std/sff/writer.d +[94/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowcall.d.o -c ../bio/std/hts/iontorrent/flowcall.d +[95/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_block.d.o -c ../bio/core/bgzf/block.d +[96/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_sam_reader.d.o -c ../bio/std/hts/sam/reader.d +[97/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_read.d.o -c ../bio/std/hts/bam/read.d +[98/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_call.d.o -c ../bio/core/call.d +[99/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_cstream.d.o -c ../contrib/undead/cstream.d +../contrib/undead/cstream.d(206): Deprecation: variable line is shadowing variable contrib.undead.cstream.CFile.__unittest_L151_C3.line. Rename the foreach variable. +../contrib/undead/cstream.d(216): Deprecation: variable line is shadowing variable contrib.undead.cstream.CFile.__unittest_L151_C3.line. Rename the foreach variable. +[100/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_sam_utils_fastrecordparser.d.o -c ../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 @@ -787,30 +827,34 @@ 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 -[98/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_sam_reader.d.o -c ../bio/std/hts/sam/reader.d -[99/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_doformat.d.o -c ../contrib/undead/doformat.d -[100/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_call.d.o -c ../bio/core/call.d [101/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_genotype.d.o -c ../bio/core/genotype.d -[102/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_cstream.d.o -c ../contrib/undead/cstream.d -../contrib/undead/cstream.d(206): Deprecation: variable line is shadowing variable contrib.undead.cstream.CFile.__unittest_L151_C3.line. Rename the foreach variable. -../contrib/undead/cstream.d(216): Deprecation: variable line is shadowing variable contrib.undead.cstream.CFile.__unittest_L151_C3.line. Rename the foreach variable. -[103/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_region.d.o -c ../bio/core/region.d -[104/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_kmer.d.o -c ../bio/core/kmer.d -[105/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_algo.d.o -c ../bio/core/utils/algo.d -[106/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_virtualoffset.d.o -c ../bio/core/bgzf/virtualoffset.d -[107/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_internal_file.d.o -c ../contrib/undead/internal/file.d +[102/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_virtualoffset.d.o -c ../bio/core/bgzf/virtualoffset.d +[103/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_doformat.d.o -c ../contrib/undead/doformat.d +[104/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_internal_file.d.o -c ../contrib/undead/internal/file.d +[105/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_region.d.o -c ../bio/core/region.d +[106/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_algo.d.o -c ../bio/core/utils/algo.d +[107/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_kmer.d.o -c ../bio/core/kmer.d [108/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_exception.d.o -c ../bio/core/utils/exception.d [109/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_outputstream.d.o -c ../bio/core/bgzf/outputstream.d [110/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_outbuffer.d.o -c ../bio/core/utils/outbuffer.d -[111/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_decompress.d.o -c ../bio/core/decompress.d +[111/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_roundbuf.d.o -c ../bio/core/utils/roundbuf.d [112/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_validation_alignment.d.o -c ../bio/std/hts/bam/validation/alignment.d -[113/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_roundbuf.d.o -c ../bio/core/utils/roundbuf.d -[114/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_switchendianness.d.o -c ../bio/core/utils/switchendianness.d -[115/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_memoize.d.o -c ../bio/core/utils/memoize.d +[113/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_switchendianness.d.o -c ../bio/core/utils/switchendianness.d +[114/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_memoize.d.o -c ../bio/core/utils/memoize.d +[115/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_format.d.o -c ../bio/core/utils/format.d [116/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_zlib.d.o -c ../bio/core/utils/zlib.d -[117/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_sam_header.d.o -c ../bio/std/hts/sam/header.d -[118/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_tagvalue.d.o -c ../bio/std/hts/bam/tagvalue.d -[119/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_tinymap.d.o -c ../bio/core/tinymap.d +[117/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_inputstream.d.o -c ../bio/core/bgzf/inputstream.d +[118/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_bylinefast.d.o -c ../bio/core/utils/bylinefast.d +[119/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_multireader.d.o -c ../bio/std/hts/bam/multireader.d +[120/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_decompress.d.o -c ../bio/core/decompress.d +[121/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_tagvalue.d.o -c ../bio/std/hts/bam/tagvalue.d +[122/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_sequence.d.o -c ../bio/core/sequence.d +[123/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_constants.d.o -c ../bio/std/experimental/hts/constants.d +[124/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_logger.d.o -c ../bio/std/experimental/hts/logger.d +[125/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_pileup.d.o -c ../bio/std/hts/bam/pileup.d +[126/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_reads.d.o -c ../bio/std/experimental/hts/reads.d +[127/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_stream.d.o -c ../bio/core/utils/stream.d +[128/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_tinymap.d.o -c ../bio/core/tinymap.d ../bio/core/tinymap.d(76): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/core/tinymap.d(101): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/core/tinymap.d(76): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. @@ -830,68 +874,56 @@ ../bio/core/tinymap.d(76): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/core/tinymap.d(101): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/core/tinymap.d(61): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. -[120/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_format.d.o -c ../bio/core/utils/format.d -[121/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_sequence.d.o -c ../bio/core/sequence.d -[122/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_constants.d.o -c ../bio/std/experimental/hts/constants.d -[123/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_bylinefast.d.o -c ../bio/core/utils/bylinefast.d -[124/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_pileup.d.o -c ../bio/std/hts/bam/pileup.d -[125/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_stream.d.o -c ../bio/core/utils/stream.d -[126/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_logger.d.o -c ../bio/std/experimental/hts/logger.d -[127/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_bgzf_inputstream.d.o -c ../bio/core/bgzf/inputstream.d -[128/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_bam_multireader.d.o -c ../bio/std/hts/bam/multireader.d -[129/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_reads.d.o -c ../bio/std/experimental/hts/reads.d -[130/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_utils_samheadermerger.d.o -c ../bio/std/hts/utils/samheadermerger.d +[129/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_tmpfile.d.o -c ../bio/core/utils/tmpfile.d +[130/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_hashing.d.o -c ../bio/std/experimental/hts/hashing.d +[131/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bam_header.d.o -c ../bio/std/experimental/hts/bam/header.d +[132/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_genotype_maf.d.o -c ../bio/std/genotype/maf.d +[133/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_sam_header.d.o -c ../bio/std/hts/sam/header.d +[134/199] ldc2 -I=libbiod.so.0.2.3.p -I=. -I=.. -enable-color -wi -O -g -release -wi -relocation-model=pic -O3 -release -enable-inlining -boundscheck=off -of=libbiod.so.0.2.3.p/bio_std_hts_utils_samheadermerger.d.o -c ../bio/std/hts/utils/samheadermerger.d ../bio/std/hts/utils/samheadermerger.d(217): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/std/hts/utils/samheadermerger.d(222): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/std/hts/utils/samheadermerger.d(217): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/std/hts/utils/samheadermerger.d(222): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. -[131/199] rm -f libbiod.a && ar csrD libbiod.a libbiod.so.0.2.3.p/contrib_undead_cstream.d.o libbiod.so.0.2.3.p/contrib_undead_doformat.d.o libbiod.so.0.2.3.p/contrib_undead_internal_file.d.o libbiod.so.0.2.3.p/contrib_undead_stream.d.o libbiod.so.0.2.3.p/contrib_undead_utf.d.o libbiod.so.0.2.3.p/bio_core_base.d.o libbiod.so.0.2.3.p/bio_core_bgzf_block.d.o libbiod.so.0.2.3.p/bio_core_bgzf_chunk.d.o libbiod.so.0.2.3.p/bio_core_bgzf_compress.d.o libbiod.so.0.2.3.p/bio_core_bgzf_constants.d.o libbiod.so.0.2.3.p/bio_core_bgzf_inputstream.d.o libbiod.so.0.2.3.p/bio_core_bgzf_outputstream.d.o libbiod.so.0.2.3.p/bio_core_bgzf_virtualoffset.d.o libbiod.so.0.2.3.p/bio_core_call.d.o libbiod.so.0.2.3.p/bio_core_decompress.d.o libbiod.so.0.2.3.p/bio_core_genotype.d.o libbiod.so.0.2.3.p/bio_core_kmer.d.o libbiod.so.0.2.3.p/bio_core_region.d.o libbiod.so.0.2.3.p/bio_core_sequence.d.o libbiod.so.0.2.3.p/bio_core_tinymap.d.o libbiod.so.0.2.3.p/bio_core_utils_algo.d.o libbiod.so.0.2.3.p/bio_core_utils_bylinefast.d.o libbiod.so.0.2.3.p/bio_core_utils_exception.d.o libbiod.so.0.2.3.p/bio_core_utils_format.d.o libbiod.so.0.2.3.p/bio_core_utils_memoize.d.o libbiod.so.0.2.3.p/bio_core_utils_outbuffer.d.o libbiod.so.0.2.3.p/bio_core_utils_range.d.o libbiod.so.0.2.3.p/bio_core_utils_roundbuf.d.o libbiod.so.0.2.3.p/bio_core_utils_stream.d.o libbiod.so.0.2.3.p/bio_core_utils_switchendianness.d.o libbiod.so.0.2.3.p/bio_core_utils_tmpfile.d.o libbiod.so.0.2.3.p/bio_core_utils_zlib.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_header.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_reader.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_writer.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf_writer.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_constants.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_hashing.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_logger.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_pileup.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_reads.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_unpack.d.o libbiod.so.0.2.3.p/bio_std_file_fai.d.o libbiod.so.0.2.3.p/bio_std_file_fasta.d.o libbiod.so.0.2.3.p/bio_std_file_fastq.d.o libbiod.so.0.2.3.p/bio_std_genotype_maf.d.o libbiod.so.0.2.3.p/bio_std_genotype_snp.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_abstractreader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_bai_bin.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_baifile.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_bai_indexing.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_baseinfo.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_cigar.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_constants.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_core.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_operation.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_parse.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_reconstruct.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_multireader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_pileup.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_randomaccessmanager.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_read.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_reader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_readrange.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_reference.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_referenceinfo.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_region.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_splitter.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_tagvalue.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_validation_alignment.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_validation_samheader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_writer.d.o libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowcall.d.o libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowindex.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_header.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_reader.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_utils_fastrecordparser.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_utils_recordparser.d.o libbiod.so.0.2.3.p/bio_std_hts_snpcallers_maq.d.o libbiod.so.0.2.3.p/bio_std_hts_snpcallers_simple.d.o libbiod.so.0.2.3.p/bio_std_hts_thirdparty_msgpack.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_array.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_graph.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_samheadermerger.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_value.d.o libbiod.so.0.2.3.p/bio_std_maf_block.d.o libbiod.so.0.2.3.p/bio_std_maf_parser.d.o libbiod.so.0.2.3.p/bio_std_maf_reader.d.o libbiod.so.0.2.3.p/bio_std_range_splitter.d.o libbiod.so.0.2.3.p/bio_std_sff_constants.d.o libbiod.so.0.2.3.p/bio_std_sff_index.d.o libbiod.so.0.2.3.p/bio_std_sff_read.d.o libbiod.so.0.2.3.p/bio_std_sff_reader.d.o libbiod.so.0.2.3.p/bio_std_sff_readrange.d.o libbiod.so.0.2.3.p/bio_std_sff_utils_roundup.d.o libbiod.so.0.2.3.p/bio_std_sff_writer.d.o -[132/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_hashing.d.o -c ../bio/std/experimental/hts/hashing.d -[133/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bam_header.d.o -c ../bio/std/experimental/hts/bam/header.d -[134/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_tmpfile.d.o -c ../bio/core/utils/tmpfile.d -[135/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_range.d.o -c ../bio/core/utils/range.d -[136/199] ldc2 -of=libbiod.so.0.2.3 libbiod.so.0.2.3.p/contrib_undead_cstream.d.o libbiod.so.0.2.3.p/contrib_undead_doformat.d.o libbiod.so.0.2.3.p/contrib_undead_internal_file.d.o libbiod.so.0.2.3.p/contrib_undead_stream.d.o libbiod.so.0.2.3.p/contrib_undead_utf.d.o libbiod.so.0.2.3.p/bio_core_base.d.o libbiod.so.0.2.3.p/bio_core_bgzf_block.d.o libbiod.so.0.2.3.p/bio_core_bgzf_chunk.d.o libbiod.so.0.2.3.p/bio_core_bgzf_compress.d.o libbiod.so.0.2.3.p/bio_core_bgzf_constants.d.o libbiod.so.0.2.3.p/bio_core_bgzf_inputstream.d.o libbiod.so.0.2.3.p/bio_core_bgzf_outputstream.d.o libbiod.so.0.2.3.p/bio_core_bgzf_virtualoffset.d.o libbiod.so.0.2.3.p/bio_core_call.d.o libbiod.so.0.2.3.p/bio_core_decompress.d.o libbiod.so.0.2.3.p/bio_core_genotype.d.o libbiod.so.0.2.3.p/bio_core_kmer.d.o libbiod.so.0.2.3.p/bio_core_region.d.o libbiod.so.0.2.3.p/bio_core_sequence.d.o libbiod.so.0.2.3.p/bio_core_tinymap.d.o libbiod.so.0.2.3.p/bio_core_utils_algo.d.o libbiod.so.0.2.3.p/bio_core_utils_bylinefast.d.o libbiod.so.0.2.3.p/bio_core_utils_exception.d.o libbiod.so.0.2.3.p/bio_core_utils_format.d.o libbiod.so.0.2.3.p/bio_core_utils_memoize.d.o libbiod.so.0.2.3.p/bio_core_utils_outbuffer.d.o libbiod.so.0.2.3.p/bio_core_utils_range.d.o libbiod.so.0.2.3.p/bio_core_utils_roundbuf.d.o libbiod.so.0.2.3.p/bio_core_utils_stream.d.o libbiod.so.0.2.3.p/bio_core_utils_switchendianness.d.o libbiod.so.0.2.3.p/bio_core_utils_tmpfile.d.o libbiod.so.0.2.3.p/bio_core_utils_zlib.