Tue Jan 11 16:21:56 UTC 2022 I: starting to build fastqtl/bullseye/amd64 on jenkins on '2022-01-11 16:21' Tue Jan 11 16:21:56 UTC 2022 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_8/95743/console.log Tue Jan 11 16:21:56 UTC 2022 I: Downloading source for bullseye/fastqtl=2.184+dfsg-7 --2022-01-11 16:21:56-- http://cdn-fastly.deb.debian.org/debian/pool/main/f/fastqtl/fastqtl_2.184%2bdfsg-7.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2191 (2.1K) Saving to: ‘fastqtl_2.184+dfsg-7.dsc’ 0K .. 100% 253M=0s 2022-01-11 16:21:56 (253 MB/s) - ‘fastqtl_2.184+dfsg-7.dsc’ saved [2191/2191] Tue Jan 11 16:21:56 UTC 2022 I: fastqtl_2.184+dfsg-7.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: fastqtl Binary: fastqtl, fastqtl-doc Architecture: any all Version: 2.184+dfsg-7 Maintainer: Debian Med Packaging Team Uploaders: Dylan Aïssi Homepage: http://fastqtl.sourceforge.net/ Standards-Version: 4.4.0 Vcs-Browser: https://salsa.debian.org/med-team/fastqtl Vcs-Git: https://salsa.debian.org/med-team/fastqtl.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 12), libboost-dev, libboost-iostreams-dev, libboost-program-options-dev, libgsl-dev, r-mathlib, zlib1g-dev, libblas-dev, libeigen3-dev, libhts-dev Package-List: fastqtl deb science optional arch=any fastqtl-doc deb doc optional arch=all Checksums-Sha1: a334f112c2fc8e39613d6dfbfdf390c54a8e6ccd 17122060 fastqtl_2.184+dfsg.orig.tar.xz c569071e45bcbef9eb02268f23241900dfa74b09 19512 fastqtl_2.184+dfsg-7.debian.tar.xz Checksums-Sha256: 5f40bf8d9dbce2cd738080ebe28bf2b3892b75c9a8446e5e1d8c293d4b382b65 17122060 fastqtl_2.184+dfsg.orig.tar.xz 30676085fbed1dc419e1c46dfe3bb3247d5b6390d9e54f5ac6881886d0e2d0d3 19512 fastqtl_2.184+dfsg-7.debian.tar.xz Files: 8db4d2905b2f2b659e40f70a6ccdfa8d 17122060 fastqtl_2.184+dfsg.orig.tar.xz 9e966c9cff79bb11c84863f4c6766760 19512 fastqtl_2.184+dfsg-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl14khwRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEByA/9EbFFevVYmNHN74OoOXfNLqcSKtmNzmg+ P+DyJ9C0EfN6AD6zDVnehjqfXiiPzf1bJ9w4mZrrPWu7LhxXkxp2VKkEVKjAQijZ Le1xURXhU9UPlO5tZzPoimNE2lF2arXicnkV8U3F//6EzQH5liHMZK++DGB5yX7i 2zudV6hFZzf3DI1J6575HY7QsF5RoCDf7ICNjP1TFULLjtej1QiGr3cZwE6Ifs7Z M7OkSUyQFDp+v5PHRKVebPtFa8/gk1y1Q9mwtK2EWsWzhPbHqsYclhQBJQ/+Qrus ikp3AuHUgGSLm352ryPSnpvQJ0WhCca10jb60v2zyf1inGCqd/OgFAgMzpAdSrXj asQs+grLcojXYMEbku7aRoa3Lwwszip/+d8/UZlVPY08mDZxd3W6f9scPWOdH7m/ 03gC3vhdnIVi/9jGDNqePBmNEidOOXrQ1PQ8gFGpgJCJZ3GI0L1knoh2ou9vf2/v p0G/1Dgagvmebun8+dc+zB407Wky+Y+BJyWtZtbdKRxy0qBKwgvbPYL+osxHsA4v +Q3Y3zHjngLD3V1dkTGaucTwz4Paf9pRZau7KTHX7COpwdLzRgu5XLJqELIV0xJp v1csY88nfwzIzYGRnhKMdQZ95RHm+BA1ZCZFQ+aZlmEtgUsY3FwP/jCQxrRvqKNa YellO3T7jXM= =ogex -----END PGP SIGNATURE----- Tue Jan 11 16:21:56 UTC 2022 I: Checking whether the package is not for us Tue Jan 11 16:21:56 UTC 2022 I: Starting 1st build on remote node ionos15-amd64.debian.net. Tue Jan 11 16:21:56 UTC 2022 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Tue Jan 11 16:23:17 UTC 2022 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Feb 13 10:44:58 -12 2023 I: pbuilder-time-stamp: 1676328298 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration 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: Copying source file I: copying [fastqtl_2.184+dfsg-7.dsc] I: copying [./fastqtl_2.184+dfsg.orig.tar.xz] I: copying [./fastqtl_2.184+dfsg-7.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.Lh9TeTLH/trustedkeys.kbx': General error gpgv: Signature made Tue Sep 10 18:20:12 2019 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./fastqtl_2.184+dfsg-7.dsc dpkg-source: info: extracting fastqtl in fastqtl-2.184+dfsg dpkg-source: info: unpacking fastqtl_2.184+dfsg.orig.tar.xz dpkg-source: info: unpacking fastqtl_2.184+dfsg-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 01_Makefile_dynamic_hardenings.patch dpkg-source: info: applying 02_Replace_libtabix_by_libhts.patch dpkg-source: info: applying 03_Reproducible_builds.patch dpkg-source: info: applying cross.