Fri Nov 22 08:00:31 UTC 2024 I: starting to build biobambam2/trixie/i386 on jenkins on '2024-11-22 08:00' Fri Nov 22 08:00:31 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_12/30112/console.log Fri Nov 22 08:00:31 UTC 2024 I: Downloading source for trixie/biobambam2=2.0.185+ds-2 --2024-11-22 08:00:31-- http://deb.debian.org/debian/pool/main/b/biobambam2/biobambam2_2.0.185%2bds-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2254 (2.2K) [text/prs.lines.tag] Saving to: ‘biobambam2_2.0.185+ds-2.dsc’ 0K .. 100% 296M=0s 2024-11-22 08:00:31 (296 MB/s) - ‘biobambam2_2.0.185+ds-2.dsc’ saved [2254/2254] Fri Nov 22 08:00:31 UTC 2024 I: biobambam2_2.0.185+ds-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: biobambam2 Binary: biobambam2 Architecture: any Version: 2.0.185+ds-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://gitlab.com/german.tischler/biobambam2 Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/biobambam2 Vcs-Git: https://salsa.debian.org/med-team/biobambam2.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), pkgconf, libmaus2-dev (>= 2.0.800), libxerces-c-dev Package-List: biobambam2 deb science optional arch=any Checksums-Sha1: 2776b598958c159faa1147765a37a9be788c8725 249000 biobambam2_2.0.185+ds.orig.tar.xz a6d8b9f5865c14806d595f2ac8cd188e3f9edcd2 1032436 biobambam2_2.0.185+ds-2.debian.tar.xz Checksums-Sha256: 90cc8328f4e78771cf87cc918d890d12073cbbfbcad7cf94e35b655e3ec2747a 249000 biobambam2_2.0.185+ds.orig.tar.xz 5010ff92699f48db055e33a6ddda005ed339388cc1995503e985325e4d53652c 1032436 biobambam2_2.0.185+ds-2.debian.tar.xz Files: d0c485318daa583137b98d18fd0add77 249000 biobambam2_2.0.185+ds.orig.tar.xz bc64f60dd4ccfa2477438dcd2db1131e 1032436 biobambam2_2.0.185+ds-2.debian.tar.xz Dgit: 8e56855700614f8a0ddddf4fd2cb5611e10015e4 debian archive/debian/2.0.185+ds-2 https://git.dgit.debian.org/biobambam2 -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmYikWMUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdrX1A//dGe1VAwa3juRlsGgmA9kRTYR+J89 x2/kBqtpIS8cO7onEyZ2MDixN7hFFq9QHCh0w7q1vBpdMMmPXJ5doQIQuTVcvWia Ugv0eGCk7v6Mja6dwECg9/JZ9IKn4BDQ0Mxectx/vWqEaa1BDhX4OLA6TfiluenO bYa0mcj4zm4jtlw1MbFYLOmf3d4fkSrDCtAqacc/DfchuesLVBkBaxb6oX/RuPzP T41aTROw4wxydmqd/04LSEXvJ55mZqzjihN+o12VpSsfdjsjQn/1WV9O7MmLbzdz VVDzXzOCrEzT0Um7E91gJ6E1D0RcUDlSCm2HXNcmUA2xc/ZawEQ8cOQMGkUao7NR DjeF38kGLokp/Djwd0LcoJDlIAfssb+T+B/gDndJINQpHzYsggCAlHfqjpJRRwpz CgvdGt2rrIi3ktmRoraoWmqN6XvCyjQFr3XxmLlw4T6p9Mk/5+Oj3IF+suMtm7EZ 1vLUbLoGwrT/zS+3Fdiu5+31uJv3Nm816IkefAEv/FhRqzrXW20IguFdmLFeQFI8 uP3+CcgbQfcs9REtB2MAJ50GQLi84ch3vXjxdizQAiZXgxhMNXXhn6BLNcgsYmVO 9v9u6mbo10JW+0kXVHsrg0f4I+OwdcrT/xuZKrsDM/VPgFdV6g+GQJE0Dkgbb6i2 py7JtzKEuhkACi0= =ZDUq -----END PGP SIGNATURE----- Fri Nov 22 08:00:31 UTC 2024 I: Checking whether the package is not for us Fri Nov 22 08:00:31 UTC 2024 I: Starting 1st build on remote node ionos12-i386.debian.net. Fri Nov 22 08:00:31 UTC 2024 I: Preparing to do remote build '1' on ionos12-i386.debian.net. Fri Nov 22 08:37:36 UTC 2024 I: Deleting $TMPDIR on ionos12-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Nov 21 20:00:33 -12 2024 I: pbuilder-time-stamp: 1732262433 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [biobambam2_2.0.185+ds-2.dsc] I: copying [./biobambam2_2.0.185+ds.orig.tar.xz] I: copying [./biobambam2_2.0.185+ds-2.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Apr 19 15:44:35 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./biobambam2_2.0.185+ds-2.dsc: no acceptable signature found dpkg-source: info: extracting biobambam2 in biobambam2-2.0.185+ds dpkg-source: info: unpacking biobambam2_2.0.185+ds.orig.tar.xz dpkg-source: info: unpacking biobambam2_2.0.185+ds-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/62243/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=11 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='cb0b434295564e37bc3fb69372db4aee' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' 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='62243' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.BFHKaKXr/pbuilderrc_OMLZ --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.BFHKaKXr/b1 --logfile b1/build.log biobambam2_2.0.185+ds-2.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos12-i386 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/62243/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), pkgconf, libmaus2-dev (>= 2.0.800), libxerces-c-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19956 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on pkgconf; however: Package pkgconf is not installed. pbuilder-satisfydepends-dummy depends on libmaus2-dev (>= 2.0.800); however: Package libmaus2-dev is not installed. pbuilder-satisfydepends-dummy depends on libxerces-c-dev; however: Package libxerces-c-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} file{a} gettext{a} gettext-base{a} gnupg{a} gnupg-l10n{a} gpg{a} gpg-agent{a} gpgconf{a} gpgsm{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libassuan9{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgpgme11t64{a} libgssapi-krb5-2{a} libicu-dev{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libksba8{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libmaus2-2{a} libmaus2-dev{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnpth0t64{a} libpipeline1{a} libpkgconf3{a} libpsl5t64{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libxerces-c-dev{a} libxerces-c3.2t64{a} libxml2{a} m4{a} man-db{a} pinentry-curses{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} readline-common{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl gnupg-utils gpg-wks-client krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix wget 0 packages upgraded, 71 newly installed, 0 to remove and 0 not upgraded. Need to get 47.9 MB of archives. After unpacking 241 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main i386 readline-common all 8.2-5 [69.3 kB] Get: 2 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.24 [24.8 kB] Get: 3 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB] Get: 5 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-3+b1 [43.2 kB] Get: 6 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.22.5-2 [201 kB] Get: 7 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB] Get: 8 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-5 [1196 kB] Get: 9 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.40.2-11 [95.6 kB] Get: 10 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB] Get: 11 http://deb.debian.org/debian trixie/main i386 man-db i386 2.13.0-1 [1428 kB] Get: 12 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB] Get: 13 http://deb.debian.org/debian trixie/main i386 autoconf all 2.72-3 [493 kB] Get: 14 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 16 http://deb.debian.org/debian trixie/main i386 autopoint all 0.22.5-2 [723 kB] Get: 17 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.20 [89.7 kB] Get: 18 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-8 [517 kB] Get: 19 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 22 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 23 http://deb.debian.org/debian trixie/main i386 libelf1t64 i386 0.192-4 [195 kB] Get: 24 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 25 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-5+b1 [9583 kB] Get: 26 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB] Get: 27 http://deb.debian.org/debian trixie/main i386 gettext i386 0.22.5-2 [1631 kB] Get: 28 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian trixie/main i386 debhelper all 13.20 [915 kB] Get: 31 http://deb.debian.org/debian trixie/main i386 libassuan9 i386 3.0.1-2 [62.4 kB] Get: 32 http://deb.debian.org/debian trixie/main i386 libreadline8t64 i386 8.2-5 [173 kB] Get: 33 http://deb.debian.org/debian trixie/main i386 gpgconf i386 2.2.45-2 [127 kB] Get: 34 http://deb.debian.org/debian trixie/main i386 libksba8 i386 1.6.7-2+b1 [142 kB] Get: 35 http://deb.debian.org/debian trixie/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-8 [20.6 kB] Get: 36 http://deb.debian.org/debian trixie/main i386 libsasl2-2 i386 2.1.28+dfsg1-8 [61.0 kB] Get: 37 http://deb.debian.org/debian trixie/main i386 libldap-2.5-0 i386 2.5.18+dfsg-3+b1 [200 kB] Get: 38 http://deb.debian.org/debian trixie/main i386 libnpth0t64 i386 1.6-3.1+b1 [18.3 kB] Get: 39 http://deb.debian.org/debian trixie/main i386 dirmngr i386 2.2.45-2 [396 kB] Get: 40 http://deb.debian.org/debian trixie/main i386 gnupg-l10n all 2.2.45-2 [705 kB] Get: 41 http://deb.debian.org/debian trixie/main i386 gpg i386 2.2.45-2 [573 kB] Get: 42 http://deb.debian.org/debian trixie/main i386 pinentry-curses i386 1.2.1-4+b1 [80.4 kB] Get: 43 http://deb.debian.org/debian trixie/main i386 gpg-agent i386 2.2.45-2 [269 kB] Get: 44 http://deb.debian.org/debian trixie/main i386 gpgsm i386 2.2.45-2 [275 kB] Get: 45 http://deb.debian.org/debian trixie/main i386 gnupg all 2.2.45-2 [376 kB] Get: 46 http://deb.debian.org/debian trixie/main i386 icu-devtools i386 72.1-5+b1 [218 kB] Get: 47 http://deb.debian.org/debian trixie/main i386 libbrotli1 i386 1.1.0-2+b6 [308 kB] Get: 48 http://deb.debian.org/debian trixie/main i386 libcom-err2 i386 1.47.1-1+b1 [23.4 kB] Get: 49 http://deb.debian.org/debian trixie/main i386 libkrb5support0 i386 1.21.3-3 [34.9 kB] Get: 50 http://deb.debian.org/debian trixie/main i386 libk5crypto3 i386 1.21.3-3 [83.6 kB] Get: 51 http://deb.debian.org/debian trixie/main i386 libkeyutils1 i386 1.6.3-4 [9600 B] Get: 52 http://deb.debian.org/debian trixie/main i386 libkrb5-3 i386 1.21.3-3 [350 kB] Get: 53 http://deb.debian.org/debian trixie/main i386 libgssapi-krb5-2 i386 1.21.3-3 [146 kB] Get: 54 http://deb.debian.org/debian trixie/main i386 libnghttp2-14 i386 1.64.0-1 [82.4 kB] Get: 55 http://deb.debian.org/debian trixie/main i386 libnghttp3-9 i386 1.4.0-1+b1 [74.9 kB] Get: 56 http://deb.debian.org/debian trixie/main i386 libngtcp2-16 i386 1.6.0-1 [154 kB] Get: 57 http://deb.debian.org/debian trixie/main i386 libngtcp2-crypto-gnutls8 i386 1.6.0-1 [20.2 kB] Get: 58 http://deb.debian.org/debian trixie/main i386 libpsl5t64 i386 0.21.2-1.1+b1 [57.7 kB] Get: 59 http://deb.debian.org/debian trixie/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b5 [62.4 kB] Get: 60 http://deb.debian.org/debian trixie/main i386 libssh2-1t64 i386 1.11.1-1 [256 kB] Get: 61 http://deb.debian.org/debian trixie/main i386 libcurl3t64-gnutls i386 8.11.0-1 [403 kB] Get: 62 http://deb.debian.org/debian trixie/main i386 libgpgme11t64 i386 1.24.0-2 [349 kB] Get: 63 http://deb.debian.org/debian trixie/main i386 libicu-dev i386 72.1-5+b1 [10.6 MB] Get: 64 http://deb.debian.org/debian trixie/main i386 libmaus2-2 i386 2.0.813+ds-3 [2164 kB] Get: 65 http://deb.debian.org/debian trixie/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1+b1 [916 kB] Get: 66 http://deb.debian.org/debian trixie/main i386 libmaus2-dev i386 2.0.813+ds-3 [5077 kB] Get: 67 http://deb.debian.org/debian trixie/main i386 libpkgconf3 i386 1.8.1-4 [38.4 kB] Get: 68 http://deb.debian.org/debian trixie/main i386 libxerces-c3.2t64 i386 3.2.4+debian-1.3+b1 [964 kB] Get: 69 http://deb.debian.org/debian trixie/main i386 libxerces-c-dev i386 3.2.4+debian-1.3+b1 [1791 kB] Get: 70 http://deb.debian.org/debian trixie/main i386 pkgconf-bin i386 1.8.1-4 [30.6 kB] Get: 71 http://deb.debian.org/debian trixie/main i386 pkgconf i386 1.8.1-4 [26.2 kB] Fetched 47.9 MB in 2s (31.