Sat Jul 3 17:32:57 UTC 2021 I: starting to build lambda-align2/buster/amd64 on jenkins on '2021-07-03 17:32' Sat Jul 3 17:32:57 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_10/20259/console.log Sat Jul 3 17:32:58 UTC 2021 I: Downloading source for buster/lambda-align2=2.0.0-6 --2021-07-03 17:32:58-- http://deb.debian.org/debian/pool/main/l/lambda-align2/lambda-align2_2.0.0-6.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1824 (1.8K) Saving to: ‘lambda-align2_2.0.0-6.dsc’ 0K . 100% 231M=0s 2021-07-03 17:32:58 (231 MB/s) - ‘lambda-align2_2.0.0-6.dsc’ saved [1824/1824] Sat Jul 3 17:32:58 UTC 2021 I: lambda-align2_2.0.0-6.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: lambda-align2 Binary: lambda-align2 Architecture: any Version: 2.0.0-6 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe , Sascha Steinbiss Homepage: https://seqan.github.io/lambda Standards-Version: 4.3.0 Vcs-Browser: https://salsa.debian.org/med-team/lambda-align2 Vcs-Git: https://salsa.debian.org/med-team/lambda-align2.git Testsuite: autopkgtest Testsuite-Triggers: @builddeps@, coreutils, diffutils, gzip, ncbi-blast+, openssl Build-Depends: debhelper (>= 12~), libseqan2-dev, cmake, zlib1g-dev, libbz2-dev, openssl Package-List: lambda-align2 deb science optional arch=any Checksums-Sha1: 12b76d151a4b229d0b250fc6d94867eef8a33c31 345507 lambda-align2_2.0.0.orig.tar.gz 307c181a25e281325ea63b4739cf04b3454168f1 17032 lambda-align2_2.0.0-6.debian.tar.xz Checksums-Sha256: bbc23901967da7359a6d0df192609da7b454ea09cdc86c78a7ec93ca9dfc5efc 345507 lambda-align2_2.0.0.orig.tar.gz a08949a85aeab48c0b4e6b4ae1b55ad05d75363cbf060a55c41da1144c1e7b96 17032 lambda-align2_2.0.0-6.debian.tar.xz Files: 2b4b013511f34ffd1f710d2032c91d90 345507 lambda-align2_2.0.0.orig.tar.gz 417670ff62505341222abd93e3eae089 17032 lambda-align2_2.0.0-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEEhFH5F4Fy5+Lcc/eVUfhKj+zKfgkFAlz7r8gACgkQUfhKj+zK fglfYgf/bZ/s5ODB485wl2Mz1Uncn5UgTINVsD14QCMrv563o7UPf+N4B+wxW3+X De1K6UgtBzkrFKqKYPI75RvMyiHlapV2ZEarGC/wKKiwYHPyJIbJlgdVv8j6P8AR sgMCbIyN9OgBCwHJbt9BGRcjRPrAFK9NfyeQqHWT8oMJ0x+h+DyVBYFMvSGTeXde 794h/MX8A0PfAwZYiygR8d1ErwsB/3+CZGZLveUtz0Zxe67Zo08qGkYZwQ5dpuqk zicVsCBssrlks6JaPQ8x0tny/y1nRgL7J0VSpfKS9CqKmw9inSScrAlOVnQZft5h +uKDFGezcptMBCvU0yJzvZWF52js8w== =yh/0 -----END PGP SIGNATURE----- Sat Jul 3 17:32:58 UTC 2021 I: Checking whether the package is not for us Sat Jul 3 17:32:58 UTC 2021 I: Starting 1st build on remote node ionos5-amd64.debian.net. Sat Jul 3 17:32:58 UTC 2021 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Sat Jul 3 17:38:38 UTC 2021 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Aug 5 11:56:00 -12 2022 I: pbuilder-time-stamp: 1659743760 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-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 [lambda-align2_2.0.0-6.dsc] I: copying [./lambda-align2_2.0.0.orig.tar.gz] I: copying [./lambda-align2_2.0.0-6.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sat Jun 8 00:53:28 2019 -12 gpgv: using RSA key 8451F9178172E7E2DC73F79551F84A8FECCA7E09 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./lambda-align2_2.0.0-6.dsc dpkg-source: info: extracting lambda-align2 in lambda-align2-2.0.0 dpkg-source: info: unpacking lambda-align2_2.0.0.orig.tar.gz dpkg-source: info: unpacking lambda-align2_2.0.0-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying enable_tests dpkg-source: info: applying 32bit dpkg-source: info: applying set-seqan-cmake-dir.patch dpkg-source: info: applying force-link-rt-pthread.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/29882/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='4c982a54e7f24e8097e5f06b2bae8229' 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='29882' 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.id0bvE5WIA/pbuilderrc_6hcO --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.id0bvE5WIA/b1 --logfile b1/build.log lambda-align2_2.0.0-6.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos5-amd64 5.10.0-0.bpo.7-amd64 #1 SMP Debian 5.10.40-1~bpo10+1 (2021-06-04) x86_64 GNU/Linux I: ls -l /bin total 5116 -rwxr-xr-x 1 root root 1168776 Apr 17 2019 bash -rwxr-xr-x 3 root root 38984 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 14328 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 43744 Feb 28 2019 cat -rwxr-xr-x 1 root root 64320 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 64288 Feb 28 2019 chmod -rwxr-xr-x 1 root root 72512 Feb 28 2019 chown -rwxr-xr-x 1 root root 146880 Feb 28 2019 cp -rwxr-xr-x 1 root root 121464 Jan 17 2019 dash -rwxr-xr-x 1 root root 109408 Feb 28 2019 date -rwxr-xr-x 1 root root 76712 Feb 28 2019 dd -rwxr-xr-x 1 root root 93744 Feb 28 2019 df -rwxr-xr-x 1 root root 138856 Feb 28 2019 dir -rwxr-xr-x 1 root root 84288 