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1096054/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=16' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='d909483af9114b44935c5d01e26369ee' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='1096054' 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/tmp.Tre0trOrMA/pbuilderrc_RZyP --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.Tre0trOrMA/b1 --logfile b1/build.log fastqtl_2.184+dfsg-7.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos15-amd64 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Aug 4 2021 bash -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 18424 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 43936 Sep 23 2020 cat -rwxr-xr-x 1 root root 72672 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 23 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 23 2020 chown -rwxr-xr-x 1 root root 151168 Sep 23 2020 cp -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash -rwxr-xr-x 1 root root 113664 Sep 23 2020 date -rwxr-xr-x 1 root root 80968 Sep 23 2020 dd -rwxr-xr-x 1 root root 93936 Sep 23 2020 df -rwxr-xr-x 1 root root 147176 Sep 23 2020 dir -rwxr-xr-x 1 root root 84440 Jul 28 2021 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 39680 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 69032 Jul 28 2021 findmnt -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 203072 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 98048 Mar 2 2021 gzip -rwxr-xr-x 1 root root 22600 Nov 6 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 23 2020 ln -rwxr-xr-x 1 root root 56952 Feb 7 2020 login -rwxr-xr-x 1 root root 147176 Sep 23 2020 ls -rwxr-xr-x 1 root root 149736 Jul 28 2021 lsblk -rwxr-xr-x 1 root root 85184 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 23 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 59632 Jul 28 2021 more -rwsr-xr-x 1 root root 55528 Jul 28 2021 mount -rwxr-xr-x 1 root root 18664 Jul 28 2021 mountpoint -rwxr-xr-x 1 root root 147080 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 2021 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 23 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 23 2020 rm -rwxr-xr-x 1 root root 52032 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Feb 9 03:47 sh -> dash -rwxr-xr-x 1 root root 43808 Sep 23 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 23 2020 stty -rwsr-xr-x 1 root root 71912 Jul 28 2021 su -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync -rwxr-xr-x 1 root root 531928 Feb 16 2021 tar -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 23 2020 touch -rwxr-xr-x 1 root root 39680 Sep 23 2020 true -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Jul 28 2021 umount -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir -rwxr-xr-x 1 root root 63744 Jul 28 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/1096054/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: amd64 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 (= 12), libboost-dev, libboost-iostreams-dev, libboost-program-options-dev, libgsl-dev, r-mathlib, zlib1g-dev, libblas-dev, libeigen3-dev, libhts-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 ... 19655 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 (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-iostreams-dev; however: Package libboost-iostreams-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-program-options-dev; however: Package libboost-program-options-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. pbuilder-satisfydepends-dummy depends on r-mathlib; however: Package r-mathlib is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libblas-dev; however: Package