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package readline-common. (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 ... 19956 files and directories currently installed.) Preparing to unpack .../00-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:i386. Preparing to unpack .../03-libmagic1t64_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic1t64:i386 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-3+b1_i386.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.22.5-2_i386.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../06-libuchardet0_0.0.8-1+b2_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.23.0-5_i386.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.40.2-11_i386.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../09-libpipeline1_1.5.8-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.13.0-1_i386.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-4_i386.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.22.5-2_all.deb ... 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Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8 to /lib/i386-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8.2 to /lib/i386-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8 to /lib/i386-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8.2 to /lib/i386-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:i386 (8.2-5) ... Selecting previously unselected package gpgconf. Preparing to unpack .../32-gpgconf_2.2.45-2_i386.deb ... Unpacking gpgconf (2.2.45-2) ... Selecting previously unselected package libksba8:i386. Preparing to unpack .../33-libksba8_1.6.7-2+b1_i386.deb ... Unpacking libksba8:i386 (1.6.7-2+b1) ... Selecting previously unselected package libsasl2-modules-db:i386. 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Selecting previously unselected package libcom-err2:i386. Preparing to unpack .../47-libcom-err2_1.47.1-1+b1_i386.deb ... Unpacking libcom-err2:i386 (1.47.1-1+b1) ... Selecting previously unselected package libkrb5support0:i386. Preparing to unpack .../48-libkrb5support0_1.21.3-3_i386.deb ... Unpacking libkrb5support0:i386 (1.21.3-3) ... Selecting previously unselected package libk5crypto3:i386. Preparing to unpack .../49-libk5crypto3_1.21.3-3_i386.deb ... Unpacking libk5crypto3:i386 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:i386. Preparing to unpack .../50-libkeyutils1_1.6.3-4_i386.deb ... Unpacking libkeyutils1:i386 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:i386. Preparing to unpack .../51-libkrb5-3_1.21.3-3_i386.deb ... Unpacking libkrb5-3:i386 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:i386. Preparing to unpack .../52-libgssapi-krb5-2_1.21.3-3_i386.deb ... Unpacking libgssapi-krb5-2:i386 (1.21.3-3) ... 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Setting up libsasl2-modules-db:i386 (2.1.28+dfsg1-8) ... Setting up autotools-dev (20220109.1) ... Setting up libpkgconf3:i386 (1.8.1-4) ... Setting up gnupg-l10n (2.2.45-2) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up autopoint (0.22.5-2) ... Setting up icu-devtools (72.1-5+b1) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libk5crypto3:i386 (1.21.3-3) ... Setting up libsasl2-2:i386 (2.1.28+dfsg1-8) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:i386 (1.4.0-1+b1) ... Setting up zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:i386 (0.0.8-1+b2) ... Setting up libassuan9:i386 (3.0.1-2) ... Setting up libngtcp2-16:i386 (1.6.0-1) ... Setting up libkrb5-3:i386 (1.21.3-3) ... Setting up libssh2-1t64:i386 (1.11.1-1) ... Setting up readline-common (8.2-5) ... Setting up libicu-dev:i386 (72.1-5+b1) ... Setting up libxml2:i386 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libngtcp2-crypto-gnutls8:i386 (1.6.0-1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up pinentry-curses (1.2.1-4+b1) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up libldap-2.5-0:i386 (2.5.18+dfsg-3+b1) ... Setting up pkgconf:i386 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libgssapi-krb5-2:i386 (1.21.3-3) ... Setting up libreadline8t64:i386 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up gpgconf (2.2.45-2) ... Setting up gpg (2.2.45-2) ... Setting up gpg-agent (2.2.45-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up gpgsm (2.2.45-2) ... Setting up libcurl3t64-gnutls:i386 (8.11.0-1) ... Setting up libxerces-c3.2t64:i386 (3.2.4+debian-1.3+b1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up dirmngr (2.2.45-2) ... Setting up libxerces-c-dev:i386 (3.2.4+debian-1.3+b1) ... Setting up gnupg (2.2.45-2) ... Setting up libgpgme11t64:i386 (1.24.0-2) ... Setting up libmaus2-2:i386 (2.0.813+ds-3) ... Setting up debhelper (13.20) ... Setting up libmaus2-dev (2.0.813+ds-3) ... Processing triggers for libc-bin (2.40-3) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/biobambam2-2.0.185+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../biobambam2_2.0.185+ds-2_source.changes dpkg-buildpackage: info: source package biobambam2 dpkg-buildpackage: info: source version 2.0.185+ds-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds' dh_auto_clean rm -f config.log make[1]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:2: warning: The macro 'AC_CANONICAL_SYSTEM' is obsolete. configure.ac:2: You should run autoupdate. ./lib/autoconf/general.m4:2081: AC_CANONICAL_SYSTEM is expanded from... configure.ac:2: the top level configure.ac:3: warning: The macro 'AC_PROG_LIBTOOL' is obsolete. configure.ac:3: You should run autoupdate. m4/libtool.m4:100: AC_PROG_LIBTOOL is expanded from... configure.ac:3: the top level configure.ac:6: warning: 'AM_CONFIG_HEADER': this macro is obsolete. configure.ac:6: You should use the 'AC_CONFIG_HEADERS' macro instead. ./lib/autoconf/general.m4:2434: AC_DIAGNOSE is expanded from... aclocal.m4:1089: AM_CONFIG_HEADER is expanded from... configure.ac:6: the top level configure.ac:9: warning: The macro 'AC_CANONICAL_SYSTEM' is obsolete. configure.ac:9: You should run autoupdate. ./lib/autoconf/general.m4:2081: AC_CANONICAL_SYSTEM is expanded from... configure.ac:9: the top level configure.ac:68: warning: The macro 'AC_TRY_COMPILE' is obsolete. configure.ac:68: You should run autoupdate. ./lib/autoconf/general.m4:2845: AC_TRY_COMPILE is expanded from... configure.ac:68: the top level configure.ac:147: warning: The macro 'AC_HEADER_STDC' is obsolete. configure.ac:147: You should run autoupdate. ./lib/autoconf/headers.m4:663: AC_HEADER_STDC is expanded from... configure.ac:147: the top level configure.ac:464: warning: AC_OUTPUT should be used without arguments. configure.ac:464: You should run autoupdate. configure.ac:3: installing './compile' configure.ac:2: installing './config.guess' configure.ac:2: installing './config.sub' configure.ac:5: installing './install-sh' configure.ac:5: installing './missing' Makefile.am: installing './INSTALL' src/Makefile.am: installing './depcomp' parallel-tests: installing './test-driver' dh_auto_configure ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu checking target system type... i686-pc-linux-gnu checking how to print strings... printf checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for file... file checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking for gawk... no checking for mawk... mawk checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking whether make sets $(MAKE)... yes checking whether make supports the include directive... yes (GNU style) checking whether make supports nested variables... yes checking dependency style of gcc... none checking whether we are cross compiling... no checking for gcc... (cached) gcc checking whether the compiler supports GNU C... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to enable C11 features... (cached) none needed checking whether gcc understands -c and -o together... (cached) yes checking for g++... g++ checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking dependency style of g++... none checking whether the C++ compiler supports the -fsanitize=address flag... yes configure: Adding optimisation options -O3 to C compiler gcc flags, full list now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 configure: Adding optimisation options -O3 to C++ compiler g++ flags, full list now -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for egrep... (cached) /usr/bin/grep -E checking for libmaus2 >= 2.0.800... yes checking whether we can compile a program using libmaus2... yes checking whether pthread_mutexattr_settype supports PTHREAD_MUTEX_RECURSIVE_NP... yes checking whether pthread_mutexattr_settype supports PTHREAD_MUTEX_RECURSIVE... yes checking whether libmaus2 has support for io_lib... no checking for bash... /usr/bin/bash checking for base64... /usr/bin/base64 checking for xerces-c >= 3.1.1... yes configure: Using flags -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 for C compiler gcc configure: Using flags -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 for C++ compiler g++ checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating test/Makefile config.status: creating src/biobambam2/BamBamConfig.hpp config.status: creating config.h config.status: executing libtool commands config.status: executing depfiles commands dh_auto_build make -j11 make[1]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds' make all-recursive make[2]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds' Making all in src make[3]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/src' g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamtofastq-bamtofastq.o `test -f 'programs/bamtofastq.cpp' || echo './'`programs/bamtofastq.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bammarkduplicates-bammarkduplicates.o `test -f 'programs/bammarkduplicates.cpp' || echo './'`programs/bammarkduplicates.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamsort-bamsort.o `test -f 'programs/bamsort.cpp' || echo './'`programs/bamsort.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamsort-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bammaskflags-bammaskflags.o `test -f 'programs/bammaskflags.cpp' || echo './'`programs/bammaskflags.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bammaskflags-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamrecompress-bamrecompress.o `test -f 'programs/bamrecompress.cpp' || echo './'`programs/bamrecompress.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamrecompress-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamadapterfind-bamadapterfind.o `test -f 'programs/bamadapterfind.cpp' || echo './'`programs/bamadapterfind.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamadapterfind-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamadapterfind-ClipAdapters.o `test -f 'biobambam2/ClipAdapters.cpp' || echo './'`biobambam2/ClipAdapters.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamadapterfind-KmerPoisson.o `test -f 'biobambam2/KmerPoisson.cpp' || echo './'`biobambam2/KmerPoisson.