Wed Nov 6 18:11:17 UTC 2024 I: starting to build libpdb-redo/trixie/arm64 on jenkins on '2024-11-06 18:10' Wed Nov 6 18:11:17 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_18/65859/console.log Wed Nov 6 18:11:17 UTC 2024 I: Downloading source for trixie/libpdb-redo=3.1.5-5 --2024-11-06 18:11:17-- http://deb.debian.org/debian/pool/main/libp/libpdb-redo/libpdb-redo_3.1.5-5.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2296 (2.2K) [text/prs.lines.tag] Saving to: ‘libpdb-redo_3.1.5-5.dsc’ 0K .. 100% 259M=0s 2024-11-06 18:11:17 (259 MB/s) - ‘libpdb-redo_3.1.5-5.dsc’ saved [2296/2296] Wed Nov 6 18:11:17 UTC 2024 I: libpdb-redo_3.1.5-5.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libpdb-redo Binary: libpdb-redo-dev, libpdb-redo3 Architecture: any Version: 3.1.5-5 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 (>= 7), cmake, libnewuoa-dev (>= 0.1.2), pkgconf, libgsl-dev, libboost-dev, libboost-regex-dev, libeigen3-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: 63effd6eeaeac273a6fe5aa6ed83e5ea3cbeaf03 870508 libpdb-redo_3.1.5.orig.tar.gz 50ffb8a1fbfd78dd891e101e13b5886d46dae776 4300 libpdb-redo_3.1.5-5.debian.tar.xz Checksums-Sha256: bb9bdadea952c9057ab3649ccfe6e7383bb6cb5cfa1f9bdf6a5fd2f4faf83667 870508 libpdb-redo_3.1.5.orig.tar.gz 77c038d2e0a9c574652de0f771418c7e5ddf2a7edacc5dc7b549e2e8006f80d7 4300 libpdb-redo_3.1.5-5.debian.tar.xz Files: c0b761daafe29b26c96e2b08fdb44e00 870508 libpdb-redo_3.1.5.orig.tar.gz 6e1e0d65ccf0891d22037cd01bc8053b 4300 libpdb-redo_3.1.5-5.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJKBAEBCgA0FiEEpytoJCJrtAfiS56AWHUD7Hrn7c4FAmckAbAWHG1hYXJ0ZW5A aGVra2VsbWFuLmNvbQAKCRBYdQPseuftzi6rD/9EPVISn50KRSiKbch98+eKQrR4 7jdoOgzAqQx3cUGrTQi+eUcckpWRVNLEmqe0F+iBixq0sAPz0DNwWted5hw3FuvN te/5AL6SbJFj04K3wb++xuEtwtP05ZlCHS8g2LyeQf94dCtbY843Zzz4xArvGI3C QlwVmNsuptR4mMqPMPQ/5RkqVRevn9JLA5frW0CtvP5izb6VNKQz3OH/LNlpy5OB EqMwOj0AIkw2RHvA0QYW15YXNX1hD5EilnsHQyI8xiHFuRZC/Rg0s4KWyrbFZsR1 soAizzyQE8bV5Eps4HvoQLCSGzoqbfHo3AO46lnW9w2hUvYMfKsdbANB501ja0EW sZ4UBOwvrjYvq115+MCde5P01I6s7i+1R7+ZPYgijVjxB8vd9XHT83dA7BqqYszi ecH2VNmKlFOLIowW6nRthDjH0G81UMAJ1bRnAGTD75yPalrXRRWG1MZymGQX4zOC 8KwTch7YsEq1xw69llKkSEJmkObsPydwkcoovJZbwLyKgaJLJCZUcdjBYaEC2+2u K1v8hHAyvenqG9dBlqTGAxLpu3AjnfgLhBZGiUlpA+cfhjftdCGPhcBI04rzGh2w O/DYghiSDf0ufqXENn9zbHwucC4VrVhu2HLgx1LyDdq70u6b7OhUL/e0hmgqX69z Anmo/mNiN+k8d8n/zw== =5N5u -----END PGP SIGNATURE----- Wed Nov 6 18:11:17 UTC 2024 I: Checking whether the package is not for us Wed Nov 6 18:11:17 UTC 2024 I: Starting 1st build on remote node codethink04-arm64.debian.net. Wed Nov 6 18:11:17 UTC 2024 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Wed Nov 6 18:16:11 UTC 2024 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Nov 6 06:11:20 -12 2024 I: pbuilder-time-stamp: 1730916680 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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_3.1.5-5.dsc] I: copying [./libpdb-redo_3.1.5.orig.tar.gz] I: copying [./libpdb-redo_3.1.5-5.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Oct 31 22:16:16 2024 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_3.1.5-5.dsc: no acceptable signature found dpkg-source: info: extracting libpdb-redo in libpdb-redo-3.1.5 dpkg-source: info: unpacking libpdb-redo_3.1.5.orig.tar.gz dpkg-source: info: unpacking libpdb-redo_3.1.5-5.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2029815/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='de7b3694f48349aea9db705b3dd82c45' 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='2029815' 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.MBEyP0Bt/pbuilderrc_6xiS --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.MBEyP0Bt/b1 --logfile b1/build.log libpdb-redo_3.1.5-5.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.1.0-26-cloud-arm64 #1 SMP Debian 6.1.112-1 (2024-09-30) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2029815/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: arm64 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 (>= 7), cmake, libnewuoa-dev (>= 0.1.2), pkgconf, libgsl-dev, libboost-dev, libboost-regex-dev, libeigen3-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 ... 20089 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 (>= 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 pkgconf; however: Package pkgconf 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 libeigen3-dev; however: Package libeigen3-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} ibverbs-providers{a} icu-devtools{a} intltool-debian{a} libamd-comgr2{a} libamdhip64-5{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} libccp4-data{a} libccp4-dev{a} libccp4c0t64{a} libccp4f0t64{a} libcifpp-data{a} libcifpp-dev{a} libcifpp7{a} libclipper-dev{a} libclipper2{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm2{a} libedit2{a} libeigen3-dev{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} libgsl28{a} libgslcblas0{a} libgssapi-krb5-2{a} libhsa-runtime64-1{a} libhsakmt1{a} libhwloc-plugins{a} libhwloc15{a} libibmad5{a} libibumad3{a} libibverbs1{a} libicu-dev{a} libicu72{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libllvm17t64{a} libmagic-mgc{a} libmagic1t64{a} libmmdb2-0{a} libmmdb2-dev{a} libmunge2{a} libnewuoa-dev{a} libnewuoa0{a} libnghttp2-14{a} libnl-3-200{a} libnl-route-3-200{a} libnuma1{a} libopenmpi3t64{a} libpciaccess0{a} libpipeline1{a} libpkgconf3{a} libpmix2t64{a} libproc2-0{a} libpsl5t64{a} librdmacm1t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libucx0{a} libuv1t64{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{a} libz3-4{a} m4{a} man-db{a} ocl-icd-libopencl1{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 krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 122 newly installed, 0 to remove and 0 not upgraded. Need to get 121 MB of archives. After unpacking 667 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libproc2-0 arm64 2:4.0.4-6 [62.3 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 procps arm64 2:4.0.4-6 [872 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3+b1 [43.4 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40.2-9 [96.6 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3 [493 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 cmake-data all 3.30.5-1 [2223 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-5+b1 [9239 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.1 [630 