Sun Apr 14 17:41:20 UTC 2024 I: starting to build libpdb-redo/unstable/armhf on jenkins on '2024-04-14 17:41' Sun Apr 14 17:41:20 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_14/2504/console.log Sun Apr 14 17:41:20 UTC 2024 I: Downloading source for unstable/libpdb-redo=3.0.5-2 --2024-04-14 17:41:20-- http://deb.debian.org/debian/pool/main/libp/libpdb-redo/libpdb-redo_3.0.5-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2288 (2.2K) [text/prs.lines.tag] Saving to: ‘libpdb-redo_3.0.5-2.dsc’ 0K .. 100% 226M=0s 2024-04-14 17:41:20 (226 MB/s) - ‘libpdb-redo_3.0.5-2.dsc’ saved [2288/2288] Sun Apr 14 17:41:20 UTC 2024 I: libpdb-redo_3.0.5-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libpdb-redo Binary: libpdb-redo-dev, libpdb-redo3 Architecture: any Version: 3.0.5-2 Maintainer: Debian Med Packaging Team Uploaders: Maarten L. Hekkelman Homepage: https://github.com/PDB-REDO/libpdb-redo Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/libpdb-redo Vcs-Git: https://salsa.debian.org/med-team/libpdb-redo.git Testsuite: autopkgtest Testsuite-Triggers: @builddeps@, mrc Build-Depends: debhelper-compat (= 13), libcifpp-dev (>= 5.0.7), cmake, libnewuoa-dev (>= 0.1.2), pkg-config, libgsl-dev, libboost-dev, libboost-regex-dev, libclipper-dev, zlib1g-dev, libccp4-dev (>= 6.5.1-5) Package-List: libpdb-redo-dev deb libdevel optional arch=any libpdb-redo3 deb libs optional arch=any Checksums-Sha1: e35e45e80dc2966df0e90c13c888b09bf63f5cf3 864015 libpdb-redo_3.0.5.orig.tar.gz 48e1a00a6a64ea016584807257287a58f28c4d2c 4160 libpdb-redo_3.0.5-2.debian.tar.xz Checksums-Sha256: 00222c575f1b291cc6847c0c2ec3f0ccd3b79adb2891ed20c8629061ca69f822 864015 libpdb-redo_3.0.5.orig.tar.gz 8f98088f835db964d4b276c9a05c758fa22ff07bc3f81f9ecab81c251105f6d5 4160 libpdb-redo_3.0.5-2.debian.tar.xz Files: bfdfcd5d48dbe171d7a2af4c5fd717dc 864015 libpdb-redo_3.0.5.orig.tar.gz 27749485b7fa028d7f67d83f0d7667d3 4160 libpdb-redo_3.0.5-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJKBAEBCgA0FiEEpytoJCJrtAfiS56AWHUD7Hrn7c4FAmPcxKIWHG1hYXJ0ZW5A aGVra2VsbWFuLmNvbQAKCRBYdQPseuftzj7bEADM0nKt0sKGWYtHDAmJHuGh0kBK rT6gEyFONYmHJP91QEho98PVQtmyvFu4Zcrwo29v2IjlIWb1zGClCr4u9zqa14Ti xk/VQYhWS368CDC2hfHKqULrBIIur50tMYBWvUFGU8C9l6DLcB/n0utnBsnxqhgS SZcG9w90vrQbhSj8vWkBB+bv9tkVS/Ii85mePl5i7BqEqipbKGaKi6pcmGV+vI6F QG3ZIk3owQjBHdEG87InIjRE2YuDwLr4JaXkERxwpQjSgC3v5ZE1rkqu5icgx4iC xraryRzhnFlAk/SQV0k39bDVbRUHRLcpv4Wv32Zpd4eo0W6wzzY7mGFFbp5oT9qt QgPB3oNgz/kDIpfV6bKJzwPk09IMFdUyK8iTlo0Yh40585MMisQCluMs+IevT+NE V6GTkKbGpsSN4AXQ/t1KCWKYAfmMzVVHfZdF5HNEq15xv6nlp45iUrHlUFA+cz8t ABeLVkBg8qLOG5+oS006B7PLdZ7+2JHEMjlprUHAxBFJdnpeDnJbRRxctrZhOzal yDUeXIytzKnPEIkE+JiQaxlRdD06KcIhI50VkKsVi0GlZNynx+1UI0UhYC/YndTu HEzG/NGAt7JtAdfevQan2c4c82prMFi5ODx7WiCzVb/QxRVbfTcZE0GGyAzowfUR FuMNCbad57u0slf8kQ== =MksD -----END PGP SIGNATURE----- Sun Apr 14 17:41:20 UTC 2024 I: Checking whether the package is not for us Sun Apr 14 17:41:20 UTC 2024 I: Starting 1st build on remote node virt32z-armhf-rb.debian.net. Sun Apr 14 17:41:20 UTC 2024 I: Preparing to do remote build '1' on virt32z-armhf-rb.debian.net. Sun Apr 14 17:45:40 UTC 2024 I: Deleting $TMPDIR on virt32z-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Apr 14 05:41:32 -12 2024 I: pbuilder-time-stamp: 1713116492 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [libpdb-redo_3.0.5-2.dsc] 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 Fri Feb 3 08:24:02 2023 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 ./libpdb-redo_3.0.5-2.dsc: no acceptable signature found dpkg-source: info: extracting libpdb-redo in libpdb-redo-3.0.5 dpkg-source: info: unpacking libpdb-redo_3.0.5.orig.tar.gz 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/4494/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' 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='unstable' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='78679abfbe94421c87b87fa5c1167942' 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='4494' 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.OWXFxRtM/pbuilderrc_a8QD --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.OWXFxRtM/b1 --logfile b1/build.log libpdb-redo_3.0.5-2.dsc' SUDO_GID='110' SUDO_UID='103' 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 virt32z 6.1.0-20-armmp-lpae #1 SMP Debian 6.1.85-1 (2024-04-11) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Apr 14 07:42 /bin -> usr/bin I: user script /srv/workspace/pbuilder/4494/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), libcifpp-dev (>= 5.0.7), cmake, libnewuoa-dev (>= 0.1.2), pkg-config, libgsl-dev, libboost-dev, libboost-regex-dev, libclipper-dev, zlib1g-dev, libccp4-dev (>= 6.5.1-5) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19442 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 libcifpp-dev (>= 5.0.7); however: Package libcifpp-dev is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libnewuoa-dev (>= 0.1.2); however: Package libnewuoa-dev is not installed. pbuilder-satisfydepends-dummy depends on pkg-config; however: Package pkg-config is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-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 libclipper-dev; however: Package libclipper-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libccp4-dev (>= 6.5.1-5); however: Package libccp4-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} fftw-dev{a} fftw2{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libboost-dev{a} libboost-regex-dev{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libbsd0{a} libccp4-data{a} libccp4-dev{a} libccp4c0{a} libccp4f0{a} libcifpp-data{a} libcifpp-dev{a} libcifpp5{a} libclipper-dev{a} libclipper2{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libevent-core-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libexpat1{a} libfabric1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgsl-dev{a} libgsl27{a} libgslcblas0{a} libgssapi-krb5-2{a} libhwloc-plugins{a} libhwloc15{a} libibverbs1{a} libicu-dev{a} libicu72{a} libjsoncpp25{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libmagic-mgc{a} libmagic1t64{a} libmmdb2-0{a} libmmdb2-dev{a} libnewuoa-dev{a} libnewuoa0{a} libnghttp2-14{a} libnl-3-200{a} libnl-route-3-200{a} libopenmpi3t64{a} libpciaccess0{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl5t64{a} librdmacm1t64{a} librhash0{a} librtmp1{a} libssh2-1t64{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1t64{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{a} m4{a} man-db{a} ocl-icd-libopencl1{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} sensible-utils{a} sfftw-dev{a} sfftw2{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl ibverbs-providers krb5-locales libarchive-cpio-perl libltdl-dev libmail-sendmail-perl