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 39520 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 35424 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 68880 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 34896 Apr 22 2020 fusermount -rwxr-xr-x 1 root root 198976 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 98048 Jan 5 2019 gzip -rwxr-xr-x 1 root root 26696 Sep 26 2018 hostname -rwxr-xr-x 1 root root 68552 Feb 28 2019 ln -rwxr-xr-x 1 root root 56760 Jul 26 2018 login -rwxr-xr-x 1 root root 138856 Feb 28 2019 ls -rwxr-xr-x 1 root root 108624 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 89088 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 68544 Feb 28 2019 mknod -rwxr-xr-x 1 root root 43808 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 43008 Jan 9 2019 more -rwsr-xr-x 1 root root 51280 Jan 9 2019 mount -rwxr-xr-x 1 root root 14408 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 138728 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 39616 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 47776 Feb 28 2019 readlink -rwxr-xr-x 1 root root 68416 Feb 28 2019 rm -rwxr-xr-x 1 root root 47776 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 23312 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jul 24 02:46 sh -> dash -rwxr-xr-x 1 root root 39552 Feb 28 2019 sleep -rwxr-xr-x 1 root root 80672 Feb 28 2019 stty -rwsr-xr-x 1 root root 63568 Jan 9 2019 su -rwxr-xr-x 1 root root 35488 Feb 28 2019 sync -rwxr-xr-x 1 root root 445560 Apr 23 2019 tar -rwxr-xr-x 1 root root 14440 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 97152 Feb 28 2019 touch -rwxr-xr-x 1 root root 35424 Feb 28 2019 true -rwxr-xr-x 1 root root 14328 Apr 22 2020 ulockmgr_server -rwsr-xr-x 1 root root 34888 Jan 9 2019 umount -rwxr-xr-x 1 root root 39584 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 138856 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34896 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/29882/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 (>= 12~), libseqan2-dev, cmake, zlib1g-dev, libbz2-dev, openssl dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19195 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 (>= 12~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on libseqan2-dev; however: Package libseqan2-dev is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on openssl; however: Package openssl 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} bsdmainutils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbsd0{a} libbz2-dev{a} libcroco3{a} libcurl4{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libgssapi-krb5-2{a} libicu63{a} libjsoncpp1{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.4-2{a} libldap-common{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps7{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libseqan2-dev{a} libsigsegv2{a} libssh2-1{a} libssl1.1{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} lsb-base{a} m4{a} man-db{a} openssl{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix shared-mime-info wget xdg-user-dirs 0 packages upgraded, 62 newly installed, 0 to remove and 0 not upgraded. Need to get 30.8 MB of archives. After unpacking 122 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get: 2 http://deb.debian.org/debian buster/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get: 3 http://deb.debian.org/debian buster/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get: 4 http://deb.debian.org/debian buster/main amd64 groff-base amd64 1.22.4-3+deb10u1 [916 kB] Get: 5 http://deb.debian.org/debian buster/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get: 6 http://deb.debian.org/debian buster/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get: 7 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get: 8 http://deb.debian.org/debian buster/main amd64 libprocps7 amd64 2:3.3.15-2 [61.7 kB] Get: 9 http://deb.debian.org/debian buster/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get: 10 http://deb.debian.org/debian buster/main amd64 procps amd64 2:3.3.15-2 [259 kB] Get: 11 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get: 12 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get: 13 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get: 14 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get: 15 http://deb.debian.org/debian buster/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get: 16 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get: 17 http://deb.debian.org/debian buster/main amd64 m4 amd64 1.4.18-2 [203 kB] Get: 18 http://deb.debian.org/debian buster/main amd64 autoconf all 2.69-11 [341 kB] Get: 19 http://deb.debian.org/debian buster/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get: 