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libarchive13t64 arm64 3.7.4-1 [323 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b5 [296 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.1-1+b1 [23.1 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get: 27 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8 [20.0 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8 [55.4 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 libldap-2.5-0 arm64 2.5.18+dfsg-3+b1 [175 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libcurl4t64 arm64 8.10.1-2 [322 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.3-2 [90.1 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libjsoncpp26 arm64 1.9.6-2 [73.1 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 librhash1 arm64 1.4.5-1 [129 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libuv1t64 arm64 1.48.0-6 [142 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 cmake arm64 3.30.5-1 [9403 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 48 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.20 [915 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 libevent-core-2.1-7t64 arm64 2.1.12-stable-10+b1 [126 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libevent-pthreads-2.1-7t64 arm64 2.1.12-stable-10+b1 [54.4 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 libnl-3-200 arm64 3.7.0-0.3+b1 [57.0 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 libnl-route-3-200 arm64 3.7.0-0.3+b1 [167 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 libibverbs1 arm64 52.0-2+b1 [58.8 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 ibverbs-providers arm64 52.0-2+b1 [321 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 librdmacm1t64 arm64 52.0-2+b1 [67.4 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 libfabric1 arm64 1.17.0-3.1 [480 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libhwloc15 arm64 2.11.2-1 [141 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libmunge2 arm64 0.5.15-4+b1 [19.4 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 libpciaccess0 arm64 0.17-3+b2 [51.2 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.2-3+b2 [24.4 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.7-1 [328 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.7-1+b1 [775 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libxext6 arm64 2:1.3.4-1+b2 [49.3 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libxnvctrl0 arm64 535.171.04-1+b1 [14.1 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 ocl-icd-libopencl1 arm64 2.3.2-1+b2 [39.3 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 libhwloc-plugins arm64 2.11.2-1 [17.9 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 libpmix2t64 arm64 5.0.3-2+b1 [588 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 libedit2 arm64 3.1-20240808-1 [89.2 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 libz3-4 arm64 4.8.12-3.1+b3 [6832 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 libllvm17t64 arm64 1:17.0.6-18 [21.3 MB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libamd-comgr2 arm64 6.0+git20231212.4510c28+dfsg-3+b2 [12.1 MB] Get: 79 http://deb.debian.org/debian trixie/main arm64 libdrm-common all 2.4.123-1 [8084 B] Get: 80 http://deb.debian.org/debian trixie/main arm64 libdrm2 arm64 2.4.123-1 [38.0 kB] Get: 81 http://deb.debian.org/debian trixie/main arm64 libdrm-amdgpu1 arm64 2.4.123-1 [21.6 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 libnuma1 arm64 2.0.18-1+b1 [21.8 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libhsakmt1 arm64 5.7.0-1 [57.6 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libhsa-runtime64-1 arm64 5.7.1-3 [278 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libamdhip64-5 arm64 5.7.1-5 [8823 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 libibumad3 arm64 52.0-2+b1 [27.1 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 libibmad5 arm64 52.0-2+b1 [41.5 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libucx0 arm64 1.17.0+ds-3 [959 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libopenmpi3t64 arm64 4.1.6-13.3 [2170 kB] Get: 90 http://deb.debian.org/debian trixie/main arm64 fftw2 arm64 2.1.5-7 [202 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 fftw-dev arm64 2.1.5-7 [242 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 icu-devtools arm64 72.1-5+b1 [195 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 libboost1.83-dev arm64 1.83.0-3.2 [10.6 MB] Get: 94 http://deb.debian.org/debian trixie/main arm64 libboost-dev arm64 1.83.0.2+b2 [3828 B] Get: 95 http://deb.debian.org/debian trixie/main arm64 libboost-regex1.83.0 arm64 1.83.0-3.2 [314 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 libicu-dev arm64 72.1-5+b1 [10.3 MB] Get: 97 http://deb.debian.org/debian trixie/main arm64 libboost-regex1.83-dev arm64 1.83.0-3.2 [335 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libboost-regex-dev arm64 1.83.0.2+b2 [3852 B] Get: 99 http://deb.debian.org/debian trixie/main arm64 libccp4-data all 8.0.0-4 [62.7 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 libccp4c0t64 arm64 8.0.0-4 [83.1 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-6 [361 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 libmmdb2-0 arm64 2.0.22-1+b2 [309 kB] Get: 103 http://deb.debian.org/debian trixie/main arm64 libccp4f0t64 arm64 8.0.0-4 [175 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 libccp4-dev arm64 8.0.0-4 [42.9 kB] Get: 105 http://deb.debian.org/debian trixie/main arm64 libcifpp-data all 7.0.7-3 [484 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libcifpp7 arm64 7.0.7-3 [858 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libcifpp-dev arm64 7.0.7-3 [111 kB] Get: 109 http://deb.debian.org/debian trixie/main arm64 sfftw2 arm64 2.1.5-7 [203 kB] Get: 110 http://deb.debian.org/debian trixie/main arm64 libclipper2 arm64 2.1.20201109-2+b3 [1102 kB] Get: 111 http://deb.debian.org/debian trixie/main arm64 libmmdb2-dev arm64 2.0.22-1+b2 [92.9 kB] Get: 112 http://deb.debian.org/debian trixie/main arm64 sfftw-dev arm64 2.1.5-7 [243 kB] Get: 113 http://deb.debian.org/debian trixie/main arm64 libclipper-dev arm64 2.1.20201109-2+b3 [82.4 kB] Get: 114 http://deb.debian.org/debian trixie/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 115 http://deb.debian.org/debian trixie/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 116 http://deb.debian.org/debian trixie/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 117 http://deb.debian.org/debian trixie/main arm64 libeigen3-dev all 3.4.0-4 [1041 kB] Get: 118 http://deb.debian.org/debian trixie/main arm64 libgslcblas0 arm64 2.8+dfsg-4 [84.1 kB] Get: 119 http://deb.debian.org/debian trixie/main arm64 libgsl28 arm64 2.8+dfsg-4 [881 kB] Get: 120 http://deb.debian.org/debian trixie/main arm64 libgsl-dev arm64 2.8+dfsg-4 [1117 kB] Get: 121 http://deb.debian.org/debian trixie/main arm64 libnewuoa0 arm64 0.1.2-1+b1 [16.3 kB] Get: 122 http://deb.debian.org/debian trixie/main arm64 libnewuoa-dev arm64 0.1.2-1+b1 [7808 B] Fetched 121 MB in 1s (93.