Fri Jun 18 11:47:42 UTC 2021 I: starting to build libgff/bullseye/i386 on jenkins on '2021-06-18 11:47' Fri Jun 18 11:47:42 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_9/10425/console.log Fri Jun 18 11:47:42 UTC 2021 I: Downloading source for bullseye/libgff=2.0.0-1 --2021-06-18 11:47:43-- http://cdn-fastly.deb.debian.org/debian/pool/main/libg/libgff/libgff_2.0.0-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1992 (1.9K) Saving to: ‘libgff_2.0.0-1.dsc’ 0K . 100% 116M=0s 2021-06-18 11:47:43 (116 MB/s) - ‘libgff_2.0.0-1.dsc’ saved [1992/1992] Fri Jun 18 11:47:43 UTC 2021 I: libgff_2.0.0-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libgff Binary: libgff-dev Architecture: any Version: 2.0.0-1 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe Homepage: https://github.com/COMBINE-lab/libgff Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/libgff Vcs-Git: https://salsa.debian.org/med-team/libgff.git Testsuite: autopkgtest Testsuite-Triggers: build-essential, python-pysam-tests Build-Depends: debhelper-compat (= 13), cmake Package-List: libgff-dev deb libdevel optional arch=any Checksums-Sha1: 6127e9f35dee7fc254a1ed280ff5337d42d814ba 102152 libgff_2.0.0.orig.tar.gz 4bd0a061f0e84e889f5ef887928065b24f071a69 4208 libgff_2.0.0-1.debian.tar.xz Checksums-Sha256: 7656b19459a7ca7d2fd0fcec4f2e0fd0deec1b4f39c703a114e8f4c22d82a99c 102152 libgff_2.0.0.orig.tar.gz 4634b628861e3e7541a875e6e5bb5b1e5d1f4326a2cfb0cb87c8a08af3f979c6 4208 libgff_2.0.0-1.debian.tar.xz Files: 2154f6c0a4ea49cea86205d9a737be84 102152 libgff_2.0.0.orig.tar.gz 85ff5fa2069459e20cfacd0e10b68f7b 4208 libgff_2.0.0-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAl8QQAcACgkQPCZ2P2xn 5uK9CA//bJRGYOadh/Rniz3FuhgmbYFYJE+xwM4/zMSG0AJR0WuCtoqf63+0mim4 U3eCLovnDuMmvCU6tX6ZWSgVa5Dvo0r7vc8VbgPRhjwRzPMdJ7msOpULr151nCXJ qGDdXXXLYpD2q/wxFfsWwzcpLDKWT1qmKZm+oxwQG4ait4OFYGY56aCN6TPKHW/X bqAvJg6vyUBtIvbJkBmvj/eNtgtXGgqMpeLsLpSYtjXXPQ4PymrbFEqF3XTzJwl3 0e/b/MQFm4wbF7+tTkHsrrb/T3XUXNCXFrY6y31iPuqkdvBaxxpjyOOLJ9hKTYRZ m3zlQIjW/gM8R5iXB9kYbETpjRtaGlooOEONTtoSFLZ08mmPDr71wIFyn7Fx1Yw6 EVe2YH6ocBQbQelGHoL6yKGzTBml18eaD39amMT0Mq80L0TjGEuHJiyF45Bf3pki /QgLpZ0YwcHwSXkfA/hhHEto965qQ0PZP96wZZg4PmOaish3rpY3+Za5ceeOhIZv MKdrJjEJeqNjhVJzaMBiRUmMS1fwGktP7G0ItaE/OXydttgL5zFrNEm2aQzm5RTf Nui9K3l3kQ2mCUEp/+huIb9Gbaf6JYOZbQghbCpRQkiTB7JF4DCOvdm0QNDQvXS5 plSB/JsqTKJzwKYlnhfD7arZJsdzy5KnzFf9FjlytIWnc67IytQ= =QdtH -----END PGP SIGNATURE----- Fri Jun 18 11:47:43 UTC 2021 I: Checking whether the package is not for us Fri Jun 18 11:47:43 UTC 2021 I: Starting 1st build on remote node ionos2-i386.debian.net. Fri Jun 18 11:47:43 UTC 2021 I: Preparing to do remote build '1' on ionos2-i386.debian.net. Fri Jun 18 11:51:41 UTC 2021 I: Deleting $TMPDIR on ionos2-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Jun 17 23:47:46 -12 2021 I: pbuilder-time-stamp: 1624016866 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: using eatmydata during job I: Copying source file I: copying [libgff_2.0.0-1.dsc] I: copying [./libgff_2.0.0.orig.tar.gz] I: copying [./libgff_2.0.0-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.nB3nYeMc/trustedkeys.kbx': General error gpgv: Signature made Wed Jul 15 23:54:47 2020 -12 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./libgff_2.0.0-1.dsc dpkg-source: info: extracting libgff in libgff-2.0.0 dpkg-source: info: unpacking libgff_2.0.0.orig.tar.gz dpkg-source: info: unpacking libgff_2.0.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/31747/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='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=10' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='f473664ce89241549c80a8e5e77e9928' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='31747' 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.gE7gF4TPC2/pbuilderrc_sqLB --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.gE7gF4TPC2/b1 --logfile b1/build.log libgff_2.0.0-1.