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilteraux-bamfilteraux.o `test -f 'programs/bamfilteraux.cpp' || echo './'`programs/bamfilteraux.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilteraux-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamauxsort-bamauxsort.o `test -f 'programs/bamauxsort.cpp' || echo './'`programs/bamauxsort.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamauxsort-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamadapterclip-bamadapterclip.o `test -f 'programs/bamadapterclip.cpp' || echo './'`programs/bamadapterclip.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamadapterclip-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamadapterclip-ClipAdapters.o `test -f 'biobambam2/ClipAdapters.cpp' || echo './'`biobambam2/ClipAdapters.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamcollate2-bamcollate2.o `test -f 'programs/bamcollate2.cpp' || echo './'`programs/bamcollate2.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamcollate2-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamcollate2-AttachRank.o `test -f 'biobambam2/AttachRank.cpp' || echo './'`biobambam2/AttachRank.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamcollate2-ResetAlignment.o `test -f 'biobambam2/ResetAlignment.cpp' || echo './'`biobambam2/ResetAlignment.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bam12auxmerge-bam12auxmerge.o `test -f 'programs/bam12auxmerge.cpp' || echo './'`programs/bam12auxmerge.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bam12auxmerge-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bam12auxmerge-Split12.o `test -f 'biobambam2/Split12.cpp' || echo './'`biobambam2/Split12.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bam12auxmerge-Strip12.o `test -f 'biobambam2/Strip12.cpp' || echo './'`biobambam2/Strip12.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bam12auxmerge-ClipReinsert.o `test -f 'biobambam2/ClipReinsert.cpp' || echo './'`biobambam2/ClipReinsert.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bam12auxmerge-zzToName.o `test -f 'biobambam2/zzToName.cpp' || echo './'`biobambam2/zzToName.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bam12split-bam12split.o `test -f 'programs/bam12split.cpp' || echo './'`programs/bam12split.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bam12split-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bam12split-Split12.o `test -f 'biobambam2/Split12.cpp' || echo './'`biobambam2/Split12.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bam12strip-bam12strip.o `test -f 'programs/bam12strip.cpp' || echo './'`programs/bam12strip.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bam12strip-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bam12strip-Strip12.o `test -f 'biobambam2/Strip12.cpp' || echo './'`biobambam2/Strip12.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamreset-bamreset.o `test -f 'programs/bamreset.cpp' || echo './'`programs/bamreset.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreset-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreset-ResetAlignment.o `test -f 'biobambam2/ResetAlignment.cpp' || echo './'`biobambam2/ResetAlignment.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamrank-bamrank.o `test -f 'programs/bamrank.cpp' || echo './'`programs/bamrank.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamrank-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamrank-AttachRank.o `test -f 'biobambam2/AttachRank.cpp' || echo './'`biobambam2/AttachRank.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamclipreinsert-bamclipreinsert.o `test -f 'programs/bamclipreinsert.cpp' || echo './'`programs/bamclipreinsert.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamclipreinsert-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamclipreinsert-ClipReinsert.o `test -f 'biobambam2/ClipReinsert.cpp' || echo './'`biobambam2/ClipReinsert.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamclipXT-bamclipXT.o `test -f 'programs/bamclipXT.cpp' || echo './'`programs/bamclipXT.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamclipXT-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamzztoname-bamzztoname.o `test -f 'programs/bamzztoname.cpp' || echo './'`programs/bamzztoname.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamzztoname-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamzztoname-zzToName.o `test -f 'biobambam2/zzToName.cpp' || echo './'`biobambam2/zzToName.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamindex-bamindex.o `test -f 'programs/bamindex.cpp' || echo './'`programs/bamindex.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamindex-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilterflags-bamfilterflags.o `test -f 'programs/bamfilterflags.cpp' || echo './'`programs/bamfilterflags.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterflags-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilterrg-bamfilterrg.o `test -f 'programs/bamfilterrg.cpp' || echo './'`programs/bamfilterrg.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterrg-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamdownsamplerandom-bamdownsamplerandom.o `test -f 'programs/bamdownsamplerandom.cpp' || echo './'`programs/bamdownsamplerandom.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamdownsamplerandom-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bammarkduplicates2-bammarkduplicates2.o `test -f 'programs/bammarkduplicates2.cpp' || echo './'`programs/bammarkduplicates2.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bammarkduplicates2-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamcat-bamcat.o `test -f 'programs/bamcat.cpp' || echo './'`programs/bamcat.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamcat-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bammerge-bammerge.o `test -f 'programs/bammerge.cpp' || echo './'`programs/bammerge.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bammerge-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamsplit-bamsplit.o `test -f 'programs/bamsplit.cpp' || echo './'`programs/bamsplit.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamsplit-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfastsplit-bamfastsplit.o `test -f 'programs/bamfastsplit.cpp' || echo './'`programs/bamfastsplit.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfastsplit-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamsplitdiv-bamsplitdiv.o `test -f 'programs/bamsplitdiv.cpp' || echo './'`programs/bamsplitdiv.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamsplitdiv-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamchecksort-bamchecksort.o `test -f 'programs/bamchecksort.cpp' || echo './'`programs/bamchecksort.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamchecksort-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/fastqtobam-fastqtobam.o `test -f 'programs/fastqtobam.cpp' || echo './'`programs/fastqtobam.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/fastqtobam-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfixmateinformation-bamfixmateinformation.o `test -f 'programs/bamfixmateinformation.cpp' || echo './'`programs/bamfixmateinformation.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfixmateinformation-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamseqchksum-bamseqchksum.o `test -f 'programs/bamseqchksum.cpp' || echo './'`programs/bamseqchksum.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamseqchksum-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/normalisefasta-normalisefasta.o `test -f 'programs/normalisefasta.cpp' || echo './'`programs/normalisefasta.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/normalisefasta-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilterheader-bamfilterheader.o `test -f 'programs/bamfilterheader.cpp' || echo './'`programs/bamfilterheader.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterheader-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilterheader2-bamfilterheader2.o `test -f 'programs/bamfilterheader2.cpp' || echo './'`programs/bamfilterheader2.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterheader2-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bammdnm-bammdnm.o `test -f 'programs/bammdnm.cpp' || echo './'`programs/bammdnm.cpp programs/bammdnm.cpp: In function 'int bammdnm(const libmaus2::util::ArgInfo&)': programs/bammdnm.cpp:193:70: warning: comparison of integer expressions of different signedness: 'int' and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare] 193 | if ( pc - pa >= blocklen ) | ~~~~~~~~^~~~~~~~~~~ programs/bammdnm.cpp:241:78: warning: comparison of integer expressions of different signedness: 'int' and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare] 241 | if ( pc - pa >= blocklen ) | ~~~~~~~~^~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bammdnm-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bammapdist-bammapdist.o `test -f 'programs/bammapdist.cpp' || echo './'`programs/bammapdist.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bammapdist-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamvalidate-bamvalidate.o `test -f 'programs/bamvalidate.cpp' || echo './'`programs/bamvalidate.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamvalidate-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamflagsplit-bamflagsplit.o `test -f 'programs/bamflagsplit.cpp' || echo './'`programs/bamflagsplit.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamflagsplit-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamintervalcomment-bamintervalcomment.o `test -f 'programs/bamintervalcomment.cpp' || echo './'`programs/bamintervalcomment.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamintervalcomment-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamintervalcommenthist-bamintervalcommenthist.o `test -f 'programs/bamintervalcommenthist.cpp' || echo './'`programs/bamintervalcommenthist.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamintervalcommenthist-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamstreamingmarkduplicates-bamstreamingmarkduplicates.o `test -f 'programs/bamstreamingmarkduplicates.cpp' || echo './'`programs/bamstreamingmarkduplicates.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamstreamingmarkduplicates-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamalignfrac-bamalignfrac.o `test -f 'programs/bamalignfrac.cpp' || echo './'`programs/bamalignfrac.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamalignfrac-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilternames-bamfilternames.o `test -f 'programs/bamfilternames.cpp' || echo './'`programs/bamfilternames.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilternames-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamsormadup-bamsormadup.o `test -f 'programs/bamsormadup.cpp' || echo './'`programs/bamsormadup.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamsormadup-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamexplode-bamexplode.o `test -f 'programs/bamexplode.cpp' || echo './'`programs/bamexplode.