Diff of the two buildlogs: -- --- b1/build.log 2023-06-06 18:31:56.505693374 +0000 +++ b2/build.log 2023-06-06 18:44:52.719695587 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Jun 6 06:25:35 -12 2023 -I: pbuilder-time-stamp: 1686075935 +I: Current time: Wed Jun 7 08:32:18 +14 2023 +I: pbuilder-time-stamp: 1686076338 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./libpdb-redo_3.0.5.orig.tar.gz] I: copying [./libpdb-redo_3.0.5-2.debian.tar.xz] I: Extracting source -gpgv: Signature made Thu Feb 2 20:24:02 2023 -12 +gpgv: Signature made Fri Feb 3 22:24:02 2023 +14 gpgv: using RSA key A72B6824226BB407E24B9E80587503EC7AE7EDCE gpgv: issuer "maarten@hekkelman.com" gpgv: Can't check signature: No public key @@ -26,135 +26,167 @@ dpkg-source: info: unpacking libpdb-redo_3.0.5-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/17092/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/25434/tmp/hooks/D01_modify_environment starting +debug: Running on virt64b. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Jun 7 08:33 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/25434/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/25434/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' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="15" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='04bf816257be4d21b1cf5311699ed032' - 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='17092' - PS1='# ' - PS2='> ' + INVOCATION_ID=8483c40403bb43bf85d9cef227a2ee85 + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=25434 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.iS7Jz3rj/pbuilderrc_2lz3 --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.iS7Jz3rj/b1 --logfile b1/build.log libpdb-redo_3.0.5-2.dsc' - SUDO_GID='112' - SUDO_UID='106' - 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/' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.iS7Jz3rj/pbuilderrc_AGX3 --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.iS7Jz3rj/b2 --logfile b2/build.log --extrapackages usrmerge libpdb-redo_3.0.5-2.dsc' + SUDO_GID=113 + SUDO_UID=107 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux virt32b 5.10.0-23-armmp-lpae #1 SMP Debian 5.10.179-1 (2023-05-12) armv7l GNU/Linux + Linux i-capture-the-hostname 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/17092/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 838488 Apr 24 11:24 bash + -rwxr-xr-x 3 root root 67144 Sep 19 2022 bunzip2 + -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzcat + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep + -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzip2 + -rwxr-xr-x 1 root root 67112 Sep 19 2022 bzip2recover + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore + -rwxr-xr-x 1 root root 67632 Sep 21 2022 cat + -rwxr-xr-x 1 root root 67676 Sep 21 2022 chgrp + -rwxr-xr-x 1 root root 67644 Sep 21 2022 chmod + -rwxr-xr-x 1 root root 67684 Sep 21 2022 chown + -rwxr-xr-x 1 root root 133532 Sep 21 2022 cp + -rwxr-xr-x 1 root root 132868 Jan 6 03:20 dash + -rwxr-xr-x 1 root root 133220 Sep 21 2022 date + -rwxr-xr-x 1 root root 67732 Sep 21 2022 dd + -rwxr-xr-x 1 root root 68104 Sep 21 2022 df + -rwxr-xr-x 1 root root 133632 Sep 21 2022 dir + -rwxr-xr-x 1 root root 59128 Mar 23 23:02 dmesg + lrwxrwxrwx 1 root root 8 Dec 20 03:33 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Dec 20 03:33 domainname -> hostname + -rwxr-xr-x 1 root root 67560 Sep 21 2022 echo + -rwxr-xr-x 1 root root 41 Jan 25 04:43 egrep + -rwxr-xr-x 1 root root 67548 Sep 21 2022 false + -rwxr-xr-x 1 root root 41 Jan 25 04:43 fgrep + -rwxr-xr-x 1 root root 55748 Mar 23 23:02 findmnt + -rwsr-xr-x 1 root root 26208 Mar 23 22:15 fusermount + -rwxr-xr-x 1 root root 128608 Jan 25 04:43 grep + -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip + -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe + -rwxr-xr-x 1 root root 64220 Apr 10 2022 gzip + -rwxr-xr-x 1 root root 67032 Dec 20 03:33 hostname + -rwxr-xr-x 1 root root 67720 Sep 21 2022 ln + -rwxr-xr-x 1 root root 35132 Mar 23 23:51 login + -rwxr-xr-x 1 root root 133632 Sep 21 2022 ls + -rwxr-xr-x 1 root root 136808 Mar 23 23:02 lsblk + -rwxr-xr-x 1 root root 67800 Sep 21 2022 mkdir + -rwxr-xr-x 1 root root 67764 Sep 21 2022 mknod + -rwxr-xr-x 1 root root 67596 Sep 21 2022 mktemp + -rwxr-xr-x 1 root root 38504 Mar 23 23:02 more + -rwsr-xr-x 1 root root 38496 Mar 23 23:02 mount + -rwxr-xr-x 1 root root 9824 Mar 23 23:02 mountpoint + -rwxr-xr-x 1 root root 133532 Sep 21 2022 mv + lrwxrwxrwx 1 root root 8 Dec 20 03:33 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 3 20:25 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 67608 Sep 21 2022 pwd + lrwxrwxrwx 1 root root 4 Apr 24 11:24 rbash -> bash + -rwxr-xr-x 1 root root 67600 Sep 21 2022 readlink + -rwxr-xr-x 1 root root 67672 Sep 21 2022 rm + -rwxr-xr-x 1 root root 67600 Sep 21 2022 rmdir + -rwxr-xr-x 1 root root 67400 Nov 3 2022 run-parts + -rwxr-xr-x 1 root root 133372 Jan 6 09:55 sed + lrwxrwxrwx 1 root root 9 Jun 7 08:33 sh -> /bin/bash + -rwxr-xr-x 1 root root 67584 Sep 21 2022 sleep + -rwxr-xr-x 1 root root 67644 Sep 21 2022 stty + -rwsr-xr-x 1 root root 50800 Mar 23 23:02 su + -rwxr-xr-x 1 root root 67584 Sep 21 2022 sync + -rwxr-xr-x 1 root root 336764 Apr 7 04:25 tar + -rwxr-xr-x 1 