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos2-i386 4.19.0-16-686-pae #1 SMP Debian 4.19.181-1 (2021-03-19) i686 GNU/Linux I: ls -l /bin total 5780 -rwxr-xr-x 1 root root 1367848 Feb 24 08:57 bash -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38280 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 38280 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 17768 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 38824 Sep 22 2020 cat -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp -rwxr-xr-x 1 root root 128724 Dec 10 2020 dash -rwxr-xr-x 1 root root 124904 Sep 22 2020 date -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd -rwxr-xr-x 1 root root 100752 Sep 22 2020 df -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir -rwxr-xr-x 1 root root 83644 Feb 7 02:38 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 34664 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 34664 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 71928 Feb 7 02:38 findmnt -rwsr-xr-x 1 root root 30112 Feb 26 04:12 fusermount -rwxr-xr-x 1 root root 210488 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe -rwxr-xr-x 1 root root 100952 Mar 2 11:30 gzip -rwxr-xr-x 1 root root 21916 Nov 6 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln -rwxr-xr-x 1 root root 55572 Feb 7 2020 login -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls -rwxr-xr-x 1 root root 153124 Feb 7 02:38 lsblk -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 58920 Feb 7 02:38 more -rwsr-xr-x 1 root root 50720 Feb 7 02:38 mount -rwxr-xr-x 1 root root 13856 Feb 7 02:38 mountpoint -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Feb 24 08:57 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jun 17 21:25 sh -> dash -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty -rwsr-xr-x 1 root root 79396 Feb 7 02:38 su -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync -rwxr-xr-x 1 root root 602584 Feb 16 21:55 tar -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch -rwxr-xr-x 1 root root 34664 Sep 22 2020 true -rwxr-xr-x 1 root root 17768 Feb 26 04:12 ulockmgr_server -rwsr-xr-x 1 root root 30236 Feb 7 02:38 umount -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir -rwxr-xr-x 1 root root 63024 Feb 7 02:38 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew I: user script /srv/workspace/pbuilder/31747/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19675 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake 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} 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} libbrotli1{a} libcurl4{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libicu67{a} libjsoncpp24{a} libldap-2.4-2{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps8{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 50 newly installed, 0 to remove and 0 not upgraded. Need to get 30.3 MB of archives. After unpacking 110 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-7 [148 kB] Get: 2 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB] Get: 4 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB] Get: 5 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB] Get: 6 http://deb.debian.org/debian bullseye/main i386 libncurses6 i386 6.2+20201114-2 [110 kB] Get: 7 http://deb.debian.org/debian bullseye/main i386 libprocps8 i386 2:3.3.17-5 [64.2 kB] Get: 8 http://deb.debian.org/debian bullseye/main i386 procps i386 2:3.3.17-5 [501 kB] Get: 9 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3 [133 kB] Get: 12 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3 [69.0 kB] Get: 13 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB] Get: 14 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB] Get: 16 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB] Get: 17 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 18 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB] Get: 19 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB] Get: 20 http://deb.debian.org/debian bullseye/main i386 cmake-data all 3.18.4-2 [1725 kB] Get: 21 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-6 [8776 kB] Get: 22 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7 [728 kB] Get: 23 http://deb.debian.org/debian bullseye/main i386 libarchive13 i386 3.4.3-2+b1 [384 kB] Get: 24 http://deb.debian.org/debian bullseye/main i386 libbrotli1 i386 1.0.9-2+b2 [286 kB] Get: 25 http://deb.debian.org/debian bullseye/main i386 libsasl2-modules-db i386 2.1.27+dfsg-2.1 [70.0 kB] Get: 26 