libssl3 lynx psmisc publicsuffix wget 0 packages upgraded, 104 newly installed, 0 to remove and 0 not upgraded. Need to get 62.2 MB of archives. After unpacking 364 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main armhf libproc2-0 armhf 2:4.0.4-4 [55.7 kB] Get: 2 http://deb.debian.org/debian unstable/main armhf procps armhf 2:4.0.4-4 [864 kB] Get: 3 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.22 [22.4 kB] Get: 4 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3 [314 kB] Get: 5 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3 [98.1 kB] Get: 6 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3 [42.0 kB] Get: 7 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.21-14+b1 [157 kB] Get: 8 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b1 [65.7 kB] Get: 9 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-3+b1 [1091 kB] Get: 10 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40-5 [85.1 kB] Get: 11 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.7-2 [33.3 kB] Get: 12 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.12.1-1 [1375 kB] Get: 13 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 14 http://deb.debian.org/debian unstable/main armhf autoconf all 2.71-3 [332 kB] Get: 15 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian unstable/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian unstable/main armhf autopoint all 0.21-14 [496 kB] Get: 18 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-4+b1 [9070 kB] Get: 19 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.9.14+dfsg-1.3+b2 [599 kB] Get: 20 http://deb.debian.org/debian unstable/main armhf libarchive13t64 armhf 3.7.2-2 [304 kB] Get: 21 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b3 [284 kB] Get: 22 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.20.1-6+b1 [30.6 kB] Get: 23 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.0-2.4 [19.5 kB] Get: 24 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.20.1-6+b1 [75.5 kB] Get: 25 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-3 [7908 B] Get: 26 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.20.1-6+b1 [290 kB] Get: 27 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.20.1-6+b1 [112 kB] Get: 28 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.61.0-1 [63.0 kB] Get: 29 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1 [55.6 kB] Get: 30 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b4 [53.2 kB] Get: 31 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.0-4.1+b2 [198 kB] Get: 32 http://deb.debian.org/debian unstable/main armhf libcurl4t64 armhf 8.7.1-2 [391 kB] Get: 33 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.2-1 [83.5 kB] Get: 34 http://deb.debian.org/debian unstable/main armhf libjsoncpp25 armhf 1.9.5-6+b2 [69.9 kB] Get: 35 http://deb.debian.org/debian unstable/main armhf librhash0 armhf 1.4.3-3+b1 [143 kB] Get: 36 http://deb.debian.org/debian unstable/main armhf libuv1t64 armhf 1.48.0-1.1 [134 kB] Get: 37 http://deb.debian.org/debian unstable/main armhf cmake-data all 3.28.3-1 [2128 kB] Get: 38 http://deb.debian.org/debian unstable/main armhf cmake armhf 3.28.3-1+b2 [5115 kB] Get: 39 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.15.3 [88.0 kB] Get: 40 http://deb.debian.org/debian unstable/main armhf libtool all 2.4.7-7 [517 kB] Get: 41 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB] Get: 42 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 43 http://deb.debian.org/debian unstable/main armhf libsub-override-perl all 0.10-1 [10.6 kB] Get: 44 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 45 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 46 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.191-1+b1 [183 kB] Get: 47 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 48 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.21-14+b1 [1230 kB] Get: 49 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 50 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 51 http://deb.debian.org/debian unstable/main armhf debhelper all 13.15.3 [901 kB] Get: 52 http://deb.debian.org/debian unstable/main armhf libevent-core-2.1-7t64 armhf 2.1.12-stable-8.1+b3 [122 kB] Get: 53 http://deb.debian.org/debian unstable/main armhf libevent-pthreads-2.1-7t64 armhf 2.1.12-stable-8.1+b3 [53.8 kB] Get: 54 http://deb.debian.org/debian unstable/main armhf libnl-3-200 armhf 3.7.0-0.3 [51.7 kB] Get: 55 http://deb.debian.org/debian unstable/main armhf libnl-route-3-200 armhf 3.7.0-0.3 [153 kB] Get: 56 http://deb.debian.org/debian unstable/main armhf libibverbs1 armhf 50.0-2+b1 [55.0 kB] Get: 57 http://deb.debian.org/debian unstable/main armhf librdmacm1t64 armhf 50.0-2+b1 [62.1 kB] Get: 58 http://deb.debian.org/debian unstable/main armhf libfabric1 armhf 1.17.0-3+b1 [386 kB] Get: 59 http://deb.debian.org/debian unstable/main armhf libhwloc15 armhf 2.10.0-1+b1 [133 kB] Get: 60 http://deb.debian.org/debian unstable/main armhf libpciaccess0 armhf 0.17-3 [49.0 kB] Get: 61 http://deb.debian.org/debian unstable/main armhf libxau6 armhf 1:1.0.9-1 [19.0 kB] Get: 62 http://deb.debian.org/debian unstable/main armhf libbsd0 armhf 0.12.2-1 [127 kB] Get: 63 http://deb.debian.org/debian unstable/main armhf libxdmcp6 armhf 1:1.1.2-3 [24.9 kB] Get: 64 http://deb.debian.org/debian unstable/main armhf libxcb1 armhf 1.15-1 [140 kB] Get: 65 http://deb.debian.org/debian unstable/main armhf libx11-data all 2:1.8.7-1 [328 kB] Get: 66 http://deb.debian.org/debian unstable/main armhf libx11-6 armhf 2:1.8.7-1 [735 kB] Get: 67 http://deb.debian.org/debian unstable/main armhf libxext6 armhf 2:1.3.4-1+b1 [47.8 kB] Get: 68 http://deb.debian.org/debian unstable/main armhf libxnvctrl0 armhf 535.171.04-1 [12.8 kB] Get: 69 http://deb.debian.org/debian unstable/main armhf ocl-icd-libopencl1 armhf 2.3.2-1+b1 [37.3 kB] Get: 70 http://deb.debian.org/debian unstable/main armhf libhwloc-plugins armhf 2.10.0-1+b1 [16.1 kB] Get: 71 http://deb.debian.org/debian unstable/main armhf libopenmpi3t64 armhf 4.1.6-9 [2087 kB] Get: 72 http://deb.debian.org/debian unstable/main armhf fftw2 armhf 2.1.5-6+b1 [189 kB] Get: 73 http://deb.debian.org/debian unstable/main armhf fftw-dev armhf 2.1.5-6+b1 [219 kB] Get: 74 http://deb.debian.org/debian unstable/main armhf icu-devtools armhf 72.1-4+b1 [185 kB] Get: 75 http://deb.debian.org/debian unstable/main armhf libboost1.83-dev armhf 1.83.0-2.1+b1 [10.6 MB] Get: 76 http://deb.debian.org/debian unstable/main armhf libboost-dev armhf 1.83.0.2+b2 [3832 B] Get: 77 http://deb.debian.org/debian unstable/main armhf libboost-regex1.83.0 armhf 1.83.0-2.1+b1 [307 kB] Get: 78 http://deb.debian.org/debian unstable/main armhf libicu-dev armhf 72.1-4+b1 [10.1 MB] Get: 79 