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamexplode-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamexploderef-bamexploderef.o `test -f 'programs/bamexploderef.cpp' || echo './'`programs/bamexploderef.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamexploderef-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfastexploderef-bamfastexploderef.o `test -f 'programs/bamfastexploderef.cpp' || echo './'`programs/bamfastexploderef.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfastexploderef-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfastnumextract-bamfastnumextract.o `test -f 'programs/bamfastnumextract.cpp' || echo './'`programs/bamfastnumextract.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfastnumextract-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamranksort-bamranksort.o `test -f 'programs/bamranksort.cpp' || echo './'`programs/bamranksort.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamranksort-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/fastaexplod-fastaexplod.o `test -f 'programs/fastaexplod.cpp' || echo './'`programs/fastaexplod.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/fastaexplod-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamrecalculatecigar-bamrecalculatecigar.o `test -f 'programs/bamrecalculatecigar.cpp' || echo './'`programs/bamrecalculatecigar.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamrecalculatecigar-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfiltermc-bamfiltermc.o `test -f 'programs/bamfiltermc.cpp' || echo './'`programs/bamfiltermc.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfiltermc-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamnumericalindex-bamnumericalindex.o `test -f 'programs/bamnumericalindex.cpp' || echo './'`programs/bamnumericalindex.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamnumericalindex-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamnumericalindexstats-bamnumericalindexstats.o `test -f 'programs/bamnumericalindexstats.cpp' || echo './'`programs/bamnumericalindexstats.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamnumericalindexstats-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bammarkduplicatesopt-bammarkduplicatesopt.o `test -f 'programs/bammarkduplicatesopt.cpp' || echo './'`programs/bammarkduplicatesopt.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bammarkduplicatesopt-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilterlength-bamfilterlength.o `test -f 'programs/bamfilterlength.cpp' || echo './'`programs/bamfilterlength.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterlength-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamauxmerge-bamauxmerge.o `test -f 'programs/bamauxmerge.cpp' || echo './'`programs/bamauxmerge.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamauxmerge-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamrefinterval-bamrefinterval.o `test -f 'programs/bamrefinterval.cpp' || echo './'`programs/bamrefinterval.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamrefinterval-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamscrapcount-bamscrapcount.o `test -f 'programs/bamscrapcount.cpp' || echo './'`programs/bamscrapcount.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamscrapcount-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilterrefid-bamfilterrefid.o `test -f 'programs/bamfilterrefid.cpp' || echo './'`programs/bamfilterrefid.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterrefid-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfillquery-bamfillquery.o `test -f 'programs/bamfillquery.cpp' || echo './'`programs/bamfillquery.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfillquery-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfillquery-AttachRank.o `test -f 'biobambam2/AttachRank.cpp' || echo './'`biobambam2/AttachRank.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamrefextract-bamrefextract.o `test -f 'programs/bamrefextract.cpp' || echo './'`programs/bamrefextract.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamrefextract-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/fastqtobam2-fastqtobam2.o `test -f 'programs/fastqtobam2.cpp' || echo './'`programs/fastqtobam2.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/fastqtobam2-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/fastqtobam2-KmerPoisson.o `test -f 'biobambam2/KmerPoisson.cpp' || echo './'`biobambam2/KmerPoisson.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/fastqtobam2-RunEOFFilter.o `test -f 'biobambam2/RunEOFFilter.cpp' || echo './'`biobambam2/RunEOFFilter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamauxmerge2-bamauxmerge2.o `test -f 'programs/bamauxmerge2.cpp' || echo './'`programs/bamauxmerge2.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamauxmerge2-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamauxmerge2-KmerPoisson.o `test -f 'biobambam2/KmerPoisson.cpp' || echo './'`biobambam2/KmerPoisson.cpp programs/fastqtobam2.cpp: In member function 'virtual void BlockReadControl::checkBgzfWriteQueue()': programs/fastqtobam2.cpp:3861:43: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 3861 | while ( ptr = bgzfGetNext() ) | ^ g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamreheader-bamreheader.o `test -f 'programs/bamreheader.cpp' || echo './'`programs/bamreheader.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreheader-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreheader-ReadHeader.o `test -f 'biobambam2/ReadHeader.cpp' || echo './'`biobambam2/ReadHeader.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreheader-RunEOFFilter.o `test -f 'biobambam2/RunEOFFilter.cpp' || echo './'`biobambam2/RunEOFFilter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreheader-UpdateNumericalIndex.o `test -f 'biobambam2/UpdateNumericalIndex.cpp' || echo './'`biobambam2/UpdateNumericalIndex.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamreplacechecksums-bamreplacechecksums.o `test -f 'programs/bamreplacechecksums.cpp' || echo './'`programs/bamreplacechecksums.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreplacechecksums-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreplacechecksums-ReadHeader.o `test -f 'biobambam2/ReadHeader.cpp' || echo './'`biobambam2/ReadHeader.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreplacechecksums-RunEOFFilter.o `test -f 'biobambam2/RunEOFFilter.cpp' || echo './'`biobambam2/RunEOFFilter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamreplacechecksums-UpdateNumericalIndex.o `test -f 'biobambam2/UpdateNumericalIndex.cpp' || echo './'`biobambam2/UpdateNumericalIndex.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfastcat-bamfastcat.o `test -f 'programs/bamfastcat.cpp' || echo './'`programs/bamfastcat.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfastcat-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfastcat-ReadHeader.o `test -f 'biobambam2/ReadHeader.cpp' || echo './'`biobambam2/ReadHeader.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfastcat-RunEOFFilter.o `test -f 'biobambam2/RunEOFFilter.cpp' || echo './'`biobambam2/RunEOFFilter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/populaterefcache-populaterefcache.o `test -f 'programs/populaterefcache.cpp' || echo './'`programs/populaterefcache.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/populaterefcache-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfiltereofblocks-bamfiltereofblocks.o `test -f 'programs/bamfiltereofblocks.cpp' || echo './'`programs/bamfiltereofblocks.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfiltereofblocks-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfiltereofblocks-RunEOFFilter.o `test -f 'biobambam2/RunEOFFilter.cpp' || echo './'`biobambam2/RunEOFFilter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamdepth-bamdepth.o `test -f 'programs/bamdepth.cpp' || echo './'`programs/bamdepth.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamdepth-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamdepth-DepthInterval.o `test -f 'biobambam2/DepthInterval.cpp' || echo './'`biobambam2/DepthInterval.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamdepthintersect-bamdepthintersect.o `test -f 'programs/bamdepthintersect.cpp' || echo './'`programs/bamdepthintersect.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamdepthintersect-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamdepthintersect-DepthInterval.o `test -f 'biobambam2/DepthInterval.cpp' || echo './'`biobambam2/DepthInterval.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilterk-bamfilterk.o `test -f 'programs/bamfilterk.cpp' || echo './'`programs/bamfilterk.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterk-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterk-DepthInterval.o `test -f 'biobambam2/DepthInterval.cpp' || echo './'`biobambam2/DepthInterval.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterk-RunEOFFilter.o `test -f 'biobambam2/RunEOFFilter.cpp' || echo './'`biobambam2/RunEOFFilter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfixpairinfo-bamfixpairinfo.o `test -f 'programs/bamfixpairinfo.cpp' || echo './'`programs/bamfixpairinfo.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfixpairinfo-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfixpairinfo-DepthInterval.o `test -f 'biobambam2/DepthInterval.cpp' || echo './'`biobambam2/DepthInterval.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfixpairinfo-RunEOFFilter.o `test -f 'biobambam2/RunEOFFilter.cpp' || echo './'`biobambam2/RunEOFFilter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamdifference-bamdifference.o `test -f 'programs/bamdifference.cpp' || echo './'`programs/bamdifference.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamdifference-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfeaturecount-bamfeaturecount.o `test -f 'programs/bamfeaturecount.cpp' || echo './'`programs/bamfeaturecount.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfeaturecount-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/blastnxmltobam-blastnxmltobam.o `test -f 'programs/blastnxmltobam.cpp' || echo './'`programs/blastnxmltobam.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/blastnxmltobam-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilter-bamfilter.o `test -f 'programs/bamfilter.cpp' || echo './'`programs/bamfilter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilter-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfilterbyname-bamfilterbyname.o `test -f 'programs/bamfilterbyname.cpp' || echo './'`programs/bamfilterbyname.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfilterbyname-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfixmatecoordinates-bamfixmatecoordinates.o `test -f 'programs/bamfixmatecoordinates.cpp' || echo './'`programs/bamfixmatecoordinates.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfixmatecoordinates-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfixmatecoordinatesnamesorted-bamfixmatecoordinatesnamesorted.o `test -f 'programs/bamfixmatecoordinatesnamesorted.cpp' || echo './'`programs/bamfixmatecoordinatesnamesorted.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfixmatecoordinatesnamesorted-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamtoname-bamtoname.o `test -f 'programs/bamtoname.cpp' || echo './'`programs/bamtoname.