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20089 files and directories currently installed.) Preparing to unpack .../000-libproc2-0_2%3a4.0.4-6_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../001-procps_2%3a4.0.4-6_arm64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../004-libmagic1t64_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../005-file_1%3a5.45-3+b1_arm64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../006-gettext-base_0.22.5-2_arm64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../007-libuchardet0_0.0.8-1+b2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../008-groff-base_1.23.0-5_arm64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../009-bsdextrautils_2.40.2-9_arm64.deb ... Unpacking bsdextrautils (2.40.2-9) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../010-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../011-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../012-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../013-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../014-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../015-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../016-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package cmake-data. Preparing to unpack .../017-cmake-data_3.30.5-1_all.deb ... Unpacking cmake-data (3.30.5-1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../018-libicu72_72.1-5+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-5+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../019-libxml2_2.12.7+dfsg+really2.9.14-0.1_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.1) ... Selecting previously unselected package libarchive13t64:arm64. Preparing to unpack .../020-libarchive13t64_3.7.4-1_arm64.deb ... Unpacking libarchive13t64:arm64 (3.7.4-1) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../021-libbrotli1_1.1.0-2+b5_arm64.deb ... Unpacking libbrotli1:arm64 (1.1.0-2+b5) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../022-libkrb5support0_1.21.3-3_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../023-libcom-err2_1.47.1-1+b1_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../024-libk5crypto3_1.21.3-3_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../025-libkeyutils1_1.6.3-4_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../026-libkrb5-3_1.21.3-3_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../027-libgssapi-krb5-2_1.21.3-3_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-3) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../028-libsasl2-modules-db_2.1.28+dfsg1-8_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../029-libsasl2-2_2.1.28+dfsg1-8_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:arm64. Preparing to unpack .../030-libldap-2.5-0_2.5.18+dfsg-3+b1_arm64.deb ... Unpacking libldap-2.5-0:arm64 (2.5.18+dfsg-3+b1) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../031-libnghttp2-14_1.64.0-1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.64.0-1) ... Selecting previously unselected package libpsl5t64:arm64. Preparing to unpack .../032-libpsl5t64_0.21.2-1.1+b1_arm64.deb ... Unpacking libpsl5t64:arm64 (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../033-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:arm64. Preparing to unpack .../034-libssh2-1t64_1.11.1-1_arm64.deb ... Unpacking libssh2-1t64:arm64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:arm64. Preparing to unpack .../035-libcurl4t64_8.10.1-2_arm64.deb ... Unpacking libcurl4t64:arm64 (8.10.1-2) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../036-libexpat1_2.6.3-2_arm64.deb ... Unpacking libexpat1:arm64 (2.6.3-2) ... Selecting previously unselected package libjsoncpp26:arm64. Preparing to unpack .../037-libjsoncpp26_1.9.6-2_arm64.deb ... Unpacking libjsoncpp26:arm64 (1.9.6-2) ... Selecting previously unselected package librhash1:arm64. Preparing to unpack .../038-librhash1_1.4.5-1_arm64.deb ... Unpacking librhash1:arm64 (1.4.5-1) ... Selecting previously unselected package libuv1t64:arm64. Preparing to unpack .../039-libuv1t64_1.48.0-6_arm64.deb ... Unpacking libuv1t64:arm64 (1.48.0-6) ... Selecting previously unselected package cmake. Preparing to unpack .../040-cmake_3.30.5-1_arm64.deb ... Unpacking cmake (3.30.5-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../041-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../042-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../043-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../044-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../045-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../046-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../047-libelf1t64_0.192-4_arm64.deb ... Unpacking libelf1t64:arm64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../048-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../049-gettext_0.22.5-2_arm64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../050-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../051-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../052-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package libevent-core-2.1-7t64:arm64. Preparing to unpack .../053-libevent-core-2.1-7t64_2.1.12-stable-10+b1_arm64.deb ... Unpacking libevent-core-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Selecting previously unselected package libevent-pthreads-2.1-7t64:arm64. Preparing to unpack .../054-libevent-pthreads-2.1-7t64_2.1.12-stable-10+b1_arm64.deb ... Unpacking libevent-pthreads-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Selecting previously unselected package libnl-3-200:arm64. Preparing to unpack .../055-libnl-3-200_3.7.0-0.3+b1_arm64.deb ... Unpacking libnl-3-200:arm64 (3.7.0-0.3+b1) ... Selecting