http://deb.debian.org/debian unstable/main armhf libboost-regex1.83-dev armhf 1.83.0-2.1+b1 [335 kB] Get: 80 http://deb.debian.org/debian unstable/main armhf libboost-regex-dev armhf 1.83.0.2+b2 [3856 B] Get: 81 http://deb.debian.org/debian unstable/main armhf libccp4-data all 8.0.0-2 [62.3 kB] Get: 82 http://deb.debian.org/debian unstable/main armhf libccp4c0 armhf 8.0.0-2 [75.2 kB] Get: 83 http://deb.debian.org/debian unstable/main armhf libgfortran5 armhf 14-20240330-1 [264 kB] Get: 84 http://deb.debian.org/debian unstable/main armhf libmmdb2-0 armhf 2.0.22-1+b1 [280 kB] Get: 85 http://deb.debian.org/debian unstable/main armhf libccp4f0 armhf 8.0.0-2 [194 kB] Get: 86 http://deb.debian.org/debian unstable/main armhf libccp4-dev armhf 8.0.0-2 [42.8 kB] Get: 87 http://deb.debian.org/debian unstable/main armhf libcifpp-data all 5.0.7.1-3 [452 kB] Get: 88 http://deb.debian.org/debian unstable/main armhf libcifpp5 armhf 5.0.7.1-3+b1 [741 kB] Get: 89 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg-3.1 [904 kB] Get: 90 http://deb.debian.org/debian unstable/main armhf libcifpp-dev armhf 5.0.7.1-3+b1 [86.5 kB] Get: 91 http://deb.debian.org/debian unstable/main armhf sfftw2 armhf 2.1.5-6+b1 [191 kB] Get: 92 http://deb.debian.org/debian unstable/main armhf libclipper2 armhf 2.1.20201109-2+b1 [1093 kB] Get: 93 http://deb.debian.org/debian unstable/main armhf libmmdb2-dev armhf 2.0.22-1+b1 [92.9 kB] Get: 94 http://deb.debian.org/debian unstable/main armhf sfftw-dev armhf 2.1.5-6+b1 [222 kB] Get: 95 http://deb.debian.org/debian unstable/main armhf libclipper-dev armhf 2.1.20201109-2+b1 [82.4 kB] Get: 96 http://deb.debian.org/debian unstable/main armhf libgslcblas0 armhf 2.7.1+dfsg-6+b1 [79.6 kB] Get: 97 http://deb.debian.org/debian unstable/main armhf libgsl27 armhf 2.7.1+dfsg-6+b1 [767 kB] Get: 98 http://deb.debian.org/debian unstable/main armhf libgsl-dev armhf 2.7.1+dfsg-6+b1 [975 kB] Get: 99 http://deb.debian.org/debian unstable/main armhf libnewuoa0 armhf 0.1.2-1 [15.4 kB] Get: 100 http://deb.debian.org/debian unstable/main armhf libnewuoa-dev armhf 0.1.2-1 [7504 B] Get: 101 http://deb.debian.org/debian unstable/main armhf libpkgconf3 armhf 1.8.1-1+b2 [31.9 kB] Get: 102 http://deb.debian.org/debian unstable/main armhf pkgconf-bin armhf 1.8.1-1+b2 [28.9 kB] Get: 103 http://deb.debian.org/debian unstable/main armhf pkgconf armhf 1.8.1-1+b2 [26.2 kB] Get: 104 http://deb.debian.org/debian unstable/main armhf pkg-config armhf 1.8.1-1+b2 [14.0 kB] Fetched 62.2 MB in 3s (18.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0:armhf. 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Selecting previously unselected package ocl-icd-libopencl1:armhf. Preparing to unpack .../068-ocl-icd-libopencl1_2.3.2-1+b1_armhf.deb ... Unpacking ocl-icd-libopencl1:armhf (2.3.2-1+b1) ... Selecting previously unselected package libhwloc-plugins:armhf. Preparing to unpack .../069-libhwloc-plugins_2.10.0-1+b1_armhf.deb ... Unpacking libhwloc-plugins:armhf (2.10.0-1+b1) ... Selecting previously unselected package libopenmpi3t64:armhf. Preparing to unpack .../070-libopenmpi3t64_4.1.6-9_armhf.deb ... Unpacking libopenmpi3t64:armhf (4.1.6-9) ... Selecting previously unselected package fftw2. Preparing to unpack .../071-fftw2_2.1.5-6+b1_armhf.deb ... Unpacking fftw2 (2.1.5-6+b1) ... Selecting previously unselected package fftw-dev. Preparing to unpack .../072-fftw-dev_2.1.5-6+b1_armhf.deb ... Unpacking fftw-dev (2.1.5-6+b1) ... Selecting previously unselected package icu-devtools. Preparing to unpack .../073-icu-devtools_72.1-4+b1_armhf.deb ... Unpacking icu-devtools (72.1-4+b1) ... Selecting previously unselected package libboost1.83-dev:armhf. Preparing to unpack .../074-libboost1.83-dev_1.83.0-2.1+b1_armhf.deb ... Unpacking libboost1.83-dev:armhf (1.83.0-2.1+b1) ... Selecting previously unselected package libboost-dev:armhf. Preparing to unpack .../075-libboost-dev_1.83.0.2+b2_armhf.deb ... Unpacking libboost-dev:armhf (1.83.0.2+b2) ... Selecting previously unselected package libboost-regex1.83.0:armhf. Preparing to unpack .../076-libboost-regex1.83.0_1.83.0-2.1+b1_armhf.deb ... Unpacking libboost-regex1.83.0:armhf (1.83.0-2.1+b1) ... Selecting previously unselected package libicu-dev:armhf. Preparing to unpack .../077-libicu-dev_72.1-4+b1_armhf.deb ... Unpacking libicu-dev:armhf (72.1-4+b1) ... Selecting previously unselected package libboost-regex1.83-dev:armhf. Preparing to unpack .../078-libboost-regex1.83-dev_1.83.0-2.1+b1_armhf.deb ... Unpacking libboost-regex1.83-dev:armhf (1.83.0-2.1+b1) ... 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Unpacking libccp4f0:armhf (8.0.0-2) ... Selecting previously unselected package libccp4-dev:armhf. Preparing to unpack .../085-libccp4-dev_8.0.0-2_armhf.deb ... Unpacking libccp4-dev:armhf (8.0.0-2) ... Selecting previously unselected package libcifpp-data. Preparing to unpack .../086-libcifpp-data_5.0.7.1-3_all.deb ... Unpacking libcifpp-data (5.0.7.1-3) ... Selecting previously unselected package libcifpp5:armhf. Preparing to unpack .../087-libcifpp5_5.0.7.1-3+b1_armhf.deb ... Unpacking libcifpp5:armhf (5.0.7.1-3+b1) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../088-zlib1g-dev_1%3a1.3.dfsg-3.1_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.3.dfsg-3.1) ... Selecting previously unselected package libcifpp-dev:armhf. Preparing to unpack .../089-libcifpp-dev_5.0.7.1-3+b1_armhf.deb ... Unpacking libcifpp-dev:armhf (5.0.7.1-3+b1) ... Selecting previously unselected package sfftw2. Preparing to unpack .../090-sfftw2_2.1.5-6+b1_armhf.deb ... Unpacking sfftw2 (2.1.5-6+b1) ... Selecting previously unselected package libclipper2:armhf. Preparing to unpack .../091-libclipper2_2.1.20201109-2+b1_armhf.deb ... Unpacking libclipper2:armhf (2.1.20201109-2+b1) ... Selecting previously unselected package libmmdb2-dev. Preparing to unpack .../092-libmmdb2-dev_2.0.22-1+b1_armhf.deb ... Unpacking libmmdb2-dev (2.0.22-1+b1) ... Selecting previously unselected package sfftw-dev. Preparing to unpack .../093-sfftw-dev_2.1.5-6+b1_armhf.deb ... Unpacking sfftw-dev (2.1.5-6+b1) ... Selecting previously unselected package libclipper-dev:armhf. Preparing to unpack .../094-libclipper-dev_2.1.20201109-2+b1_armhf.deb ... Unpacking libclipper-dev:armhf (2.1.20201109-2+b1) ... Selecting previously unselected package libgslcblas0:armhf. Preparing to unpack .../095-libgslcblas0_2.7.1+dfsg-6+b1_armhf.deb ... Unpacking libgslcblas0:armhf (2.7.1+dfsg-6+b1) ... Selecting previously unselected package libgsl27:armhf. 