http://deb.debian.org/debian bullseye/main i386 libsasl2-2 i386 2.1.27+dfsg-2.1 [110 kB] Get: 27 http://deb.debian.org/debian bullseye/main i386 libldap-2.4-2 i386 2.4.57+dfsg-3 [244 kB] Get: 28 http://deb.debian.org/debian bullseye/main i386 libnghttp2-14 i386 1.43.0-1 [85.7 kB] Get: 29 http://deb.debian.org/debian bullseye/main i386 libpsl5 i386 0.21.0-1.2 [57.9 kB] Get: 30 http://deb.debian.org/debian bullseye/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b2 [64.3 kB] Get: 31 http://deb.debian.org/debian bullseye/main i386 libssh2-1 i386 1.9.0-2 [164 kB] Get: 32 http://deb.debian.org/debian bullseye/main i386 libcurl4 i386 7.74.0-1.2 [372 kB] Get: 33 http://deb.debian.org/debian bullseye/main i386 libexpat1 i386 2.2.10-2 [98.8 kB] Get: 34 http://deb.debian.org/debian bullseye/main i386 libjsoncpp24 i386 1.9.4-4 [86.1 kB] Get: 35 http://deb.debian.org/debian bullseye/main i386 librhash0 i386 1.4.1-2 [144 kB] Get: 36 http://deb.debian.org/debian bullseye/main i386 libuv1 i386 1.40.0-1 [139 kB] Get: 37 http://deb.debian.org/debian bullseye/main i386 cmake i386 3.18.4-2 [7029 kB] Get: 38 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB] Get: 39 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB] Get: 40 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB] Get: 43 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB] Get: 44 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.11.0-1 [15.3 kB] Get: 45 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB] Get: 46 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB] Get: 47 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB] Get: 48 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 49 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 50 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB] Fetched 30.3 MB in 3s (12.0 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 ... 19675 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-7_i386.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../01-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_i386.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../03-libpipeline1_1.5.3-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_i386.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../05-libncurses6_6.2+20201114-2_i386.deb ... Unpacking libncurses6:i386 (6.2+20201114-2) ... Selecting previously unselected package libprocps8:i386. Preparing to unpack .../06-libprocps8_2%3a3.3.17-5_i386.deb ... Unpacking libprocps8:i386 (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../07-procps_2%3a3.3.17-5_i386.deb ... Unpacking procps (2:3.3.17-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../08-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... 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Setting up libxml2:i386 (2.9.10+dfsg-6.7) ... Setting up libprocps8:i386 (2:3.3.17-5) ... Setting up libfile-stripnondeterminism-perl (1.11.0-1) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:i386 (3.4.3-2+b1) ... Setting up libldap-2.4-2:i386 (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.11.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:i386 (7.74.0-1.2) ... 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 po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up cmake (3.18.4-2) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/libgff-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 libgff dpkg-buildpackage: info: source version 2.0.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-i686-linux-gnu && 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 -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu .. -- The C compiler identification is GNU 10.2.1 -- The CXX compiler identification is GNU 10.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Install prefix : /usr version: 2.0.0 -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/libgff-2.0.0/obj-i686-linux-gnu dh_auto_build cd obj-i686-linux-gnu && make -j10 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/libgff-2.0.0/obj-i686-linux-gnu' /usr/bin/cmake -S/build/libgff-2.0.0 -B/build/libgff-2.0.0/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles /build/libgff-2.0.0/obj-i686-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/libgff-2.0.0/obj-i686-linux-gnu' make -f CMakeFiles/gff.dir/build.make CMakeFiles/gff.dir/depend make[3]: Entering directory '/build/libgff-2.0.0/obj-i686-linux-gnu' cd /build/libgff-2.0.