previously unselected package libnl-route-3-200:arm64. Preparing to unpack .../056-libnl-route-3-200_3.7.0-0.3+b1_arm64.deb ... Unpacking libnl-route-3-200:arm64 (3.7.0-0.3+b1) ... Selecting previously unselected package libibverbs1:arm64. Preparing to unpack .../057-libibverbs1_52.0-2+b1_arm64.deb ... Unpacking libibverbs1:arm64 (52.0-2+b1) ... Selecting previously unselected package ibverbs-providers:arm64. Preparing to unpack .../058-ibverbs-providers_52.0-2+b1_arm64.deb ... Unpacking ibverbs-providers:arm64 (52.0-2+b1) ... Selecting previously unselected package librdmacm1t64:arm64. Preparing to unpack .../059-librdmacm1t64_52.0-2+b1_arm64.deb ... Unpacking librdmacm1t64:arm64 (52.0-2+b1) ... Selecting previously unselected package libfabric1:arm64. Preparing to unpack .../060-libfabric1_1.17.0-3.1_arm64.deb ... Unpacking libfabric1:arm64 (1.17.0-3.1) ... Selecting previously unselected package libhwloc15:arm64. Preparing to unpack .../061-libhwloc15_2.11.2-1_arm64.deb ... Unpacking libhwloc15:arm64 (2.11.2-1) ... Selecting previously unselected package libmunge2:arm64. Preparing to unpack .../062-libmunge2_0.5.15-4+b1_arm64.deb ... Unpacking libmunge2:arm64 (0.5.15-4+b1) ... Selecting previously unselected package libpciaccess0:arm64. Preparing to unpack .../063-libpciaccess0_0.17-3+b2_arm64.deb ... Unpacking libpciaccess0:arm64 (0.17-3+b2) ... Selecting previously unselected package libxau6:arm64. Preparing to unpack .../064-libxau6_1%3a1.0.11-1_arm64.deb ... Unpacking libxau6:arm64 (1:1.0.11-1) ... Selecting previously unselected package libxdmcp6:arm64. Preparing to unpack .../065-libxdmcp6_1%3a1.1.2-3+b2_arm64.deb ... Unpacking libxdmcp6:arm64 (1:1.1.2-3+b2) ... Selecting previously unselected package libxcb1:arm64. Preparing to unpack .../066-libxcb1_1.17.0-2+b1_arm64.deb ... Unpacking libxcb1:arm64 (1.17.0-2+b1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../067-libx11-data_2%3a1.8.7-1_all.deb ... Unpacking libx11-data (2:1.8.7-1) ... Selecting previously unselected package libx11-6:arm64. Preparing to unpack .../068-libx11-6_2%3a1.8.7-1+b1_arm64.deb ... Unpacking libx11-6:arm64 (2:1.8.7-1+b1) ... Selecting previously unselected package libxext6:arm64. Preparing to unpack .../069-libxext6_2%3a1.3.4-1+b2_arm64.deb ... Unpacking libxext6:arm64 (2:1.3.4-1+b2) ... Selecting previously unselected package libxnvctrl0:arm64. Preparing to unpack .../070-libxnvctrl0_535.171.04-1+b1_arm64.deb ... Unpacking libxnvctrl0:arm64 (535.171.04-1+b1) ... Selecting previously unselected package ocl-icd-libopencl1:arm64. Preparing to unpack .../071-ocl-icd-libopencl1_2.3.2-1+b2_arm64.deb ... Unpacking ocl-icd-libopencl1:arm64 (2.3.2-1+b2) ... Selecting previously unselected package libhwloc-plugins:arm64. Preparing to unpack .../072-libhwloc-plugins_2.11.2-1_arm64.deb ... Unpacking libhwloc-plugins:arm64 (2.11.2-1) ... Selecting previously unselected package libpmix2t64:arm64. Preparing to unpack .../073-libpmix2t64_5.0.3-2+b1_arm64.deb ... Unpacking libpmix2t64:arm64 (5.0.3-2+b1) ... Selecting previously unselected package libedit2:arm64. Preparing to unpack .../074-libedit2_3.1-20240808-1_arm64.deb ... Unpacking libedit2:arm64 (3.1-20240808-1) ... Selecting previously unselected package libz3-4:arm64. Preparing to unpack .../075-libz3-4_4.8.12-3.1+b3_arm64.deb ... Unpacking libz3-4:arm64 (4.8.12-3.1+b3) ... Selecting previously unselected package libllvm17t64:arm64. Preparing to unpack .../076-libllvm17t64_1%3a17.0.6-18_arm64.deb ... Unpacking libllvm17t64:arm64 (1:17.0.6-18) ... Selecting previously unselected package libamd-comgr2:arm64. Preparing to unpack .../077-libamd-comgr2_6.0+git20231212.4510c28+dfsg-3+b2_arm64.deb ... Unpacking libamd-comgr2:arm64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Selecting previously unselected package libdrm-common. 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Setting up libboost-regex-dev:arm64 (1.83.0.2+b2) ... Setting up libarchive13t64:arm64 (3.7.4-1) ... Setting up libdrm-amdgpu1:arm64 (2.4.123-1) ... Setting up libibverbs1:arm64 (52.0-2+b1) ... Setting up libcurl4t64:arm64 (8.10.1-2) ... Setting up libccp4-dev:arm64 (8.0.0-4) ... Setting up ibverbs-providers:arm64 (52.0-2+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhwloc-plugins:arm64 (2.11.2-1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libpmix2t64:arm64 (5.0.3-2+b1) ... Setting up libcifpp-dev:arm64 (7.0.7-3) ... Setting up cmake (3.30.5-1) ... Setting up librdmacm1t64:arm64 (52.0-2+b1) ... Setting up libhsakmt1:arm64 (5.7.0-1) ... Setting up libfabric1:arm64 (1.17.0-3.1) ... Setting up debhelper (13.20) ... Setting up libhsa-runtime64-1:arm64 (5.7.1-3) ... Setting up libamdhip64-5 (5.7.1-5) ... Setting up libucx0:arm64 (1.17.0+ds-3) ... Setting up libopenmpi3t64:arm64 (4.1.6-13.3) ... Setting up sfftw2 (2.1.5-7) ... Setting up fftw2 (2.1.5-7) ... Setting up sfftw-dev (2.1.5-7) ... Setting up libclipper2:arm64 (2.1.20201109-2+b3) ... Setting up fftw-dev (2.1.5-7) ... Setting up libclipper-dev:arm64 (2.1.20201109-2+b3) ... Processing triggers for libc-bin (2.40-3) ... 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-3.1.5/ && 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_3.1.5-5_source.changes dpkg-buildpackage: info: source package libpdb-redo dpkg-buildpackage: info: source version 3.1.5-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Maarten L. Hekkelman dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 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-3.1.5' dh_auto_configure -- -DBUILD_SHARED_LIBS=ON -DPDB_REDO_BUILD_TESTS=ON -DBUILD_MINIMIZER=OFF cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config 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/aarch64-linux-gnu -DBUILD_SHARED_LIBS=ON -DPDB_REDO_BUILD_TESTS=ON -DBUILD_MINIMIZER=OFF .. -- The CXX compiler identification is GNU 14.2.0 -- The C compiler identification is GNU 14.2.0 -- 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/aarch64-linux-gnu/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/aarch64-linux-gnu/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/aarch64-linux-gnu/libclipper-ccp4.so -- Looking for clipper/clipper-contrib.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-contrib.so -- CCP4 include directory: /usr/include -- Found ZLIB: /usr/lib/aarch64-linux-gnu/libz.so (found version "1.3.1") -- Git hash not found -- 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 -- Looking for ccp4/ccp4_general.