Sat May 6 06:20:46 UTC 2023 I: starting to build perm/bookworm/amd64 on jenkins on '2023-05-06 06:20' Sat May 6 06:20:46 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_5/1563/console.log Sat May 6 06:20:46 UTC 2023 I: Downloading source for bookworm/perm=0.4.0-8 --2023-05-06 06:20:46-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/perm/perm_0.4.0-8.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1885 (1.8K) [text/prs.lines.tag] Saving to: ‘perm_0.4.0-8.dsc’ 0K . 100% 170M=0s 2023-05-06 06:20:46 (170 MB/s) - ‘perm_0.4.0-8.dsc’ saved [1885/1885] Sat May 6 06:20:46 UTC 2023 I: perm_0.4.0-8.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: perm Binary: perm Architecture: any Version: 0.4.0-8 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/perm Vcs-Git: https://salsa.debian.org/med-team/perm.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), libbsd-dev Package-List: perm deb science optional arch=any Checksums-Sha1: b89025fe3ac6d6ab48c7a8a898a592119eb62037 114025 perm_0.4.0.orig.tar.gz fd06162fba40aeb53945bd5b6f43b72c8eaf2799 11528 perm_0.4.0-8.debian.tar.xz Checksums-Sha256: 31384ffe5abc1eabd68d6d5a331da761891a99da9e8502b1db8f0178e5df6b18 114025 perm_0.4.0.orig.tar.gz c7b5bb0abf38ac11d245f079b5a3763f722c97543fb78c0086f5457d72562f23 11528 perm_0.4.0-8.debian.tar.xz Files: 302f5828a0f15b7ae4c85390e8fe747d 114025 perm_0.4.0.orig.tar.gz 629e3729d7e11a5d187643f2d0f9b4a8 11528 perm_0.4.0-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmGOGAARHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHYmQ/+LQ1YPks29fRVE+q0LCd4Q3sqr5Seh42y 1pyoiSEL3u1Ai3W4ue0aScr5GPfe8o/BDQ9T5VxzD7IeEdKk2JX3tKTLu8RX1Q7o U8cwtqO6+TCccfnE/AWTl0rUL4Zym0ze43wK+pTdu7b8Y9SilEsTkRVNR37ony7X AsALz7DaDo6+m22wh25C1t1MZoEPq3uWgkI/QOIg+nMDUH57oi9GIJjh2ViF2jz7 9FaDgWY4ylXQJL9VyrGL94Sf51DYRRyYtTCrMNBkpGs0pT7UAvd0T9Yh/q1bEM0t QxVGXXl6o95UF+FLaTTYEFFznBRj2JUnCG7YXDqkl61aIFDlSxj5hSsT02Naz3UH wswwl5cGq6HeE2PVQTXeIYRBqT3kJNesfqbRTIoGE2mhknv63K7vPfBhV9lJA9RD E0TD5ko/QzwhY1h7hgyg3Moo6dbJvI8AlozUBJCMLZLKPqXH5kqRmlGcuLTbKBGj q5Pty0ikLf/rfxaltpFBSl2dGwfiOcKo6FU7LTsdxHq2MPj5ehjUO7r+N7DU/RGt FQfa/pKq9y08BFegr1A6zRVQsFTEh8a2LjHAdSMKMV15cYvcrKepsptoik+l+Sq6 svHFOmjMRTgsQzV85TPn9jzq//W6YkKUBucGDyZR5hhG+qmPFRJC/XR1VXPQCVEQ 1k5dF3ZDFFs= =yBNI -----END PGP SIGNATURE----- Sat May 6 06:20:46 UTC 2023 I: Checking whether the package is not for us Sat May 6 06:20:46 UTC 2023 I: Starting 1st build on remote node ionos11-amd64.debian.net. Sat May 6 06:20:46 UTC 2023 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Sat May 6 06:23:35 UTC 2023 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri May 5 18:20:49 -12 2023 I: pbuilder-time-stamp: 1683354049 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [perm_0.4.0-8.dsc] I: copying [./perm_0.4.0.orig.tar.gz] I: copying [./perm_0.4.0-8.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Nov 11 19:30:08 2021 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./perm_0.4.0-8.dsc: no acceptable signature found dpkg-source: info: extracting perm in perm-0.4.0 dpkg-source: info: unpacking perm_0.4.0.orig.tar.gz dpkg-source: info: unpacking perm_0.4.0-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying make_dynamic_executable.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying gcc7.patch dpkg-source: info: applying fix-buffer-overflow.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1003766/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=15' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='0ac3bcee49894c01a5423d81de57293a' 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='1003766' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.nJFK49IN/pbuilderrc_UiD9 --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.nJFK49IN/b1 --logfile b1/build.log perm_0.4.0-8.