root root 67144 Nov 3 2022 tempfile + -rwxr-xr-x 1 root root 133224 Sep 21 2022 touch + -rwxr-xr-x 1 root root 67548 Sep 21 2022 true + -rwxr-xr-x 1 root root 9768 Mar 23 22:15 ulockmgr_server + -rwsr-xr-x 1 root root 22108 Mar 23 23:02 umount + -rwxr-xr-x 1 root root 67572 Sep 21 2022 uname + -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress + -rwxr-xr-x 1 root root 133632 Sep 21 2022 vdir + -rwxr-xr-x 1 root root 42608 Mar 23 23:02 wdctl + lrwxrwxrwx 1 root root 8 Dec 20 03:33 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat + -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp + -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff + -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep + -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep + -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce + -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep + -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless + -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore + -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew +I: user script /srv/workspace/pbuilder/25434/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -313,7 +345,7 @@ Get: 101 http://deb.debian.org/debian bookworm/main armhf pkgconf-bin armhf 1.8.1-1 [28.5 kB] Get: 102 http://deb.debian.org/debian bookworm/main armhf pkgconf armhf 1.8.1-1 [25.9 kB] Get: 103 http://deb.debian.org/debian bookworm/main armhf pkg-config armhf 1.8.1-1 [13.7 kB] -Fetched 59.7 MB in 5s (11.6 MB/s) +Fetched 59.7 MB in 7s (8673 kB/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.) @@ -739,8 +771,19 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +usrmerge is already the newest version (35). +0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/libpdb-redo-3.0.5/ && 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 > ../libpdb-redo_3.0.5-2_source.changes +I: user script /srv/workspace/pbuilder/25434/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +removed '/etc/unsupported-skip-usrmerge-conversion' +The system has been successfully converted. +I: user script /srv/workspace/pbuilder/25434/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/libpdb-redo-3.0.5/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../libpdb-redo_3.0.5-2_source.changes dpkg-buildpackage: info: source package libpdb-redo dpkg-buildpackage: info: source version 3.0.5-2 dpkg-buildpackage: info: source distribution unstable @@ -755,7 +798,7 @@ dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure -make[1]: Entering directory '/build/libpdb-redo-3.0.5' +make[1]: ingresso nella directory «/build/libpdb-redo-3.0.5» dh_auto_configure -- -DBUILD_SHARED_LIBS=ON -DPDB_REDO_BUILD_TESTS=ON 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 -DBUILD_SHARED_LIBS=ON -DPDB_REDO_BUILD_TESTS=ON .. -- The CXX compiler identification is GNU 12.2.0 @@ -808,25 +851,25 @@ -- Build files have been written to: /build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -make[1]: Leaving directory '/build/libpdb-redo-3.0.5' +make[1]: uscita dalla directory «/build/libpdb-redo-3.0.5» dh_auto_build - cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 -make[1]: Entering directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' + cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 +make[1]: ingresso nella directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» /usr/bin/cmake -S/build/libpdb-redo-3.0.5 -B/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf/CMakeFiles /build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all -make[2]: Entering directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' +make[2]: ingresso nella directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/depend -make[3]: Entering directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' +make[3]: ingresso nella directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» cd /build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libpdb-redo-3.0.5 /build/libpdb-redo-3.0.5 /build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf /build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf /build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf/CMakeFiles/pdb-redo.dir/DependInfo.cmake --color= -make[3]: Leaving directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' +make[3]: uscita dalla directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/build -make[3]: Entering directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' -[ 7%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o +make[3]: ingresso nella directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» +[ 7%] Building CXX object CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o +/usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -MF CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -c /build/libpdb-redo-3.0.5/src/AtomShape.cpp +[ 14%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o -MF CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o -c /build/libpdb-redo-3.0.5/src/BondMap.cpp -[ 14%] Building CXX object CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o [ 21%] Building CXX object CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o -/usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -MF CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -c /build/libpdb-redo-3.0.5/src/AtomShape.cpp /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o -MF CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o -c /build/libpdb-redo-3.0.5/src/ClipperWrapper.cpp [ 28%] Building CXX object CMakeFiles/pdb-redo.dir/src/Compound.cpp.o /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/Compound.