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libccp4c.so -- Looking for clipper/clipper.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-core.so -- FFTW2 libraries - /usr/lib/libsfftw.so -- - /usr/lib/libsrfftw.so -- FFTW2 header directory - /usr/include -- Looking for clipper/clipper-ccp4.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-ccp4.so -- Looking for clipper/clipper-contrib.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-contrib.so -- CCP4 include directory: /usr/include -- Configuring done (8.2s) -- Generating done (0.1s) 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-3.1.5/obj-aarch64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5' dh_auto_build cd obj-aarch64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.1.5 -B/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/CMakeFiles /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.1.5 /build/reproducible-path/libpdb-redo-3.1.5 /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/CMakeFiles/pdb-redo.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' [ 5%] Building CXX object CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/AtomShape.cpp [ 11%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o [ 17%] Building CXX object CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/BondMap.cpp [ 23%] Building CXX object CMakeFiles/pdb-redo.dir/src/Compound.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/ClipperWrapper.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/Compound.cpp [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/DistanceMap.cpp [ 35%] Building CXX object CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o [ 41%] Building CXX object CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o [ 47%] Building CXX object CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/MapMaker.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/ResolutionCalculator.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/Ramachandran.cpp [ 52%] Building CXX object CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o [ 58%] Building CXX object CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/SkipList.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -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-3.1.5/src/Statistics.cpp [ 64%] Building CXX object CMakeFiles/pdb-redo.dir/src/TLS.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/TLS.cpp.o -MF CMakeFiles/pdb-redo.dir/src/TLS.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/TLS.cpp.o -c /build/reproducible-path/libpdb-redo-3.1.5/src/TLS.cpp [ 70%] Building CXX object CMakeFiles/pdb-redo.dir/src/Version.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.1.5/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/Version.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Version.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Version.cpp.o -c /build/reproducible-path/libpdb-redo-3.1.5/src/Version.cpp In file included from /usr/include/c++/14/bits/stl_algobase.h:64, from /usr/include/c++/14/string:51, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /build/reproducible-path/libpdb-redo-3.1.5/src/Statistics.cpp:27: /usr/include/c++/14/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-3.1.5/src/Statistics.cpp:542:41: required from here 542 | mRmsScaled[zsc.first] = std::make_pair(qa * mRMSDensityFd, qb * mRMSDensityFd); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 1132 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ /build/reproducible-path/libpdb-redo-3.1.5/src/MapMaker.cpp: In member function ‘void pdb_redo::MapMaker::fixMTZ() [with FTYPE = float]’: /build/reproducible-path/libpdb-redo-3.1.5/src/MapMaker.cpp:1135:22: 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 1135 | auto mFo = mFbData[ih] - mFdData[ih]; | ^~~ [ 76%] 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-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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.3.1 -o libpdb-redo.so.3.1.5 "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/TLS.cpp.o" "CMakeFiles/pdb-redo.dir/src/Version.cpp.o" /usr/lib/aarch64-linux-gnu/libcifpp.so.7.0.7 /usr/lib/aarch64-linux-gnu/libnewuoa.so.0.1.2 /usr/lib/aarch64-linux-gnu/libclipper-ccp4.so /usr/lib/aarch64-linux-gnu/libclipper-contrib.so /usr/lib/aarch64-linux-gnu/libclipper-core.so /usr/lib/aarch64-linux-gnu/libccp4c.so /usr/lib/aarch64-linux-gnu/libz.so /usr/bin/cmake -E cmake_symlink_library libpdb-redo.so.3.1.5 libpdb-redo.so.3.1 libpdb-redo.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' [ 76%] Built target pdb-redo make -f CMakeFiles/pdb-redo-unit-test.dir/build.make CMakeFiles/pdb-redo-unit-test.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' make -f examples/CMakeFiles/pdb-redo-example.dir/build.make examples/CMakeFiles/pdb-redo-example.dir/depend cd /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.1.5 /build/reproducible-path/libpdb-redo-3.1.5 /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/CMakeFiles/pdb-redo-unit-test.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.1.5 /build/reproducible-path/libpdb-redo-3.1.5/examples /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/examples /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/examples/CMakeFiles/pdb-redo-example.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' make -f CMakeFiles/pdb-redo-unit-test.dir/build.make CMakeFiles/pdb-redo-unit-test.dir/build make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' make -f examples/CMakeFiles/pdb-redo-example.dir/build.make examples/CMakeFiles/pdb-redo-example.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' [ 82%] Building CXX object CMakeFiles/pdb-redo-unit-test.dir/test/pdb-redo-unit-test.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.1.5/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT CMakeFiles/pdb-redo-unit-test.dir/test/pdb-redo-unit-test.cpp.o -MF CMakeFiles/pdb-redo-unit-test.dir/test/pdb-redo-unit-test.cpp.o.d -o CMakeFiles/pdb-redo-unit-test.dir/test/pdb-redo-unit-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.1.5/test/pdb-redo-unit-test.cpp [ 88%] Building CXX object examples/CMakeFiles/pdb-redo-example.dir/example.cpp.o cd /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/examples && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.1.5/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT examples/CMakeFiles/pdb-redo-example.dir/example.cpp.o -MF CMakeFiles/pdb-redo-example.dir/example.cpp.o.d -o CMakeFiles/pdb-redo-example.dir/example.cpp.o -c /build/reproducible-path/libpdb-redo-3.1.5/examples/example.cpp [ 94%] Linking CXX executable pdb-redo-example cd /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/pdb-redo-example.