20 http://deb.debian.org/debian buster/main amd64 automake all 1:1.16.1-4 [771 kB] Get: 21 http://deb.debian.org/debian buster/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get: 22 http://deb.debian.org/debian buster/main amd64 cmake-data all 3.13.4-1 [1476 kB] Get: 23 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u1 [8300 kB] Get: 24 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u2 [689 kB] Get: 25 http://deb.debian.org/debian buster/main amd64 libarchive13 amd64 3.3.3-4+deb10u1 [313 kB] Get: 26 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get: 27 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u1 [65.8 kB] Get: 28 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u1 [122 kB] Get: 29 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1d-0+deb10u6 [1539 kB] Get: 30 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u1 [369 kB] Get: 31 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u1 [158 kB] Get: 32 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u1 [69.1 kB] Get: 33 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u1 [106 kB] Get: 34 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u6 [90.0 kB] Get: 35 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u6 [224 kB] Get: 36 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get: 37 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get: 38 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get: 39 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get: 40 http://deb.debian.org/debian buster/main amd64 libcurl4 amd64 7.64.0-4+deb10u2 [332 kB] Get: 41 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u1 [106 kB] Get: 42 http://deb.debian.org/debian buster/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get: 43 http://deb.debian.org/debian buster/main amd64 librhash0 amd64 1.3.8-1 [122 kB] Get: 44 http://deb.debian.org/debian buster/main amd64 libuv1 amd64 1.24.1-1 [110 kB] Get: 45 http://deb.debian.org/debian buster/main amd64 cmake amd64 3.13.4-1 [3480 kB] Get: 46 http://deb.debian.org/debian buster/main amd64 libtool all 2.4.6-9 [547 kB] Get: 47 http://deb.debian.org/debian buster/main amd64 dh-autoreconf all 19 [16.9 kB] Get: 48 http://deb.debian.org/debian buster/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 49 http://deb.debian.org/debian buster/main amd64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 50 http://deb.debian.org/debian buster/main amd64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 51 http://deb.debian.org/debian buster/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get: 52 http://deb.debian.org/debian buster/main amd64 dwz amd64 0.12-3 [78.0 kB] Get: 53 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get: 54 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get: 55 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get: 56 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 57 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] Get: 58 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] Get: 59 http://deb.debian.org/debian buster/main amd64 libbz2-dev amd64 1.0.6-9.2~deb10u1 [30.2 kB] Get: 60 http://deb.debian.org/debian buster/main amd64 libseqan2-dev all 2.4.0+dfsg-11 [1220 kB] Get: 61 http://deb.debian.org/debian buster/main amd64 openssl amd64 1.1.1d-0+deb10u6 [844 kB] Get: 62 http://deb.debian.org/debian buster/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-1 [214 kB] Fetched 30.8 MB in 0s (74.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19195 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. 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Setting up openssl (1.1.1d-0+deb10u6) ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u2) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libbz2-dev:amd64 (1.0.6-9.2~deb10u1) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libtool (2.4.6-9) ... Setting up libarchive13:amd64 (3.3.3-4+deb10u1) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u6) ... Setting up m4 (1.4.18-2) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u1) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3+deb10u1) ... Setting up libcurl4:amd64 (7.64.0-4+deb10u2) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up gettext (0.19.8.1-9) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up intltool-debian (0.35.0+20060710.5) ... Setting up cmake (3.13.4-1) ... Setting up po-debconf (1.0.21) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... 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 (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/lambda-align2-2.0.