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Compound.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Compound.cpp.o -c /build/libpdb-redo-3.0.5/src/Compound.cpp @@ -834,6 +877,10 @@ /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o -MF CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o -c /build/libpdb-redo-3.0.5/src/DistanceMap.cpp [ 42%] Building CXX object CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o -MF CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o -c /build/libpdb-redo-3.0.5/src/MapMaker.cpp +/build/libpdb-redo-3.0.5/src/MapMaker.cpp: In member function ‘void pdb_redo::MapMaker::fixMTZ() [with FTYPE = float]’: +/build/libpdb-redo-3.0.5/src/MapMaker.cpp:1118:22: note: parameter passing for argument of type ‘clipper::datatypes::F_phi’ when C++17 is enabled changed to match C++14 in GCC 10.1 + 1118 | auto mFo = mFbData[ih] - mFdData[ih]; + | ^~~ 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, @@ -850,16 +897,14 @@ /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)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/libpdb-redo-3.0.5/src/MapMaker.cpp: In member function ‘void pdb_redo::MapMaker::fixMTZ() [with FTYPE = float]’: -/build/libpdb-redo-3.0.5/src/MapMaker.cpp:1118:22: note: parameter passing for argument of type ‘clipper::datatypes::F_phi’ when C++17 is enabled changed to match C++14 in GCC 10.1 - 1118 | auto mFo = mFbData[ih] - mFdData[ih]; - | ^~~ [ 50%] Building CXX object CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o -c /build/libpdb-redo-3.0.5/src/Ramachandran.cpp [ 57%] Building CXX object CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o -MF CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o -c /build/libpdb-redo-3.0.5/src/ResolutionCalculator.cpp [ 64%] Building CXX object CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o -MF CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o -c /build/libpdb-redo-3.0.5/src/SkipList.cpp +[ 71%] Building CXX object CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o +/usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o -c /build/libpdb-redo-3.0.5/src/Statistics.cpp In file included from /usr/include/c++/12/vector:70, from /usr/include/clipper/ccp4/ccp4_utils.h:49, from /usr/include/clipper/clipper-ccp4.h:7, @@ -878,18 +923,6 @@ /usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1032 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {clipper::Atom}; _Tp = clipper::Atom; _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>:: - | ^~~~~~~~~~~~~~~~~~~ -/usr/include/c++/12/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {clipper::Atom}; _Tp = clipper::Atom; _Alloc = std::allocator]’: -/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)...); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 71%] Building CXX object CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o -/usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o -c /build/libpdb-redo-3.0.5/src/Statistics.cpp -[ 78%] Building CXX object CMakeFiles/pdb-redo.dir/src/Symmetry-2.cpp.o -/usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/Symmetry-2.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Symmetry-2.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Symmetry-2.cpp.o -c /build/libpdb-redo-3.0.5/src/Symmetry-2.cpp In file included from /usr/include/c++/12/bits/stl_algobase.h:64, from /usr/include/c++/12/string:50, from /usr/include/c++/12/bits/locale_classes.h:40, @@ -903,29 +936,12 @@ /usr/include/c++/12/bits/stl_pair.h:741:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 741 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ -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, - from /usr/include/cif++/datablock.hpp:29, - from /usr/include/cif++/file.hpp:32, - from /usr/include/cif++.hpp:30, - from /build/libpdb-redo-3.0.5/src/Symmetry-2.cpp:30: -/usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {clipper::Coord_orth}; _Tp = clipper::Coord_orth; _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 = {clipper::Coord_orth}; _Tp = clipper::Coord_orth; _Alloc = std::allocator]’, - inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = clipper::Coord_orth; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, - inlined from ‘clipper::Coord_orth pdb_redo::CalculateOffsetForCell(const cif::mm::structure&, const clipper::Spacegroup&, const clipper::Cell&)’ at /build/libpdb-redo-3.0.5/src/Symmetry-2.cpp:59:22: -/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)...); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {clipper::RTop_orth}; _Tp = clipper::RTop_orth; _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 +/usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {clipper::Atom}; _Tp = clipper::Atom; _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>:: | ^~~~~~~~~~~~~~~~~~~ -/usr/include/c++/12/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {clipper::RTop_orth}; _Tp = clipper::RTop_orth; _Alloc = std::allocator]’: -/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 +/usr/include/c++/12/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {clipper::Atom}; _Tp = clipper::Atom; _Alloc = std::allocator]’: +/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 file included from /usr/include/c++/12/bits/stl_algo.h:60, @@ -945,6 +961,8 @@ 1802 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 +[ 78%] Building CXX object CMakeFiles/pdb-redo.dir/src/Symmetry-2.cpp.o +/usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/Symmetry-2.