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Preparing to unpack .../102-pkgconf_1.8.1-1+b2_armhf.deb ... Unpacking pkgconf:armhf (1.8.1-1+b2) ... Selecting previously unselected package pkg-config:armhf. Preparing to unpack .../103-pkg-config_1.8.1-1+b2_armhf.deb ... Unpacking pkg-config:armhf (1.8.1-1+b2) ... Setting up libexpat1:armhf (2.6.2-1) ... Setting up libpipeline1:armhf (1.5.7-2) ... Setting up libpciaccess0:armhf (0.17-3) ... Setting up libxau6:armhf (1:1.0.9-1) ... Setting up libkeyutils1:armhf (1.6.3-3) ... Setting up libboost1.83-dev:armhf (1.83.0-2.1+b1) ... Setting up libicu72:armhf (72.1-4+b1) ... Setting up bsdextrautils (2.40-5) ... Setting up libgslcblas0:armhf (2.7.1+dfsg-6+b1) ... Setting up libmmdb2-0:armhf (2.0.22-1+b1) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libboost-regex1.83.0:armhf (1.83.0-2.1+b1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libbrotli1:armhf (1.1.0-2+b3) ... Setting up libuv1t64:armhf (1.48.0-1.1) ... Setting up libmagic1t64:armhf (1:5.45-3) ... Setting up libpsl5t64:armhf (0.21.2-1.1) ... Setting up libnghttp2-14:armhf (1.61.0-1) ... Setting up gettext-base (0.21-14+b1) ... Setting up libgsl27:armhf (2.7.1+dfsg-6+b1) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:armhf (1.47.0-2.4) ... Setting up file (1:5.45-3) ... Setting up libccp4-data (8.0.0-2) ... Setting up libnewuoa0 (0.1.2-1) ... Setting up libelf1t64:armhf (0.191-1+b1) ... Setting up libkrb5support0:armhf (1.20.1-6+b1) ... Setting up autotools-dev (20220109.1) ... Setting up libpkgconf3:armhf (1.8.1-1+b2) ... Setting up libx11-data (2:1.8.7-1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libproc2-0:armhf (2:4.0.4-4) ... Setting up libhwloc15:armhf (2.10.0-1+b1) ... Setting up libmmdb2-dev (2.0.22-1+b1) ... Setting up autopoint (0.21-14) ... Setting up libjsoncpp25:armhf (1.9.5-6+b2) ... Setting up icu-devtools (72.1-4+b1) ... Setting up libccp4c0:armhf (8.0.0-2) ... Setting up pkgconf-bin (1.8.1-1+b2) ... Setting up libk5crypto3:armhf (1.20.1-6+b1) ... Setting up libcifpp-data (5.0.7.1-3) ... Setting up libgfortran5:armhf (14-20240330-1) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:armhf (1:1.3.dfsg-3.1) ... Setting up dwz (0.15-1+b2) ... Setting up sensible-utils (0.0.22) ... Setting up ocl-icd-libopencl1:armhf (2.3.2-1+b1) ... Setting up librhash0:armhf (1.4.3-3+b1) ... Setting up libuchardet0:armhf (0.0.8-1+b1) ... Setting up procps (2:4.0.4-4) ... Setting up libnl-3-200:armhf (3.7.0-0.3) ... Setting up libsub-override-perl (0.10-1) ... Setting up cmake-data (3.28.3-1) ... Setting up libkrb5-3:armhf (1.20.1-6+b1) ... Setting up libboost-dev:armhf (1.83.0.2+b2) ... Setting up libevent-core-2.1-7t64:armhf (2.1.12-stable-8.1+b3) ... Setting up libssh2-1t64:armhf (1.11.0-4.1+b2) ... Setting up libbsd0:armhf (0.12.2-1) ... Setting up libicu-dev:armhf (72.1-4+b1) ... Setting up libxml2:armhf (2.9.14+dfsg-1.3+b2) ... Setting up libccp4f0:armhf (8.0.0-2) ... 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 libxdmcp6:armhf (1:1.1.2-3) ... Setting up libxcb1:armhf (1.15-1) ... Setting up gettext (0.21-14+b1) ... Setting up libgsl-dev (2.7.1+dfsg-6+b1) ... Setting up libccp4-dev:armhf (8.0.0-2) ... Setting up libtool (2.4.7-7) ... Setting up libevent-pthreads-2.1-7t64:armhf (2.1.12-stable-8.1+b3) ... Setting up libnewuoa-dev (0.1.2-1) ... Setting up pkgconf:armhf (1.8.1-1+b2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnl-route-3-200:armhf (3.7.0-0.3) ... Setting up libcifpp5:armhf (5.0.7.1-3+b1) ... Setting up dh-autoreconf (20) ... Setting up libgssapi-krb5-2:armhf (1.20.1-6+b1) ... Setting up libboost-regex1.83-dev:armhf (1.83.0-2.1+b1) ... Setting up pkg-config:armhf (1.8.1-1+b2) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-3+b1) ... Setting up libx11-6:armhf (2:1.8.7-1) ... Setting up libboost-regex-dev:armhf (1.83.0.2+b2) ... Setting up libarchive13t64:armhf (3.7.2-2) ... Setting up libibverbs1:armhf (50.0-2+b1) ... Setting up libcurl4t64:armhf (8.7.1-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libxext6:armhf (2:1.3.4-1+b1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libxnvctrl0:armhf (535.171.04-1) ... Setting up libcifpp-dev:armhf (5.0.7.1-3+b1) ... Setting up cmake (3.28.3-1+b2) ... Setting up librdmacm1t64:armhf (50.0-2+b1) ... Setting up libfabric1:armhf (1.17.0-3+b1) ... Setting up debhelper (13.15.3) ... Setting up libhwloc-plugins:armhf (2.10.0-1+b1) ... Setting up libopenmpi3t64:armhf (4.1.6-9) ... Setting up sfftw2 (2.1.5-6+b1) ... Setting up fftw2 (2.1.5-6+b1) ... Setting up sfftw-dev (2.1.5-6+b1) ... Setting up libclipper2:armhf (2.1.20201109-2+b1) ... Setting up fftw-dev (2.1.5-6+b1) ... Setting up libclipper-dev:armhf (2.1.20201109-2+b1) ... Processing triggers for libc-bin (2.37-17) ... 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/reproducible-path/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 dpkg-buildpackage: info: source package libpdb-redo dpkg-buildpackage: info: source version 3.0.5-2 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 debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.0.5' dh_auto_configure -- -DBUILD_SHARED_LIBS=ON -DPDB_REDO_BUILD_TESTS=ON cd obj-arm-linux-gnueabihf && DEB_PYTHON_INSTALL_LAYOUT=deb 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 13.2.0 -- The C compiler identification is GNU 13.2.0 -- 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 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Looking for ccp4/ccp4_general.h - /usr/include -- Found CCP4: /usr/lib/arm-linux-gnueabihf/libccp4c.so -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for clipper/clipper.h - /usr/include -- Found CCP4: /usr/lib/arm-linux-gnueabihf/libclipper-core.so -- FFTW2 libraries - /usr/lib/libsfftw.so -- - /usr/lib/libsrfftw.so -- FFTW2 header directory - /usr/include -- Performing Test _LINKING_WITH_CLIPPER_CORE -- Performing Test _LINKING_WITH_CLIPPER_CORE - Success -- Looking for clipper/clipper-ccp4.h - /usr/include -- Found CCP4: /usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so -- Looking for clipper/clipper-contrib.h - /usr/include -- Found CCP4: /usr/lib/arm-linux-gnueabihf/libclipper-contrib.so -- CCP4 include directory: /usr/include -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.3") -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.83.0/BoostConfig.cmake (found version "1.83.0") found components: regex -- Found GSL: /usr/include (found version "2.7.1") -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success -- Performing Test COMPILER_HAS_DEPRECATED_ATTR -- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success -- Configuring done (5.6s) -- Generating done (0.0s) 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 PDB_REDO_BUILD_TESTS -- Build files have been written to: /build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf make[1]: Leaving directory '/build/reproducible-path/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/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.0.5 -B/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf/CMakeFiles /build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' cd /build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.0.5 /build/reproducible-path/libpdb-redo-3.0.5 /build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf /build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf /build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf/CMakeFiles/pdb-redo.