Sun Jun 4 07:05:39 UTC 2023 I: starting to build dssp/bookworm/armhf on jenkins on '2023-06-04 07:05' Sun Jun 4 07:05:39 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_8/9834/console.log Sun Jun 4 07:05:39 UTC 2023 I: Downloading source for bookworm/dssp=4.2.2-2 --2023-06-04 07:05:40-- http://cdn-fastly.deb.debian.org/debian/pool/main/d/dssp/dssp_4.2.2-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2067 (2.0K) [text/prs.lines.tag] Saving to: ‘dssp_4.2.2-2.dsc’ 0K .. 100% 24.1M=0s 2023-06-04 07:05:40 (24.1 MB/s) - ‘dssp_4.2.2-2.dsc’ saved [2067/2067] Sun Jun 4 07:05:40 UTC 2023 I: dssp_4.2.2-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: dssp Binary: dssp Architecture: any Version: 4.2.2-2 Maintainer: Debian Med Packaging Team Uploaders: Maarten L. Hekkelman Homepage: https://github.com/PDB-REDO/dssp Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/dssp Vcs-Git: https://salsa.debian.org/med-team/dssp.git Testsuite: autopkgtest Testsuite-Triggers: libcifpp-dev Build-Depends: debhelper-compat (= 13), cmake, mrc, libcifpp-dev (>= 5.0.7.1-1~), libboost-dev, libboost-regex-dev, zlib1g-dev, libmcfp-dev Package-List: dssp deb science optional arch=any Checksums-Sha1: e3d86c8b5ebaa919b6b0e4525ba7ca4651ff9b6e 144356 dssp_4.2.2.orig.tar.gz 742234db088d7c37748bd13c69e23854e3461c39 4448 dssp_4.2.2-2.debian.tar.xz Checksums-Sha256: 59e2810f0c4a484d9b767448a045fce2bd48ad05f410d9e286d9dd3e9b82b823 144356 dssp_4.2.2.orig.tar.gz 499d099ceabd2d1c6bded0c59a3714b1978b9a9f166f78e756f223bdb1feefc0 4448 dssp_4.2.2-2.debian.tar.xz Files: 53df26e846064b6bd80bfc9d1c17bf6d 144356 dssp_4.2.2.orig.tar.gz 88141c14de1b30a94eb4c50ab66993f1 4448 dssp_4.2.2-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJKBAEBCgA0FiEEpytoJCJrtAfiS56AWHUD7Hrn7c4FAmPblcMWHG1hYXJ0ZW5A aGVra2VsbWFuLmNvbQAKCRBYdQPseuftzm0DD/9DjrqtqdWaeDldHcho4Fu4ptap qEjcGk71n3RNeZYYaHYdNDs5TAPT1lXa3DGaTJU/DSnGDyBPMX0uiyQo73lxmO30 UwgASPkQJ00GpLucbOZBm02yxUZAWxpuG2DyUFwFnd81aECf3PbLVoZmb1XJDNan 6SDxvkkb/RvLDJ/TG4R9nWWhA1bTetGYpADNWqvdMis55Wu8lyAMovjEH4nVtm9c Vm9X+rE1+xfS1495LWzp2pqiXKGMDvvSq27xSAfqUC13JA66jil/ApVvIRUzUUcg rFtXCVZIoXx+4+32xF8kfm8642+1mp6SM3oBNbUIbKkzwOHWDl6AZMVGlFllzDNi Lyar/EI9aFN0wLR+LZIiNim2lYXHo4XGd9orz7V6BXcp2hCHC9//C3TWvAqJeiqh MlUSHfzaHuJUHw/vvXfjuHCEwbyduk7mKzzzNK+xrynsYvC3Wsu7IFno4HWwX46C 6RDaT7WiEGfjtQzJrDpZPipiyolJXkwmcsTdvPapkVDAM6eyDty3kKy6hEAcFeez 2dVjXLJR2DkKF8xMtRxGDT+BiW5WTdvs4BPSu+m2xy/mvruK1x90BKy5gXIJKOqh pSahGtTpAFZxaVCSUWOntKypweuvDKEUg1nTuFHWxWVVvmvJa6YZ2XVghDq31NYs zLY2euUbZtQ8u/ob0w== =GxVh -----END PGP SIGNATURE----- Sun Jun 4 07:05:40 UTC 2023 I: Checking whether the package is not for us Sun Jun 4 07:05:40 UTC 2023 I: Starting 1st build on remote node virt64a-armhf-rb.debian.net. Sun Jun 4 07:05:40 UTC 2023 I: Preparing to do remote build '1' on virt64a-armhf-rb.debian.net. Sun Jun 4 07:09:20 UTC 2023 I: Deleting $TMPDIR on virt64a-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Jun 3 19:05:51 -12 2023 I: pbuilder-time-stamp: 1685862351 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 [dssp_4.2.2-2.dsc] I: copying [./dssp_4.2.2.orig.tar.gz] I: copying [./dssp_4.2.2-2.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Feb 1 22:51:47 2023 -12 gpgv: using RSA key A72B6824226BB407E24B9E80587503EC7AE7EDCE gpgv: issuer "maarten@hekkelman.com" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./dssp_4.2.2-2.dsc: no acceptable signature found dpkg-source: info: extracting dssp in dssp-4.2.2 dpkg-source: info: unpacking dssp_4.2.2.orig.tar.gz dpkg-source: info: unpacking dssp_4.2.2-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1808/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='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='7ca45ede56764490917f02f8ece4c1ff' 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='1808' 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.TsMhmAIt/pbuilderrc_QltO --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.TsMhmAIt/b1 --logfile b1/build.log dssp_4.2.2-2.dsc' SUDO_GID='114' SUDO_UID='108' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt64a 5.10.0-23-arm64 #1 SMP Debian 5.10.179-1 (2023-05-12) aarch64 GNU/Linux I: ls -l /bin total 5072 -rwxr-xr-x 1 root root 838488 Apr 23 09:24 bash -rwxr-xr-x 3 root root 67144 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 67144 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 67144 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 67112 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 67632 Sep 20 2022 cat -rwxr-xr-x 1 root root 67676 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67644 Sep 20 2022 chmod -rwxr-xr-x 1 root root 67684 Sep 20 2022 chown -rwxr-xr-x 1 root root 133532 Sep 20 2022 cp -rwxr-xr-x 1 root root 132868 Jan 5 01:20 dash -rwxr-xr-x 1 root root 133220 Sep 20 2022 date -rwxr-xr-x 1 root root 67732 Sep 20 2022 dd -rwxr-xr-x 1 root root 68104 Sep 20 2022 df -rwxr-xr-x 1 root root 133632 Sep 20 2022 dir -rwxr-xr-x 1 root root 59128 Mar 22 21:02 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 67560 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 67548 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 55748 Mar 22 21:02 findmnt -rwsr-xr-x 1 root root 26208 Mar 22 20:15 fusermount -rwxr-xr-x 1 root root 128608 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 64220 Apr 9 2022 gzip -rwxr-xr-x 1 root root 67032 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 67720 Sep 20 2022 ln -rwxr-xr-x 1 root root 35132 Mar 22 21:51 login -rwxr-xr-x 1 root root 133632 Sep 20 2022 ls -rwxr-xr-x 1 root root 136808 Mar 22 21:02 lsblk -rwxr-xr-x 1 root root 67800 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 67764 Sep 20 2022 mknod -rwxr-xr-x 1 root root 67596 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 38504 Mar 22 21:02 more -rwsr-xr-x 1 root root 38496 Mar 22 21:02 mount -rwxr-xr-x 1 root root 9824 Mar 22 21:02 mountpoint -rwxr-xr-x 1 root root 133532 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 67608 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:24 rbash -> bash -rwxr-xr-x 1 root root 67600 Sep 20 2022 readlink -rwxr-xr-x 1 root root 67672 Sep 20 2022 rm -rwxr-xr-x 1 root root 67600 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 67400 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 133372 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 67584 Sep 20 2022 sleep -rwxr-xr-x 1 root root 67644 Sep 20 2022 stty -rwsr-xr-x 1 root root 50800 Mar 22 21:02 su -rwxr-xr-x 1 root root 67584 Sep 20 2022 sync -rwxr-xr-x 1 root root 336764 Apr 6 02:25 tar -rwxr-xr-x 1 root root 67144 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 133224 Sep 20 2022 touch -rwxr-xr-x 1 root root 67548 Sep 20 2022 true -rwxr-xr-x 1 root root 9768 Mar 22 20:15 ulockmgr_server -rwsr-xr-x 1 root root 22108 Mar 22 21:02 umount -rwxr-xr-x 1 root root 67572 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 133632 Sep 20 2022 vdir -rwxr-xr-x 1 root root 42608 Mar 22 21:02 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/1808/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: armhf 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, mrc, libcifpp-dev (>= 5.0.7.1-1~), libboost-dev, libboost-regex-dev, zlib1g-dev, libmcfp-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 ... 19324 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. pbuilder-satisfydepends-dummy depends on mrc; however: Package mrc is not installed. pbuilder-satisfydepends-dummy depends on libcifpp-dev (>= 5.0.7.1-1~); however: Package libcifpp-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-regex-dev; however: Package libboost-regex-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libmcfp-dev; however: Package libmcfp-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} 