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libgff-2.0.0 /build/libgff-2.0.0 /build/libgff-2.0.0/obj-i686-linux-gnu /build/libgff-2.0.0/obj-i686-linux-gnu /build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/gff.dir/DependInfo.cmake --color= Dependee "/build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/gff.dir/DependInfo.cmake" is newer than depender "/build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/gff.dir/depend.internal". Dependee "/build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/gff.dir/depend.internal". Scanning dependencies of target gff make[3]: Leaving directory '/build/libgff-2.0.0/obj-i686-linux-gnu' make -f CMakeFiles/gff.dir/build.make CMakeFiles/gff.dir/build make[3]: Entering directory '/build/libgff-2.0.0/obj-i686-linux-gnu' [ 9%] Building CXX object CMakeFiles/gff.dir/src/GFastaIndex.cpp.o [ 27%] Building CXX object CMakeFiles/gff.dir/src/gff.cpp.o /usr/bin/c++ -I/build/libgff-2.0.0/include -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -std=c++14 -o CMakeFiles/gff.dir/src/GFastaIndex.cpp.o -c /build/libgff-2.0.0/src/GFastaIndex.cpp [ 54%] Building CXX object CMakeFiles/gff.dir/src/GArgs.cpp.o [ 54%] Building CXX object CMakeFiles/gff.dir/src/GBase.cpp.o [ 54%] Building CXX object CMakeFiles/gff.dir/src/codons.cpp.o [ 63%] Building CXX object CMakeFiles/gff.dir/src/gdna.cpp.o /usr/bin/c++ -I/build/libgff-2.0.0/include -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -std=c++14 -o CMakeFiles/gff.dir/src/gff.cpp.o -c /build/libgff-2.0.0/src/gff.cpp /usr/bin/c++ -I/build/libgff-2.0.0/include -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -std=c++14 -o CMakeFiles/gff.dir/src/gdna.cpp.o -c /build/libgff-2.0.0/src/gdna.cpp /usr/bin/c++ -I/build/libgff-2.0.0/include -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -std=c++14 -o CMakeFiles/gff.dir/src/codons.cpp.o -c /build/libgff-2.0.0/src/codons.cpp /usr/bin/c++ -I/build/libgff-2.0.0/include -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -std=c++14 -o CMakeFiles/gff.dir/src/GArgs.cpp.o -c /build/libgff-2.0.0/src/GArgs.cpp /usr/bin/c++ -I/build/libgff-2.0.0/include -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -std=c++14 -o CMakeFiles/gff.dir/src/GBase.cpp.o -c /build/libgff-2.0.0/src/GBase.cpp [ 72%] Building CXX object CMakeFiles/gff.dir/src/GStr.cpp.o /usr/bin/c++ -I/build/libgff-2.0.0/include -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -std=c++14 -o CMakeFiles/gff.dir/src/GStr.cpp.o -c /build/libgff-2.0.0/src/GStr.cpp [ 72%] Building CXX object CMakeFiles/gff.dir/src/GFaSeqGet.cpp.o /usr/bin/c++ -I/build/libgff-2.0.0/include -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -std=c++14 -o CMakeFiles/gff.dir/src/GFaSeqGet.cpp.o -c /build/libgff-2.0.0/src/GFaSeqGet.cpp In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::setCapacity(int) [with OBJ = GMapSeg]': /build/libgff-2.0.0/include/GVec.hh:202:3: required from 'GVec::GVec(int) [with OBJ = GMapSeg]' /build/libgff-2.0.0/include/gff.h:126:50: required from here /build/libgff-2.0.0/include/GVec.hh:291:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GMapSeg'; use assignment or value-initialization instead [-Wclass-memaccess] 291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/gff.h:69:7: note: 'class GMapSeg' declared here 69 | class GMapSeg:public GSeg { | ^~~~~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::setCapacity(int) [with OBJ = GSeg]': /build/libgff-2.0.0/include/GVec.hh:202:3: required from 'GVec::GVec(int) [with OBJ = GSeg]' /build/libgff-2.0.0/include/gff.h:310:92: required from here /build/libgff-2.0.0/include/GVec.hh:291:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GSeg'; use assignment or value-initialization instead [-Wclass-memaccess] 291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/include/gff.h:6, from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/GBase.h:308:7: note: 'class GSeg' declared here 308 | class GSeg { | ^~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::setCapacity(int) [with