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamtoname-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamdisthist-bamdisthist.o `test -f 'programs/bamdisthist.cpp' || echo './'`programs/bamdisthist.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamdisthist-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/fastabgzfextract-fastabgzfextract.o `test -f 'programs/fastabgzfextract.cpp' || echo './'`programs/fastabgzfextract.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/fastabgzfextract-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamheap-bamheap.o `test -f 'programs/bamheap.cpp' || echo './'`programs/bamheap.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamheap-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamfrontback-bamfrontback.o `test -f 'programs/bamfrontback.cpp' || echo './'`programs/bamfrontback.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfrontback-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamfrontback-ResetAlignment.o `test -f 'biobambam2/ResetAlignment.cpp' || echo './'`biobambam2/ResetAlignment.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamrandomtag-bamrandomtag.o `test -f 'programs/bamrandomtag.cpp' || echo './'`programs/bamrandomtag.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamrandomtag-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamheap2-bamheap2.o `test -f 'programs/bamheap2.cpp' || echo './'`programs/bamheap2.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamheap2-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamheap3-bamheap3.o `test -f 'programs/bamheap3.cpp' || echo './'`programs/bamheap3.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamheap3-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamtagconversion-bamtagconversion.o `test -f 'programs/bamtagconversion.cpp' || echo './'`programs/bamtagconversion.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamtagconversion-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/fastqtobampar-fastqtobampar.o `test -f 'programs/fastqtobampar.cpp' || echo './'`programs/fastqtobampar.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/fastqtobampar-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bambisect-bambisect.o `test -f 'programs/bambisect.cpp' || echo './'`programs/bambisect.cpp In file included from /usr/include/libmaus2/aio/BufferedOutput.hpp:23, from /usr/include/libmaus2/sorting/MergingReadBack.hpp:23, from /usr/include/libmaus2/sorting/SortingBufferedOutputFile.hpp:22, from /usr/include/libmaus2/aio/OutputStreamInstanceArray.hpp:21, from programs/bamfeaturecount.cpp:22: In static member function 'static void libmaus2::autoarray::ArrayErase::erase(N*, uint64_t) [with N = libmaus2::gtf::Gene]', inlined from 'libmaus2::autoarray::AutoArray::AutoArray(uint64_t, bool) [with N = libmaus2::gtf::Gene; libmaus2::autoarray::alloc_type atype = libmaus2::autoarray::alloc_type_cxx; erase_type = libmaus2::autoarray::ArrayErase]' at /usr/include/libmaus2/autoarray/AutoArray.hpp:921:23, inlined from 'libmaus2::gtf::GTFData::GTFData(const std::string&, int)' at /usr/include/libmaus2/gtf/GTFData.hpp:1308:79: /usr/include/libmaus2/autoarray/AutoArray.hpp:1152:33: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1152 | array[i] = N(); | ^~~~~ /usr/include/libmaus2/autoarray/AutoArray.hpp: In constructor 'libmaus2::gtf::GTFData::GTFData(const std::string&, int)': /usr/include/libmaus2/autoarray/AutoArray.hpp:1152:44: note: '' declared here 1152 | array[i] = N(); | ^~~ g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bambisect-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/vcffilterinfo-vcffilterinfo.o `test -f 'programs/vcffilterinfo.cpp' || echo './'`programs/vcffilterinfo.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/vcffilterinfo-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/vcfpatchcontigprepend-vcfpatchcontigprepend.o `test -f 'programs/vcfpatchcontigprepend.cpp' || echo './'`programs/vcfpatchcontigprepend.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/vcfpatchcontigprepend-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/vcfconcat-vcfconcat.o `test -f 'programs/vcfconcat.cpp' || echo './'`programs/vcfconcat.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/vcfconcat-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/vcfsort-vcfsort.o `test -f 'programs/vcfsort.cpp' || echo './'`programs/vcfsort.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/vcfsort-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/filtergtf-filtergtf.o `test -f 'programs/filtergtf.cpp' || echo './'`programs/filtergtf.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/filtergtf-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamconsensus-bamconsensus.o `test -f 'programs/bamconsensus.cpp' || echo './'`programs/bamconsensus.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamconsensus-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/vcfreplacecontigs-vcfreplacecontigs.o `test -f 'programs/vcfreplacecontigs.cpp' || echo './'`programs/vcfreplacecontigs.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/vcfreplacecontigs-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/vcffiltersamples-vcffiltersamples.o `test -f 'programs/vcffiltersamples.cpp' || echo './'`programs/vcffiltersamples.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/vcffiltersamples-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamexploderg-bamexploderg.o `test -f 'programs/bamexploderg.cpp' || echo './'`programs/bamexploderg.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamexploderg-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamexondepth-bamexondepth.o `test -f 'programs/bamexondepth.cpp' || echo './'`programs/bamexondepth.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamexondepth-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamexondepth-DepthInterval.o `test -f 'biobambam2/DepthInterval.cpp' || echo './'`biobambam2/DepthInterval.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamheadercat-bamheadercat.o `test -f 'programs/bamheadercat.cpp' || echo './'`programs/bamheadercat.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamheadercat-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bammarkduplicatesoptdist-bammarkduplicatesoptdist.o `test -f 'programs/bammarkduplicatesoptdist.cpp' || echo './'`programs/bammarkduplicatesoptdist.cpp In file included from programs/bamexondepth.cpp:22: ./biobambam2/DepthIntervalGetter.hpp: In member function 'uint64_t biobambam2::DepthIntervalGetterMerge::getNext(uint64_t&, uint64_t&, libmaus2::autoarray::AutoArray >&)': ./biobambam2/DepthIntervalGetter.hpp:210:53: warning: unused variable 'HE' [-Wunused-variable] 210 | HeapElement const & HE = H.top(); | ^~ In file included from /usr/include/c++/14/cassert:44, from /usr/include/libmaus2/avl/AVLSet.hpp:24, from programs/bamexondepth.cpp:43: programs/bamexondepth.cpp: In function 'void handleFile(const std::string&, uint64_t, const libmaus2::bambam::BamHeader&, std::ostream&, std::ostream&, const std::string&)': programs/bamexondepth.cpp:121:44: warning: comparison of integer expressions of different signedness: 'uint64_t' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] 121 | assert ( p < GC.e-GC.a ); | ~~^~~~~~~~~~~ programs/bamexondepth.cpp:371:32: warning: comparison of integer expressions of different signedness: 'const uint64_t' {aka 'const long long unsigned int'} and 'int64_t' {aka 'long long int'} [-Wsign-compare] 371 | if ( d <= thresdepth ) | ~~^~~~~~~~~~~~~ programs/bamexondepth.cpp:375:52: warning: comparison of integer expressions of different signedness: 'uint64_t' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] 375 | assert ( p < GC.e-GC.a ); | ~~^~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bammarkduplicatesoptdist-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/vcfdiff-vcfdiff.o `test -f 'programs/vcfdiff.cpp' || echo './'`programs/vcfdiff.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/vcfdiff-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamsimpledepth-bamsimpledepth.o `test -f 'programs/bamsimpledepth.cpp' || echo './'`programs/bamsimpledepth.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamsimpledepth-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamsimpledepth-DepthInterval.o `test -f 'biobambam2/DepthInterval.cpp' || echo './'`biobambam2/DepthInterval.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamdepthmerge-bamdepthmerge.o `test -f 'programs/bamdepthmerge.cpp' || echo './'`programs/bamdepthmerge.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamdepthmerge-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamcountflags-bamcountflags.o `test -f 'programs/bamcountflags.cpp' || echo './'`programs/bamcountflags.cpp In file included from programs/bamdepthmerge.cpp:23: ./biobambam2/DepthIntervalGetter.hpp: In member function 'uint64_t biobambam2::DepthIntervalGetterMerge::getNext(uint64_t&, uint64_t&, libmaus2::autoarray::AutoArray >&)': ./biobambam2/DepthIntervalGetter.hpp:210:53: warning: unused variable 'HE' [-Wunused-variable] 210 | HeapElement const & HE = H.top(); | ^~ g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamcountflags-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/vcffilterfilterflags-vcffilterfilterflags.o `test -f 'programs/vcffilterfilterflags.cpp' || echo './'`programs/vcffilterfilterflags.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/vcffilterfilterflags-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/vcfreplacecontigsmap-vcfreplacecontigsmap.o `test -f 'programs/vcfreplacecontigsmap.cpp' || echo './'`programs/vcfreplacecontigsmap.cpp programs/vcfreplacecontigsmap.cpp:29:12: warning: 'int getDefaultGZ()' defined but not used [-Wunused-function] 29 | static int getDefaultGZ() { return 0; } | ^~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/vcfreplacecontigsmap-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/fastaselectreg-fastaselectreg.o `test -f 'programs/fastaselectreg.cpp' || echo './'`programs/fastaselectreg.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/fastaselectreg-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamaddne-bamaddne.o `test -f 'programs/bamaddne.cpp' || echo './'`programs/bamaddne.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamaddne-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamadapterhistogram-bamadapterhistogram.o `test -f 'programs/bamadapterhistogram.cpp' || echo './'`programs/bamadapterhistogram.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamadapterhistogram-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o programs/bamsalvage-bamsalvage.o `test -f 'programs/bamsalvage.cpp' || echo './'`programs/bamsalvage.