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} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libboost-dev{a} libboost-regex-dev{a} libboost-regex1.74-dev{a} libboost-regex1.74.0{a} libboost1.74-dev{a} libbrotli1{a} libcifpp-data{a} libcifpp-dev{a} libcifpp5{a} libcurl4{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libicu-dev{a} libicu72{a} libjsoncpp25{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1{a} libmcfp-dev{a} libnghttp2-14{a} libpipeline1{a} libproc2-0{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} mrc{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 61 newly installed, 0 to remove and 0 not upgraded. Need to get 49.9 MB of archives. After unpacking 312 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main armhf libproc2-0 armhf 2:4.0.2-3 [54.2 kB] Get: 2 http://deb.debian.org/debian bookworm/main armhf procps armhf 2:4.0.2-3 [695 kB] Get: 3 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 4 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB] Get: 5 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB] Get: 6 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB] Get: 7 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB] Get: 8 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 9 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB] Get: 10 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB] Get: 11 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB] Get: 12 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB] Get: 13 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB] Get: 14 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB] Get: 15 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB] Get: 18 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB] Get: 19 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.2 [591 kB] Get: 20 http://deb.debian.org/debian bookworm/main armhf libarchive13 armhf 3.6.2-1 [299 kB] Get: 21 http://deb.debian.org/debian bookworm/main armhf libbrotli1 armhf 1.0.9-2+b6 [271 kB] Get: 22 http://deb.debian.org/debian bookworm/main armhf libsasl2-modules-db armhf 2.1.28+dfsg-10 [19.0 kB] Get: 23 http://deb.debian.org/debian bookworm/main armhf libsasl2-2 armhf 2.1.28+dfsg-10 [52.3 kB] Get: 24 http://deb.debian.org/debian bookworm/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5 [158 kB] Get: 25 http://deb.debian.org/debian bookworm/main armhf libnghttp2-14 armhf 1.52.0-1 [60.8 kB] Get: 26 http://deb.debian.org/debian bookworm/main armhf libpsl5 armhf 0.21.2-1 [57.5 kB] Get: 27 http://deb.debian.org/debian bookworm/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 28 http://deb.debian.org/debian bookworm/main armhf libssh2-1 armhf 1.10.0-3+b1 [163 kB] Get: 29 http://deb.debian.org/debian bookworm/main armhf libcurl4 armhf 7.88.1-10 [347 kB] Get: 30 http://deb.debian.org/debian bookworm/main armhf libexpat1 armhf 2.5.0-1 [79.9 kB] Get: 31 http://deb.debian.org/debian bookworm/main armhf libjsoncpp25 armhf 1.9.5-4 [68.6 kB] Get: 32 http://deb.debian.org/debian bookworm/main armhf librhash0 armhf 1.4.3-3 [146 kB] Get: 33 http://deb.debian.org/debian bookworm/main armhf libuv1 armhf 1.44.2-1 [126 kB] Get: 34 http://deb.debian.org/debian bookworm/main armhf cmake-data all 3.25.1-1 [2026 kB] Get: 35 http://deb.debian.org/debian bookworm/main armhf cmake armhf 3.25.1-1 [4263 kB] Get: 36 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB] Get: 37 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB] Get: 38 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB] Get: 39 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 40 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B] Get: 41 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 42 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 43 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB] Get: 44 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB] Get: 45 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 47 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf icu-devtools armhf 72.1-3 [183 kB] Get: 50 