libblas-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-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} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libblas-dev{a} libblas3{a} libboost-dev{a} libboost-iostreams-dev{a} libboost-iostreams1.74-dev{a} libboost-program-options-dev{a} libboost-program-options1.74-dev{a} libboost-program-options1.74.0{a} libboost-regex1.74-dev{a} libboost-regex1.74.0{a} libboost1.74-dev{a} libbrotli1{a} libcurl3-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libeigen3-dev{a} libelf1{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libgsl-dev{a} libgsl25{a} libgslcblas0{a} libhts-dev{a} libhts3{a} libicu-dev{a} libicu67{a} libldap-2.4-2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libpipeline1{a} libpsl5{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} pkg-config{a} po-debconf{a} r-mathlib{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libglib2.0-data libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix r-base-core r-base-dev shared-mime-info wget xdg-user-dirs 0 packages upgraded, 67 newly installed, 0 to remove and 0 not upgraded. Need to get 53.2 MB of archives. After unpacking 311 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 icu-devtools amd64 67.1-7 [201 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3 [153 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libblas-dev amd64 3.9.0-3 [161 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 libboost1.74-dev amd64 1.74.0-9 [9534 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get: 37 http://deb.debian.org/debian bullseye/main amd64 libboost-regex1.74.0 amd64 1.74.0-9 [516 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 libicu-dev amd64 67.1-7 [9597 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 libboost-regex1.74-dev amd64 1.74.0-9 [588 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 libboost-iostreams1.74-dev amd64 1.74.0-9 [273 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 libboost-iostreams-dev amd64 1.74.0.3 [4316 B] Get: 42 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options1.74.0 amd64 1.74.0-9 [356 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options1.74-dev amd64 1.74.0-9 [386 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options-dev amd64 1.74.0.3 [4340 B] Get: 45 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3 [232 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libcurl3-gnutls amd64 7.74.0-1.3+deb11u1 [338 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libcurl4-gnutls-dev amd64 7.74.0-1.3+deb11u1 [429 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 libdeflate-dev amd64 1.7-1 [46.9 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-0 amd64 2.66.8-1 [1370 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 pkg-config amd64 0.29.2-1 [65.1 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libeigen3-dev all 3.3.9-2 [858 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libgslcblas0 amd64 2.6+dfsg-2 [102 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 libgsl25 amd64 2.6+dfsg-2 [934 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libgsl-dev amd64 2.6+dfsg-2 [1123 kB] Get: 63 http://deb.debian.org/debian bullseye/main amd64 libhts3 amd64 1.11-4 [378 kB] Get: 64 http://deb.debian.org/debian bullseye/main amd64 liblzma-dev amd64 5.2.5-2 [229 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] Get: 66 http://deb.debian.org/debian bullseye/main amd64 libhts-dev amd64 1.11-4 [3858 kB] Get: 67 http://deb.debian.org/debian bullseye/main amd64 r-mathlib amd64 4.0.4-1 [2098 kB] Fetched 53.2 MB in 1s (86.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19655 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_amd64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_amd64.deb ... 