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_header.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_reader.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_writer.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf_writer.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_constants.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_hashing.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_logger.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_pileup.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_reads.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_unpack.d.o libbiod.so.0.2.3.p/bio_std_file_fai.d.o libbiod.so.0.2.3.p/bio_std_file_fasta.d.o libbiod.so.0.2.3.p/bio_std_file_fastq.d.o libbiod.so.0.2.3.p/bio_std_genotype_maf.d.o libbiod.so.0.2.3.p/bio_std_genotype_snp.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_abstractreader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_bai_bin.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_baifile.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_bai_indexing.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_baseinfo.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_cigar.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_constants.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_core.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_operation.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_parse.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_reconstruct.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_multireader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_pileup.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_randomaccessmanager.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_read.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_reader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_readrange.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_reference.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_referenceinfo.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_region.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_splitter.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_tagvalue.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_validation_alignment.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_validation_samheader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_writer.d.o libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowcall.d.o libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowindex.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_header.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_reader.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_utils_fastrecordparser.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_utils_recordparser.d.o libbiod.so.0.2.3.p/bio_std_hts_snpcallers_maq.d.o libbiod.so.0.2.3.p/bio_std_hts_snpcallers_simple.d.o libbiod.so.0.2.3.p/bio_std_hts_thirdparty_msgpack.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_array.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_graph.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_samheadermerger.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_value.d.o libbiod.so.0.2.3.p/bio_std_maf_block.d.o libbiod.so.0.2.3.p/bio_std_maf_parser.d.o libbiod.so.0.2.3.p/bio_std_maf_reader.d.o libbiod.so.0.2.3.p/bio_std_range_splitter.d.o libbiod.so.0.2.3.p/bio_std_sff_constants.d.o libbiod.so.0.2.3.p/bio_std_sff_index.d.o libbiod.so.0.2.3.p/bio_std_sff_read.d.o libbiod.so.0.2.3.p/bio_std_sff_reader.d.o libbiod.so.0.2.3.p/bio_std_sff_readrange.d.o libbiod.so.0.2.3.p/bio_std_sff_utils_roundup.d.o libbiod.so.0.2.3.p/bio_std_sff_writer.d.o -L=-soname -L=libbiod.so.0 -L=--allow-shlib-undefined -link-defaultlib-shared -shared -relocation-model=pic -O -g -release -wi -L=-z -L=relro -L=-lz -[137/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_bai_bin.d.o -c ../bio/std/hts/bam/bai/bin.d -[138/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bgzf_writer.d.o -c ../bio/std/experimental/hts/bgzf_writer.d -[139/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_genotype_maf.d.o -c ../bio/std/genotype/maf.d -[140/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bam_writer.d.o -c ../bio/std/experimental/hts/bam/writer.d +[135/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_bai_bin.d.o -c ../bio/std/hts/bam/bai/bin.d +[136/199] rm -f libbiod.a && ar csrD libbiod.a libbiod.so.0.2.3.p/contrib_undead_cstream.d.o libbiod.so.0.2.3.p/contrib_undead_doformat.d.o libbiod.so.0.2.3.p/contrib_undead_internal_file.d.o libbiod.so.0.2.3.p/contrib_undead_stream.d.o libbiod.so.0.2.3.p/contrib_undead_utf.d.o libbiod.so.0.2.3.p/bio_core_base.d.o libbiod.so.0.2.3.p/bio_core_bgzf_block.d.o libbiod.so.0.2.3.p/bio_core_bgzf_chunk.d.o libbiod.so.0.2.3.p/bio_core_bgzf_compress.d.o libbiod.so.0.2.3.p/bio_core_bgzf_constants.d.o libbiod.so.0.2.3.p/bio_core_bgzf_inputstream.d.o libbiod.so.0.2.3.p/bio_core_bgzf_outputstream.d.o libbiod.so.0.2.3.p/bio_core_bgzf_virtualoffset.d.o libbiod.so.0.2.3.p/bio_core_call.d.o libbiod.so.0.2.3.p/bio_core_decompress.d.o libbiod.so.0.2.3.p/bio_core_genotype.d.o libbiod.so.0.2.3.p/bio_core_kmer.d.o libbiod.so.0.2.3.p/bio_core_region.d.o libbiod.so.0.2.3.p/bio_core_sequence.d.o libbiod.so.0.2.3.p/bio_core_tinymap.d.o libbiod.so.0.2.3.p/bio_core_utils_algo.d.o libbiod.so.0.2.3.p/bio_core_utils_bylinefast.d.o libbiod.so.0.2.3.p/bio_core_utils_exception.d.o libbiod.so.0.2.3.p/bio_core_utils_format.d.o libbiod.so.0.2.3.p/bio_core_utils_memoize.d.o libbiod.so.0.2.3.p/bio_core_utils_outbuffer.d.o libbiod.so.0.2.3.p/bio_core_utils_range.d.o libbiod.so.0.2.3.p/bio_core_utils_roundbuf.d.o libbiod.so.0.2.3.p/bio_core_utils_stream.d.o libbiod.so.0.2.3.p/bio_core_utils_switchendianness.d.o libbiod.so.0.2.3.p/bio_core_utils_tmpfile.d.o libbiod.so.0.2.3.p/bio_core_utils_zlib.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_header.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_reader.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_writer.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf_writer.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_constants.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_hashing.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_logger.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_pileup.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_reads.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_unpack.d.o libbiod.so.0.2.3.p/bio_std_file_fai.d.o libbiod.so.0.2.3.p/bio_std_file_fasta.d.o libbiod.so.0.2.3.p/bio_std_file_fastq.d.o libbiod.so.0.2.3.p/bio_std_genotype_maf.d.o libbiod.so.0.2.3.p/bio_std_genotype_snp.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_abstractreader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_bai_bin.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_baifile.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_bai_indexing.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_baseinfo.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_cigar.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_constants.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_core.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_operation.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_parse.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_reconstruct.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_multireader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_pileup.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_randomaccessmanager.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_read.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_reader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_readrange.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_reference.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_referenceinfo.