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Symmetry-2.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Symmetry-2.cpp.o -c /build/libpdb-redo-3.0.5/src/Symmetry-2.cpp /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1908 | __introsort_loop(_RandomAccessIterator __first, @@ -1024,8 +1042,6 @@ /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)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 92%] Building CXX object CMakeFiles/pdb-redo.dir/src/Restraints.cpp.o -/usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/Restraints.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Restraints.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Restraints.cpp.o -c /build/libpdb-redo-3.0.5/src/Restraints.cpp In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = std::__cxx11::basic_string; _Tp = std::pair; _Compare = std::less >; _Alloc = std::allocator, std::pair > >]’, inlined from ‘void pdb_redo::StatsCollector::initialize()’ at /build/libpdb-redo-3.0.5/src/Statistics.cpp:402:21: /usr/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, std::pair >, std::_Select1st, std::pair > >, std::less >, std::allocator, std::pair > > >::const_iterator’ changed in GCC 7.1 @@ -1089,6 +1105,33 @@ from /usr/include/cif++/datablock.hpp:29, from /usr/include/cif++/file.hpp:32, from /usr/include/cif++.hpp:30, + from /build/libpdb-redo-3.0.5/src/Symmetry-2.cpp:30: +/usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {clipper::Coord_orth}; _Tp = clipper::Coord_orth; _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 = {clipper::Coord_orth}; _Tp = clipper::Coord_orth; _Alloc = std::allocator]’, + inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = clipper::Coord_orth; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, + inlined from ‘clipper::Coord_orth pdb_redo::CalculateOffsetForCell(const cif::mm::structure&, const clipper::Spacegroup&, const clipper::Cell&)’ at /build/libpdb-redo-3.0.5/src/Symmetry-2.cpp:59:22: +/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)...); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {clipper::RTop_orth}; _Tp = clipper::RTop_orth; _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>:: + | ^~~~~~~~~~~~~~~~~~~ +/usr/include/c++/12/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {clipper::RTop_orth}; _Tp = clipper::RTop_orth; _Alloc = std::allocator]’: +/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)...); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 92%] Building CXX object CMakeFiles/pdb-redo.dir/src/Restraints.cpp.o +/usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_REGEX_DYN_LINK -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/libpdb-redo-3.0.5/include -I/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -fPIC -std=gnu++17 -MD -MT CMakeFiles/pdb-redo.dir/src/Restraints.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Restraints.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Restraints.cpp.o -c /build/libpdb-redo-3.0.5/src/Restraints.cpp +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, + from /usr/include/cif++/datablock.hpp:29, + from /usr/include/cif++/file.hpp:32, + from /usr/include/cif++.hpp:30, from /build/libpdb-redo-3.0.5/src/Restraints.cpp:34: /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 @@ -1189,22 +1232,22 @@ /usr/bin/cmake -E cmake_link_script CMakeFiles/pdb-redo.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/libpdb-redo-3.0.5=. -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 -Wl,-z,now -shared -Wl,-soname,libpdb-redo.so.3 -o libpdb-redo.so.3.0.5 "CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o" "CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o" "CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o" "CMakeFiles/pdb-redo.dir/src/Compound.cpp.o" "CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o" "CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o" "CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o" "CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o" "CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o" "CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o" "CMakeFiles/pdb-redo.dir/src/Symmetry-2.cpp.o" "CMakeFiles/pdb-redo.dir/src/Minimizer.cpp.o" "CMakeFiles/pdb-redo.dir/src/Restraints.cpp.o" /usr/lib/arm-linux-gnueabihf/libcifpp.so.5.0.7.1 /usr/lib/arm-linux-gnueabihf/libnewuoa.so.0.1.2 /usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so /usr/lib/arm-linux-gnueabihf/libclipper-contrib.so /usr/lib/arm-linux-gnueabihf/libclipper-core.so /usr/lib/arm-linux-gnueabihf/libccp4c.so /usr/lib/arm-linux-gnueabihf/libgsl.so /usr/lib/arm-linux-gnueabihf/libgslcblas.so /usr/lib/arm-linux-gnueabihf/libz.