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package lambda-align2 dpkg-buildpackage: info: source version 2.0.0-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Sascha Steinbiss dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --builddirectory=build debian/rules override_dh_auto_clean make[1]: Entering directory '/build/lambda-align2-2.0.0' if ls tests/*~ 1> /dev/null 2>&1; then \ for backup in tests/*~; do mv ${backup} ${backup%\~}; done; \ fi dh_auto_clean make[1]: Leaving directory '/build/lambda-align2-2.0.0' dh_autoreconf_clean -O--builddirectory=build dh_clean -O--builddirectory=build rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/lambda-align2.substvars debian/files rm -fr -- debian/lambda-align2/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules build dh build --builddirectory=build dh_update_autotools_config -O--builddirectory=build dh_autoreconf -O--builddirectory=build debian/rules override_dh_auto_configure make[1]: Entering directory '/build/lambda-align2-2.0.0' dh_auto_configure -- \ -DLAMBDA_NATIVE_BUILD=OFF \ -DLAMBDA_MMAPPED_DB=OFF \ -DCMAKE_BUILD_TYPE=Release \ "-DLAMBDA_MULTIOPT_BUILD=1" \ -DLAMBDA_COMPILE_THREADS=16 install -d build cd build && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DLAMBDA_NATIVE_BUILD=OFF -DLAMBDA_MMAPPED_DB=OFF -DCMAKE_BUILD_TYPE=Release -DLAMBDA_MULTIOPT_BUILD=1 -DLAMBDA_COMPILE_THREADS=16 .. Compiler Detection -- The CXX compiler identification is GNU 8.3.0 -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done Dependency detection -- These dependencies where found: OPENMP TRUE -fopenmp ZLIB TRUE 1.2.11 BZIP2 TRUE 1.0.6 SEQAN TRUE 2.4.0 -- The requirements where met. Build configuration -- LAMBDA version is: 2.0.0 -- The following options are selected for the build: LAMBDA_FASTBUILD OFF LAMBDA_LINGAPS_OPT OFF LAMBDA_LONG_PROTEIN_SUBJ_SEQS OFF LAMBDA_MMAPPED_DB OFF LAMBDA_NATIVE_BUILD OFF LAMBDA_MULTIOPT_BUILD 1 LAMBDA_STATIC_BUILD OFF -- Run 'cmake -LH' to get a comment on each option. -- Remove CMakeCache.txt and re-run cmake with -DOPTIONNAME=ON|OFF to change an option. Setting up unit tests -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/lambda-align2-2.0.0/build make[1]: Leaving directory '/build/lambda-align2-2.0.0' dh_auto_build -O--builddirectory=build cd build && make -j16 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/lambda-align2-2.0.0/build' /usr/bin/cmake -S/build/lambda-align2-2.0.0 -B/build/lambda-align2-2.0.0/build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/lambda-align2-2.0.0/build/CMakeFiles /build/lambda-align2-2.0.0/build/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/lambda-align2-2.0.0/build' make -f src/CMakeFiles/lambda2-sse4.dir/build.make src/CMakeFiles/lambda2-sse4.dir/depend make -f src/CMakeFiles/lambda2.dir/build.make src/CMakeFiles/lambda2.dir/depend make[3]: Entering directory '/build/lambda-align2-2.0.0/build' cd /build/lambda-align2-2.0.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/lambda-align2-2.0.0 /build/lambda-align2-2.0.0/src /build/lambda-align2-2.0.0/build /build/lambda-align2-2.0.0/build/src /build/lambda-align2-2.0.0/build/src/CMakeFiles/lambda2.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/lambda-align2-2.0.0/build' cd /build/lambda-align2-2.0.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/lambda-align2-2.0.0 /build/lambda-align2-2.0.0/src /build/lambda-align2-2.0.0/build /build/lambda-align2-2.0.0/build/src /build/lambda-align2-2.0.0/build/src/CMakeFiles/lambda2-sse4.dir/DependInfo.cmake --color= Scanning dependencies of target lambda2-sse4 Scanning dependencies of target lambda2 make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' make -f src/CMakeFiles/lambda2-sse4.dir/build.make src/CMakeFiles/lambda2-sse4.dir/build make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' make -f src/CMakeFiles/lambda2.dir/build.make src/CMakeFiles/lambda2.dir/build make[3]: Entering directory '/build/lambda-align2-2.0.0/build' make[3]: Entering directory '/build/lambda-align2-2.0.0/build' [ 11%] Building CXX object src/CMakeFiles/lambda2.dir/lambda.cpp.o cd /build/lambda-align2-2.0.0/build/src && /usr/bin/c++ -DCMAKE_BUILD_TYPE=\"Release\" -DSEQAN_APP_VERSION=\"2.0.0\" -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -g -O2 -ffile-prefix-map=/build/lambda-align2-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-vla -Wextra -Wall -pedantic -O3 -DNDEBUG -flto=16 -s -o CMakeFiles/lambda2.dir/lambda.cpp.o -c /build/lambda-align2-2.0.0/src/lambda.cpp [ 22%] Building CXX object src/CMakeFiles/lambda2-sse4.dir/lambda.cpp.o cd /build/lambda-align2-2.0.0/build/src && /usr/bin/c++ -DCMAKE_BUILD_TYPE=\"Release\" -DSEQAN_APP_VERSION=\"2.0.0\" -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -g -O2 -ffile-prefix-map=/build/lambda-align2-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-vla -Wextra -Wall -pedantic -O3 -DNDEBUG -flto=16 -s -mmmx -msse -msse2 -msse3 -mssse3 -msse4 -mpopcnt -o CMakeFiles/lambda2-sse4.dir/lambda.cpp.o -c /build/lambda-align2-2.0.0/src/lambda.cpp In file included from /build/lambda-align2-2.0.0/src/search.hpp:32, from /build/lambda-align2-2.0.0/src/lambda.cpp:22: /build/lambda-align2-2.0.0/src/shared_options.hpp:219:21: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] setDate(parser, __DATE__); ^~~~~~~~ In file included from /build/lambda-align2-2.0.0/src/search.hpp:32, from /build/lambda-align2-2.0.0/src/lambda.cpp:22: /build/lambda-align2-2.0.0/src/shared_options.hpp:219:21: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] setDate(parser, __DATE__); ^~~~~~~~ In file included from /build/lambda-align2-2.0.0/src/mkindex.hpp:36, from /build/lambda-align2-2.0.0/src/lambda.cpp:23: /build/lambda-align2-2.0.0/src/mkindex_misc.hpp: In function 'void getCwd(TString&) [with TString = std::__cxx11::basic_string]': /build/lambda-align2-2.0.0/src/mkindex_misc.hpp:33:11: warning: ignoring return value of 'char* getcwd(char*, size_t)', declared with attribute warn_unused_result [-Wunused-result] getcwd(cwd, 1000); ~~~~~~^~~~~~~~~~~ In file included from /build/lambda-align2-2.0.0/src/mkindex.hpp:36, from /build/lambda-align2-2.0.0/src/lambda.cpp:23: /build/lambda-align2-2.0.0/src/mkindex_misc.hpp: In function 'void getCwd(TString&) [with TString = std::__cxx11::basic_string]': /build/lambda-align2-2.0.0/src/mkindex_misc.hpp:33:11: warning: ignoring return value of 'char* getcwd(char*, size_t)', declared with attribute warn_unused_result [-Wunused-result] getcwd(cwd, 1000); ~~~~~~^~~~~~~~~~~ [ 33%] Linking CXX executable ../bin/lambda2 cd /build/lambda-align2-2.0.0/build/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/lambda2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/lambda-align2-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-vla -Wextra -Wall -pedantic -O3 -DNDEBUG -flto=16 -s -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic CMakeFiles/lambda2.dir/lambda.cpp.o -o ../bin/lambda2 -lrt -lz -lbz2 -lrt -lpthread -lz -lbz2 -lpthread [ 44%] Linking CXX executable ../bin/lambda2-sse4 cd /build/lambda-align2-2.0.0/build/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/lambda2-sse4.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/lambda-align2-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-vla -Wextra -Wall -pedantic -O3 -DNDEBUG -flto=16 -s -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic CMakeFiles/lambda2-sse4.dir/lambda.cpp.o -o ../bin/lambda2-sse4 -lrt -lz -lbz2 -lrt -lpthread -lz -lbz2 -lpthread make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' [ 44%] Built target lambda2 make -f src/CMakeFiles/manual.dir/build.make src/CMakeFiles/manual.dir/depend make[3]: Entering directory '/build/lambda-align2-2.0.0/build' cd /build/lambda-align2-2.0.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/lambda-align2-2.0.0 /build/lambda-align2-2.0.0/src /build/lambda-align2-2.0.0/build /build/lambda-align2-2.0.0/build/src /build/lambda-align2-2.0.0/build/src/CMakeFiles/manual.dir/DependInfo.cmake --color= Scanning dependencies of target manual make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' make -f src/CMakeFiles/manual.dir/build.make src/CMakeFiles/manual.dir/build make[3]: Entering directory '/build/lambda-align2-2.0.0/build' [ 55%] Generating lambda2.1 [ 66%] Generating lambda2-searchp.1 cd /build/lambda-align2-2.0.0/build/src && ../bin/lambda2 --export-help=man > lambda2.1 cd /build/lambda-align2-2.0.0/build/src && ../bin/lambda2 searchp --export-help=man > lambda2-searchp.1 [ 77%] Generating lambda2-mkindexp.1 cd /build/lambda-align2-2.0.0/build/src && ../bin/lambda2 mkindexp --export-help=man > lambda2-mkindexp.1 [ 88%] Generating lambda2-searchn.1 [100%] Generating lambda2-mkindexn.1 cd /build/lambda-align2-2.0.0/build/src && ../bin/lambda2 mkindexn --export-help=man > lambda2-mkindexn.1 mkdir: cannot create directory '/nonexistent': Permission denied cd /build/lambda-align2-2.0.0/build/src && ../bin/lambda2 searchn --export-help=man > lambda2-searchn.1 mkdir: cannot create directory '/nonexistent': Permission denied mkdir: cannot create directory '/nonexistent': Permission denied mkdir: cannot create directory '/nonexistent': Permission denied mkdir: cannot create directory '/nonexistent': Permission denied make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' [100%] Built target manual make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' [100%] Built target lambda2-sse4 make[2]: Leaving directory '/build/lambda-align2-2.0.0/build' /usr/bin/cmake -E cmake_progress_start /build/lambda-align2-2.0.0/build/CMakeFiles 0 make[1]: Leaving directory '/build/lambda-align2-2.0.0/build' rm -f debian/lambda-align2.debhelper.log debian/rules override_dh_auto_test make[1]: Entering