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Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up libboost1.74-dev:amd64 (1.74.0-9) ... Setting up bsdextrautils (2.36.1-8) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:amd64 (67.1-7) ... Setting up libgslcblas0:amd64 (2.6+dfsg-2) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libgsl25:amd64 (2.6+dfsg-2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.66.8-1) ... No schema files found: doing nothing. Setting up libboost-program-options1.74.0:amd64 (1.74.0-9) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up libnghttp2-14:amd64 (1.43.0-1) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libboost-program-options1.74-dev:amd64 (1.74.0-9) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libblas3:amd64 (3.9.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libboost-program-options-dev:amd64 (1.74.0.3) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up libboost-regex1.74.0:amd64 (1.74.0-9) ... Setting up autopoint (0.21-4) ... Setting up icu-devtools (67.1-7) ... Setting up pkg-config (0.29.2-1) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Setting up liblzma-dev:amd64 (5.2.5-2) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up r-mathlib (4.0.4-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:amd64 (1.9.0-2) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up libdeflate-dev:amd64 (1.7-1) ... Setting up libelf1:amd64 (0.183-1) ... Setting up libicu-dev:amd64 (67.1-7) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7) ... Setting up libblas-dev:amd64 (3.9.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libgsl-dev (2.6+dfsg-2) ... Setting up libtool (2.4.6-15) ... Setting up libldap-2.4-2:amd64 (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u1) ... Setting up libcurl4-gnutls-dev:amd64 (7.74.0-1.3+deb11u1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libeigen3-dev (3.3.9-2) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up libboost-regex1.74-dev:amd64 (1.74.0-9) ... Setting up groff-base (1.22.4-6) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libhts3:amd64 (1.11-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhts-dev:amd64 (1.11-4) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libboost-iostreams1.74-dev:amd64 (1.74.0-9) ... Setting up dh-autoreconf (20) ... Setting up debhelper (13.3.4) ... Setting up libboost-iostreams-dev:amd64 (1.74.0.3) ... Processing triggers for libc-bin (2.31-13+deb11u2) ... 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 Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.25.3-1.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/fastqtl-2.184+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../fastqtl_2.184+dfsg-7_source.changes dpkg-buildpackage: info: source package fastqtl dpkg-buildpackage: info: source version 2.184+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean dh_auto_clean make -j16 clean make[1]: Entering directory '/build/fastqtl-2.184+dfsg' rm -f obj/*.o bin/fastQTL make[1]: Leaving directory '/build/fastqtl-2.184+dfsg' dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/fastqtl-2.184+dfsg' mkdir -p /build/fastqtl-2.184+dfsg/obj/ mkdir -p /build/fastqtl-2.184+dfsg/bin/ dh_auto_build -- CXXFLAGS='-g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security' make -j16 "INSTALL=install --strip-program=true" "CXXFLAGS=-g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security" make[2]: Entering directory '/build/fastqtl-2.184+dfsg' g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisMapping.o -c src/analysisMapping.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisNominal.o -c src/analysisNominal.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutation.o -c src/analysisPermutation.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutationInteraction.o -c src/analysisPermutationInteraction.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutationPerGroup.o -c src/analysisPermutationPerGroup.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutationSequence.o -c src/analysisPermutationSequence.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/commands.o -c src/commands.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/df.o -c src/df.