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamsalvage-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bamtofastq-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o biobambam2/bammarkduplicates-Licensing.o `test -f 'biobambam2/Licensing.cpp' || echo './'`biobambam2/Licensing.cpp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamsort programs/bamsort-bamsort.o biobambam2/bamsort-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamsort programs/bamsort-bamsort.o biobambam2/bamsort-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bammaskflags programs/bammaskflags-bammaskflags.o biobambam2/bammaskflags-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bammaskflags programs/bammaskflags-bammaskflags.o biobambam2/bammaskflags-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o 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-lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamnumericalindex programs/bamnumericalindex-bamnumericalindex.o biobambam2/bamnumericalindex-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamnumericalindexstats programs/bamnumericalindexstats-bamnumericalindexstats.o biobambam2/bamnumericalindexstats-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamnumericalindex programs/bamnumericalindex-bamnumericalindex.o biobambam2/bamnumericalindex-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamnumericalindexstats programs/bamnumericalindexstats-bamnumericalindexstats.o biobambam2/bamnumericalindexstats-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bammarkduplicatesopt programs/bammarkduplicatesopt-bammarkduplicatesopt.o biobambam2/bammarkduplicatesopt-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamfilterlength programs/bamfilterlength-bamfilterlength.o biobambam2/bamfilterlength-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bammarkduplicatesopt programs/bammarkduplicatesopt-bammarkduplicatesopt.o biobambam2/bammarkduplicatesopt-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamfilterlength programs/bamfilterlength-bamfilterlength.o biobambam2/bamfilterlength-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamauxmerge programs/bamauxmerge-bamauxmerge.o biobambam2/bamauxmerge-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamrefinterval programs/bamrefinterval-bamrefinterval.o biobambam2/bamrefinterval-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamauxmerge programs/bamauxmerge-bamauxmerge.o biobambam2/bamauxmerge-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamrefinterval programs/bamrefinterval-bamrefinterval.o biobambam2/bamrefinterval-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamscrapcount programs/bamscrapcount-bamscrapcount.o biobambam2/bamscrapcount-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamfilterrefid programs/bamfilterrefid-bamfilterrefid.o biobambam2/bamfilterrefid-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamscrapcount programs/bamscrapcount-bamscrapcount.o biobambam2/bamscrapcount-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamfilterrefid programs/bamfilterrefid-bamfilterrefid.o biobambam2/bamfilterrefid-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamfillquery programs/bamfillquery-bamfillquery.o biobambam2/bamfillquery-Licensing.o biobambam2/bamfillquery-AttachRank.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz In file included from /usr/include/libmaus2/bambam/BamHeaderParserState.hpp:22, from /usr/include/libmaus2/bambam/BamHeader.hpp:23, from ./biobambam2/DepthInterval.hpp:23, from programs/bamexondepth.cpp:21: In static member function 'static void libmaus2::autoarray::ArrayErase::erase(N*, uint64_t) [with N = libmaus2::gtf::Gene]', inlined from 'libmaus2::autoarray::AutoArray::AutoArray(uint64_t, bool) [with N = libmaus2::gtf::Gene; libmaus2::autoarray::alloc_type atype = libmaus2::autoarray::alloc_type_cxx; erase_type = libmaus2::autoarray::ArrayErase]' at /usr/include/libmaus2/autoarray/AutoArray.hpp:921:23, inlined from 'libmaus2::gtf::GTFData::GTFData(const std::string&, int)' at /usr/include/libmaus2/gtf/GTFData.hpp:1308:79: /usr/include/libmaus2/autoarray/AutoArray.hpp:1152:33: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1152 | array[i] = N(); | ^~~~~ /usr/include/libmaus2/autoarray/AutoArray.hpp: In constructor 'libmaus2::gtf::GTFData::GTFData(const std::string&, int)': /usr/include/libmaus2/autoarray/AutoArray.hpp:1152:44: note: '' declared here 1152 | array[i] = N(); | ^~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamrefextract programs/bamrefextract-bamrefextract.o biobambam2/bamrefextract-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamfillquery programs/bamfillquery-bamfillquery.o biobambam2/bamfillquery-Licensing.o biobambam2/bamfillquery-AttachRank.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamrefextract programs/bamrefextract-bamrefextract.o biobambam2/bamrefextract-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o fastqtobam2 programs/fastqtobam2-fastqtobam2.o biobambam2/fastqtobam2-Licensing.o biobambam2/fastqtobam2-KmerPoisson.o biobambam2/fastqtobam2-RunEOFFilter.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamauxmerge2 programs/bamauxmerge2-bamauxmerge2.o biobambam2/bamauxmerge2-Licensing.o biobambam2/bamauxmerge2-KmerPoisson.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamreheader programs/bamreheader-bamreheader.o biobambam2/bamreheader-Licensing.o biobambam2/bamreheader-ReadHeader.o biobambam2/bamreheader-RunEOFFilter.o biobambam2/bamreheader-UpdateNumericalIndex.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o fastqtobam2 programs/fastqtobam2-fastqtobam2.o biobambam2/fastqtobam2-Licensing.o biobambam2/fastqtobam2-KmerPoisson.o biobambam2/fastqtobam2-RunEOFFilter.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamauxmerge2 programs/bamauxmerge2-bamauxmerge2.o biobambam2/bamauxmerge2-Licensing.o biobambam2/bamauxmerge2-KmerPoisson.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamreheader programs/bamreheader-bamreheader.o biobambam2/bamreheader-Licensing.o biobambam2/bamreheader-ReadHeader.o biobambam2/bamreheader-RunEOFFilter.o biobambam2/bamreheader-UpdateNumericalIndex.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamreplacechecksums programs/bamreplacechecksums-bamreplacechecksums.o biobambam2/bamreplacechecksums-Licensing.o biobambam2/bamreplacechecksums-ReadHeader.o biobambam2/bamreplacechecksums-RunEOFFilter.o biobambam2/bamreplacechecksums-UpdateNumericalIndex.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o 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biobambam2/vcffilterfilterflags-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamdepthmerge programs/bamdepthmerge-bamdepthmerge.o biobambam2/bamdepthmerge-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o vcfreplacecontigsmap programs/vcfreplacecontigsmap-vcfreplacecontigsmap.o biobambam2/vcfreplacecontigsmap-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o vcffilterfilterflags programs/vcffilterfilterflags-vcffilterfilterflags.o biobambam2/vcffilterfilterflags-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o vcfreplacecontigsmap programs/vcfreplacecontigsmap-vcfreplacecontigsmap.o biobambam2/vcfreplacecontigsmap-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o fastaselectreg programs/fastaselectreg-fastaselectreg.o biobambam2/fastaselectreg-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. 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-fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamaddne programs/bamaddne-bamaddne.o biobambam2/bamaddne-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamaddne programs/bamaddne-bamaddne.o biobambam2/bamaddne-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bammarkduplicatesoptdist programs/bammarkduplicatesoptdist-bammarkduplicatesoptdist.o biobambam2/bammarkduplicatesoptdist-Licensing.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bammarkduplicatesoptdist programs/bammarkduplicatesoptdist-bammarkduplicatesoptdist.o biobambam2/bammarkduplicatesoptdist-Licensing.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp make[3]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/src' Making all in test make[3]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[3]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds' make[3]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds' make[2]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds' make[1]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds' dh_auto_test make -j11 check "TESTSUITEFLAGS=-j11 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds' Making check in src make[2]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/src' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/src' Making check in test make[2]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make bamcmp bamtosam make[3]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o bamcmp-bamcmp.o `test -f 'bamcmp.cpp' || echo './'`bamcmp.cpp g++ -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++17 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c -o bamtosam-bamtosam.o `test -f 'bamtosam.cpp' || echo './'`bamtosam.cpp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamtosam bamtosam-bamtosam.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamtosam bamtosam-bamtosam.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z,relro -Wl,-z,now -rdynamic -o bamcmp bamcmp-bamcmp.o -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -fopenmp -lz libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/biobambam2-2.0.185+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -std=c++17 -Wl,-z -Wl,relro -Wl,-z -Wl,now -rdynamic -o bamcmp bamcmp-bamcmp.o -fopenmp -lmaus2 -lmaus2_parallel -lmaus2_autoarray -lmaus2_exception -lmaus2_stacktrace -lmaus2_posix -lmaus2_arch -lmaus2_simd_align_128 -lmaus2_simd_align_256 -lmaus2_demangle -lz -fopenmp make[3]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make check-TESTS make[3]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[4]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' PASS: testshortsortcoordinate.sh PASS: testshortsort.sh PASS: testshortsortqueryname.sh PASS: testdupsinglemarkedsortedqreset.sh PASS: testdupsingle.sh PASS: testfastqbamloop.sh ============================================================================ Testsuite summary for biobambam2 2.0.185 ============================================================================ # TOTAL: 6 # PASS: 6 # SKIP: 0 # XFAIL: 0 # FAIL: 0 # XPASS: 0 # ERROR: 0 ============================================================================ make[4]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[3]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[2]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[2]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds' make[2]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds' make[1]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/biobambam2/ make -j1 install DESTDIR=/build/reproducible-path/biobambam2-2.0.185\+ds/debian/biobambam2 AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds' Making install in src make[2]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/src' make[3]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/src' /usr/bin/mkdir -p '/build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c bamtofastq bammarkduplicates bamsort bammaskflags bamrecompress bamadapterfind bamfilteraux bamauxsort bamadapterclip bamcollate2 bam12auxmerge bam12split bam12strip bamreset bamrank bamclipreinsert bamclipXT bamzztoname bamindex