directory '/build/lambda-align2-2.0.0' #for md5 in debian/*.md5sums; do gzip --keep ${md5}; done #cp --backup debian/*md5sums.gz tests/ #cd build/tests && ctest . -j16 -I 1,10 make[1]: Leaving directory '/build/lambda-align2-2.0.0' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --builddirectory=build dh_testroot -O--builddirectory=build dh_prep -O--builddirectory=build rm -f -- debian/lambda-align2.substvars rm -fr -- debian/.debhelper/generated/lambda-align2/ debian/lambda-align2/ debian/tmp/ dh_auto_install -O--builddirectory=build install -d /build/lambda-align2-2.0.0/debian/lambda-align2 cd build && make -j16 install DESTDIR=/build/lambda-align2-2.0.0/debian/lambda-align2 AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/lambda-align2-2.0.0/build' /usr/bin/cmake -S/build/lambda-align2-2.0.0 -B/build/lambda-align2-2.0.0/build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/lambda-align2-2.0.0/build/CMakeFiles /build/lambda-align2-2.0.0/build/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/lambda-align2-2.0.0/build' make -f src/CMakeFiles/lambda2-sse4.dir/build.make src/CMakeFiles/lambda2-sse4.dir/depend make -f src/CMakeFiles/lambda2.dir/build.make src/CMakeFiles/lambda2.dir/depend make[3]: Entering directory '/build/lambda-align2-2.0.0/build' cd /build/lambda-align2-2.0.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/lambda-align2-2.0.0 /build/lambda-align2-2.0.0/src /build/lambda-align2-2.0.0/build /build/lambda-align2-2.0.0/build/src /build/lambda-align2-2.0.0/build/src/CMakeFiles/lambda2-sse4.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/lambda-align2-2.0.0/build' cd /build/lambda-align2-2.0.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/lambda-align2-2.0.0 /build/lambda-align2-2.0.0/src /build/lambda-align2-2.0.0/build /build/lambda-align2-2.0.0/build/src /build/lambda-align2-2.0.0/build/src/CMakeFiles/lambda2.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' make -f src/CMakeFiles/lambda2-sse4.dir/build.make src/CMakeFiles/lambda2-sse4.dir/build make[3]: Entering directory '/build/lambda-align2-2.0.0/build' make[3]: Nothing to be done for 'src/CMakeFiles/lambda2-sse4.dir/build'. make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' make -f src/CMakeFiles/lambda2.dir/build.make src/CMakeFiles/lambda2.dir/build make[3]: Entering directory '/build/lambda-align2-2.0.0/build' make[3]: Nothing to be done for 'src/CMakeFiles/lambda2.dir/build'. make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' [ 22%] Built target lambda2-sse4 [ 44%] Built target lambda2 make -f src/CMakeFiles/manual.dir/build.make src/CMakeFiles/manual.dir/depend make[3]: Entering directory '/build/lambda-align2-2.0.0/build' cd /build/lambda-align2-2.0.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/lambda-align2-2.0.0 /build/lambda-align2-2.0.0/src /build/lambda-align2-2.0.0/build /build/lambda-align2-2.0.0/build/src /build/lambda-align2-2.0.0/build/src/CMakeFiles/manual.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' make -f src/CMakeFiles/manual.dir/build.make src/CMakeFiles/manual.dir/build make[3]: Entering directory '/build/lambda-align2-2.0.0/build' make[3]: Nothing to be done for 'src/CMakeFiles/manual.dir/build'. make[3]: Leaving directory '/build/lambda-align2-2.0.0/build' [100%] Built target manual make[2]: Leaving directory '/build/lambda-align2-2.0.0/build' /usr/bin/cmake -E cmake_progress_start /build/lambda-align2-2.0.0/build/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/lambda-align2-2.0.0/build' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/lambda-align2-2.0.0/build' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "Release" -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/libexec/lambda2 -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/libexec/lambda2-sse4 -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/bin/lambda2 -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/share/doc/lambda2/LICENSE.rst -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/share/doc/lambda2/LICENSE-BSD.rst -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/share/doc/lambda2/LICENSE-AGPL3.rst -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/share/doc/lambda2/README.rst -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/share/man/man1/lambda2.1 -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/share/man/man1/lambda2-searchn.1 -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/share/man/man1/lambda2-searchp.1 -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/share/man/man1/lambda2-mkindexn.1 -- Installing: /build/lambda-align2-2.0.0/debian/lambda-align2/usr/share/man/man1/lambda2-mkindexp.1 make[1]: Leaving directory '/build/lambda-align2-2.0.0/build' debian/rules override_dh_install make[1]: Entering directory '/build/lambda-align2-2.0.0' dh_install install -d debian/.debhelper/generated/lambda-align2 find debian -name "LICENSE*.rst" -delete make[1]: Leaving directory '/build/lambda-align2-2.0.0' dh_installdocs -O--builddirectory=build install -d debian/lambda-align2/usr/share/doc/lambda-align2 install -p -m0644 debian/copyright debian/lambda-align2/usr/share/doc/lambda-align2/copyright dh_installchangelogs -O--builddirectory=build install -p -m0644 debian/changelog debian/lambda-align2/usr/share/doc/lambda-align2/changelog.Debian rm -f debian/lambda-align2.debhelper.log debian/rules override_dh_installman make[1]: Entering directory '/build/lambda-align2-2.0.0' sed -i -e 's@\(defaults to working directory\.\).*@\1@g' ./debian/lambda-align2/usr/share/man/man1/*.1 sed -i -e 's@\(number of threads to run concurrently\).*@\1. Default: autodetected.@g' ./debian/lambda-align2/usr/share/man/man1/*.1 sed -i 's/LAMBDA2 MKINDEXN/LAMBDA2_MKINDEXN/' ./debian/lambda-align2/usr/share/man/man1/lambda2-mkindexn.1 sed -i 's/^lambda2 mkindexn /lambda2_mkindexn /' ./debian/lambda-align2/usr/share/man/man1/lambda2-mkindexn.1 sed -i 's/LAMBDA2 MKINDEXP/LAMBDA2_MKINDEXP/' ./debian/lambda-align2/usr/share/man/man1/lambda2-mkindexp.1 sed -i 's/^lambda2 mkindexp /lambda2_mkindexp /' ./debian/lambda-align2/usr/share/man/man1/lambda2-mkindexp.1 sed -i 's/LAMBDA2 SEARCHN/LAMBDA2_SEARCHN/' ./debian/lambda-align2/usr/share/man/man1/lambda2-searchn.1 sed -i 's/^lambda2 searchn /lambda2_searchn /' ./debian/lambda-align2/usr/share/man/man1/lambda2-searchn.1 sed -i 's/LAMBDA2 SEARCHP/LAMBDA2_SEARCHP/' ./debian/lambda-align2/usr/share/man/man1/lambda2-searchp.1 sed -i 's/^lambda2 searchp /lambda2_searchp /' ./debian/lambda-align2/usr/share/man/man1/lambda2-searchp.1 dh_installman man -l --recode UTF-8 ./debian/lambda-align2/usr/share/man/man1/lambda2-searchp.1 > debian/lambda-align2/usr/share/man/man1/lambda2-searchp.1.dh-new man -l --recode UTF-8 ./debian/lambda-align2/usr/share/man/man1/lambda2-mkindexp.1 > debian/lambda-align2/usr/share/man/man1/lambda2-mkindexp.1.dh-new man -l --recode UTF-8 ./debian/lambda-align2/usr/share/man/man1/lambda2-searchn.1 > debian/lambda-align2/usr/share/man/man1/lambda2-searchn.1.dh-new man -l --recode UTF-8 ./debian/lambda-align2/usr/share/man/man1/lambda2-mkindexn.1 > debian/lambda-align2/usr/share/man/man1/lambda2-mkindexn.1.dh-new man -l --recode UTF-8 ./debian/lambda-align2/usr/share/man/man1/lambda2.1 > debian/lambda-align2/usr/share/man/man1/lambda2.1.dh-new mv debian/lambda-align2/usr/share/man/man1/lambda2-mkindexp.1.dh-new debian/lambda-align2/usr/share/man/man1/lambda2-mkindexp.1 chmod 0644 -- debian/lambda-align2/usr/share/man/man1/lambda2-mkindexp.1 mv debian/lambda-align2/usr/share/man/man1/lambda2-searchn.1.dh-new debian/lambda-align2/usr/share/man/man1/lambda2-searchn.1 chmod 0644 -- debian/lambda-align2/usr/share/man/man1/lambda2-searchn.1 mv debian/lambda-align2/usr/share/man/man1/lambda2-searchp.1.dh-new debian/lambda-align2/usr/share/man/man1/lambda2-searchp.1 chmod 0644 -- debian/lambda-align2/usr/share/man/man1/lambda2-searchp.1 mv debian/lambda-align2/usr/share/man/man1/lambda2-mkindexn.1.dh-new debian/lambda-align2/usr/share/man/man1/lambda2-mkindexn.1 chmod 0644 -- debian/lambda-align2/usr/share/man/man1/lambda2-mkindexn.1 mv debian/lambda-align2/usr/share/man/man1/lambda2.1.dh-new debian/lambda-align2/usr/share/man/man1/lambda2.1 chmod 0644 -- debian/lambda-align2/usr/share/man/man1/lambda2.1 make[1]: Leaving directory '/build/lambda-align2-2.0.0' dh_installinit -O--builddirectory=build dh_installsystemduser -O--builddirectory=build dh_perl -O--builddirectory=build dh_link -O--builddirectory=build dh_strip_nondeterminism -O--builddirectory=build dh_compress -O--builddirectory=build cd debian/lambda-align2 chmod a-x usr/share/doc/lambda-align2/changelog.Debian usr/share/doc/lambda2/README.rst usr/share/man/man1/lambda2-mkindexn.1 usr/share/man/man1/lambda2-mkindexp.1 usr/share/man/man1/lambda2-searchn.1 usr/share/man/man1/lambda2-searchp.1 usr/share/man/man1/lambda2.1 gzip -9nf usr/share/doc/lambda-align2/changelog.Debian usr/share/doc/lambda2/README.rst usr/share/man/man1/lambda2-mkindexn.1 usr/share/man/man1/lambda2-mkindexp.1 usr/share/man/man1/lambda2-searchn.1 usr/share/man/man1/lambda2-searchp.1 usr/share/man/man1/lambda2.1 cd '/build/lambda-align2-2.0.0' dh_fixperms -O--builddirectory=build find debian/lambda-align2 -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/lambda-align2 ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/lambda-align2/usr/share/doc -type f -a -true -a ! -regex 'debian/lambda-align2/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/lambda-align2/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/lambda-align2/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/lambda-align2 -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/lambda-align2/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing -O--builddirectory=build rm -f debian/lambda-align2.debhelper.log debian/rules override_dh_dwz make[1]: Entering directory '/build/lambda-align2-2.0.0' # pass make[1]: Leaving directory '/build/lambda-align2-2.0.0' dh_strip -O--builddirectory=build strip --remove-section=.comment --remove-section=.note debian/lambda-align2/usr/libexec/lambda2-sse4 strip --remove-section=.comment --remove-section=.note debian/lambda-align2/usr/libexec/lambda2 dh_makeshlibs -O--builddirectory=build rm -f debian/lambda-align2/DEBIAN/shlibs dh_shlibdeps -O--builddirectory=build install -d debian/lambda-align2/DEBIAN dpkg-shlibdeps -Tdebian/lambda-align2.substvars debian/lambda-align2/usr/libexec/lambda2 debian/lambda-align2/usr/libexec/lambda2-sse4 dh_installdeb -O--builddirectory=build dh_gencontrol -O--builddirectory=build echo misc:Depends= >> debian/lambda-align2.substvars echo misc:Pre-Depends= >> debian/lambda-align2.substvars dpkg-gencontrol -plambda-align2 -ldebian/changelog -Tdebian/lambda-align2.substvars -Pdebian/lambda-align2 -UMulti-Arch chmod 0644 -- debian/lambda-align2/DEBIAN/control chown 0:0 -- debian/lambda-align2/DEBIAN/control dh_md5sums -O--builddirectory=build cd debian/lambda-align2 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/lambda-align2/DEBIAN/md5sums chown 0:0 -- debian/lambda-align2/DEBIAN/md5sums dh_builddeb -O--builddirectory=build dpkg-deb --build debian/lambda-align2 .. dpkg-deb: building package 'lambda-align2' in '../lambda-align2_2.0.0-6_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../lambda-align2_2.0.0-6_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) 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/29882 and its subdirectories I: Current time: Fri Aug 5 12:01:38 -12 2022 I: pbuilder-time-stamp: 1659744098 Sat Jul 3 17:38:38 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Sat Jul 3 17:38:38 UTC 2021 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Sat Jul 3 17:43:49 UTC 2021 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Sat Jul 3 17:43:49 UTC 2021 I: lambda-align2_2.0.0-6_amd64.changes: Format: 1.8 Date: Sat, 08 Jun 2019 14:49:26 +0200 Source: lambda-align2 Binary: lambda-align2 Architecture: amd64 Version: 2.0.0-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Sascha Steinbiss Description: lambda-align2 - Local Aligner for Massive Biological DatA - v2 Closes: 920591 Changes: lambda-align2 (2.0.0-6) unstable; urgency=medium . * Adjust reproducibility patch. Closes: #920591 Checksums-Sha1: 9c18cb5645e76b6f0a9b8060cfa82fa7d59d4ebc 5623 lambda-align2_2.0.0-6_amd64.buildinfo b1ec4f80d9517351643b954bc0024003dc6f1a5f 1564632 lambda-align2_2.0.0-6_amd64.deb Checksums-Sha256: 100c18eaa84041fdee898a7f19c6664777e2492fd6eafe318eaa8836149acb45 5623 lambda-align2_2.0.0-6_amd64.buildinfo d30b1df9980ed223983641082016ed40e4723a2463a9a5c83550b269f7236840 1564632 lambda-align2_2.0.0-6_amd64.deb Files: 88d378589427549d8c190621e65fed8b 5623 science optional lambda-align2_2.0.0-6_amd64.buildinfo e98bfd7dad349d60ca60688696e9b1bf 1564632 science optional lambda-align2_2.0.0-6_amd64.deb Sat Jul 3 17:43:50 UTC 2021 I: diffoscope 177 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.id0bvE5WIA/lambda-align2_2.0.0-6.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.id0bvE5WIA/lambda-align2_2.0.0-6.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.id0bvE5WIA/lambda-align2_2.0.0-6.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.id0bvE5WIA/b1/lambda-align2_2.0.0-6_amd64.changes /srv/reproducible-results/rbuild-debian/tmp.id0bvE5WIA/b2/lambda-align2_2.0.0-6_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: 0.245s) 0.245s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.035s) 0.035s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Sat Jul 3 17:43:52 UTC 2021 I: diffoscope 177 found no differences in the changes files, and a .buildinfo file also exists. Sat Jul 3 17:43:52 UTC 2021 I: lambda-align2 from buster built successfully and reproducibly on amd64. Sat Jul 3 17:43:54 UTC 2021 I: Submitting .buildinfo files to external archives: Sat Jul 3 17:43:54 UTC 2021 I: Submitting 8.0K b1/lambda-align2_2.0.0-6_amd64.buildinfo.asc Sat Jul 3 17:43:54 UTC 2021 I: Submitting 8.0K b2/lambda-align2_2.0.0-6_amd64.buildinfo.asc Sat Jul 3 17:43:55 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Jul 3 17:43:55 UTC 2021 I: Done submitting .buildinfo files. Sat Jul 3 17:43:55 UTC 2021 I: Removing signed lambda-align2_2.0.0-6_amd64.buildinfo.asc files: removed './b1/lambda-align2_2.0.0-6_amd64.buildinfo.asc' removed './b2/lambda-align2_2.0.0-6_amd64.buildinfo.asc'