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_region.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_splitter.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_tagvalue.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_validation_alignment.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_validation_samheader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_writer.d.o libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowcall.d.o libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowindex.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_header.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_reader.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_utils_fastrecordparser.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_utils_recordparser.d.o libbiod.so.0.2.3.p/bio_std_hts_snpcallers_maq.d.o libbiod.so.0.2.3.p/bio_std_hts_snpcallers_simple.d.o libbiod.so.0.2.3.p/bio_std_hts_thirdparty_msgpack.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_array.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_graph.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_samheadermerger.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_value.d.o libbiod.so.0.2.3.p/bio_std_maf_block.d.o libbiod.so.0.2.3.p/bio_std_maf_parser.d.o libbiod.so.0.2.3.p/bio_std_maf_reader.d.o libbiod.so.0.2.3.p/bio_std_range_splitter.d.o libbiod.so.0.2.3.p/bio_std_sff_constants.d.o libbiod.so.0.2.3.p/bio_std_sff_index.d.o libbiod.so.0.2.3.p/bio_std_sff_read.d.o libbiod.so.0.2.3.p/bio_std_sff_reader.d.o libbiod.so.0.2.3.p/bio_std_sff_readrange.d.o libbiod.so.0.2.3.p/bio_std_sff_utils_roundup.d.o libbiod.so.0.2.3.p/bio_std_sff_writer.d.o +[137/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bam_writer.d.o -c ../bio/std/experimental/hts/bam/writer.d +[138/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_core_utils_range.d.o -c ../bio/core/utils/range.d +[139/199] ldc2 -of=libbiod.so.0.2.3 libbiod.so.0.2.3.p/contrib_undead_cstream.d.o libbiod.so.0.2.3.p/contrib_undead_doformat.d.o libbiod.so.0.2.3.p/contrib_undead_internal_file.d.o libbiod.so.0.2.3.p/contrib_undead_stream.d.o libbiod.so.0.2.3.p/contrib_undead_utf.d.o libbiod.so.0.2.3.p/bio_core_base.d.o libbiod.so.0.2.3.p/bio_core_bgzf_block.d.o libbiod.so.0.2.3.p/bio_core_bgzf_chunk.d.o libbiod.so.0.2.3.p/bio_core_bgzf_compress.d.o libbiod.so.0.2.3.p/bio_core_bgzf_constants.d.o libbiod.so.0.2.3.p/bio_core_bgzf_inputstream.d.o libbiod.so.0.2.3.p/bio_core_bgzf_outputstream.d.o libbiod.so.0.2.3.p/bio_core_bgzf_virtualoffset.d.o libbiod.so.0.2.3.p/bio_core_call.d.o libbiod.so.0.2.3.p/bio_core_decompress.d.o libbiod.so.0.2.3.p/bio_core_genotype.d.o libbiod.so.0.2.3.p/bio_core_kmer.d.o libbiod.so.0.2.3.p/bio_core_region.d.o libbiod.so.0.2.3.p/bio_core_sequence.d.o libbiod.so.0.2.3.p/bio_core_tinymap.d.o libbiod.so.0.2.3.p/bio_core_utils_algo.d.o libbiod.so.0.2.3.p/bio_core_utils_bylinefast.d.o libbiod.so.0.2.3.p/bio_core_utils_exception.d.o libbiod.so.0.2.3.p/bio_core_utils_format.d.o libbiod.so.0.2.3.p/bio_core_utils_memoize.d.o libbiod.so.0.2.3.p/bio_core_utils_outbuffer.d.o libbiod.so.0.2.3.p/bio_core_utils_range.d.o libbiod.so.0.2.3.p/bio_core_utils_roundbuf.d.o libbiod.so.0.2.3.p/bio_core_utils_stream.d.o libbiod.so.0.2.3.p/bio_core_utils_switchendianness.d.o libbiod.so.0.2.3.p/bio_core_utils_tmpfile.d.o libbiod.so.0.2.3.p/bio_core_utils_zlib.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_header.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_reader.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bam_writer.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_bgzf_writer.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_constants.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_hashing.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_logger.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_pileup.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_reads.d.o libbiod.so.0.2.3.p/bio_std_experimental_hts_unpack.d.o libbiod.so.0.2.3.p/bio_std_file_fai.d.o libbiod.so.0.2.3.p/bio_std_file_fasta.d.o libbiod.so.0.2.3.p/bio_std_file_fastq.d.o libbiod.so.0.2.3.p/bio_std_genotype_maf.d.o libbiod.so.0.2.3.p/bio_std_genotype_snp.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_abstractreader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_bai_bin.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_baifile.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_bai_indexing.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_baseinfo.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_cigar.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_constants.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_core.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_operation.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_parse.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_md_reconstruct.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_multireader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_pileup.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_randomaccessmanager.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_read.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_reader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_readrange.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_reference.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_referenceinfo.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_region.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_splitter.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_tagvalue.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_validation_alignment.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_validation_samheader.d.o libbiod.so.0.2.3.p/bio_std_hts_bam_writer.d.o libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowcall.d.o libbiod.so.0.2.3.p/bio_std_hts_iontorrent_flowindex.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_header.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_reader.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_utils_fastrecordparser.d.o libbiod.so.0.2.3.p/bio_std_hts_sam_utils_recordparser.d.o libbiod.so.0.2.3.p/bio_std_hts_snpcallers_maq.d.o libbiod.so.0.2.3.p/bio_std_hts_snpcallers_simple.d.o libbiod.so.0.2.3.p/bio_std_hts_thirdparty_msgpack.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_array.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_graph.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_samheadermerger.d.o libbiod.so.0.2.3.p/bio_std_hts_utils_value.d.o libbiod.so.0.2.3.p/bio_std_maf_block.d.o libbiod.so.0.2.3.p/bio_std_maf_parser.d.o libbiod.so.0.2.3.p/bio_std_maf_reader.d.o libbiod.so.0.2.3.p/bio_std_range_splitter.d.o libbiod.so.0.2.3.p/bio_std_sff_constants.d.o libbiod.so.0.2.3.p/bio_std_sff_index.d.o libbiod.so.0.2.3.p/bio_std_sff_read.d.o libbiod.so.0.2.3.p/bio_std_sff_reader.d.o libbiod.so.0.2.3.p/bio_std_sff_readrange.d.o libbiod.so.0.2.3.p/bio_std_sff_utils_roundup.d.o libbiod.so.0.2.3.p/bio_std_sff_writer.d.o -L=-soname -L=libbiod.so.0 -L=--allow-shlib-undefined -link-defaultlib-shared -shared -relocation-model=pic -O -g -release -wi -L=-z -L=relro -L=-lz +[140/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_unpack.d.o -c ../bio/std/experimental/hts/unpack.d [141/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_constants.d.o -c ../bio/std/hts/bam/constants.d [142/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_file_fastq.d.o -c ../bio/std/file/fastq.d -[143/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_unpack.d.o -c ../bio/std/experimental/hts/unpack.d +[143/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bgzf_writer.d.o -c ../bio/std/experimental/hts/bgzf_writer.d [144/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_pileup.d.o -c ../bio/std/experimental/hts/pileup.d -[145/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_baseinfo.d.o -c ../bio/std/hts/bam/baseinfo.d -[146/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_md_core.d.o -c ../bio/std/hts/bam/md/core.d -[147/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_baifile.d.o -c ../bio/std/hts/bam/baifile.d -[148/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_abstractreader.d.o -c ../bio/std/hts/bam/abstractreader.d -[149/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_cigar.d.o -c ../bio/std/hts/bam/cigar.d -[150/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_md_parse.d.o -c ../bio/std/hts/bam/md/parse.d +[145/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_baifile.d.o -c ../bio/std/hts/bam/baifile.d +[146/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_baseinfo.d.o -c ../bio/std/hts/bam/baseinfo.d +[147/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_abstractreader.d.o -c ../bio/std/hts/bam/abstractreader.d +[148/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_md_core.d.o -c ../bio/std/hts/bam/md/core.d +[149/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_md_parse.d.o -c ../bio/std/hts/bam/md/parse.d ../bio/std/hts/bam/md/parse.d(49): Deprecation: returning this._cached_front escapes a reference to parameter this ../bio/std/hts/bam/md/parse.d(49): perhaps annotate the parameter with return ../bio/std/hts/bam/md/parse.d(53): Deprecation: returning this._cached_back escapes a reference to parameter this ../bio/std/hts/bam/md/parse.d(53): perhaps annotate the parameter with return -[151/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_md_operation.d.o -c ../bio/std/hts/bam/md/operation.d +[150/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_cigar.d.o -c ../bio/std/hts/bam/cigar.d +[151/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_bai_indexing.d.o -c ../bio/std/hts/bam/bai/indexing.d +[152/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_region.d.o -c ../bio/std/hts/bam/region.d +[153/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_stream.d.o -c ../contrib/undead/stream.d +../contrib/undead/stream.d(2192): Deprecation: variable line is shadowing variable contrib.undead.stream.File.__unittest_L2139_C3.line. Rename the foreach variable. +../contrib/undead/stream.d(2202): Deprecation: variable line is shadowing variable contrib.undead.stream.File.__unittest_L2139_C3.line. Rename the foreach variable. +[154/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_md_operation.d.o -c ../bio/std/hts/bam/md/operation.d ../bio/std/hts/bam/md/operation.d(57): Deprecation: returning this._match escapes a reference to parameter this ../bio/std/hts/bam/md/operation.d(57): perhaps annotate the parameter with return ../bio/std/hts/bam/md/operation.d(72): Deprecation: returning this._deletion escapes a reference to parameter this ../bio/std/hts/bam/md/operation.d(72): perhaps annotate the parameter with return -[152/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_bai_indexing.d.o -c ../bio/std/hts/bam/bai/indexing.d -[153/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_region.d.o -c ../bio/std/hts/bam/region.d -[154/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_genotype_snp.d.o -c ../bio/std/genotype/snp.d -[155/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/contrib_undead_stream.d.o -c ../contrib/undead/stream.d -../contrib/undead/stream.d(2192): Deprecation: variable line is shadowing variable contrib.undead.stream.File.__unittest_L2139_C3.line. Rename the foreach variable. -../contrib/undead/stream.d(2202): Deprecation: variable line is shadowing variable contrib.undead.stream.File.__unittest_L2139_C3.line. Rename the foreach variable. -[156/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_readrange.d.o -c ../bio/std/hts/bam/readrange.d -[157/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_file_fai.d.o -c ../bio/std/file/fai.d -[158/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_referenceinfo.d.o -c ../bio/std/hts/bam/referenceinfo.d -[159/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bgzf.d.o -c ../bio/std/experimental/hts/bgzf.d +[155/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bgzf.d.o -c ../bio/std/experimental/hts/bgzf.d ../bio/std/experimental/hts/bgzf.d(202): Deprecation: function std.typecons.Nullable!ulong.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bgzf.d(212): Deprecation: function std.typecons.Nullable!ulong.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bgzf.d(418): Deprecation: function std.typecons.Nullable!int.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bgzf.d(425): Deprecation: function std.typecons.Nullable!int.Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. -[160/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_iontorrent_flowindex.d.o -c ../bio/std/hts/iontorrent/flowindex.d -[161/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_splitter.d.o -c ../bio/std/hts/bam/splitter.d -[162/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_validation_samheader.d.o -c ../bio/std/hts/bam/validation/samheader.d -[163/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bam_reader.d.o -c ../bio/std/experimental/hts/bam/reader.d +[156/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_readrange.d.o -c ../bio/std/hts/bam/readrange.d +[157/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_referenceinfo.d.o -c ../bio/std/hts/bam/referenceinfo.d +[158/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_splitter.d.o -c ../bio/std/hts/bam/splitter.d +[159/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_file_fai.d.o -c ../bio/std/file/fai.d +[160/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_experimental_hts_bam_reader.d.o -c ../bio/std/experimental/hts/bam/reader.d ../bio/std/experimental/hts/bam/reader.d(237): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bam/reader.d(245): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bam/reader.d(246): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. @@ -919,38 +951,40 @@ ../bio/std/experimental/hts/bam/reader.d(392): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bam/reader.d(412): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. ../bio/std/experimental/hts/bam/reader.d(491): Deprecation: function std.typecons.Nullable!(ReadBlob).Nullable.get_ is deprecated - Implicit conversion with alias Nullable.get this will be removed after 2.096. Please use .get explicitly. -[164/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_file_fasta.d.o -c ../bio/std/file/fasta.d -[165/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_reference.d.o -c ../bio/std/hts/bam/reference.d -[166/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_randomaccessmanager.d.o -c ../bio/std/hts/bam/randomaccessmanager.d -[167/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_reader.d.o -c ../bio/std/hts/bam/reader.d -[168/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_utils_array.d.o -c ../bio/std/hts/utils/array.d -[169/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_utils_graph.d.o -c ../bio/std/hts/utils/graph.d +[161/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_file_fasta.d.o -c ../bio/std/file/fasta.d +[162/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_iontorrent_flowindex.d.o -c ../bio/std/hts/iontorrent/flowindex.d +[163/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_genotype_snp.d.o -c ../bio/std/genotype/snp.d +[164/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_validation_samheader.d.o -c ../bio/std/hts/bam/validation/samheader.d +[165/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_randomaccessmanager.d.o -c ../bio/std/hts/bam/randomaccessmanager.d +[166/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_snpcallers_simple.d.o -c ../bio/std/hts/snpcallers/simple.d +[167/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_md_reconstruct.d.o -c ../bio/std/hts/bam/md/reconstruct.d +[168/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_reference.d.o -c ../bio/std/hts/bam/reference.d +[169/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_utils_array.d.o -c ../bio/std/hts/utils/array.d [170/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_snpcallers_maq.d.o -c ../bio/std/hts/snpcallers/maq.d ../bio/core/tinymap.d(61): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/core/tinymap.d(76): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/core/tinymap.d(101): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. -[171/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_writer.d.o -c ../bio/std/hts/bam/writer.d -[172/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_snpcallers_simple.d.o -c ../bio/std/hts/snpcallers/simple.d -[173/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_maf_block.d.o -c ../bio/std/maf/block.d -[174/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_md_reconstruct.d.o -c ../bio/std/hts/bam/md/reconstruct.d -[175/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_utils_value.d.o -c ../bio/std/hts/utils/value.d -[176/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_constants.d.o -c ../bio/std/sff/constants.d -[177/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_index.d.o -c ../bio/std/sff/index.d -[178/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_range_splitter.d.o -c ../bio/std/range/splitter.d -[179/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_read.d.o -c ../bio/std/sff/read.d -[180/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_multireader.d.o -c ../bio/std/hts/bam/multireader.d -[181/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_maf_parser.d.o -c ../bio/std/maf/parser.d +[171/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_utils_graph.d.o -c ../bio/std/hts/utils/graph.d +[172/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_maf_block.d.o -c ../bio/std/maf/block.d +[173/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_reader.d.o -c ../bio/std/hts/bam/reader.d +[174/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_writer.d.o -c ../bio/std/hts/bam/writer.d +[175/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_constants.d.o -c ../bio/std/sff/constants.d +[176/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_index.d.o -c ../bio/std/sff/index.d +[177/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_utils_value.d.o -c ../bio/std/hts/utils/value.d +[178/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_read.d.o -c ../bio/std/sff/read.d +[179/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_maf_parser.d.o -c ../bio/std/maf/parser.d +[180/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_range_splitter.d.o -c ../bio/std/range/splitter.d +[181/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_maf_reader.d.o -c ../bio/std/maf/reader.d [182/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_utils_roundup.d.o -c ../bio/std/sff/utils/roundup.d -[183/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_maf_reader.d.o -c ../bio/std/maf/reader.d -[184/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/_build_libbiod-0.2.3+git20191120.b8eecef_obj-x86_64-linux-gnu_utmain.d.o -c /build/libbiod-0.2.3+git20191120.b8eecef/obj-x86_64-linux-gnu/utmain.d -[185/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_writer.d.o -c ../bio/std/sff/writer.d -[186/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_readrange.d.o -c ../bio/std/sff/readrange.d -[187/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_sam_reader.d.o -c ../bio/std/hts/sam/reader.d -[188/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_read.d.o -c ../bio/std/hts/bam/read.d -[189/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_reader.d.o -c ../bio/std/sff/reader.d -[190/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_iontorrent_flowcall.d.o -c ../bio/std/hts/iontorrent/flowcall.d -[191/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_tagvalue.d.o -c ../bio/std/hts/bam/tagvalue.d -[192/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_sam_utils_recordparser.d.o -c ../bio/std/hts/sam/utils/recordparser.d +[183/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/_build_libbiod-0.2.3+git20191120.b8eecef_obj-x86_64-linux-gnu_utmain.d.o -c /build/libbiod-0.2.3+git20191120.b8eecef/obj-x86_64-linux-gnu/utmain.d +[184/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_readrange.d.o -c ../bio/std/sff/readrange.d +[185/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_reader.d.o -c ../bio/std/sff/reader.d +[186/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_sff_writer.d.o -c ../bio/std/sff/writer.d +[187/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_read.d.o -c ../bio/std/hts/bam/read.d +[188/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_iontorrent_flowcall.d.o -c ../bio/std/hts/iontorrent/flowcall.d +[189/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_sam_reader.d.o -c ../bio/std/hts/sam/reader.d +[190/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_tagvalue.d.o -c ../bio/std/hts/bam/tagvalue.d +[191/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_sam_utils_recordparser.d.o -c ../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 @@ -987,6 +1021,7 @@ 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 +[192/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_validation_alignment.d.o -c ../bio/std/hts/bam/validation/alignment.d [193/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_thirdparty_msgpack.d.o -c ../bio/std/hts/thirdparty/msgpack.d ../bio/std/hts/thirdparty/msgpack.d(2033): Deprecation: integral promotion not done for -header, use '-preview=intpromote' switch or -cast(int)(header) ../bio/std/hts/thirdparty/msgpack.d(2033): Deprecation: integral promotion not done for -header, use '-preview=intpromote' switch or -cast(int)(header) @@ -996,9 +1031,8 @@ ../bio/std/hts/thirdparty/msgpack.d(2033): Deprecation: integral promotion not done for -header, use '-preview=intpromote' switch or -cast(int)(header) ../bio/std/hts/thirdparty/msgpack.d(1116): Deprecation: returning this.vecList_ escapes a reference to parameter this ../bio/std/hts/thirdparty/msgpack.d(1116): perhaps annotate the parameter with return -[194/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_validation_alignment.d.o -c ../bio/std/hts/bam/validation/alignment.d -[195/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_sam_header.d.o -c ../bio/std/hts/sam/header.d -[196/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_sam_utils_fastrecordparser.d.o -c ../bio/std/hts/sam/utils/fastrecordparser.d +[194/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_bam_multireader.d.o -c ../bio/std/hts/bam/multireader.d +[195/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_sam_utils_fastrecordparser.d.o -c ../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 @@ -1035,6 +1069,7 @@ 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 +[196/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_sam_header.d.o -c ../bio/std/hts/sam/header.d [197/199] ldc2 -I=biod_test.p -I=. -I=.. -enable-color -wi -O -g -release -wi -O3 -release -enable-inlining -boundscheck=off -unittest -of=biod_test.p/bio_std_hts_utils_samheadermerger.d.o -c ../bio/std/hts/utils/samheadermerger.d ../bio/std/hts/utils/samheadermerger.d(217): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. ../bio/std/hts/utils/samheadermerger.d(222): Deprecation: opIn_r is deprecated. Use opBinaryRight(string op)(...) if (op == "in") instead. @@ -1046,36 +1081,36 @@ make[1]: Entering directory '/build/libbiod-0.2.3+git20191120.b8eecef' # we ignore test failures for now, the tests fail to find a few files correctly dh_auto_test - cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 MESON_TESTTHREADS=15 ninja test + cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 MESON_TESTTHREADS=16 ninja test [0/1] Running all tests. The output from the failed tests: -1/1 biod_tests FAIL 1.56s (exit status 1) +1/1 biod_tests FAIL 1.88s (exit status 1) --- command --- -19:37:38 /build/libbiod-0.2.3+git20191120.b8eecef/obj-x86_64-linux-gnu/biod_test --DRT-gcopt=gc:precise disable:1 cleanup:none +02:03:24 /build/libbiod-0.2.3+git20191120.b8eecef/obj-x86_64-linux-gnu/biod_test --DRT-gcopt=gc:precise disable:1 cleanup:none --- stdout --- /usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d(2051): [unittest] test/data/BXD_geno.txt.gz: No such file or directory --- stderr --- std.file.FileException@/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d(2051): test/data/BXD_geno.txt.gz: No such file or directory ---------------- -/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d:283 @trusted bool std.file.cenforce!