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/fastQTL.o -c src/fastQTL.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/management.o -c src/management.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/mle.o -c src/mle.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readCovariates.o -c src/readCovariates.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readGenotypes.o -c src/readGenotypes.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readGroups.o -c src/readGroups.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readInclusionsExclusions.o -c src/readInclusionsExclusions.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readInteractions.o -c src/readInteractions.cpp -Isrc In file included from src/analysisMapping.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ In file included from src/analysisPermutationSequence.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ In file included from src/analysisPermutationPerGroup.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ In file included from src/analysisPermutationInteraction.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ In file included from src/management.cpp:20: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ In file included from src/analysisPermutation.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readPhenotypes.o -c src/readPhenotypes.cpp -Isrc In file included from src/analysisNominal.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readThresholds.o -c src/readThresholds.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/residualizer.o -c src/residualizer.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/tabix.o -c src/utils/tabix.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/utils.o -c src/utils/utils.cpp -Isrc src/utils/tabix.cpp: In constructor 'Tabix::Tabix(std::string&)': src/utils/tabix.cpp:17:32: warning: 'int bgzf_is_bgzf(const char*)' is deprecated: Use bgzf_compression() or hts_detect_format() instead [-Wdeprecated-declarations] 17 | if ( bgzf_is_bgzf(cfilename)!=1 ) | ^ In file included from src/utils/tabix.hpp:12, from src/utils/tabix.cpp:6: /usr/include/htslib/bgzf.h:263:9: note: declared here 263 | int bgzf_is_bgzf(const char *fn) HTS_DEPRECATED("Use bgzf_compression() or hts_detect_format() instead"); | ^~~~~~~~~~~~ g++ -O3 -Wl,-z,relro -Wl,-z,now obj/analysisMapping.o obj/analysisNominal.o obj/analysisPermutation.o obj/analysisPermutationInteraction.o obj/analysisPermutationPerGroup.o obj/analysisPermutationSequence.o obj/commands.o obj/df.o obj/fastQTL.o obj/management.o obj/mle.o obj/readCovariates.o obj/readGenotypes.o obj/readGroups.o obj/readInclusionsExclusions.o obj/readInteractions.o obj/readPhenotypes.o obj/readThresholds.o obj/residualizer.o obj/tabix.o obj/utils.o -lRmath -lhts -lm -lz -lboost_iostreams -lboost_program_options -lgsl -lblas -o bin/fastQTL make[2]: Leaving directory '/build/fastqtl-2.184+dfsg' cd /build/fastqtl-2.184+dfsg/example/ && \ tar Jcvf examples.tar.xz * --sort=name --mode=go=rX,u+rw,a-s --owner=root --group=root --numeric-owner covariates.txt.gz genotypes.vcf.gz genotypes.vcf.gz.tbi interaction.txt phenotypes.bed.gz phenotypes.bed.gz.tbi make[1]: Leaving directory '/build/fastqtl-2.184+dfsg' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install dh_install dh_installdocs dh_installchangelogs dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz dh_strip dh_makeshlibs dh_shlibdeps dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/fastqtl/usr/bin/fastQTL was not linked against libblas.so.3 (it uses none of the library's symbols) dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'fastqtl' in '../fastqtl_2.184+dfsg-7_amd64.deb'. dpkg-deb: building package 'fastqtl-dbgsym' in '../fastqtl-dbgsym_2.184+dfsg-7_amd64.deb'. dpkg-deb: building package 'fastqtl-doc' in '../fastqtl-doc_2.184+dfsg-7_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../fastqtl_2.184+dfsg-7_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration 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/1096054 and its subdirectories I: Current time: Mon Feb 13 10:46:17 -12 2023 I: pbuilder-time-stamp: 1676328377 Tue Jan 11 16:23:17 UTC 2022 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Tue Jan 11 16:23:17 UTC 2022 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Tue Jan 11 16:27:13 UTC 2022 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Tue Jan 11 16:27:13 UTC 2022 I: fastqtl_2.184+dfsg-7_amd64.changes: Format: 1.8 Date: Mon, 09 Sep 2019 14:08:17 +0200 Source: fastqtl Binary: fastqtl fastqtl-dbgsym fastqtl-doc Architecture: amd64 all Version: 2.184+dfsg-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: fastqtl - Quantitative Trait Loci (QTL) mapper in cis for molecular phenoty fastqtl-doc - QTL mapper in cis for molecular phenotypes - documentation Closes: 939811 Changes: fastqtl (2.184+dfsg-7) unstable; urgency=medium . * Team upload . [ Helmut Grohne ] * Fix FTCBFS: (Closes: #939811) + Let dh_auto_build pass cross tools to make. + cross.patch: Fix Makefile dependencies. . [ Andreas Tille ] * debhelper-compat 12 * Standards-Version: 4.4.0 * Trim trailing whitespace. * Remove obsolete fields Name, Contact from debian/upstream/metadata. Checksums-Sha1: 0442165d814734fde09b2d43c69d6fba50f2b990 5247352 fastqtl-dbgsym_2.184+dfsg-7_amd64.deb aa787e5947e8334c13395a93a1be73876cdc33cd 17104304 fastqtl-doc_2.184+dfsg-7_all.deb ba435aa7731af4a901e3fb0ab829c017e723e733 6701 fastqtl_2.184+dfsg-7_amd64.buildinfo 4d0efccbf5bd43e1069e9ad3f6319e68972ea1fa 200224 fastqtl_2.184+dfsg-7_amd64.deb Checksums-Sha256: cbb37f719daf91d18d31c1d0c2c4dcea214e5e6f48c6e6063c6bf56b4db6c0d9 5247352 fastqtl-dbgsym_2.184+dfsg-7_amd64.deb 8930b8db9926145dc478ee0a39812289ed647428dc715eac3958c038c1ca938b 17104304 fastqtl-doc_2.184+dfsg-7_all.deb 55d8c5ca4c4c32a816d7a31f385b7e982fee2064e42edcebc30f018c4c7d6cfc 6701 fastqtl_2.184+dfsg-7_amd64.buildinfo 037982a87afb611fb2b3a6148bf2843529b56f04404f3a03bd40587f2a639db1 200224 fastqtl_2.184+dfsg-7_amd64.deb Files: 0b5143c2c543ed427b7a5c0bbf30d456 5247352 debug optional fastqtl-dbgsym_2.184+dfsg-7_amd64.deb 8f59f15061440e09b5c5c40887022bcb 17104304 doc optional fastqtl-doc_2.184+dfsg-7_all.deb 32914eb6b2209f3ebd95379fab47cdbd 6701 science optional fastqtl_2.184+dfsg-7_amd64.buildinfo 1a470b0463f570cb7427ced7a8a9d599 200224 science optional fastqtl_2.184+dfsg-7_amd64.deb Tue Jan 11 16:27:14 UTC 2022 I: will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.Tre0trOrMA/fastqtl_2.184+dfsg-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.Tre0trOrMA/fastqtl_2.184+dfsg-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.Tre0trOrMA/fastqtl_2.184+dfsg-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.Tre0trOrMA/b1/fastqtl_2.184+dfsg-7_amd64.changes /srv/reproducible-results/rbuild-debian/tmp.Tre0trOrMA/b2/fastqtl_2.184+dfsg-7_amd64.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: 0.518s) 0.518s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.269s) 0.268s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Tue Jan 11 16:27:15 UTC 2022 I: found no differences in the changes files, and a .buildinfo file also exists. Tue Jan 11 16:27:15 UTC 2022 I: fastqtl from bullseye built successfully and reproducibly on amd64. Tue Jan 11 16:27:17 UTC 2022 I: Submitting .buildinfo files to external archives: Tue Jan 11 16:27:17 UTC 2022 I: Submitting 8.0K b1/fastqtl_2.184+dfsg-7_amd64.buildinfo.asc Tue Jan 11 16:27:18 UTC 2022 I: Submitting 8.0K b2/fastqtl_2.184+dfsg-7_amd64.buildinfo.asc Tue Jan 11 16:27:20 UTC 2022 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Jan 11 16:27:20 UTC 2022 I: Done submitting .buildinfo files. Tue Jan 11 16:27:20 UTC 2022 I: Removing signed fastqtl_2.184+dfsg-7_amd64.buildinfo.asc files: removed './b1/fastqtl_2.184+dfsg-7_amd64.buildinfo.asc' removed './b2/fastqtl_2.184+dfsg-7_amd64.buildinfo.asc'