OBJ = GeneCDS]': /build/libgff-2.0.0/include/GVec.hh:202:3: required from 'GVec::GVec(int) [with OBJ = GeneCDS]' /build/libgff-2.0.0/include/gff.h:1349:31: required from here /build/libgff-2.0.0/include/GVec.hh:291:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GeneCDS'; use assignment or value-initialization instead [-Wclass-memaccess] 291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/gff.h:1338:7: note: 'class GeneCDS' declared here 1338 | class GeneCDS: public GSeg { | ^~~~~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::setCapacity(int) [with OBJ = GffExon]': /build/libgff-2.0.0/include/GVec.hh:202:3: required from 'GVec::GVec(int) [with OBJ = GffExon]' /build/libgff-2.0.0/src/gff.cpp:2315:16: required from here /build/libgff-2.0.0/include/GVec.hh:291:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GffExon'; use assignment or value-initialization instead [-Wclass-memaccess] 291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/gff.h:627:7: note: 'class GffExon' declared here 627 | class GffExon : public GSeg { | ^~~~~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::setCapacity(int) [with OBJ = GSegMatch]': /build/libgff-2.0.0/include/GVec.hh:202:3: required from 'GVec::GVec(int) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/GList.hh:191:76: required from 'GArray::GArray(int (*)(pointer, pointer)) [with OBJ = GSegMatch; GCompareProc = int(void*, void*); pointer = void*]' /build/libgff-2.0.0/include/gff.h:1349:31: required from here /build/libgff-2.0.0/include/GVec.hh:291:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GSegMatch'; use assignment or value-initialization instead [-Wclass-memaccess] 291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/gff.h:1326:7: note: 'class GSegMatch' declared here 1326 | class GSegMatch { //keep track of "matching" overlaps of a GeneCDSChain with multiple GeneSegment containers | ^~~~~~~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::Grow(int, OBJ&) [with OBJ = GSegMatch]': /build/libgff-2.0.0/include/GVec.hh:437:9: required from 'void GVec::Insert(int, OBJ*) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/GVec.hh:69:44: required from 'void GVec::Insert(int, OBJ) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/GList.hh:234:21: required from 'int GArray::Add(OBJ*) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/GList.hh:51:36: required from 'int GArray::Add(OBJ&) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/gff.h:1362:22: required from here /build/libgff-2.0.0/include/GVec.hh:358:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GSegMatch'; use assignment or value-initialization instead [-Wclass-memaccess] 358 | memset(&newList[fCount+1], 0, (NewCapacity-fCount-1)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/src/gff.cpp:1: /build/libgff-2.0.0/include/gff.h:1326:7: note: 'class GSegMatch' declared here 1326 | class GSegMatch { //keep track of "matching" overlaps of a GeneCDSChain with multiple GeneSegment containers | ^~~~~~~~~ In member function 'void GStr::prep_data(uint, uint)', inlined from 'GStr::GStr(char, int)' at /build/libgff-2.0.0/src/GStr.cpp:193:12: /build/libgff-2.0.0/src/GStr.cpp:57:25: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 57 | my_data->chars[len]=0; | ~~~~~~~~~~~~~~~~~~~^~ In file included from /build/libgff-2.0.0/src/GStr.cpp:2: /build/libgff-2.0.0/include/GStr.h: In constructor 'GStr::GStr(char, int)': /build/libgff-2.0.0/include/GStr.h:184:21: note: at offset 0 to object 'GStr::Data::chars' with size 1 declared here 184 | char chars[1]; | ^~~~~ In member function 'void GStr::prep_data(uint, uint)', inlined from 'GStr GStr::operator+(int) const' at /build/libgff-2.0.0/src/GStr.cpp:666:24: /build/libgff-2.0.0/src/GStr.cpp:57:25: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 57 | my_data->chars[len]=0; | ~~~~~~~~~~~~~~~~~~~^~ In file included from /build/libgff-2.0.0/src/GStr.cpp:2: /build/libgff-2.0.0/include/GStr.h: In member function 'GStr GStr::operator+(int) const': /build/libgff-2.0.0/include/GStr.h:184:21: note: at offset 0 to object 'GStr::Data::chars' with size 1 declared here 184 | char chars[1]; | ^~~~~ In member function 'void GStr::prep_data(uint, uint)', inlined