bamfilterflags bamfilterrg bamdownsamplerandom bammarkduplicates2 bamcat bammerge bamsplit bamfastsplit bamsplitdiv bamchecksort fastqtobam bamfixmateinformation bamseqchksum normalisefasta bamfilterheader bamfilterheader2 bammdnm bammapdist bamvalidate bamflagsplit bamintervalcomment bamintervalcommenthist bamstreamingmarkduplicates bamalignfrac bamfilternames bamsormadup bamexplode bamexploderef bamfastexploderef bamfastnumextract bamranksort fastaexplod bamrecalculatecigar bamfiltermc bamnumericalindex bamnumericalindexstats bammarkduplicatesopt bamfilterlength bamauxmerge bamrefinterval bamscrapcount bamfilterrefid bamfillquery bamrefextract fastqtobam2 bamauxmerge2 bamreheader bamreplacechecksums bamfastcat populaterefcache bamfiltereofblocks bamdepth bamdepthintersect bamfilterk bamfixpairinfo bamdifference bamfeaturecount '/build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin' libtool: install: /usr/bin/install -c bamtofastq /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamtofastq libtool: install: /usr/bin/install -c bammarkduplicates /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bammarkduplicates libtool: install: /usr/bin/install -c bamsort /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamsort libtool: install: /usr/bin/install -c bammaskflags /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bammaskflags libtool: install: /usr/bin/install -c bamrecompress /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamrecompress libtool: install: /usr/bin/install -c bamadapterfind /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamadapterfind libtool: install: /usr/bin/install -c bamfilteraux /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfilteraux libtool: install: /usr/bin/install -c bamauxsort /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamauxsort libtool: install: /usr/bin/install -c bamadapterclip /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamadapterclip libtool: install: /usr/bin/install -c bamcollate2 /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamcollate2 libtool: install: /usr/bin/install -c bam12auxmerge /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bam12auxmerge libtool: install: /usr/bin/install -c bam12split /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bam12split libtool: install: /usr/bin/install -c bam12strip /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bam12strip libtool: install: /usr/bin/install -c bamreset /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamreset libtool: install: /usr/bin/install -c bamrank /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamrank libtool: install: /usr/bin/install -c bamclipreinsert /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamclipreinsert libtool: install: /usr/bin/install -c bamclipXT /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamclipXT libtool: install: /usr/bin/install -c bamzztoname /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamzztoname libtool: install: /usr/bin/install -c bamindex /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamindex libtool: install: /usr/bin/install -c bamfilterflags /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfilterflags libtool: install: /usr/bin/install -c bamfilterrg /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfilterrg libtool: install: /usr/bin/install -c bamdownsamplerandom /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamdownsamplerandom libtool: install: /usr/bin/install -c bammarkduplicates2 /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bammarkduplicates2 libtool: install: /usr/bin/install -c bamcat /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamcat libtool: install: /usr/bin/install -c bammerge /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bammerge libtool: install: /usr/bin/install -c bamsplit /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamsplit libtool: install: /usr/bin/install -c bamfastsplit /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfastsplit libtool: install: /usr/bin/install -c bamsplitdiv /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamsplitdiv libtool: install: /usr/bin/install -c bamchecksort /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamchecksort libtool: install: /usr/bin/install -c fastqtobam /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/fastqtobam libtool: install: /usr/bin/install -c bamfixmateinformation /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfixmateinformation libtool: install: /usr/bin/install -c bamseqchksum /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamseqchksum libtool: install: /usr/bin/install -c normalisefasta /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/normalisefasta libtool: install: /usr/bin/install -c bamfilterheader /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfilterheader libtool: install: /usr/bin/install -c bamfilterheader2 /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfilterheader2 libtool: install: /usr/bin/install -c bammdnm /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bammdnm libtool: install: /usr/bin/install -c bammapdist /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bammapdist libtool: install: /usr/bin/install -c bamvalidate /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamvalidate libtool: install: /usr/bin/install -c bamflagsplit /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamflagsplit libtool: install: /usr/bin/install -c bamintervalcomment /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamintervalcomment libtool: install: /usr/bin/install -c bamintervalcommenthist /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamintervalcommenthist libtool: install: /usr/bin/install -c bamstreamingmarkduplicates /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamstreamingmarkduplicates libtool: install: /usr/bin/install -c bamalignfrac /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamalignfrac libtool: install: /usr/bin/install -c bamfilternames /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfilternames libtool: install: /usr/bin/install -c bamsormadup /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamsormadup libtool: install: /usr/bin/install -c bamexplode /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamexplode libtool: install: /usr/bin/install -c bamexploderef /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamexploderef libtool: install: /usr/bin/install -c bamfastexploderef /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfastexploderef libtool: install: /usr/bin/install -c bamfastnumextract /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfastnumextract libtool: install: /usr/bin/install -c bamranksort /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamranksort libtool: install: /usr/bin/install -c fastaexplod /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/fastaexplod libtool: install: /usr/bin/install -c bamrecalculatecigar /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamrecalculatecigar libtool: install: /usr/bin/install -c bamfiltermc /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfiltermc libtool: install: /usr/bin/install -c bamnumericalindex /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamnumericalindex libtool: install: /usr/bin/install -c bamnumericalindexstats /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamnumericalindexstats libtool: install: /usr/bin/install -c bammarkduplicatesopt /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bammarkduplicatesopt libtool: install: /usr/bin/install -c bamfilterlength /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfilterlength libtool: install: /usr/bin/install -c bamauxmerge /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamauxmerge libtool: install: /usr/bin/install -c bamrefinterval /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamrefinterval libtool: install: /usr/bin/install -c bamscrapcount /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamscrapcount libtool: install: /usr/bin/install -c bamfilterrefid /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfilterrefid libtool: install: /usr/bin/install -c bamfillquery /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfillquery libtool: install: /usr/bin/install -c bamrefextract /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamrefextract libtool: install: /usr/bin/install -c fastqtobam2 /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/fastqtobam2 libtool: install: /usr/bin/install -c bamauxmerge2 /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamauxmerge2 libtool: install: /usr/bin/install -c bamreheader /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamreheader libtool: install: /usr/bin/install -c bamreplacechecksums /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamreplacechecksums libtool: install: /usr/bin/install -c bamfastcat /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfastcat libtool: install: /usr/bin/install -c populaterefcache /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/populaterefcache libtool: install: /usr/bin/install -c bamfiltereofblocks /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfiltereofblocks libtool: install: /usr/bin/install -c bamdepth /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamdepth libtool: install: /usr/bin/install -c bamdepthintersect /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamdepthintersect libtool: install: /usr/bin/install -c bamfilterk /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfilterk libtool: install: /usr/bin/install -c bamfixpairinfo /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfixpairinfo libtool: install: /usr/bin/install -c bamdifference /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamdifference libtool: install: /usr/bin/install -c bamfeaturecount /build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/bin/bamfeaturecount /usr/bin/mkdir -p '/build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/share/man/man1' /usr/bin/install -c -m 644 programs/bamtofastq.1 programs/bamsort.1 programs/bammarkduplicates.1 programs/bammarkduplicatesopt.1 programs/bammaskflags.1 programs/bamrecompress.1 programs/bamadapterfind.1 programs/bamfilteraux.1 programs/bamauxsort.1 programs/bamadapterclip.1 programs/bamcollate2.1 programs/bam12auxmerge.1 programs/bam12split.1 programs/bam12strip.1 programs/bamreset.1 programs/bamrank.1 programs/bamclipreinsert.1 programs/bamzztoname.1 programs/bamindex.1 programs/bamfilterflags.1 programs/bamfilterrg.1 programs/bamdownsamplerandom.1 programs/bammarkduplicates2.1 programs/bamcat.1 programs/bammerge.1 programs/bamsplit.1 programs/bamsplitdiv.1 programs/bamchecksort.1 programs/fastqtobam.1 programs/bamfixmateinformation.1 programs/normalisefasta.1 programs/bamfilterheader.1 programs/bamfilterheader2.1 programs/bammdnm.1 programs/bamseqchksum.1 programs/bamvalidate.1 programs/bamflagsplit.1 programs/bamintervalcomment.1 programs/bamstreamingmarkduplicates.1 programs/bamsormadup.1 '/build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/share/man/man1' /usr/bin/install -c -m 644 programs/fastaexplod.1 programs/bamrecalculatecigar.1 programs/bamfiltermc.1 