(bool).cenforce(bool, scope const(char)[], scope const(char)*, immutable(char)[], ulong) [0x5564790c6566] -decompress.d:2051 @safe uint std.file.getAttributes!(immutable(char)[]).getAttributes(immutable(char)[]) [0x5564790c6412] -/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d:2527 [0x5564790c58f0] -decompress.d:105 [0x5564790c5804] -decompress.d:0 [0x5564790c69a9] -??:? int core.runtime.runModuleUnitTests().__foreachbody2(object.ModuleInfo*) [0x7f201988b328] -??:? int rt.minfo.moduleinfos_apply(scope int delegate(immutable(object.ModuleInfo*))).__foreachbody2(ref rt.sections_elf_shared.DSO) [0x7f20198b8a6a] -??:? int rt.sections_elf_shared.DSO.opApply(scope int delegate(ref rt.sections_elf_shared.DSO)) [0x7f20198b9ce8] -??:? int rt.minfo.moduleinfos_apply(scope int delegate(immutable(object.ModuleInfo*))) [0x7f20198b89fb] -??:? int object.ModuleInfo.opApply(scope int delegate(object.ModuleInfo*)) [0x7f20198a4bee] -??:? runModuleUnitTests [0x7f201988b1d4] -??:? void rt.dmain2._d_run_main2(char[][], ulong, extern (C) int function(char[][])*).runAll() [0x7f20198af04a] -??:? _d_run_main2 [0x7f20198aee97] -??:? _d_run_main [0x7f20198aeced] -??:? __libc_start_main [0x7f20194a6d09] -??:? [0x55647908ecf9] +/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d:283 @trusted bool std.file.cenforce!(bool).cenforce(bool, scope const(char)[], scope const(char)*, immutable(char)[], ulong) [0x55796ea86566] +decompress.d:2051 @safe uint std.file.getAttributes!(immutable(char)[]).getAttributes(immutable(char)[]) [0x55796ea86412] +/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d:2527 [0x55796ea858f0] +decompress.d:105 [0x55796ea85804] +decompress.d:0 [0x55796ea869a9] +??:? int core.runtime.runModuleUnitTests().__foreachbody2(object.ModuleInfo*) [0x7f2657633328] +??:? int rt.minfo.moduleinfos_apply(scope int delegate(immutable(object.ModuleInfo*))).__foreachbody2(ref rt.sections_elf_shared.DSO) [0x7f2657660a6a] +??:? int rt.sections_elf_shared.DSO.opApply(scope int delegate(ref rt.sections_elf_shared.DSO)) [0x7f2657661ce8] +??:? int rt.minfo.moduleinfos_apply(scope int delegate(immutable(object.ModuleInfo*))) [0x7f26576609fb] +??:? int object.ModuleInfo.opApply(scope int delegate(object.ModuleInfo*)) [0x7f265764cbee] +??:? runModuleUnitTests [0x7f26576331d4] +??:? void rt.dmain2._d_run_main2(char[][], ulong, extern (C) int function(char[][])*).runAll() [0x7f265765704a] +??:? _d_run_main2 [0x7f2657656e97] +??:? _d_run_main [0x7f2657656ced] +??:? __libc_start_main [0x7f265724ed09] +??:? [0x55796ea4ecf9] Running unittests... **** Calling GC **** Past calling GC @@ -1085,7 +1120,7 @@ Summary of Failures: -1/1 biod_tests FAIL 1.56s (exit status 1) +1/1 biod_tests FAIL 1.88s (exit status 1) Ok: 0 Expected Fail: 0 @@ -1100,35 +1135,35 @@ ninja: build stopped: subcommand failed. cd obj-x86_64-linux-gnu && tail -v -n \+0 meson-logs/testlog.txt ==> meson-logs/testlog.txt <== -Log of Meson test suite run on 2021-10-29T07:37:38.884388 +Log of Meson test suite run on 2022-12-02T16:03:24.335176 -Inherited environment: DEB_HOST_GNU_SYSTEM='linux-gnu' SUDO_GID='111' DFLAGS='-O -g -release -wi' DEB_BUILD_ARCH_BITS='64' DEB_TARGET_GNU_CPU='x86_64' MAIL='/var/mail/root' DEB_HOST_ARCH_OS='linux' LANGUAGE='en_US:en' USER='pbuilder1' CXXFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong -Wformat -Werror=format-security' DEB_BUILD_GNU_TYPE='x86_64-linux-gnu' BUILDUSERNAME='pbuilder1' DEB_TARGET_MULTIARCH='x86_64-linux-gnu' OBJCFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong -Wformat -Werror=format-security' DH_INTERNAL_OPTIONS='-O--buildsystem=meson' DEB_BUILD_ARCH_CPU='amd64' SHLVL='1' DEB_HOST_ARCH_LIBC='gnu' DEB_HOST_ARCH_ABI='base' OLDPWD='/' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' HOME='/nonexistent/first-build' DEB_BUILD_ARCH_ENDIAN='little' LDFLAGS='-Wl,-z,relro' DEB_TARGET_ARCH_BITS='64' DEB_BUILD_GNU_SYSTEM='linux-gnu' MAKEFLAGS='w' PBUILDER_OPERATION='build' DEB_BUILD_ARCH_OS='linux' DEB_TARGET_GNU_TYPE='x86_64-linux-gnu' SUDO_UID='106' PBUILDER_PKGDATADIR='/usr/share/pbuilder' DEB_TARGET_ARCH_CPU='amd64' DC='ldc2' LOGNAME='pbuilder1' DEB_BUILD_ARCH_LIBC='gnu' DEB_BUILD_ARCH_ABI='base' PBUILDER_SYSCONFDIR='/etc' _='/usr/bin/unshare' DEB_HOST_ARCH='amd64' DEB_TARGET_ARCH_ENDIAN='little' TERM='unknown' DH_INTERNAL_OVERRIDE='dh_auto_test' DEB_HOST_GNU_CPU='x86_64' DEB_TARGET_GNU_SYSTEM='linux-gnu' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' INVOCATION_ID='0d713cac185b43f890ecaf0facbd61a0' MESON_TESTTHREADS='15' DEB_TARGET_ARCH_OS='linux' CFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong -Wformat -Werror=format-security' MAKELEVEL='2' DEB_HOST_MULTIARCH='x86_64-linux-gnu' SOURCE_DATE_EPOCH='1579034133' FCFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong' OBJCXXFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong -Wformat -Werror=format-security' LANG='C' LD_PRELOAD='' DEB_TARGET_ARCH_LIBC='gnu' DEB_TARGET_ARCH_ABI='base' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=15' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.G7Z0qrWn8q/pbuilderrc_S43B --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.G7Z0qrWn8q/b1 --logfile b1/build.log libbiod_0.2.3+git20191120.b8eecef-2.dsc' CPPFLAGS='-Wdate-time -D_FORTIFY_SOURCE=2' DEBIAN_FRONTEND='noninteractive' DH_INTERNAL_BUILDFLAGS='1' SHELL='/bin/bash' DEB_HOST_ARCH_BITS='64' DEB_BUILD_ARCH='amd64' SUDO_USER='jenkins' DEB_BUILD_GNU_CPU='x86_64' DEB_HOST_GNU_TYPE='x86_64-linux-gnu' LC_ALL='C.UTF-8' PWD='/build/libbiod-0.2.3+git20191120.b8eecef/obj-x86_64-linux-gnu' DEB_HOST_ARCH_CPU='amd64' DEB_RULES_REQUIRES_ROOT='binary-targets' FFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong' DEB_BUILD_MULTIARCH='x86_64-linux-gnu' MFLAGS='-w' TZ='/usr/share/zoneinfo/Etc/GMT+12' GCJFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong' PBCURRENTCOMMANDLINEOPERATION='build' DEB_HOST_ARCH_ENDIAN='little' DEB_TARGET_ARCH='amd64' +Inherited environment: SHELL='/bin/bash' DEB_HOST_ARCH_LIBC='gnu' SUDO_GID='110' DEB_TARGET_GNU_SYSTEM='linux-gnu' GCJFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong' DEB_HOST_MULTIARCH='x86_64-linux-gnu' LANGUAGE='et_EE:et' DEB_TARGET_ARCH_CPU='amd64' BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' DH_INTERNAL_OVERRIDE='dh_auto_test' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.G7Z0qrWn8q/pbuilderrc_Lr1z --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.G7Z0qrWn8q/b2 --logfile b2/build.log libbiod_0.2.3+git20191120.b8eecef-2.dsc' SUDO_USER='jenkins' DEB_TARGET_ARCH_BITS='64' FFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong' PBUILDER_SYSCONFDIR='/etc' PWD='/build/libbiod-0.2.3+git20191120.b8eecef/obj-x86_64-linux-gnu' DEB_BUILD_MULTIARCH='x86_64-linux-gnu' SOURCE_DATE_EPOCH='1579034133' LOGNAME='pbuilder2' DEB_HOST_GNU_SYSTEM='linux-gnu' DEB_RULES_REQUIRES_ROOT='binary-targets' DEB_BUILD_ARCH_BITS='64' CXXFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong -Wformat -Werror=format-security' DEB_BUILD_ARCH_OS='linux' _='/usr/bin/meson' TZ='/usr/share/zoneinfo/Etc/GMT-14' BUILDUSERNAME='pbuilder2' LD_PRELOAD='' LDFLAGS='-Wl,-z,relro' HOME='/nonexistent/second-build' LANG='C' DEB_HOST_ARCH_ABI='base' DEB_TARGET_ARCH_LIBC='gnu' DEB_TARGET_GNU_TYPE='x86_64-linux-gnu' DEB_TARGET_ARCH_ABI='base' CPPFLAGS='-Wdate-time -D_FORTIFY_SOURCE=2' INVOCATION_ID='0d27d59ff118414e84ebe656747c541a' DEB_TARGET_ARCH='amd64' DC='ldc2' DEB_BUILD_ARCH='amd64' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' DEB_TARGET_ARCH_OS='linux' MFLAGS='-w' PBUILDER_OPERATION='build' FCFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong' MAKEFLAGS='w' MESON_TESTTHREADS='16' TERM='unknown' DEB_TARGET_MULTIARCH='x86_64-linux-gnu' DEB_BUILD_ARCH_CPU='amd64' DEB_BUILD_ARCH_LIBC='gnu' OBJCFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong -Wformat -Werror=format-security' USER='pbuilder2' DEB_HOST_ARCH_BITS='64' DEB_BUILD_GNU_TYPE='x86_64-linux-gnu' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=16' SHLVL='2' MAKELEVEL='2' DEB_BUILD_GNU_SYSTEM='linux-gnu' DH_INTERNAL_OPTIONS='-O--buildsystem=meson' DEB_TARGET_GNU_CPU='x86_64' DEB_TARGET_ARCH_ENDIAN='little' DEB_HOST_ARCH='amd64' DEB_HOST_ARCH_ENDIAN='little' DEB_HOST_GNU_TYPE='x86_64-linux-gnu' LC_ALL='C.UTF-8' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path' DEB_BUILD_ARCH_ENDIAN='little' DEB_HOST_ARCH_CPU='amd64' CFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong -Wformat -Werror=format-security' SUDO_UID='105' OBJCXXFLAGS='-g -O2 -fdebug-prefix-map=/build/libbiod-0.2.3+git20191120.b8eecef=. -fstack-protector-strong -Wformat -Werror=format-security' MAIL='/var/mail/root' DFLAGS='-O -g -release -wi' DEB_HOST_GNU_CPU='x86_64' DEB_HOST_ARCH_OS='linux' DEB_BUILD_GNU_CPU='x86_64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_ARCH_ABI='base' DH_INTERNAL_BUILDFLAGS='1' OLDPWD='/' -1/1 biod_tests FAIL 1.56s (exit status 1) +1/1 biod_tests FAIL 1.88s (exit status 1) --- command --- -19:37:38 /build/libbiod-0.2.3+git20191120.b8eecef/obj-x86_64-linux-gnu/biod_test --DRT-gcopt=gc:precise disable:1 cleanup:none +02:03:24 /build/libbiod-0.2.3+git20191120.b8eecef/obj-x86_64-linux-gnu/biod_test --DRT-gcopt=gc:precise disable:1 cleanup:none --- stdout --- /usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d(2051): [unittest] test/data/BXD_geno.txt.gz: No such file or directory --- stderr --- std.file.FileException@/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d(2051): test/data/BXD_geno.txt.gz: No such file or directory ---------------- -/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d:283 @trusted bool std.file.cenforce!(bool).cenforce(bool, scope const(char)[], scope const(char)*, immutable(char)[], ulong) [0x5564790c6566] -decompress.d:2051 @safe uint std.file.getAttributes!(immutable(char)[]).getAttributes(immutable(char)[]) [0x5564790c6412] -/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d:2527 [0x5564790c58f0] -decompress.d:105 [0x5564790c5804] -decompress.d:0 [0x5564790c69a9] -??:? int core.runtime.runModuleUnitTests().__foreachbody2(object.ModuleInfo*) [0x7f201988b328] -??:? int rt.minfo.moduleinfos_apply(scope int delegate(immutable(object.ModuleInfo*))).__foreachbody2(ref rt.sections_elf_shared.DSO) [0x7f20198b8a6a] -??:? int rt.sections_elf_shared.DSO.opApply(scope int delegate(ref rt.sections_elf_shared.DSO)) [0x7f20198b9ce8] -??:? int rt.minfo.moduleinfos_apply(scope int delegate(immutable(object.ModuleInfo*))) [0x7f20198b89fb] -??:? int object.ModuleInfo.opApply(scope int delegate(object.ModuleInfo*)) [0x7f20198a4bee] -??:? runModuleUnitTests [0x7f201988b1d4] -??:? void rt.dmain2._d_run_main2(char[][], ulong, extern (C) int function(char[][])*).runAll() [0x7f20198af04a] -??:? _d_run_main2 [0x7f20198aee97] -??:? _d_run_main [0x7f20198aeced] -??:? __libc_start_main [0x7f20194a6d09] -??:? [0x55647908ecf9] +/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d:283 @trusted bool std.file.cenforce!(bool).cenforce(bool, scope const(char)[], scope const(char)*, immutable(char)[], ulong) [0x55796ea86566] +decompress.d:2051 @safe uint std.file.getAttributes!(immutable(char)[]).getAttributes(immutable(char)[]) [0x55796ea86412] +/usr/lib/ldc/x86_64-linux-gnu/include/d/std/file.d:2527 [0x55796ea858f0] +decompress.d:105 [0x55796ea85804] +decompress.d:0 [0x55796ea869a9] +??:? int core.runtime.runModuleUnitTests().__foreachbody2(object.ModuleInfo*) [0x7f2657633328] +??:? int rt.minfo.moduleinfos_apply(scope int delegate(immutable(object.ModuleInfo*))).__foreachbody2(ref rt.sections_elf_shared.DSO) [0x7f2657660a6a] +??:? int rt.sections_elf_shared.DSO.opApply(scope int delegate(ref rt.sections_elf_shared.DSO)) [0x7f2657661ce8] +??:? int rt.minfo.moduleinfos_apply(scope int delegate(immutable(object.ModuleInfo*))) [0x7f26576609fb] +??:? int object.ModuleInfo.opApply(scope int delegate(object.ModuleInfo*)) [0x7f265764cbee] +??:? runModuleUnitTests [0x7f26576331d4] +??:? void rt.dmain2._d_run_main2(char[][], ulong, extern (C) int function(char[][])*).runAll() [0x7f265765704a] +??:? _d_run_main2 [0x7f2657656e97] +??:? _d_run_main [0x7f2657656ced] +??:? __libc_start_main [0x7f265724ed09] +??:? [0x55796ea4ecf9] Running unittests... **** Calling GC **** Past calling GC @@ -1138,7 +1173,7 @@ Summary of Failures: -1/1 biod_tests FAIL 1.56s (exit status 1) +1/1 biod_tests FAIL 1.88s (exit status 1) Ok: 0 Expected Fail: 0 @@ -1146,7 +1181,7 @@ Unexpected Pass: 0 Skipped: 0 Timeout: 0 -dh_auto_test: error: cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 MESON_TESTTHREADS=15 ninja test returned exit code 1 +dh_auto_test: error: cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 MESON_TESTTHREADS=16 ninja test returned exit code 1 make[1]: [debian/rules:17: override_dh_auto_test] Error 25 (ignored) make[1]: Leaving directory '/build/libbiod-0.2.3+git20191120.b8eecef' create-stamp debian/debhelper-build-stamp @@ -1287,16 +1322,16 @@ dh_makeshlibs -O--buildsystem=meson dh_shlibdeps -O--buildsystem=meson dpkg-shlibdeps: warning: symbol _D3std11parallelism__T4TaskS_D3bioQBg12experimental3hts11bgzf_writer16bgzfCompressFuncFAhiQdDFQhQjZvZSQDw8typecons__T5TupleTQBlTQBpTDFQBvQByZvZQBaTQCiTiTQCoTQzZQFi6__initZ used by debian/libbiod0/usr/lib/x86_64-linux-gnu/libbiod.so.0.2.3 found in none of the libraries -dpkg-shlibdeps: warning: symbol _D3std11parallelism__T4TaskS_D3bioQBg12experimental3hts11bgzf_writer16bgzfCompressFuncFAhiQdDFQhQjZvZSQDw8typecons__T5TupleTQBlTQBpTDFQBvQByZvZQBaTQCiTiTQCoTQzZQFi10yieldForceMFNcNdNeZQDf used by debian/libbiod0/usr/lib/x86_64-linux-gnu/libbiod.so.0.2.3 found in none of the libraries dpkg-shlibdeps: warning: symbol _D4core8internal5array8equality__T8__equalsTxPS3std11parallelism__T4TaskS_D3bioQBg12experimental3hts11bgzf_writer16bgzfCompressFuncFAhiQdDFQhQjZvZSQDw8typecons__T5TupleTQBlTQBpTDFQBvQByZvZQBaTQCiTiTQCoTQzZQFiTxQGjZQGyFNaNbNiNfMAxQHcMQgZb used by debian/libbiod0/usr/lib/x86_64-linux-gnu/libbiod.so.0.2.3 found in none of the libraries +dpkg-shlibdeps: warning: symbol _D3std11parallelism__T4TaskS_D3bioQBg12experimental3hts11bgzf_writer16bgzfCompressFuncFAhiQdDFQhQjZvZSQDw8typecons__T5TupleTQBlTQBpTDFQBvQByZvZQBaTQCiTiTQCoTQzZQFi10yieldForceMFNcNdNeZQDf used by debian/libbiod0/usr/lib/x86_64-linux-gnu/libbiod.so.0.2.3 found in none of the libraries dh_installdeb -O--buildsystem=meson dh_gencontrol -O--buildsystem=meson dpkg-gencontrol: warning: Depends field of package libbiod-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--buildsystem=meson dh_builddeb -O--buildsystem=meson -dpkg-deb: building package 'libbiod-dev' in '../libbiod-dev_0.2.3+git20191120.b8eecef-2_amd64.deb'. dpkg-deb: building package 'libbiod0' in '../libbiod0_0.2.3+git20191120.b8eecef-2_amd64.deb'. dpkg-deb: building package 'libbiod0-dbgsym' in '../libbiod0-dbgsym_0.2.3+git20191120.b8eecef-2_amd64.deb'. +dpkg-deb: building package 'libbiod-dev' in '../libbiod-dev_0.2.3+git20191120.b8eecef-2_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../libbiod_0.2.3+git20191120.b8eecef-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1304,12 +1339,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/1240122/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1240122/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/2020155 and its subdirectories -I: Current time: Fri Oct 29 07:38:24 -12 2021 -I: pbuilder-time-stamp: 1635536304 +I: removing directory /srv/workspace/pbuilder/1240122 and its subdirectories +I: Current time: Fri Dec 2 16:04:30 +14 2022 +I: pbuilder-time-stamp: 1669946670