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos11-amd64 5.10.0-22-amd64 #1 SMP Debian 5.10.178-3 (2023-04-22) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Apr 23 09:23 bash -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 14568 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 44016 Sep 20 2022 cat -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp -rwxr-xr-x 1 root root 125640 Jan 5 01:20 dash -rwxr-xr-x 1 root root 121904 Sep 20 2022 date -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd -rwxr-xr-x 1 root root 102200 Sep 20 2022 df -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir -rwxr-xr-x 1 root root 88656 Mar 22 22:02 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 35664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 85600 Mar 22 22:02 findmnt -rwsr-xr-x 1 root root 35128 Mar 22 20:35 fusermount -rwxr-xr-x 1 root root 203152 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip -rwxr-xr-x 1 root root 22680 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln -rwxr-xr-x 1 root root 53024 Mar 23 00:40 login -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls -rwxr-xr-x 1 root root 207168 Mar 22 22:02 lsblk -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 59712 Mar 22 22:02 more -rwsr-xr-x 1 root root 59704 Mar 22 22:02 mount -rwxr-xr-x 1 root root 18744 Mar 22 22:02 mountpoint -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:23 rbash -> bash -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 27560 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 126424 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty -rwsr-xr-x 1 root root 72000 Mar 22 22:02 su -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync -rwxr-xr-x 1 root root 531984 Apr 6 02:25 tar -rwxr-xr-x 1 root root 14520 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch -rwxr-xr-x 1 root root 35664 Sep 20 2022 true -rwxr-xr-x 1 root root 14568 Mar 22 20:35 ulockmgr_server -rwsr-xr-x 1 root root 35128 Mar 22 22:02 umount -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir -rwxr-xr-x 1 root root 72024 Mar 22 22:02 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/1003766/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), libbsd-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19596 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 libbsd-dev; however: Package libbsd-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbsd-dev{a} libbsd0{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1{a} libmd-dev{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 19.1 MB of archives. After unpacking 73.6 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 2 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get: 3 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get: 4 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB] Get: 5 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB] Get: 6 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 7 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get: 8 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get: 9 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get: 10 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get: 11 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get: 12 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB] Get: 16 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 17 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB] Get: 18 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get: 21 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 22 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 23 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get: 24 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB] Get: 25 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get: 26 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.2 [687 kB] Get: 27 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB] Get: 28 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 31 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get: 32 http://deb.debian.org/debian bookworm/main amd64 libmd-dev amd64 1.0.4-2 [47.0 kB] Get: 33 http://deb.debian.org/debian bookworm/main amd64 libbsd-dev amd64 0.11.7-2 [243 kB] Fetched 19.1 MB in 0s (43.