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now "CMakeFiles/pdb-redo-example.dir/example.cpp.o" -o pdb-redo-example -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu ../libpdb-redo.so.3.1.5 /usr/lib/aarch64-linux-gnu/libcifpp.so.7.0.7 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libnewuoa.so.0.1.2 /usr/lib/aarch64-linux-gnu/libclipper-ccp4.so /usr/lib/aarch64-linux-gnu/libclipper-contrib.so /usr/lib/aarch64-linux-gnu/libclipper-core.so /usr/lib/aarch64-linux-gnu/libccp4c.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' [ 94%] Built target pdb-redo-example [100%] Linking CXX executable pdb-redo-unit-test /usr/bin/cmake -E cmake_link_script CMakeFiles/pdb-redo-unit-test.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now "CMakeFiles/pdb-redo-unit-test.dir/test/pdb-redo-unit-test.cpp.o" -o pdb-redo-unit-test -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu libpdb-redo.so.3.1.5 /usr/lib/aarch64-linux-gnu/libcifpp.so.7.0.7 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libnewuoa.so.0.1.2 /usr/lib/aarch64-linux-gnu/libclipper-ccp4.so /usr/lib/aarch64-linux-gnu/libclipper-contrib.so /usr/lib/aarch64-linux-gnu/libclipper-core.so /usr/lib/aarch64-linux-gnu/libccp4c.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' [100%] Built target pdb-redo-unit-test make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' dh_auto_test cd obj-aarch64-linux-gnu && make -j12 test ARGS\+=--verbose ARGS\+=-j12 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j12 UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 1 Start 1: pdb-redo-unit-test 1: Test command: /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/pdb-redo-unit-test "--" "/build/reproducible-path/libpdb-redo-3.1.5/test" 1: Working Directory: /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu 1: Test timeout computed to be: 1500 test 2 Start 2: pdb-redo-example 2: Test command: /build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu/examples/pdb-redo-example 2: Working Directory: /build/reproducible-path/libpdb-redo-3.1.5/examples 2: Test timeout computed to be: 1500 2: 2: Configuration error: 2: 2: The attempt to retrieve compound information for "PRO" failed. 2: 2: This information is searched for in a CCD file called components.cif or 2: components.cif.gz which should be located in one of the following directories: 2: 2: "/var/cache/libcifpp" 2: "/usr/share/libcifpp" 2: 2: (Note that you can add a directory to the search paths by setting the 2: LIBCIFPP_DATA_DIR environmental variable) 2: 2: On Linux an optional cron script might have been installed that automatically updates 2: components.cif and mmCIF dictionary files. This script only works when the file 2: libcifpp.conf contains an uncommented line with the text: 2: 2: update=true 2: 2: If you do not have a working cron script, you can manually update the files 2: in /var/cache/libcifpp using the following commands: 2: 2: curl -o /var/cache/libcifpp/components.cif https://files.wwpdb.org/pub/pdb/data/monomers/components.cif 2: curl -o /var/cache/libcifpp/mmcif_pdbx.dic https://mmcif.wwpdb.org/dictionaries/ascii/mmcif_pdbx_v50.dic 2: curl -o /var/cache/libcifpp/mmcif_ma.dic https://github.com/ihmwg/ModelCIF/raw/master/dist/mmcif_ma.dic 2: 2: No compound factory objects are created since none of the data sources is found. 2: Missing compound bond info for ALA 2: Missing compound bond info for ARG 2: Missing compound bond info for ASN 2: Missing compound bond info for ASP 2: Missing compound bond info for CYS 2: Missing compound bond info for GLN 2: Missing compound bond info for GLU 2: Missing compound bond info for GLY 2: Missing compound bond info for ILE 2: Missing compound bond info for LEU 2: Missing compound bond info for LYS 2: Missing compound bond info for MET 2: Missing compound bond info for PHE 2: Missing compound bond info for PRO 2: Missing compound bond info for REA 2: Missing compound bond info for SER 2: Missing compound bond info for THR 2: Missing compound bond info for TRP 2: Missing compound bond info for TYR 2: Missing compound bond info for VAL 1: Running 7 test cases... 1: Reading map from "/build/reproducible-path/libpdb-redo-3.1.5/test/../examples/1cbs_map.mtz" 1: with labels: FB: FWT,PHWT 1: with labels: FD: DELFWT,PHDELWT 1: with labels: FA: FAN,PHAN 1: with labels: FO: FP,SIGFP 1: with labels: FC: FC_ALL,PHIC_ALL 2: Missing information for compound 'PRO' 2: Missing bond information for compound PRO 2: Missing information for compound 'ASN' 2: Missing bond information for compound ASN 2: Missing information for compound 'PHE' 2: Missing bond information for compound PHE 2: Missing information for compound 'SER' 2: Missing bond information for compound SER 2: Missing information for compound 'GLY' 2: Missing bond information for compound GLY 2: Missing information for compound 'TRP' 2: Missing bond information for compound TRP 2: Missing information for compound 'LYS' 2: Missing bond information for compound LYS 2: Missing information for compound 'ILE' 2: Missing bond information for compound ILE 2: Missing information for compound 'ARG' 2: Missing bond information for compound ARG 2: Missing information for compound 'GLU' 2: Missing bond information for compound GLU 2: Missing information for compound 'LEU' 2: Missing bond information for compound LEU 2: Missing information for compound 'VAL' 2: Missing bond information for compound VAL 2: Missing information for compound 'MET' 2: Missing bond information for compound MET 2: Missing information for compound 'ALA' 2: Missing bond information for compound ALA 2: Missing information for compound 'GLN' 2: Missing bond information for compound GLN 2: Missing information for compound 'ASP' 2: Missing bond information for compound ASP 2: Missing information for compound 'THR' 2: Missing bond information for compound THR 2: Missing information for compound 'TYR' 2: Missing bond information for compound TYR 2: Missing information for compound 'CYS' 2: Missing bond information for