from 'GStr GStr::operator+(char) const' at /build/libgff-2.0.0/src/GStr.cpp:677:24: /build/libgff-2.0.0/src/GStr.cpp:57:25: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 57 | my_data->chars[len]=0; | ~~~~~~~~~~~~~~~~~~~^~ In file included from /build/libgff-2.0.0/src/GStr.cpp:2: /build/libgff-2.0.0/include/GStr.h: In member function 'GStr GStr::operator+(char) const': /build/libgff-2.0.0/include/GStr.h:184:21: note: at offset 0 to object 'GStr::Data::chars' with size 1 declared here 184 | char chars[1]; | ^~~~~ In member function 'void GStr::prep_data(uint, uint)', inlined from 'GStr GStr::operator+(double) const' at /build/libgff-2.0.0/src/GStr.cpp:688:24: /build/libgff-2.0.0/src/GStr.cpp:57:25: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 57 | my_data->chars[len]=0; | ~~~~~~~~~~~~~~~~~~~^~ In file included from /build/libgff-2.0.0/src/GStr.cpp:2: /build/libgff-2.0.0/include/GStr.h: In member function 'GStr GStr::operator+(double) const': /build/libgff-2.0.0/include/GStr.h:184:21: note: at offset 0 to object 'GStr::Data::chars' with size 1 declared here 184 | char chars[1]; | ^~~~~ [ 81%] Linking CXX static library libgff.a /usr/bin/cmake -P CMakeFiles/gff.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/gff.dir/link.txt --verbose=1 /usr/bin/ar qc libgff.a CMakeFiles/gff.dir/src/codons.cpp.o CMakeFiles/gff.dir/src/GArgs.cpp.o CMakeFiles/gff.dir/src/GBase.cpp.o CMakeFiles/gff.dir/src/gdna.cpp.o CMakeFiles/gff.dir/src/GFaSeqGet.cpp.o CMakeFiles/gff.dir/src/GFastaIndex.cpp.o CMakeFiles/gff.dir/src/gff.cpp.o CMakeFiles/gff.dir/src/GStr.cpp.o /usr/bin/ranlib libgff.a make[3]: Leaving directory '/build/libgff-2.0.0/obj-i686-linux-gnu' [ 81%] Built target gff make -f CMakeFiles/TestGFFParse.dir/build.make CMakeFiles/TestGFFParse.dir/depend make[3]: Entering directory '/build/libgff-2.0.0/obj-i686-linux-gnu' cd /build/libgff-2.0.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libgff-2.0.0 /build/libgff-2.0.0 /build/libgff-2.0.0/obj-i686-linux-gnu /build/libgff-2.0.0/obj-i686-linux-gnu /build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/TestGFFParse.dir/DependInfo.cmake --color= Dependee "/build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/TestGFFParse.dir/DependInfo.cmake" is newer than depender "/build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/TestGFFParse.dir/depend.internal". Dependee "/build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles/TestGFFParse.dir/depend.internal". Scanning dependencies of target TestGFFParse make[3]: Leaving directory '/build/libgff-2.0.0/obj-i686-linux-gnu' make -f CMakeFiles/TestGFFParse.dir/build.make CMakeFiles/TestGFFParse.dir/build make[3]: Entering directory '/build/libgff-2.0.0/obj-i686-linux-gnu' [ 90%] Building CXX object CMakeFiles/TestGFFParse.dir/src/TestGFFParse.cpp.o /usr/bin/c++ -I/build/libgff-2.0.0/include -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -std=c++14 -o CMakeFiles/TestGFFParse.dir/src/TestGFFParse.cpp.o -c /build/libgff-2.0.0/src/TestGFFParse.cpp /build/libgff-2.0.0/src/TestGFFParse.cpp: In function 'int main(int, char**)': /build/libgff-2.0.0/src/TestGFFParse.cpp:25:35: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 25 | for (size_t j=0; j < f->attrs->Count(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::setCapacity(int) [with OBJ = GMapSeg]': /build/libgff-2.0.0/include/GVec.hh:202:3: required from 'GVec::GVec(int) [with OBJ = GMapSeg]' /build/libgff-2.0.0/include/gff.h:126:50: required from here /build/libgff-2.0.0/include/GVec.hh:291:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GMapSeg'; use assignment or value-initialization instead [-Wclass-memaccess] 291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/gff.h:69:7: note: 'class GMapSeg' declared here 69 | class GMapSeg:public GSeg { | ^~~~~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::setCapacity(int) [with OBJ = GSeg]': /build/libgff-2.0.0/include/GVec.hh:202:3: required from 'GVec::GVec(int) [with OBJ = GSeg]' /build/libgff-2.0.0/include/gff.h:310:92: required from here /build/libgff-2.0.0/include/GVec.hh:291:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GSeg'; use assignment or value-initialization instead [-Wclass-memaccess] 