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.74.0 /usr/bin/cmake -E cmake_symlink_library libpdb-redo.so.3.0.5 libpdb-redo.so.3 libpdb-redo.so -make[3]: Leaving directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' +make[3]: uscita dalla directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» [100%] Built target pdb-redo -make[2]: Leaving directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' +make[2]: uscita dalla directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» /usr/bin/cmake -E cmake_progress_start /build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf/CMakeFiles 0 -make[1]: Leaving directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' +make[1]: uscita dalla directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install - cd obj-arm-linux-gnueabihf && make -j3 install DESTDIR=/build/libpdb-redo-3.0.5/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" -make[1]: Entering directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' + cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/build/libpdb-redo-3.0.5/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" +make[1]: ingresso nella directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» /usr/bin/cmake -S/build/libpdb-redo-3.0.5 -B/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall -make[2]: Entering directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' -make[2]: Nothing to be done for 'preinstall'. -make[2]: Leaving directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' +make[2]: ingresso nella directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» +make[2]: Nessuna operazione da eseguire per «preinstall». +make[2]: uscita dalla directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" @@ -1214,24 +1257,24 @@ -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/pdb-redo/pdb-redoTargets.cmake -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/pdb-redo/pdb-redoTargets-none.cmake -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo --- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/MapMaker.hpp --- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/SkipList.hpp +-- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Restraints.hpp +-- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Compound.hpp -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp +-- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/SkipList.hpp +-- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/MapMaker.hpp +-- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Minimizer.hpp -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/DistanceMap.hpp --- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Statistics.hpp -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/BondMap.hpp --- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Symmetry-2.hpp -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/ResolutionCalculator.hpp --- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Compound.hpp --- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/AtomShape.hpp --- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Minimizer.hpp --- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Restraints.hpp +-- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Statistics.hpp -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/ClipperWrapper.hpp +-- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Symmetry-2.hpp +-- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/AtomShape.hpp -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/exports.hpp -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/pdb-redo/pdb-redoConfig.cmake -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/pdb-redo/pdb-redoConfigVersion.cmake -- Installing: /build/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig/libpdb-redo.pc -make[1]: Leaving directory '/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' +make[1]: uscita dalla directory «/build/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf» dh_install dh_installdocs dh_installchangelogs @@ -1251,9 +1294,9 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'libpdb-redo-dev' in '../libpdb-redo-dev_3.0.5-2_armhf.deb'. -dpkg-deb: building package 'libpdb-redo3-dbgsym' in '../libpdb-redo3-dbgsym_3.0.5-2_armhf.deb'. -dpkg-deb: building package 'libpdb-redo3' in '../libpdb-redo3_3.0.5-2_armhf.deb'. +dpkg-deb: generazione del pacchetto "libpdb-redo3" in "../libpdb-redo3_3.0.5-2_armhf.deb". +dpkg-deb: generazione del pacchetto "libpdb-redo-dev" in "../libpdb-redo-dev_3.0.5-2_armhf.deb". +dpkg-deb: generazione del pacchetto "libpdb-redo3-dbgsym" in "../libpdb-redo3-dbgsym_3.0.5-2_armhf.deb". dpkg-genbuildinfo --build=binary -O../libpdb-redo_3.0.5-2_armhf.buildinfo dpkg-genchanges --build=binary -O../libpdb-redo_3.0.5-2_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1261,12 +1304,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/25434/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/25434/tmp/hooks/B01_cleanup finished 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/17092 and its subdirectories -I: Current time: Tue Jun 6 06:31:52 -12 2023 -I: pbuilder-time-stamp: 1686076312 +I: removing directory /srv/workspace/pbuilder/25434 and its subdirectories +I: Current time: Wed Jun 7 08:44:48 +14 2023 +I: pbuilder-time-stamp: 1686077088