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/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/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' [ 14%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o [ 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_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/AtomShape.cpp /usr/bin/c++ -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/BondMap.cpp /usr/bin/c++ -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/ClipperWrapper.cpp /build/reproducible-path/libpdb-redo-3.0.5/src/AtomShape.cpp: In constructor ‘pdb_redo::AtomShapeImpl::AtomShapeImpl(cif::point, cif::atom_type, int, float, float, float, float, bool)’: /build/reproducible-path/libpdb-redo-3.0.5/src/AtomShape.cpp:477:23: warning: possibly dangling reference to a temporary [-Wdangling-reference] 477 | auto &D = | ^ /build/reproducible-path/libpdb-redo-3.0.5/src/AtomShape.cpp:478:76: note: the temporary was destroyed at the end of the full expression ‘cif::atom_type_traits(symbol).cif::atom_type_traits::elsf()’ 478 | mElectronScattering ? atom_type_traits(symbol).elsf() : atom_type_traits(symbol).wksf(charge); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/libpdb-redo-3.0.5/src/AtomShape.cpp: In constructor ‘pdb_redo::AtomShapeAnisoImpl::AtomShapeAnisoImpl(cif::point, cif::atom_type, int, clipper::U_aniso_orth&, float, float, float, bool)’: /build/reproducible-path/libpdb-redo-3.0.5/src/AtomShape.cpp:554:23: warning: possibly dangling reference to a temporary [-Wdangling-reference] 554 | auto &D = | ^ /build/reproducible-path/libpdb-redo-3.0.5/src/AtomShape.cpp:555:76: note: the temporary was destroyed at the end of the full expression ‘cif::atom_type_traits(symbol).cif::atom_type_traits::elsf()’ 555 | mElectronScattering ? atom_type_traits(symbol).elsf() : atom_type_traits(symbol).wksf(charge); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ [ 28%] Building CXX object CMakeFiles/pdb-redo.dir/src/Compound.cpp.o /usr/bin/c++ -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/Compound.cpp [ 35%] Building CXX object CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o /usr/bin/c++ -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/DistanceMap.cpp /build/reproducible-path/libpdb-redo-3.0.5/src/DistanceMap.cpp: In member function ‘std::vector pdb_redo::DistanceMap::near(const cif::mm::atom&, float) const’: /build/reproducible-path/libpdb-redo-3.0.5/src/DistanceMap.cpp:448:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 448 | auto &atom_site = atom.get_row().get_category(); | ^~~~~~~~~ /build/reproducible-path/libpdb-redo-3.0.5/src/DistanceMap.cpp:448:54: note: the temporary was destroyed at the end of the full expression ‘(& atom)->cif::mm::atom::get_row().cif::row_handle::get_category()’ 448 | auto &atom_site = atom.get_row().get_category(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ [ 42%] Building CXX object CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o /usr/bin/c++ -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/MapMaker.cpp In file included from /usr/include/c++/13/vector:72, 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/reproducible-path/libpdb-redo-3.0.5/include/pdb-redo/ClipperWrapper.hpp:29, from /build/reproducible-path/libpdb-redo-3.0.5/src/DistanceMap.cpp:32: /usr/include/c++/13/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++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/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++/13/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/reproducible-path/libpdb-redo-3.0.5/src/MapMaker.cpp: In member function ‘void pdb_redo::MapMaker::fixMTZ() [with FTYPE = float]’: /build/reproducible-path/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_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/Ramachandran.cpp [ 57%] Building CXX object CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o /usr/bin/c++ -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/ResolutionCalculator.cpp [ 64%] Building CXX object CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o /usr/bin/c++ -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/SkipList.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/clipper/ccp4/ccp4_utils.h:49, from /usr/include/clipper/clipper-ccp4.h:7, from /build/reproducible-path/libpdb-redo-3.0.5/src/MapMaker.cpp:31: /usr/include/c++/13/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++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void clipper::Array2d::resize(const int&, const int&, const T&) [with T = double]’ at /usr/include/clipper/core/clipper_types.h:379:40, inlined from ‘clipper::Matrix::Matrix(const int&, const int&, T) [with T = double]’ at /usr/include/clipper/core/clipper_types.h:406:27, inlined from ‘clipper::BasisFn_base::Fderiv::Fderiv(const int&)’ at /usr/include/clipper/core/resol_fn.h:80:43, inlined from ‘clipper::BasisFn_base::BasisFn_base(const int&)’ at /usr/include/clipper/core/resol_fn.h:86:46, inlined from ‘clipper::BasisFn_spline::BasisFn_spline(const clipper::HKL_data_base&, const int&, clipper::ftype)’ at /usr/include/clipper/core/resol_basisfn.h:136:120: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/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++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/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++/13/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_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/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_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/libpdb-redo-3.0.5/src/Symmetry-2.cpp In file included from /usr/include/c++/13/bits/stl_algobase.h:64, from /usr/include/c++/13/string:51, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/fstream:40, from /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:27: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:545:41: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /usr/include/c++/13/vector:72, 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/reproducible-path/libpdb-redo-3.0.5/src/Symmetry-2.cpp:30: /usr/include/c++/13/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++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | 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++/13/bits/stl_vector.h:1296:21, inlined from ‘clipper::Coord_orth pdb_redo::CalculateOffsetForCell(const cif::mm::structure&, const clipper::Spacegroup&, const clipper::Cell&)’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Symmetry-2.cpp:59:22: /usr/include/c++/13/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++/13/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++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/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++/13/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)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 85%] Building CXX object CMakeFiles/pdb-redo.dir/src/Minimizer.cpp.o /usr/bin/c++ -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/Minimizer.