programs/bamfillquery.1 programs/bamalignfrac.1 programs/bamauxmerge.1 programs/bamauxmerge2.1 programs/bambisect.1 programs/bamclipXT.1 programs/bamconsensus.1 programs/filtergtf.1 programs/bamfeaturecount.1 '/build/reproducible-path/biobambam2-2.0.185+ds/debian/biobambam2/usr/share/man/man1' make[3]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/src' make[2]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/src' Making install in test make[2]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[3]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[2]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds/test' make[2]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds' make[3]: Entering directory '/build/reproducible-path/biobambam2-2.0.185+ds' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds' make[2]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds' make[1]: Leaving directory '/build/reproducible-path/biobambam2-2.0.185+ds' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/biobambam2/usr/bin/bamfastsplit debian/biobambam2/usr/bin/bamstreamingmarkduplicates debian/biobambam2/usr/bin/bamexploderef debian/biobambam2/usr/bin/bamsort debian/biobambam2/usr/bin/bamcat debian/biobambam2/usr/bin/bamfastnumextract debian/biobambam2/usr/bin/bamdepthintersect debian/biobambam2/usr/bin/bamranksort debian/biobambam2/usr/bin/bamrecalculatecigar debian/biobambam2/usr/bin/bamfilterheader debian/biobambam2/usr/bin/bamnumericalindex debian/biobambam2/usr/bin/bamadapterfind debian/biobambam2/usr/bin/bamfilterrefid debian/biobambam2/usr/bin/bamfeaturecount debian/biobambam2/usr/bin/bamfillquery debian/biobambam2/usr/bin/normalisefasta debian/biobambam2/usr/bin/bamreheader debian/biobambam2/usr/bin/bamrefextract debian/biobambam2/usr/bin/bammarkduplicatesopt debian/biobambam2/usr/bin/bamfilterk debian/biobambam2/usr/bin/bamintervalcomment debian/biobambam2/usr/bin/bamauxsort debian/biobambam2/usr/bin/bamrecompress debian/biobambam2/usr/bin/bamtofastq debian/biobambam2/usr/bin/bamrefinterval debian/biobambam2/usr/bin/bamfilterflags debian/biobambam2/usr/bin/bam12strip debian/biobambam2/usr/bin/bamauxmerge debian/biobambam2/usr/bin/bamfilterheader2 debian/biobambam2/usr/bin/bamdifference debian/biobambam2/usr/bin/bamzztoname debian/biobambam2/usr/bin/bamintervalcommenthist debian/biobambam2/usr/bin/bamflagsplit debian/biobambam2/usr/bin/bamrank debian/biobambam2/usr/bin/bamfilteraux debian/biobambam2/usr/bin/bamdepth debian/biobambam2/usr/bin/bamclipXT debian/biobambam2/usr/bin/bamsplit debian/biobambam2/usr/bin/bamauxmerge2 debian/biobambam2/usr/bin/bamreplacechecksums debian/biobambam2/usr/bin/bamseqchksum debian/biobambam2/usr/bin/bamfilterlength debian/biobambam2/usr/bin/bamcollate2 debian/biobambam2/usr/bin/fastqtobam debian/biobambam2/usr/bin/bamvalidate debian/biobambam2/usr/bin/bamreset debian/biobambam2/usr/bin/bamfixpairinfo debian/biobambam2/usr/bin/bamfilterrg debian/biobambam2/usr/bin/bamfastexploderef debian/biobambam2/usr/bin/bammarkduplicates2 debian/biobambam2/usr/bin/bammaskflags debian/biobambam2/usr/bin/bamfiltermc debian/biobambam2/usr/bin/bammdnm debian/biobambam2/usr/bin/bamexplode debian/biobambam2/usr/bin/bammerge debian/biobambam2/usr/bin/bamfiltereofblocks debian/biobambam2/usr/bin/fastaexplod debian/biobambam2/usr/bin/bamfilternames debian/biobambam2/usr/bin/bamindex debian/biobambam2/usr/bin/bamchecksort debian/biobambam2/usr/bin/fastqtobam2 debian/biobambam2/usr/bin/bamsplitdiv debian/biobambam2/usr/bin/bamfixmateinformation debian/biobambam2/usr/bin/bam12split debian/biobambam2/usr/bin/bamadapterclip debian/biobambam2/usr/bin/bammarkduplicates debian/biobambam2/usr/bin/bamsormadup debian/biobambam2/usr/bin/bamalignfrac debian/biobambam2/usr/bin/bamfastcat debian/biobambam2/usr/bin/populaterefcache debian/biobambam2/usr/bin/bamnumericalindexstats debian/biobambam2/usr/bin/bamclipreinsert debian/biobambam2/usr/bin/bammapdist debian/biobambam2/usr/bin/bamdownsamplerandom debian/biobambam2/usr/bin/bamscrapcount debian/biobambam2/usr/bin/bam12auxmerge were not linked against libmaus2_simd_align_128.so.2 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/biobambam2/usr/bin/bamfastsplit debian/biobambam2/usr/bin/bamstreamingmarkduplicates debian/biobambam2/usr/bin/bamexploderef debian/biobambam2/usr/bin/bamsort debian/biobambam2/usr/bin/bamcat debian/biobambam2/usr/bin/bamfastnumextract debian/biobambam2/usr/bin/bamdepthintersect debian/biobambam2/usr/bin/bamranksort debian/biobambam2/usr/bin/bamrecalculatecigar debian/biobambam2/usr/bin/bamfilterheader debian/biobambam2/usr/bin/bamnumericalindex debian/biobambam2/usr/bin/bamadapterfind debian/biobambam2/usr/bin/bamfilterrefid debian/biobambam2/usr/bin/bamfeaturecount debian/biobambam2/usr/bin/bamfillquery debian/biobambam2/usr/bin/normalisefasta debian/biobambam2/usr/bin/bamreheader debian/biobambam2/usr/bin/bamrefextract debian/biobambam2/usr/bin/bammarkduplicatesopt debian/biobambam2/usr/bin/bamfilterk debian/biobambam2/usr/bin/bamintervalcomment debian/biobambam2/usr/bin/bamauxsort debian/biobambam2/usr/bin/bamrecompress debian/biobambam2/usr/bin/bamtofastq debian/biobambam2/usr/bin/bamrefinterval debian/biobambam2/usr/bin/bamfilterflags debian/biobambam2/usr/bin/bam12strip debian/biobambam2/usr/bin/bamauxmerge debian/biobambam2/usr/bin/bamfilterheader2 debian/biobambam2/usr/bin/bamdifference debian/biobambam2/usr/bin/bamzztoname debian/biobambam2/usr/bin/bamintervalcommenthist debian/biobambam2/usr/bin/bamflagsplit debian/biobambam2/usr/bin/bamrank debian/biobambam2/usr/bin/bamfilteraux debian/biobambam2/usr/bin/bamdepth debian/biobambam2/usr/bin/bamclipXT debian/biobambam2/usr/bin/bamsplit debian/biobambam2/usr/bin/bamauxmerge2 debian/biobambam2/usr/bin/bamreplacechecksums debian/biobambam2/usr/bin/bamseqchksum debian/biobambam2/usr/bin/bamfilterlength debian/biobambam2/usr/bin/bamcollate2 debian/biobambam2/usr/bin/fastqtobam debian/biobambam2/usr/bin/bamvalidate debian/biobambam2/usr/bin/bamreset debian/biobambam2/usr/bin/bamfixpairinfo debian/biobambam2/usr/bin/bamfilterrg debian/biobambam2/usr/bin/bamfastexploderef debian/biobambam2/usr/bin/bammarkduplicates2 debian/biobambam2/usr/bin/bammaskflags debian/biobambam2/usr/bin/bamfiltermc debian/biobambam2/usr/bin/bammdnm debian/biobambam2/usr/bin/bamexplode debian/biobambam2/usr/bin/bammerge debian/biobambam2/usr/bin/bamfiltereofblocks debian/biobambam2/usr/bin/fastaexplod debian/biobambam2/usr/bin/bamfilternames debian/biobambam2/usr/bin/bamindex debian/biobambam2/usr/bin/bamchecksort debian/biobambam2/usr/bin/fastqtobam2 debian/biobambam2/usr/bin/bamsplitdiv debian/biobambam2/usr/bin/bamfixmateinformation debian/biobambam2/usr/bin/bam12split debian/biobambam2/usr/bin/bamadapterclip debian/biobambam2/usr/bin/bammarkduplicates debian/biobambam2/usr/bin/bamsormadup debian/biobambam2/usr/bin/bamalignfrac debian/biobambam2/usr/bin/bamfastcat debian/biobambam2/usr/bin/populaterefcache debian/biobambam2/usr/bin/bamnumericalindexstats debian/biobambam2/usr/bin/bamclipreinsert debian/biobambam2/usr/bin/bammapdist debian/biobambam2/usr/bin/bamdownsamplerandom debian/biobambam2/usr/bin/bamscrapcount debian/biobambam2/usr/bin/bam12auxmerge were not linked against libmaus2_simd_align_256.so.2 (they use none of the library's symbols) dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'biobambam2-dbgsym' in '../biobambam2-dbgsym_2.0.185+ds-2_i386.deb'. dpkg-deb: building package 'biobambam2' in '../biobambam2_2.0.185+ds-2_i386.deb'. dpkg-genbuildinfo --build=binary -O../biobambam2_2.0.185+ds-2_i386.buildinfo dpkg-genchanges --build=binary -O../biobambam2_2.0.185+ds-2_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration 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/62243 and its subdirectories I: Current time: Thu Nov 21 20:37:33 -12 2024 I: pbuilder-time-stamp: 1732264653 Fri Nov 22 08:37:36 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos16-i386.debian.net. Fri Nov 22 08:37:36 UTC 2024 I: Preparing to do remote build '2' on ionos16-i386.debian.net. Fri Nov 22 09:36:45 UTC 2024 I: Deleting $TMPDIR on ionos16-i386.debian.net. Fri Nov 22 09:36:46 UTC 2024 I: biobambam2_2.0.185+ds-2_i386.changes: Format: 1.8 Date: Fri, 19 Apr 2024 17:24:26 +0200 Source: biobambam2 Binary: biobambam2 biobambam2-dbgsym Architecture: i386 Version: 2.0.185+ds-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: biobambam2 - tools for early stage alignment file processing Changes: biobambam2 (2.0.185+ds-2) unstable; urgency=medium . * d/watch: repair gitlab watch file. This instructs uscan to use git ls-remote mode. * d/control: declare compliance to standards version 4.7.0. * d/control: move from pkg-config to pkgconf. Checksums-Sha1: 094effb69e178a4be4f889ab1bedc43c6e3d3716 220599372 biobambam2-dbgsym_2.0.185+ds-2_i386.deb 455433bcf564b914921c0051fbf498229f627e12 6710 biobambam2_2.0.185+ds-2_i386.buildinfo ca39bcd163e561a75ae8052df4ef0bb5f9852bbd 10298724 biobambam2_2.0.185+ds-2_i386.deb Checksums-Sha256: da0e141c2c703425d834b2fe1d347d33bd00a0dc5090f1f3bc0f5a307d8bd5cb 220599372 biobambam2-dbgsym_2.0.185+ds-2_i386.deb 5ff986b5ea633cad169a6c39a5a512a5c6c85d6e7d174b3493433e101672bfc5 6710 biobambam2_2.0.185+ds-2_i386.buildinfo 96807be2c5da68a8b7e2783ad6b7d1aade1101f492feb47023cc39f4c058ce0e 10298724 biobambam2_2.0.185+ds-2_i386.deb Files: 1a14f65a9ea248e724429685fa3a2fa6 220599372 debug optional biobambam2-dbgsym_2.0.185+ds-2_i386.deb 83e2955f764c50255314144ed17a5381 6710 science optional biobambam2_2.0.185+ds-2_i386.buildinfo f73d20320be676d87e6b1d2ae82e55f7 10298724 science optional biobambam2_2.0.185+ds-2_i386.deb Fri Nov 22 09:36:47 UTC 2024 I: diffoscope 283 will be used to compare the two builds: Running as unit: rb-diffoscope-i386_12-30112.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.BFHKaKXr/biobambam2_2.0.185+ds-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.BFHKaKXr/biobambam2_2.0.185+ds-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.BFHKaKXr/biobambam2_2.0.185+ds-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.BFHKaKXr/b1/biobambam2_2.0.185+ds-2_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.BFHKaKXr/b2/biobambam2_2.0.185+ds-2_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 2.363s) 2.363s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 2.043s) 2.043s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 2.693s CPU time consumed: 2.693s Fri Nov 22 09:36:50 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Fri Nov 22 09:36:50 UTC 2024 I: biobambam2 from trixie built successfully and reproducibly on i386. Fri Nov 22 09:36:51 UTC 2024 I: Submitting .buildinfo files to external archives: Fri Nov 22 09:36:51 UTC 2024 I: Submitting 8.0K b1/biobambam2_2.0.185+ds-2_i386.buildinfo.asc Fri Nov 22 09:36:52 UTC 2024 I: Submitting 8.0K b2/biobambam2_2.0.185+ds-2_i386.buildinfo.asc Fri Nov 22 09:36:53 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri Nov 22 09:36:53 UTC 2024 I: Done submitting .buildinfo files. Fri Nov 22 09:36:53 UTC 2024 I: Removing signed biobambam2_2.0.185+ds-2_i386.buildinfo.asc files: removed './b1/biobambam2_2.0.185+ds-2_i386.buildinfo.asc' removed './b2/biobambam2_2.0.185+ds-2_i386.buildinfo.asc'