291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/include/gff.h:6, from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/GBase.h:308:7: note: 'class GSeg' declared here 308 | class GSeg { | ^~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::setCapacity(int) [with OBJ = GeneCDS]': /build/libgff-2.0.0/include/GVec.hh:202:3: required from 'GVec::GVec(int) [with OBJ = GeneCDS]' /build/libgff-2.0.0/include/gff.h:1349:31: required from here /build/libgff-2.0.0/include/GVec.hh:291:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GeneCDS'; use assignment or value-initialization instead [-Wclass-memaccess] 291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/gff.h:1338:7: note: 'class GeneCDS' declared here 1338 | class GeneCDS: public GSeg { | ^~~~~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::setCapacity(int) [with OBJ = GSegMatch]': /build/libgff-2.0.0/include/GVec.hh:202:3: required from 'GVec::GVec(int) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/GList.hh:191:76: required from 'GArray::GArray(int (*)(pointer, pointer)) [with OBJ = GSegMatch; GCompareProc = int(void*, void*); pointer = void*]' /build/libgff-2.0.0/include/gff.h:1349:31: required from here /build/libgff-2.0.0/include/GVec.hh:291:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GSegMatch'; use assignment or value-initialization instead [-Wclass-memaccess] 291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/gff.h:1326:7: note: 'class GSegMatch' declared here 1326 | class GSegMatch { //keep track of "matching" overlaps of a GeneCDSChain with multiple GeneSegment containers | ^~~~~~~~~ In file included from /build/libgff-2.0.0/include/GList.hh:8, from /build/libgff-2.0.0/include/GFastaIndex.h:12, from /build/libgff-2.0.0/include/GFaSeqGet.h:3, from /build/libgff-2.0.0/include/gff.h:9, from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/GVec.hh: In instantiation of 'void GVec::Grow(int, OBJ&) [with OBJ = GSegMatch]': /build/libgff-2.0.0/include/GVec.hh:437:9: required from 'void GVec::Insert(int, OBJ*) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/GVec.hh:69:44: required from 'void GVec::Insert(int, OBJ) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/GList.hh:234:21: required from 'int GArray::Add(OBJ*) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/GList.hh:51:36: required from 'int GArray::Add(OBJ&) [with OBJ = GSegMatch]' /build/libgff-2.0.0/include/gff.h:1362:22: required from here /build/libgff-2.0.0/include/GVec.hh:358:15: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class GSegMatch'; use assignment or value-initialization instead [-Wclass-memaccess] 358 | memset(&newList[fCount+1], 0, (NewCapacity-fCount-1)*sizeof(OBJ)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/libgff-2.0.0/src/TestGFFParse.cpp:5: /build/libgff-2.0.0/include/gff.h:1326:7: note: 'class GSegMatch' declared here 1326 | class GSegMatch { //keep track of "matching" overlaps of a GeneCDSChain with multiple GeneSegment containers | ^~~~~~~~~ [100%] Linking CXX executable TestGFFParse /usr/bin/cmake -E cmake_link_script CMakeFiles/TestGFFParse.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libgff-2.0.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -D_FILE_OFFSET_BITS=64 -Wl,-z,relro CMakeFiles/TestGFFParse.dir/src/TestGFFParse.cpp.o -o TestGFFParse libgff.a make[3]: Leaving directory '/build/libgff-2.0.0/obj-i686-linux-gnu' [100%] Built target TestGFFParse make[2]: Leaving directory '/build/libgff-2.0.0/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/libgff-2.0.0/obj-i686-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/libgff-2.0.0/obj-i686-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-i686-linux-gnu && make -j10 install DESTDIR=/build/libgff-2.0.0/debian/libgff-dev AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/libgff-2.0.0/obj-i686-linux-gnu' /usr/bin/cmake -S/build/libgff-2.0.0 -B/build/libgff-2.0.0/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/libgff-2.0.0/obj-i686-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/libgff-2.0.0/obj-i686-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/lib/libgff/cmake/libgffConfig.cmake -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/lib/libgff/cmake/libgffConfigVersion.cmake -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/lib/libgff.a -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/GList.hh -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/GBase.h -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/GArgs.h -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/gff.h -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/codons.h -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/gdna.h -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/GStr.h -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/GFastaIndex.h -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/GHash.hh -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/GVec.hh -- Installing: /build/libgff-2.0.0/debian/libgff-dev/usr/include/GFaSeqGet.h make[1]: Leaving directory '/build/libgff-2.0.0/obj-i686-linux-gnu' dh_installdocs dh_installchangelogs dh_installexamples dh_perl dh_link dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms make[1]: Entering directory '/build/libgff-2.0.0' dh_fixperms find debian -name '*.gtf' | xargs chmod -x make[1]: Leaving directory '/build/libgff-2.0.0' dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package libgff-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'libgff-dev' in '../libgff-dev_2.0.0-1_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../libgff_2.0.0-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) 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/31747 and its subdirectories I: Current time: Thu Jun 17 23:51:40 -12 2021 I: pbuilder-time-stamp: 1624017100 Fri Jun 18 11:51:42 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos6-i386.debian.net. Fri Jun 18 11:51:42 UTC 2021 I: Preparing to do remote build '2' on ionos6-i386.debian.net. Fri Jun 18 11:53:03 UTC 2021 I: Deleting $TMPDIR on ionos6-i386.debian.net. Fri Jun 18 11:53:03 UTC 2021 I: libgff_2.0.0-1_i386.changes: Format: 1.8 Date: Thu, 16 Jul 2020 13:09:49 +0200 Source: libgff Binary: libgff-dev Architecture: i386 Version: 2.0.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: libgff-dev - GFF/GTF parsing from cufflinks as a library Changes: libgff (2.0.0-1) unstable; urgency=medium . * New upstream version Checksums-Sha1: ee0a98acd2d532cd9a2383173ff0a9d95657412e 158872 libgff-dev_2.0.0-1_i386.deb 50f82bf83d887f9f21210910c69481ecd65af76f 5319 libgff_2.0.0-1_i386.buildinfo Checksums-Sha256: a994afc6add4763e737542f72b74966d7fe657fc39c02da9da2591ca831cb238 158872 libgff-dev_2.0.0-1_i386.deb 8ef54884731423e115a9dde7e519010eff948c71c8bc733d663b34a5e12bea43 5319 libgff_2.0.0-1_i386.buildinfo Files: d336c582d8ab57d4de5e9b34c46029db 158872 libdevel optional libgff-dev_2.0.0-1_i386.deb ba77ad4c6423316fa60a7048ad75d9c8 5319 libdevel optional libgff_2.0.0-1_i386.buildinfo Fri Jun 18 11:53:05 UTC 2021 I: diffoscope 172 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.gE7gF4TPC2/libgff_2.0.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.gE7gF4TPC2/libgff_2.0.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.gE7gF4TPC2/libgff_2.0.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.gE7gF4TPC2/b1/libgff_2.0.0-1_i386.changes /srv/reproducible-results/rbuild-debian/tmp.gE7gF4TPC2/b2/libgff_2.0.0-1_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.267s) 0.267s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.020s) 0.020s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Fri Jun 18 11:53:07 UTC 2021 I: diffoscope 172 found no differences in the changes files, and a .buildinfo file also exists. Fri Jun 18 11:53:07 UTC 2021 I: libgff from bullseye built successfully and reproducibly on i386. Fri Jun 18 11:53:08 UTC 2021 I: Submitting .buildinfo files to external archives: Fri Jun 18 11:53:08 UTC 2021 I: Submitting 8.0K b1/libgff_2.0.0-1_i386.buildinfo.asc Fri Jun 18 11:53:09 UTC 2021 I: Submitting 8.0K b2/libgff_2.0.0-1_i386.buildinfo.asc Fri Jun 18 11:53:10 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri Jun 18 11:53:10 UTC 2021 I: Done submitting .buildinfo files. Fri Jun 18 11:53:10 UTC 2021 I: Removing signed libgff_2.0.0-1_i386.buildinfo.asc files: removed './b1/libgff_2.0.0-1_i386.buildinfo.asc' removed './b2/libgff_2.0.0-1_i386.buildinfo.asc'