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Minimizer.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Minimizer.cpp.o -c /build/reproducible-path/libpdb-redo-3.0.5/src/Minimizer.cpp In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/functional:67, 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/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:30: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/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++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/cif++/forward_decl.hpp:32, from /usr/include/cif++/category.hpp:29: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {pdb_redo::ResidueStatistics}; _Tp = pdb_redo::ResidueStatistics; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const clipper::Coord_grid&, double&}; _Tp = pdb_redo::AtomGridData; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In file included from /usr/include/c++/13/set:62, from /usr/include/cif++/text.hpp:35, from /usr/include/cif++/item.hpp:31, from /usr/include/cif++/row.hpp:29, from /usr/include/cif++/condition.hpp:29: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::allocator >&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, std::pair >; _KeyOfValue = std::_Select1st, std::pair > >; _Compare = std::less >; _Alloc = std::allocator, std::pair > >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: 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 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = clipper::Coord_grid; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = pdb_redo::StatsCollector::cmpGPt; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, pdb_redo::StatsCollector::cmpGPt, std::allocator > >::const_iterator’ changed in GCC 7.1 In file included from /usr/include/c++/13/regex:56, from /usr/include/cif++/condition.hpp:34: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = clipper::Coord_grid; _Tp = double; _Compare = pdb_redo::StatsCollector::cmpGPt; _Alloc = std::allocator >]’, inlined from ‘pdb_redo::StatsCollector::sumDensity(std::vector&, GridPtDataMap&, std::map, std::vector >&) const::’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:967:32, inlined from ‘void pdb_redo::iterateGrid(const clipper::Coord_orth&, float, const clipper::Xmap&, F&&) [with F = StatsCollector::sumDensity(std::vector&, GridPtDataMap&, std::map, std::vector >&) const::; FTYPE = float]’ at /build/reproducible-path/libpdb-redo-3.0.5/include/pdb-redo/Statistics.hpp:76:9, inlined from ‘void pdb_redo::StatsCollector::sumDensity(std::vector&, GridPtDataMap&, std::map, std::vector >&) const’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:954:14: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, pdb_redo::StatsCollector::cmpGPt, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const clipper::Coord_grid&, double&}; _Tp = pdb_redo::AtomGridData; _Alloc = std::allocator]’, inlined from ‘pdb_redo::StatsCollector::sumDensity(std::vector&, GridPtDataMap&, std::map, std::vector >&) const::’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:968:29, inlined from ‘void pdb_redo::iterateGrid(const clipper::Coord_orth&, float, const clipper::Xmap&, F&&) [with F = StatsCollector::sumDensity(std::vector&, GridPtDataMap&, std::map, std::vector >&) const::; FTYPE = float]’ at /build/reproducible-path/libpdb-redo-3.0.5/include/pdb-redo/Statistics.hpp:76:9, inlined from ‘void pdb_redo::StatsCollector::sumDensity(std::vector&, GridPtDataMap&, std::map, std::vector >&) const’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:954:14: /usr/include/c++/13/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 member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘pdb_redo::StatsCollector::sumDensity(std::vector&, GridPtDataMap&, std::map, std::vector >&) const::’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:972:42, inlined from ‘void pdb_redo::iterateGrid(const clipper::Coord_orth&, float, const clipper::Xmap&, F&&) [with F = StatsCollector::sumDensity(std::vector&, GridPtDataMap&, std::map, std::vector >&) const::; FTYPE = float]’ at /build/reproducible-path/libpdb-redo-3.0.5/include/pdb-redo/Statistics.hpp:76:9, inlined from ‘void pdb_redo::StatsCollector::sumDensity(std::vector&, GridPtDataMap&, std::map, std::vector >&) const’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:954:14: /usr/include/c++/13/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++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {cif::mm::atom&, float&}; _Tp = pdb_redo::AtomData; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {cif::mm::atom&, float&}; _Tp = pdb_redo::AtomData; _Alloc = std::allocator]’: /usr/include/c++/13/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 member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {pdb_redo::ResidueStatistics}; _Tp = pdb_redo::ResidueStatistics; _Alloc = std::allocator]’, inlined from ‘std::vector pdb_redo::StatsCollector::collect(const residue_list&, pdb_redo::BoundingBox&, bool) const’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:819:22: /usr/include/c++/13/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 member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {pdb_redo::ResidueStatistics}; _Tp = pdb_redo::ResidueStatistics; _Alloc = std::allocator]’, inlined from ‘std::vector pdb_redo::StatsCollector::collect(const residue_list&, pdb_redo::BoundingBox&, bool) const’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:838:23: /usr/include/c++/13/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_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.0.5/include -I/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++17 -fPIC -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/reproducible-path/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/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:402:21: /usr/include/c++/13/bits/stl_map.h:513:44: 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 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘void pdb_redo::StatsCollector::initialize()’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:483:7: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘void pdb_redo::StatsCollector::initialize()’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:483:7: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 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/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:545:23: /usr/include/c++/13/bits/stl_map.h:513:44: 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 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘void pdb_redo::StatsCollector::initialize()’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:483:7: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = clipper::Coord_grid; _Tp = double; _Compare = pdb_redo::StatsCollector::cmpGPt; _Alloc = std::allocator >]’, inlined from ‘void pdb_redo::StatsCollector::collectSums(std::vector&, GridPtDataMap&) const’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Statistics.cpp:997:36: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, pdb_redo::StatsCollector::cmpGPt, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, 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/reproducible-path/libpdb-redo-3.0.5/src/Restraints.cpp:34: /usr/include/c++/13/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++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void clipper::Array2d::resize(const int&, const int&, const T&) [with T = double]’ at /usr/include/clipper/core/clipper_types.h:379:40, inlined from ‘clipper::Matrix::Matrix(const int&, const int&, T) [with T = double]’ at /usr/include/clipper/core/clipper_types.h:406:27, inlined from ‘std::vector clipper::Matrix::eigen(bool) [with T = double]’ at /usr/include/clipper/core/clipper_types.h:614:10: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/regex:59, from /build/reproducible-path/libpdb-redo-3.0.5/src/Minimizer.cpp:35: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {unsigned int, unsigned int, float&, float&}; _Tp = pdb_redo::BondRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {unsigned int, unsigned int, float&, float&}; _Tp = pdb_redo::BondRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/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++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {unsigned int, unsigned int, unsigned int, float&, float&}; _Tp = pdb_redo::AngleRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {unsigned int, unsigned int, unsigned int, float&, float&}; _Tp = pdb_redo::AngleRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/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++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {unsigned int, unsigned int, unsigned int, unsigned int, float&, float&, int&}; _Tp = pdb_redo::TorsionRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {unsigned int, unsigned int, unsigned int, unsigned int, float&, float&, int&}; _Tp = pdb_redo::TorsionRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/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++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {unsigned int, unsigned int, unsigned int, unsigned int, float}; _Tp = pdb_redo::ChiralVolumeRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::vector >, float&}; _Tp = pdb_redo::PlanarityRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {pdb_redo::TransPeptideRestraint}; _Tp = pdb_redo::TransPeptideRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {pdb_redo::PlanarityRestraint}; _Tp = pdb_redo::PlanarityRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {pdb_redo::PlanarityRestraint}; _Tp = pdb_redo::PlanarityRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/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++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {unsigned int&, unsigned int&, double&, double}; _Tp = pdb_redo::NonBondedContactRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {unsigned int, unsigned int, unsigned int, unsigned int, float&}; _Tp = pdb_redo::ChiralVolumeRestraint; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {unsigned int, unsigned int, unsigned int, unsigned int, float&}; _Tp = pdb_redo::ChiralVolumeRestraint; _Alloc = std::allocator]’, inlined from ‘void pdb_redo::Minimizer::addLinkRestraints(const cif::mm::residue&, const cif::mm::residue&, const std::string&, const std::string&, const pdb_redo::Link&)’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Minimizer.cpp:715:40: /usr/include/c++/13/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 member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {pdb_redo::TransPeptideRestraint}; _Tp = pdb_redo::TransPeptideRestraint; _Alloc = std::allocator]’, inlined from ‘virtual void pdb_redo::Minimizer::addPolySection(const cif::mm::polymer&, int, int)’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Minimizer.cpp:282:43: /usr/include/c++/13/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++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::back_insert_iterator<_Container>& std::back_insert_iterator<_Container>::operator=(typename _Container::value_type&&) [with _Container = std::vector >]’ at /usr/include/c++/13/bits/stl_iterator.h:747:22, inlined from ‘_OIter std::transform(_IIter, _IIter, _OIter, _UnaryOperation) [with _IIter = __gnu_cxx::__normal_iterator >; _OIter = back_insert_iterator > >; _UnaryOperation = pdb_redo::Minimizer::addDensityMap(const XMap&, float)::]’ at /usr/include/c++/13/bits/stl_algo.h:4309:12, inlined from ‘virtual void pdb_redo::Minimizer::addDensityMap(const XMap&, float)’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Minimizer.cpp:326:11: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {unsigned int, unsigned int, unsigned int, unsigned int, float}; _Tp = pdb_redo::ChiralVolumeRestraint; _Alloc = std::allocator]’, inlined from ‘virtual void pdb_redo::Minimizer::addResidue(const cif::mm::residue&)’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Minimizer.cpp:207:40: /usr/include/c++/13/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 member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::vector >, float&}; _Tp = pdb_redo::PlanarityRestraint; _Alloc = std::allocator]’, inlined from ‘virtual void pdb_redo::Minimizer::addResidue(const cif::mm::residue&)’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Minimizer.cpp:237:38: /usr/include/c++/13/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 member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {unsigned int&, unsigned int&, double&, double}; _Tp = pdb_redo::NonBondedContactRestraint; _Alloc = std::allocator]’, inlined from ‘pdb_redo::Minimizer::Finish()::’ at /build/reproducible-path/libpdb-redo-3.0.5/src/Minimizer.cpp:501:43: /usr/include/c++/13/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)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [100%] Linking CXX shared library libpdb-redo.so /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/reproducible-path/libpdb-redo-3.0.