compound CYS 2: Missing information for compound 'REA' 2: Missing bond information for compound REA 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: nan 2: 0.962323 2: 0.961218 2: 1.2 2: 0.804563 2: 0.956281 2: 1.16442 2: 1.17157 2: 0.736907 2: 0.98891 2: 0.63726 2: 0.899501 2: 1.13951 2: 1.10304 2: 0.993256 2: 0.843706 2: 1.2 2: 0.394465 2: 0.622517 2: 1.13009 2: 0.811815 2: 1.12736 2: 1.04113 2: 1.15404 2: 0.966251 2: 0.264242 2: 0.896923 2: 0.947966 2: 0.759697 2: 0.714666 2: 0 2: 0 2: 0.58491 2: 0.883804 2: 0.6127 2: 0 2: 1.2 2: 0.816853 2: 1.2 2: 0.863403 2: 0.930392 2: 1.2 2: 0 2: 1.17888 2: 0.883952 2: 0.696931 2: 0.306483 2: 1.05932 2: 1.16462 2: 0.985143 2: 1.14584 2: 0.625949 2: 0.499085 2: 0.99743 2: 0.896065 2: 0.897962 2: 0 2: 1.2 2: 0.534169 2: 0.365134 2: 0.794768 2: 0.74366 2: 0.800937 2: 1.08071 2: 1.16712 2: 0.63442 2: 0.969202 2: 1.2 2: 0.984084 2: 0.359675 2: 0.780296 2: 0.601323 2: 0 2: 0.437713 2: 1.00255 2: 0.966266 2: 0.967664 2: 1.01481 2: 0.61683 2: 0.542967 2: 0.278281 2: 0.801292 2: 0 2: 0.611326 2: 0.396568 2: 0.641594 2: 0.460736 2: 0.794802 2: 0.0962642 2: 0.856458 2: 0.115798 2: 1.06967 2: 0.580771 2: 0.93537 2: 1.1918 2: 0.235196 2: 0.511667 2: 0.550865 2: 0.32908 2: 1.18026 2: 0.943706 1/2 Test #2: pdb-redo-example ................. Passed 1.11 sec 1: Read Xmaps with sampling rate: 1.5 1: stored resolution: 1.79991 1: calculated reshi = 1.80009 reslo = 7.99918 1: spacegroup: P 21 21 21 1: cell: Cell ( 45.65, 47.56, 77.61, 90, 90, 90) 1: grid: Nuvw = ( 80, 80, 132) 1: R-factor : 0.180853 1: Free R-factor : 0.184876 1: Loading component LYS... done 1: Loading component ILE... done 1: Loading component ARG... done 1: Loading component GLU... done 1: Loading component LEU... done 1: Loading component VAL... done 1: Loading component MET... done 1: Loading component ALA... done 1: Loading component GLN... done 1: Loading component ASP... done 1: Loading component THR... done 1: Loading component TYR... done 1: Loading component CYS... done 1: Loading component REA... done 1: Loading component HOH... 1: Configuration error: 1: 1: The attempt to retrieve compound information for "HOH" failed. 1: 1: This information is searched for in a CCD file called components.cif or 1: components.cif.gz which should be located in one of the following directories: 1: 1: "/var/cache/libcifpp" 1: "/usr/share/libcifpp" 1: 1: (Note that you can add a directory to the search paths by setting the 1: LIBCIFPP_DATA_DIR environmental variable) 1: 1: On Linux an optional cron script might have been installed that automatically updates 1: components.cif and mmCIF dictionary files. This script only works when the file 1: libcifpp.conf contains an uncommented line with the text: 1: 1: update=true 1: 1: If you do not have a working cron script, you can manually update the files 1: in /var/cache/libcifpp using the following commands: 1: 1: curl -o /var/cache/libcifpp/components.cif https://files.wwpdb.org/pub/pdb/data/monomers/components.cif 1: curl -o /var/cache/libcifpp/mmcif_pdbx.dic https://mmcif.wwpdb.org/dictionaries/ascii/mmcif_pdbx_v50.dic 1: curl -o /var/cache/libcifpp/mmcif_ma.dic https://github.com/ihmwg/ModelCIF/raw/master/dist/mmcif_ma.dic 1: 1: The current order of compound factory objects is: 1: 1: CCD components file: "/build/reproducible-path/libpdb-redo-3.1.5/test/minimal-components.cif" 1: done 1: 1: Intercept & gradient before LS: -0.076201 (0.000425224) 0.1134 (0.00066587) 1: 1: Rescale SD(delta-rho) using Q-Q plot for asym A: 1: ====================================================== 1: Input & updated SD(delta-rho): 0.123854 ; 0.137899 1: 1: 1: Intercept & gradient before LS: 0.112013 (0.00322152) -0.0975523 (0.00506053) 1: 1: Rescale SD(delta-rho) using Q-Q plot for asym B: 1: ====================================================== 1: Input & updated SD(delta-rho): 0.123854 ; 0.111772 1: 1: 1: Intercept & gradient before LS: -0.038699 (0.00144741) -0.0997851 (0.00226694) 1: 1: Rescale SD(delta-rho) using Q-Q plot for asym C: 1: ====================================================== 1: Input & updated SD(delta-rho): 0.123854 ; 0.111495 1: 1: Calculating radii with B Factor 24.9788 1: Radius for atom with type N is 1.03582 1: Radius for atom with type C is 1.04896 1: Radius for atom with type O is 1.02401 1: Radius for atom with type S is 1.01993 1: skipping water in bond map calculation 1: Loading component HOH... done 1: Unknown compound: HOH 1: Missing compound information for HOH 1: The asym ID's of ndb_poly_seq_scheme and pdbx_poly_seq_scheme are not equal, dropping ndb_poly_seq_scheme 1: Reading map from "/build/reproducible-path/libpdb-redo-3.1.5/test/../examples/1cbs_map.mtz" 1: with labels: FB: FWT,PHWT 1: with labels: FD: DELFWT,PHDELWT 1: with labels: FA: FAN,PHAN 1: with labels: FO: FP,SIGFP 1: with labels: FC: FC_ALL,PHIC_ALL 1: Read Xmaps with sampling rate: 0.75 1: stored resolution: 1.79991 1: calculated reshi = 1.80009 reslo = 7.99918 1: spacegroup: P 21 21 21 1: cell: Cell ( 45.65, 47.56, 77.61, 90, 90, 90) 1: grid: Nuvw = ( 40, 40, 72) 1: R-factor : 0.180853 1: Free R-factor : 0.184876 1: Loading component U_K... done 1: 1: Intercept & gradient before LS: -0.0615663 (0.000573911) 0.0873704 (0.000898727) 1: 1: Rescale SD(delta-rho) using Q-Q plot for asym A: 1: ====================================================== 1: Input & updated SD(delta-rho): 0.11509 ; 0.125146 1: 1: 1: Intercept & gradient before LS: 0.0679982 (0.0146148) -0.0420235 (0.0228119) 1: 1: Rescale SD(delta-rho) using Q-Q plot for asym B: 1: ====================================================== 1: Input & updated SD(delta-rho): 0.11509 ; 0.110254 1: 1: 1: Intercept & gradient before LS: -0.00860157 (0.000800545) -0.185508 (0.00125356) 1: 1: Rescale SD(delta-rho) using Q-Q plot for asym C: 1: ====================================================== 1: Input & updated SD(delta-rho): 0.11509 ; 0.09374 1: 1: Calculating radii with B Factor 24.9788 1: Radius for atom with type N is 1.03582 1: Radius for atom with type C is 1.04896 1: Radius for atom with type O is 1.02401 1: Radius for atom with type S is 1.01993 1: skipping water in bond map calculation 1: Missing compound bond info for U_K 1: Missing information for compound 'U_K' 1: Missing bond information for compound U_K 1: Loading component HOH... done 1: Unknown compound: HOH 1: Missing compound information for HOH 1: The asym ID's of ndb_poly_seq_scheme and pdbx_poly_seq_scheme are not equal, dropping ndb_poly_seq_scheme 1: skipping water in bond map calculation 1: skipping water in bond map calculation 1: 1: *** No errors detected 1:  2/2 Test #1: pdb-redo-unit-test ............... Passed 4.87 sec 100% tests passed, 0 tests failed out of 2 Total Test time (real) = 4.87 sec make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-aarch64-linux-gnu && make -j12 install DESTDIR=/build/reproducible-path/libpdb-redo-3.1.5/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.1.5 -B/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/lib/aarch64-linux-gnu/libpdb-redo.so.3.1.5 -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/lib/aarch64-linux-gnu/libpdb-redo.so.3.1 -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/lib/aarch64-linux-gnu/libpdb-redo.so -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/lib/aarch64-linux-gnu/cmake/pdb-redo/pdb-redoTargets.