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19596 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.44-3_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../02-libmagic1_1%3a5.44-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.44-3_amd64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-12_amd64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.22.4-10_amd64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.38.1-5+b1_amd64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.7-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.11.2-2_amd64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-3_amd64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../19-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../21-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../22-libelf1_0.188-2.1_amd64.deb ... Unpacking libelf1:amd64 (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1_amd64.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../24-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../25-libxml2_2.9.14+dfsg-1.2_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.2) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.21-12_amd64.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../27-intltool-debian_0.35.0+20060710.6_all.deb ... 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Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libmagic1:amd64 (1:5.44-3) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-12) ... Setting up autoconf (2.71-3) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libmd-dev:amd64 (1.0.4-2) ... Setting up libsub-override-perl (0.09-4) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.2) ... Setting up libbsd-dev:amd64 (0.11.7-2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.11.4) ... Processing triggers for libc-bin (2.36-9) ... 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/perm-0.4.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../perm_0.4.0-8_source.changes dpkg-buildpackage: info: source package perm dpkg-buildpackage: info: source version 0.4.0-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j15 clean make[1]: Entering directory '/build/perm-0.4.0' rm -f *.o *.exe cut out perm perm.tar.gz make[1]: Leaving directory '/build/perm-0.4.0' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j15 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/perm-0.4.0' make clean make[2]: Entering directory '/build/perm-0.4.0' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -f *.o *.exe cut out perm perm.tar.gz make[2]: Leaving directory '/build/perm-0.4.0' g++ -O2 -g -O2 -ffile-prefix-map=/build/perm-0.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -fopenmp -o perm -g -O2 -ffile-prefix-map=/build/perm-0.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -fopenmp AlignmentsQ.cpp Filename.cpp GenomeNTdata.cpp ReadInBits.cpp PerM.cpp chromosomeNTdata.cpp bitsOperationUtil.cpp FileOutputBuffer.cpp HashIndexT.cpp ReadInBitsSet.cpp SeedPattern.cpp boolFlagArray.cpp GenomeInBits.cpp Index_Table.cpp ReadsMapping.cpp PairedReadsMapping.cpp ShortReadUtil.cpp chdir.cpp Genome_Index.cpp MismatchScores.cpp stdafx.cpp Flags.cpp ParseReadsOpts.cpp ColorSpaceRead.cpp Genome_Index_Table.cpp ParameterList.cpp ReadsMappingStats.cpp FileInputBuffer.cpp Genome_Index_TableQ.cpp ReadsQualScores.cpp ChrIndex2GeneName.cpp ReadsFileParser.cpp PairedReadsSet.cpp MappingResult.cpp refInBinFile.cpp LongReadsSet.cpp -lm -lstdc++ -lbsd -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 chromosomeNTdata.cpp: In member function 'unsigned int CchromosomeNTdata::removedNonACGTNBaseAndCollectGeneName()': chromosomeNTdata.cpp:211:41: warning: '%d' directive writing between 1 and 11 bytes into a region of size between 0 and 2047 [-Wformat-overflow=] 211 | sprintf(caGeneName, "%s:%d", caGeneName, (int)this->geneVec.table.size()); | ^~ chromosomeNTdata.cpp:211:37: note: using the range [-2147483648, 2147483647] for directive argument 211 | sprintf(caGeneName, "%s:%d", caGeneName, (int)this->geneVec.table.size()); | ^~~~~~~ In file included from /usr/include/stdio.h:906, from /usr/include/c++/12/cstdio:42, from /usr/include/c++/12/ext/string_conversions.h:43, from /usr/include/c++/12/bits/basic_string.h:3960, from /usr/include/c++/12/string:53, from ChrIndex2GeneName.h:2, from chromosomeNTdata.h:5, from chromosomeNTdata.cpp:1: In function 'int sprintf(char*, const char*, ...)', inlined from 'unsigned int CchromosomeNTdata::removedNonACGTNBaseAndCollectGeneName()' at chromosomeNTdata.cpp:211:24: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 