http://deb.debian.org/debian bookworm/main armhf libboost1.74-dev armhf 1.74.0+ds1-21 [9508 kB] Get: 51 http://deb.debian.org/debian bookworm/main armhf libboost-dev armhf 1.74.0.3 [4548 B] Get: 52 http://deb.debian.org/debian bookworm/main armhf libboost-regex1.74.0 armhf 1.74.0+ds1-21 [432 kB] Get: 53 http://deb.debian.org/debian bookworm/main armhf libicu-dev armhf 72.1-3 [10.1 MB] Get: 54 http://deb.debian.org/debian bookworm/main armhf libboost-regex1.74-dev armhf 1.74.0+ds1-21 [543 kB] Get: 55 http://deb.debian.org/debian bookworm/main armhf libboost-regex-dev armhf 1.74.0.3 [4596 B] Get: 56 http://deb.debian.org/debian bookworm/main armhf libcifpp-data all 5.0.7.1-1 [452 kB] Get: 57 http://deb.debian.org/debian bookworm/main armhf libcifpp5 armhf 5.0.7.1-1 [691 kB] Get: 58 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] Get: 59 http://deb.debian.org/debian bookworm/main armhf libcifpp-dev armhf 5.0.7.1-1 [86.2 kB] Get: 60 http://deb.debian.org/debian bookworm/main armhf libmcfp-dev armhf 1.2.3-1 [15.9 kB] Get: 61 http://deb.debian.org/debian bookworm/main armhf mrc armhf 1.3.6-1 [41.8 kB] Fetched 49.9 MB in 1s (41.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0:armhf. (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 ... 19324 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.2-3_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.2-3) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.2-3_armhf.deb ... Unpacking procps (2:4.0.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.17+nmu1_all.deb ... 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Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:armhf (1.0.9-2+b6) ... Setting up libnghttp2-14:armhf (1.52.0-1) ... Setting up libmagic1:armhf (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 libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Setting up autotools-dev (20220109.1) ... Setting up libuv1:armhf (1.44.2-1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up mrc (1.3.6-1) ... Setting up libboost-regex1.74.0:armhf (1.74.0+ds1-21) ... Setting up libproc2-0:armhf (2:4.0.2-3) ... Setting up autopoint (0.21-12) ... Setting up libjsoncpp25:armhf (1.9.5-4) ... Setting up icu-devtools (72.1-3) ... Setting up libcifpp-data (5.0.7.1-1) ... Setting up libsasl2-2:armhf (2.1.28+dfsg-10) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up librhash0:armhf (1.4.3-3) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up procps (2:4.0.2-3) ... Setting up libsub-override-perl (0.09-4) ... Setting up libmcfp-dev (1.2.3-1) ... Setting up libssh2-1:armhf (1.10.0-3+b1) ... Setting up cmake-data (3.25.1-1) ... Setting up libboost-dev:armhf (1.74.0.3) ... Setting up libelf1:armhf (0.188-2.1) ... Setting up libicu-dev:armhf (72.1-3) ... Setting up libxml2:armhf (2.9.14+dfsg-1.2) ... 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 libarchive13:armhf (3.6.2-1) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libcifpp5:armhf (5.0.7.1-1) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up libboost-regex1.74-dev:armhf (1.74.0+ds1-21) ... Setting up groff-base (1.22.4-10) ... Setting up libcurl4:armhf (7.88.1-10) ... Setting up libboost-regex-dev:armhf (1.74.0.3) ... 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 libcifpp-dev:armhf (5.0.7.1-1) ... Setting up cmake (3.25.1-1) ... 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/dssp-4.2.2/ && 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 > ../dssp_4.2.2-2_source.changes dpkg-buildpackage: info: source package dssp dpkg-buildpackage: info: source version 4.2.2-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Maarten L. Hekkelman dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-arm-linux-gnueabihf && 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_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf .. -- The CXX compiler identification is GNU 12.2.0 -- 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 -- Looking