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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.1.83.0 /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/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' [100%] Built target pdb-redo make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/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/reproducible-path/libpdb-redo-3.0.5/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.0.5 -B/build/reproducible-path/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/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/libpdb-redo.so.3.0.5 -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/libpdb-redo.so.3 -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/libpdb-redo.so -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/pdb-redo/pdb-redoTargets.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/pdb-redo/pdb-redoTargets-none.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/SkipList.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Restraints.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/DistanceMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Symmetry-2.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Minimizer.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/AtomShape.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/ResolutionCalculator.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Compound.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/Statistics.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/BondMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/MapMaker.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/ClipperWrapper.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/include/pdb-redo/exports.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/pdb-redo/pdb-redoConfig.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/pdb-redo/pdb-redoConfigVersion.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.0.5/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig/libpdb-redo.pc make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.0.5/obj-arm-linux-gnueabihf' dh_install dh_installdocs dh_installchangelogs dh_installexamples 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: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libpdb-redo3/usr/lib/arm-linux-gnueabihf/libpdb-redo.so.3.0.5 found in none of the libraries dh_installdeb 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' in '../libpdb-redo3_3.0.5-2_armhf.deb'. dpkg-deb: building package '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) 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/4494 and its subdirectories I: Current time: Sun Apr 14 05:44:40 -12 2024 I: pbuilder-time-stamp: 1713116680 Sun Apr 14 17:45:43 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ff64a-armhf-rb.debian.net. Sun Apr 14 17:45:43 UTC 2024 I: Preparing to do remote build '2' on ff64a-armhf-rb.debian.net. Sun Apr 14 17:58:17 UTC 2024 I: Deleting $TMPDIR on ff64a-armhf-rb.debian.net. Sun Apr 14 17:58:20 UTC 2024 I: libpdb-redo_3.0.5-2_armhf.changes: Format: 1.8 Date: Fri, 03 Feb 2023 09:22:45 +0100 Source: libpdb-redo Binary: libpdb-redo-dev libpdb-redo3 libpdb-redo3-dbgsym Architecture: armhf Version: 3.0.5-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Maarten L. Hekkelman Description: libpdb-redo-dev - Development files for libpdb-redo libpdb-redo3 - Library file for libpdb-redo Changes: libpdb-redo (3.0.5-2) unstable; urgency=medium . * Fix libcifpp dependency. Checksums-Sha1: 19c65b758a6c4e25072289c152b41345521c224d 628108 libpdb-redo-dev_3.0.5-2_armhf.deb fc923c856811194482f9af189f835dc63f4ac96e 7191220 libpdb-redo3-dbgsym_3.0.5-2_armhf.deb 383493abc77428ee8aa2598fccccec5e27cc12f4 289056 libpdb-redo3_3.0.5-2_armhf.deb dc9d0c558d1daef3f54a233530d1114deb48aed3 7888 libpdb-redo_3.0.5-2_armhf.buildinfo Checksums-Sha256: 1943282b6141c84a33b755cd6d2d737f32b30e43ae532e1d7a9a2b55b315555c 628108 libpdb-redo-dev_3.0.5-2_armhf.deb 45bab90fd3067f7d3ed440e8a1a61bd6927506b173154137207807139acd99fe 7191220 libpdb-redo3-dbgsym_3.0.5-2_armhf.deb 2f176bcb40b0e7974f7a823ae106dbb64a275817d4e280b7ad36f65b92da2df6 289056 libpdb-redo3_3.0.5-2_armhf.deb 2e2954987f6eab3dd48b9f8665411cc1f6ec6ccb7c20e04b4ed20b3896abb89b 7888 libpdb-redo_3.0.5-2_armhf.buildinfo Files: 0267ffed53df2aca5a74fe3a7c774524 628108 libdevel optional libpdb-redo-dev_3.0.5-2_armhf.deb cce5cf827ac96d42c7780454fa6e2dfb 7191220 debug optional libpdb-redo3-dbgsym_3.0.5-2_armhf.deb 03d135ba3208aef222798e2bab78184d 289056 libs optional libpdb-redo3_3.0.5-2_armhf.deb 48d02dc0d0c93b6c9e7d03c07f6b9e88 7888 libs optional libpdb-redo_3.0.5-2_armhf.buildinfo Sun Apr 14 17:58:21 UTC 2024 I: diffoscope 264 will be used to compare the two builds: Running as unit: rb-diffoscope-armhf_14-2504.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.OWXFxRtM/libpdb-redo_3.0.5-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.OWXFxRtM/libpdb-redo_3.0.5-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.OWXFxRtM/libpdb-redo_3.0.5-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.OWXFxRtM/b1/libpdb-redo_3.0.5-2_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.OWXFxRtM/b2/libpdb-redo_3.0.5-2_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: 0.455s) 0.455s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.101s) 0.101s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 812ms CPU time consumed: 813ms Sun Apr 14 17:58:22 UTC 2024 I: diffoscope 264 found no differences in the changes files, and a .buildinfo file also exists. Sun Apr 14 17:58:22 UTC 2024 I: libpdb-redo from unstable built successfully and reproducibly on armhf. Sun Apr 14 17:58:24 UTC 2024 I: Submitting .buildinfo files to external archives: Sun Apr 14 17:58:24 UTC 2024 I: Submitting 12K b1/libpdb-redo_3.0.5-2_armhf.buildinfo.asc Sun Apr 14 17:58:25 UTC 2024 I: Submitting 12K b2/libpdb-redo_3.0.5-2_armhf.buildinfo.asc Sun Apr 14 17:58:26 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Apr 14 17:58:26 UTC 2024 I: Done submitting .buildinfo files. Sun Apr 14 17:58:26 UTC 2024 I: Removing signed libpdb-redo_3.0.5-2_armhf.buildinfo.asc files: removed './b1/libpdb-redo_3.0.5-2_armhf.buildinfo.asc' removed './b2/libpdb-redo_3.0.5-2_armhf.buildinfo.asc'