3 and 2060 bytes into a destination of size 2048 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: warning: '__builtin___sprintf_chk' argument 5 overlaps destination object 'caGeneName' [-Wrestrict] chromosomeNTdata.cpp: In member function 'unsigned int CchromosomeNTdata::removedNonACGTNBaseAndCollectGeneName()': chromosomeNTdata.cpp:207:18: note: destination object referenced by 'restrict'-qualified argument 1 was declared here 207 | char caGeneName[MAX_LINE]; | ^~~~~~~~~~ ReadsMapping.cpp: In constructor 'CReadsMapping::CReadsMapping(MappingOpts)': ReadsMapping.cpp:102:46: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] 102 | sprintf(this->opt.outputDir, "%s/", P.outputDir); | ^ In file included from /usr/include/stdio.h:906, from /usr/include/c++/12/cstdio:42, from /usr/include/c++/12/ext/string_conversions.h:43, from /usr/include/c++/12/bits/basic_string.h:3960, from /usr/include/c++/12/string:53, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from FileOutputBuffer.h:2, from PairedReadsSet.h:4, from LongReadsSet.h:2, from ReadsMapping.h:8, from ReadsMapping.cpp:1: In function 'int sprintf(char*, const char*, ...)', inlined from 'CReadsMapping::CReadsMapping(MappingOpts)' at ReadsMapping.cpp:102:20: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 2 and 4097 bytes into a destination of size 4096 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ ReadsMapping.cpp: In function 'std::string getOutputFileNamePrefix(const char*, const CGenome_Index_TableQ&, MappingOpts&)': ReadsMapping.cpp:594:33: warning: '%s' directive writing up to 4095 bytes into a region of size 2048 [-Wformat-overflow=] 594 | sprintf(outputPrefixStr, "%s%s_%c_%u_%d",\ | ^~ In function 'int sprintf(char*, const char*, ...)', inlined from 'std::string getOutputFileNamePrefix(const char*, const CGenome_Index_TableQ&, MappingOpts&)' at ReadsMapping.cpp:594:12: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output 7 or more bytes (assuming 4102) into a destination of size 2048 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ ReadsMapping.cpp: In member function 'std::string CReadsMapping::getMappingFileN(const char*, const CGenome_Index_TableQ&)': ReadsMapping.cpp:730:30: warning: '%s' directive writing up to 4095 bytes into a region of size 2048 [-Wformat-overflow=] 730 | sprintf(outputPath, "%s%s", this->opt.outputDir, this->opt.outputFileN); | ^~ In function 'int sprintf(char*, const char*, ...)', inlined from 'std::string CReadsMapping::getMappingFileN(const char*, const CGenome_Index_TableQ&)' at ReadsMapping.cpp:730:16: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 1 and 8191 bytes into a destination of size 2048 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ ReadsMapping.cpp: In function 'void getSingleMappingSeqAndQ4SOLiD(const CGenome_Index_TableQ&, CAlignmentsQ&, CMappingResult&, bool)': ReadsMapping.cpp:907:27: warning: ' CS:Z:' directive writing 6 bytes into a region of size between 1 and 4096 [-Wformat-overflow=] 907 | sprintf(m.TAG, "%s\tCS:Z:%s\tCQ:Z:%s", m.TAG, m.caRead, m.QScores); | ^~~~~~~ In function 'int sprintf(char*, const char*, ...)', inlined from 'void getQualityScore4SOLiD(unsigned int, CReadInBits&, CAlignmentsQ&, CMappingResult&, bool)' at ReadsMapping.cpp:907:16, inlined from 'void getSingleMappingSeqAndQ4SOLiD(const CGenome_Index_TableQ&, CAlignmentsQ&, CMappingResult&, bool)' at ReadsMapping.cpp:947:26: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 13 and 4876 bytes into a destination of size 4096 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: warning: '__builtin___sprintf_chk' argument 5 overlaps destination object 'm' [-Wrestrict] ReadsMapping.cpp: In function 'void getSingleMappingSeqAndQ4SOLiD(const CGenome_Index_TableQ&, CAlignmentsQ&, CMappingResult&, bool)': ReadsMapping.cpp:928:73: note: destination object referenced by 'restrict'-qualified argument 1 was declared here 928 | (const CGenome_Index_TableQ& table, CAlignmentsQ& aQue, CMappingResult& m, bool samFormat) | ~~~~~~~~~~~~~~~~^ ParameterList.cpp: In member function 'void MappingOpts::setDefaults()': ParameterList.cpp:31:9: warning: unused variable 'mismatchScoreThreshold' [-Wunused-variable] 31 | int mismatchScoreThreshold = -1; // No filtering by sum of mismatch score | ^~~~~~~~~~~~~~~~~~~~~~ Genome_Index_TableQ.cpp: In member function 'unsigned int CGenome_Index_TableQ::extendAlignment(CAlignmentsQ&, CReadInBits) const': Genome_Index_TableQ.cpp:364:10: warning: variable 'extendForward' set but not used [-Wunused-but-set-variable] 364 | bool extendForward = true; | ^~~~~~~~~~~~~ #g++ -O2 -g -O2 -ffile-prefix-map=/build/perm-0.