for C++ include filesystem -- Looking for C++ include filesystem - found -- Performing Test CXX_FILESYSTEM_NO_LINK_NEEDED -- Performing Test CXX_FILESYSTEM_NO_LINK_NEEDED - Success -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.13") -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.74.0/BoostConfig.cmake (found version "1.74.0") found components: regex Using resources compiled with -- 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 FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/dssp-4.2.2/obj-arm-linux-gnueabihf dh_auto_build cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/dssp-4.2.2 -B/build/dssp-4.2.2/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/dssp-4.2.2/obj-arm-linux-gnueabihf/CMakeFiles /build/dssp-4.2.2/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' make -f CMakeFiles/dssp.dir/build.make CMakeFiles/dssp.dir/depend make[3]: Entering directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' cd /build/dssp-4.2.2/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/dssp-4.2.2 /build/dssp-4.2.2 /build/dssp-4.2.2/obj-arm-linux-gnueabihf /build/dssp-4.2.2/obj-arm-linux-gnueabihf /build/dssp-4.2.2/obj-arm-linux-gnueabihf/CMakeFiles/dssp.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' make -f CMakeFiles/dssp.dir/build.make CMakeFiles/dssp.dir/build make[3]: Entering directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' [ 16%] Building CXX object CMakeFiles/dssp.dir/src/dssp.cpp.o /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/dssp-4.2.2/include -g -O2 -ffile-prefix-map=/build/dssp-4.2.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -MD -MT CMakeFiles/dssp.dir/src/dssp.cpp.o -MF CMakeFiles/dssp.dir/src/dssp.cpp.o.d -o CMakeFiles/dssp.dir/src/dssp.cpp.o -c /build/dssp-4.2.2/src/dssp.cpp In file included from /usr/include/c++/12/bits/stl_algo.h:60, from /usr/include/c++/12/functional:64, from /usr/include/cif++/condition.hpp:32, from /usr/include/cif++/category.hpp:31, from /usr/include/cif++/datablock.hpp:29, from /usr/include/cif++/file.hpp:32, from /usr/include/cif++.hpp:30, from /build/dssp-4.2.2/include/dssp.hpp:32, from /build/dssp-4.2.2/src/dssp.cpp:29: /usr/include/c++/12/bits/stl_heap.h: In function 'void std::__push_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = accumulator::candidate; _Compare = __gnu_cxx::__ops::_Iter_less_val]': /usr/include/c++/12/bits/stl_heap.h:135:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 135 | __push_heap(_RandomAccessIterator __first, | ^~~~~~~~~~~ In file included from /usr/include/c++/12/string:50, from /usr/include/c++/12/stdexcept:39, from /usr/include/c++/12/system_error:41, from /usr/include/c++/12/bits/fs_fwd.h:35, from /usr/include/c++/12/filesystem:44, from /usr/include/cif++/utilities.hpp:31, from /usr/include/cif++.hpp:29: /usr/include/c++/12/bits/stl_algobase.h: In function '_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_pred >]': /usr/include/c++/12/bits/stl_algobase.h:2059:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 2059 | __find_if(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~ /usr/include/c++/12/bits/stl_algobase.h:2059:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/12/vector:70, from /usr/include/cif++/forward_decl.hpp:32, from /usr/include/cif++/category.hpp:29: /usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const accumulator::candidate&}; _Tp = accumulator::candidate; _Alloc = std::allocator]': /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/12/vector:64: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = accumulator::candidate; _Alloc = std::allocator]', inlined from 'void accumulator::operator()(const point&, const point&, double, double)' at /build/dssp-4.2.2/src/dssp.cpp:578:17, inlined from 'float dssp::residue::CalculateSurface(const point&, float, const std::vector&)' at /build/dssp-4.2.2/src/dssp.cpp:641:14: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = accumulator::candidate; _Alloc = std::allocator]', inlined from 'void accumulator::operator()(const point&, const point&, double, double)' at /build/dssp-4.2.2/src/dssp.cpp:578:17, inlined from 'float dssp::residue::CalculateSurface(const point&, float, const std::vector&)' at /build/dssp-4.2.2/src/dssp.cpp:642:14: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = accumulator::candidate; _Alloc = std::allocator]', inlined from 'void accumulator::operator()(const point&, const point&, double, double)' at /build/dssp-4.2.2/src/dssp.cpp:578:17, inlined from 'float dssp::residue::CalculateSurface(const point&, float, const std::vector&)' at /build/dssp-4.2.2/src/dssp.cpp:643:14: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = accumulator::candidate; _Alloc = std::allocator]', inlined from 'void accumulator::operator()(const point&, const point&, double, double)' at /build/dssp-4.2.2/src/dssp.cpp:578:17, inlined from 'float dssp::residue::CalculateSurface(const point&, float, const std::vector&)' at /build/dssp-4.2.2/src/dssp.cpp:644:14: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = accumulator::candidate; _Alloc = std::allocator]', inlined from 'void accumulator::operator()(const point&, const point&, double, double)' at /build/dssp-4.2.2/src/dssp.cpp:578:17, inlined from 'float dssp::residue::CalculateSurface(const point&, float, const std::vector&)' at /build/dssp-4.2.2/src/dssp.cpp:647:15: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {dssp::residue}; _Tp = dssp::residue; _Alloc = std::allocator]': /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {dssp::residue}; _Tp = dssp::residue; _Alloc = std::allocator]', inlined from 'DSSP_impl::DSSP_impl(const cif::datablock&, int, int)' at /build/dssp-4.2.2/src/dssp.cpp:1412:25: /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function '_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_pred >]', inlined from '_IIter std::find_if(_IIter, _IIter, _Predicate) [with _IIter = __gnu_cxx::__normal_iterator >; _Predicate = DSSP_impl::findRes(const std::string&, int)::]' at /usr/include/c++/12/bits/stl_algo.h:3877:28, inlined from 'auto DSSP_impl::findRes(const std::string&, int)' at /build/dssp-4.2.2/src/dssp.cpp:1345:22, inlined from 'void DSSP_impl::calculateSecondaryStructure()' at /build/dssp-4.2.2/src/dssp.cpp:1489:20: /usr/include/c++/12/bits/stl_algobase.h:2112:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 2112 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2113 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function '_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_pred >]', inlined from '_IIter std::find_if(_IIter, _IIter, _Predicate) [with _IIter = __gnu_cxx::__normal_iterator >; _Predicate = DSSP_impl::findRes(const std::string&, int)::]' at /usr/include/c++/12/bits/stl_algo.h:3877:28, inlined from 'auto DSSP_impl::findRes(const std::string&, int)' at /build/dssp-4.2.2/src/dssp.cpp:1345:22, inlined from 'void DSSP_impl::calculateSecondaryStructure()' at /build/dssp-4.2.2/src/dssp.cpp:1498:20: /usr/include/c++/12/bits/stl_algobase.h:2112:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 2112 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2113 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 33%] Linking CXX static library libdssp.a /usr/bin/cmake -P CMakeFiles/dssp.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/dssp.dir/link.txt --verbose=1 /usr/bin/ar qc libdssp.a CMakeFiles/dssp.dir/src/dssp.cpp.o /usr/bin/ranlib libdssp.a make[3]: Leaving directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' [ 33%] Built target dssp make -f CMakeFiles/mkdssp.dir/build.make CMakeFiles/mkdssp.dir/depend make[3]: Entering directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' [ 50%] Generating mkdssp_rsrc.obj, ALL /usr/bin/mrc -o /build/dssp-4.2.2/obj-arm-linux-gnueabihf/mkdssp_rsrc.obj /usr/share/libcifpp/mmcif_pdbx.dic /usr/share/libcifpp/mmcif_ddl.dic cd /build/dssp-4.2.2/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/dssp-4.2.2 /build/dssp-4.2.2 /build/dssp-4.2.2/obj-arm-linux-gnueabihf /build/dssp-4.2.2/obj-arm-linux-gnueabihf /build/dssp-4.2.2/obj-arm-linux-gnueabihf/CMakeFiles/mkdssp.dir/DependInfo.cmake --color= Deleting primary custom command output "/build/dssp-4.2.2/obj-arm-linux-gnueabihf/mkdssp_rsrc.obj" because another output "/build/dssp-4.2.2/obj-arm-linux-gnueabihf/ALL" does not exist. make[3]: Leaving directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' make -f CMakeFiles/mkdssp.dir/build.make CMakeFiles/mkdssp.dir/build make[3]: Entering directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' [ 83%] Building CXX object CMakeFiles/mkdssp.dir/src/dssp-io.cpp.o [ 83%] Building CXX object CMakeFiles/mkdssp.dir/src/mkdssp.cpp.o [ 83%] Generating mkdssp_rsrc.obj, ALL /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/dssp-4.2.2/obj-arm-linux-gnueabihf -I/build/dssp-4.2.2/include -g -O2 -ffile-prefix-map=/build/dssp-4.2.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -MD -MT CMakeFiles/mkdssp.dir/src/dssp-io.cpp.o -MF CMakeFiles/mkdssp.dir/src/dssp-io.cpp.o.d -o CMakeFiles/mkdssp.dir/src/dssp-io.cpp.o -c /build/dssp-4.2.2/src/dssp-io.cpp /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/dssp-4.2.2/obj-arm-linux-gnueabihf -I/build/dssp-4.2.2/include -g -O2 -ffile-prefix-map=/build/dssp-4.2.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -MD -MT CMakeFiles/mkdssp.dir/src/mkdssp.cpp.o -MF CMakeFiles/mkdssp.dir/src/mkdssp.cpp.o.d -o CMakeFiles/mkdssp.dir/src/mkdssp.cpp.o -c /build/dssp-4.2.2/src/mkdssp.cpp /usr/bin/mrc -o /build/dssp-4.2.2/obj-arm-linux-gnueabihf/mkdssp_rsrc.obj /usr/share/libcifpp/mmcif_pdbx.dic /usr/share/libcifpp/mmcif_ddl.dic [100%] Linking CXX executable mkdssp /usr/bin/cmake -E cmake_link_script CMakeFiles/mkdssp.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/dssp-4.2.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro "CMakeFiles/mkdssp.dir/src/dssp-io.cpp.o" CMakeFiles/mkdssp.dir/src/mkdssp.cpp.o mkdssp_rsrc.obj -o mkdssp libdssp.a libdssp.a /usr/lib/arm-linux-gnueabihf/libcifpp.so.5.0.7.1 /usr/lib/arm-linux-gnueabihf/libz.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.74.0 /usr/bin/ld: warning: mkdssp_rsrc.obj: missing .note.GNU-stack section implies executable stack /usr/bin/ld: NOTE: This behaviour is deprecated and will be removed in a future version of the linker make[3]: Leaving directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' [100%] Built target mkdssp make[2]: Leaving directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/dssp-4.2.2/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' dh_auto_test cd obj-arm-linux-gnueabihf && make -j3 test ARGS\+=--verbose ARGS\+=-j3 make[1]: Entering directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j3 UpdateCTestConfiguration from :/build/dssp-4.2.2/obj-arm-linux-gnueabihf/DartConfiguration.tcl Parse Config file:/build/dssp-4.2.2/obj-arm-linux-gnueabihf/DartConfiguration.tcl UpdateCTestConfiguration from :/build/dssp-4.2.2/obj-arm-linux-gnueabihf/DartConfiguration.tcl Parse Config file:/build/dssp-4.2.2/obj-arm-linux-gnueabihf/DartConfiguration.tcl Test project /build/dssp-4.2.2/obj-arm-linux-gnueabihf Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end No tests were found!!! make[1]: Leaving directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/dssp/ cd obj-arm-linux-gnueabihf && make -j3 install DESTDIR=/build/dssp-4.2.2/debian/dssp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/dssp-4.2.2 -B/build/dssp-4.2.2/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/dssp-4.2.2/debian/dssp/usr/lib/arm-linux-gnueabihf/libdssp.a -- Installing: /build/dssp-4.2.2/debian/dssp/usr/lib/arm-linux-gnueabihf/cmake/dssp/dsspTargets.cmake -- Installing: /build/dssp-4.2.2/debian/dssp/usr/lib/arm-linux-gnueabihf/cmake/dssp/dsspTargets-none.cmake -- Installing: /build/dssp-4.2.2/debian/dssp/usr/include/dssp.hpp -- Installing: /build/dssp-4.2.2/debian/dssp/usr/lib/arm-linux-gnueabihf/cmake/dssp/dsspConfig.cmake -- Installing: /build/dssp-4.2.2/debian/dssp/usr/lib/arm-linux-gnueabihf/cmake/dssp/dsspConfigVersion.cmake -- Installing: /build/dssp-4.2.2/debian/dssp/usr/lib/arm-linux-gnueabihf/pkgconfig/libdssp.pc -- Installing: /build/dssp-4.2.2/debian/dssp/usr/bin/mkdssp -- Installing: /build/dssp-4.2.2/debian/dssp/usr/share/man/man1/mkdssp.1 make[1]: Leaving directory '/build/dssp-4.2.2/obj-arm-linux-gnueabihf' dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: debian/dssp/usr/bin/mkdssp contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'dssp' in '../dssp_4.2.2-2_armhf.deb'. dpkg-deb: building package 'dssp-dbgsym' in '../dssp-dbgsym_4.2.2-2_armhf.deb'. dpkg-genbuildinfo --build=binary -O../dssp_4.2.2-2_armhf.buildinfo dpkg-genchanges --build=binary -O../dssp_4.2.2-2_armhf.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/1808 and its subdirectories I: Current time: Sat Jun 3 19:08:57 -12 2023 I: pbuilder-time-stamp: 1685862537 Sun Jun 4 07:09:22 UTC 2023 I: 1st build successful. Starting 2nd build on remote node ff4a-armhf-rb.debian.net. Sun Jun 4 07:09:22 UTC 2023 I: Preparing to do remote build '2' on ff4a-armhf-rb.debian.net. Sun Jun 4 07:14:13 UTC 2023 I: Deleting $TMPDIR on ff4a-armhf-rb.debian.net. Sun Jun 4 07:14:15 UTC 2023 I: dssp_4.2.2-2_armhf.changes: Format: 1.8 Date: Thu, 02 Feb 2023 11:48:45 +0100 Source: dssp Binary: dssp dssp-dbgsym Architecture: armhf Version: 4.2.2-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Maarten L. Hekkelman Description: dssp - protein secondary structure assignment based on 3D structure Changes: dssp (4.2.2-2) unstable; urgency=medium . * Fix dependency. Checksums-Sha1: a041c07b665fc326e26f248fb40c431db9a4ee74 2839880 dssp-dbgsym_4.2.2-2_armhf.deb 48e9258e9e9a41e8273532211788e6137ebd52a8 6028 dssp_4.2.2-2_armhf.buildinfo 924e033ece96a95c5b8e1c93837b04857c7e9d8c 600260 dssp_4.2.2-2_armhf.deb Checksums-Sha256: 3877a25ce6a6b3a78841b57eb3de11d61af3ef8352adbface471e9d8b1b80a0b 2839880 dssp-dbgsym_4.2.2-2_armhf.deb 74d5967bcd09b63a80416ea7abb8ea5a627c363c1e02ea99d55b7302a622a858 6028 dssp_4.2.2-2_armhf.buildinfo cd1677d5bc06152793eb41c55f9c4bcd5085f38b5f7fdbfeaecbbb8a1e0199a8 600260 dssp_4.2.2-2_armhf.deb Files: a6f1c6bc616112302808507d3269f76c 2839880 debug optional dssp-dbgsym_4.2.2-2_armhf.deb f2d625743447a664db932b37c4c2eee1 6028 science optional dssp_4.2.2-2_armhf.buildinfo adfbd51bc5bd16eb90f27cbb56344a04 600260 science optional dssp_4.2.2-2_armhf.deb Sun Jun 4 07:14:16 UTC 2023 I: diffoscope 242 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.TsMhmAIt/dssp_4.2.2-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.TsMhmAIt/dssp_4.2.2-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.TsMhmAIt/dssp_4.2.2-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.TsMhmAIt/b1/dssp_4.2.2-2_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.TsMhmAIt/b2/dssp_4.2.2-2_armhf.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: 0.336s) 0.336s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.050s) 0.050s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Sun Jun 4 07:14:17 UTC 2023 I: diffoscope 242 found no differences in the changes files, and a .buildinfo file also exists. Sun Jun 4 07:14:17 UTC 2023 I: dssp from bookworm built successfully and reproducibly on armhf. Sun Jun 4 07:14:19 UTC 2023 I: Submitting .buildinfo files to external archives: Sun Jun 4 07:14:19 UTC 2023 I: Submitting 8.0K b1/dssp_4.2.2-2_armhf.buildinfo.asc Sun Jun 4 07:14:20 UTC 2023 I: Submitting 8.0K b2/dssp_4.2.2-2_armhf.buildinfo.asc Sun Jun 4 07:14:21 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Jun 4 07:14:21 UTC 2023 I: Done submitting .buildinfo files. Sun Jun 4 07:14:21 UTC 2023 I: Removing signed dssp_4.2.2-2_armhf.buildinfo.asc files: removed './b1/dssp_4.2.2-2_armhf.buildinfo.asc' removed './b2/dssp_4.2.2-2_armhf.buildinfo.asc'