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -fopenmp -o perm *.o -lm -lstdc++ -lbsd make[1]: Leaving directory '/build/perm-0.4.0' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/perm-0.4.0' # make[1]: Leaving directory '/build/perm-0.4.0' dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'perm' in '../perm_0.4.0-8_amd64.deb'. dpkg-deb: building package 'perm-dbgsym' in '../perm-dbgsym_0.4.0-8_amd64.deb'. dpkg-genbuildinfo --build=binary -O../perm_0.4.0-8_amd64.buildinfo dpkg-genchanges --build=binary -O../perm_0.4.0-8_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1003766 and its subdirectories I: Current time: Fri May 5 18:23:35 -12 2023 I: pbuilder-time-stamp: 1683354215 Sat May 6 06:23:35 UTC 2023 I: 1st build successful. Starting 2nd build on remote node ionos5-amd64.debian.net. Sat May 6 06:23:35 UTC 2023 I: Preparing to do remote build '2' on ionos5-amd64.debian.net. Sat May 6 06:25:29 UTC 2023 I: Deleting $TMPDIR on ionos5-amd64.debian.net. Sat May 6 06:25:29 UTC 2023 I: perm_0.4.0-8_amd64.changes: Format: 1.8 Date: Fri, 12 Nov 2021 08:16:27 +0100 Source: perm Binary: perm perm-dbgsym Architecture: amd64 Version: 0.4.0-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: perm - efficient mapping of short reads with periodic spaced seeds Closes: 999489 Changes: perm (0.4.0-8) unstable; urgency=medium . * Set homepage to http://code.google.com/p/perm/ since omicstools seems to have vanished Closes: #999489 * Standards-Version: 4.6.0 (routine-update) * Use secure URI in Homepage field. * Drop fields with obsolete URLs. Checksums-Sha1: aad9e4ab924ad328e0f7b7fa55c5564e15e88980 1015272 perm-dbgsym_0.4.0-8_amd64.deb c39b1978af01b8bf8888b4b726754d88b4d2dcc8 5132 perm_0.4.0-8_amd64.buildinfo 9f24ea26e7a0657baece2f72fd499501b0cfa16f 126824 perm_0.4.0-8_amd64.deb Checksums-Sha256: 60c157a63cf34f5b7f716ecac3bfd46910ad814cd621522980327620449ba1ef 1015272 perm-dbgsym_0.4.0-8_amd64.deb 0da7df57a2e5fff8a52e655cd2126f9fe424be4b0b4e3214cbc5fa81167a6008 5132 perm_0.4.0-8_amd64.buildinfo 7e708d4f1b04255d2ad72231bbc602d1d19365c98f3498768f4fce443913f8c7 126824 perm_0.4.0-8_amd64.deb Files: 37413602874ed05cd0867c1009ae3add 1015272 debug optional perm-dbgsym_0.4.0-8_amd64.deb f5daf4383888350cf3d8e6a62b1b6462 5132 science optional perm_0.4.0-8_amd64.buildinfo 72c8391b84099ebe317e1bb0ab26237c 126824 science optional perm_0.4.0-8_amd64.deb Sat May 6 06:25:30 UTC 2023 I: diffoscope 241 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.nJFK49IN/perm_0.4.0-8.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.nJFK49IN/perm_0.4.0-8.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.nJFK49IN/perm_0.4.0-8.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.nJFK49IN/b1/perm_0.4.0-8_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.nJFK49IN/b2/perm_0.4.0-8_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: 0.316s) 0.316s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.026s) 0.026s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Sat May 6 06:25:32 UTC 2023 I: diffoscope 241 found no differences in the changes files, and a .buildinfo file also exists. Sat May 6 06:25:32 UTC 2023 I: perm from bookworm built successfully and reproducibly on amd64. Sat May 6 06:25:33 UTC 2023 I: Submitting .buildinfo files to external archives: Sat May 6 06:25:33 UTC 2023 I: Submitting 8.0K b1/perm_0.4.0-8_amd64.buildinfo.asc Sat May 6 06:25:34 UTC 2023 I: Submitting 8.0K b2/perm_0.4.0-8_amd64.buildinfo.asc Sat May 6 06:25:35 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat May 6 06:25:35 UTC 2023 I: Done submitting .buildinfo files. Sat May 6 06:25:35 UTC 2023 I: Removing signed perm_0.4.0-8_amd64.buildinfo.asc files: removed './b1/perm_0.4.0-8_amd64.buildinfo.asc' removed './b2/perm_0.4.0-8_amd64.buildinfo.asc'