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/lib/aarch64-linux-gnu/cmake/pdb-redo/pdb-redoTargets-none.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/exports.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/Version.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/TLS.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/Statistics.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/SkipList.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/Restraints.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/ResolutionCalculator.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/Minimizer.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/MapMaker.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/DistanceMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/Compound.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/ClipperWrapper.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/BondMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/include/pdb-redo/AtomShape.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/lib/aarch64-linux-gnu/cmake/pdb-redo/pdb-redoConfig.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/lib/aarch64-linux-gnu/cmake/pdb-redo/pdb-redoConfigVersion.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.1.5/debian/tmp/usr/lib/aarch64-linux-gnu/pkgconfig/libpdb-redo.pc make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.1.5/obj-aarch64-linux-gnu' 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: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libpdb-redo-dev' in '../libpdb-redo-dev_3.1.5-5_arm64.deb'. dpkg-deb: building package 'libpdb-redo3' in '../libpdb-redo3_3.1.5-5_arm64.deb'. dpkg-deb: building package 'libpdb-redo3-dbgsym' in '../libpdb-redo3-dbgsym_3.1.5-5_arm64.deb'. dpkg-genbuildinfo --build=binary -O../libpdb-redo_3.1.5-5_arm64.buildinfo dpkg-genchanges --build=binary -O../libpdb-redo_3.1.5-5_arm64.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/2029815 and its subdirectories I: Current time: Wed Nov 6 06:16:10 -12 2024 I: pbuilder-time-stamp: 1730916970 Wed Nov 6 18:16:12 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink01-arm64.debian.net. Wed Nov 6 18:16:12 UTC 2024 I: Preparing to do remote build '2' on codethink01-arm64.debian.net. Wed Nov 6 18:24:17 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. Wed Nov 6 18:24:17 UTC 2024 I: libpdb-redo_3.1.5-5_arm64.changes: Format: 1.8 Date: Thu, 31 Oct 2024 23:10:45 +0100 Source: libpdb-redo Binary: libpdb-redo-dev libpdb-redo3 libpdb-redo3-dbgsym Architecture: arm64 Version: 3.1.5-5 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 Closes: 1086519 Changes: libpdb-redo (3.1.5-5) unstable; urgency=medium . * Remove incorrect dependency, Closes: #1086519 Checksums-Sha1: cea0dcb7b59a8de2a45180ad23cf226e2a40eb31 627056 libpdb-redo-dev_3.1.5-5_arm64.deb 351c13d5dc52b63421441b29f5af68e28d82900d 6251416 libpdb-redo3-dbgsym_3.1.5-5_arm64.deb b469d17f4f878767bcef6a3f3a8b7089345cb95a 274492 libpdb-redo3_3.1.5-5_arm64.deb 02c0ac5ceb2a79ce9768b04e81530d6d18515420 8501 libpdb-redo_3.1.5-5_arm64.buildinfo Checksums-Sha256: 6710821e6f492f922e25b76a790797d23033cb90600b4f90a01c777b66e1bb12 627056 libpdb-redo-dev_3.1.5-5_arm64.deb 49528ea919cb6aeea12375d8d876856b915a8b63ac0a05dd2ac29822d0276ec6 6251416 libpdb-redo3-dbgsym_3.1.5-5_arm64.deb 0047ac49cd392ca27b57a4e960a53a00830dc47e8606ae2bb7598fc481868655 274492 libpdb-redo3_3.1.5-5_arm64.deb 6b8a7ec31cb3efeb4d68ecd784d1c509d637d9ccd4144d1bd98339cb303aaa84 8501 libpdb-redo_3.1.5-5_arm64.buildinfo Files: 893463984808170c93f0cdd7ea8db866 627056 libdevel optional libpdb-redo-dev_3.1.5-5_arm64.deb bc74f6812520e7df9f3d4e338a725124 6251416 debug optional libpdb-redo3-dbgsym_3.1.5-5_arm64.deb b9dd8b41288a3f426e9c565efcd7f980 274492 libs optional libpdb-redo3_3.1.5-5_arm64.deb 47e9bac70937035340b51c077f626b50 8501 libs optional libpdb-redo_3.1.5-5_arm64.buildinfo Wed Nov 6 18:24:22 UTC 2024 I: diffoscope 282 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_18-65859.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.MBEyP0Bt/libpdb-redo_3.1.5-5.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.MBEyP0Bt/libpdb-redo_3.1.5-5.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.MBEyP0Bt/libpdb-redo_3.1.5-5.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.MBEyP0Bt/b1/libpdb-redo_3.1.5-5_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.MBEyP0Bt/b2/libpdb-redo_3.1.5-5_arm64.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: 0.513s) 0.513s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.103s) 0.103s 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: 4.587s CPU time consumed: 4.550s Wed Nov 6 18:24:32 UTC 2024 I: diffoscope 282 found no differences in the changes files, and a .buildinfo file also exists. Wed Nov 6 18:24:32 UTC 2024 I: libpdb-redo from trixie built successfully and reproducibly on arm64. Wed Nov 6 18:24:33 UTC 2024 I: Submitting .buildinfo files to external archives: Wed Nov 6 18:24:33 UTC 2024 I: Submitting 12K b1/libpdb-redo_3.1.5-5_arm64.buildinfo.asc Wed Nov 6 18:24:34 UTC 2024 I: Submitting 12K b2/libpdb-redo_3.1.5-5_arm64.buildinfo.asc Wed Nov 6 18:24:35 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Nov 6 18:24:35 UTC 2024 I: Done submitting .buildinfo files. Wed Nov 6 18:24:35 UTC 2024 I: Removing signed libpdb-redo_3.1.5-5_arm64.buildinfo.asc files: removed './b1/libpdb-redo_3.1.5-5_arm64.buildinfo.asc' removed './b2/libpdb-redo_3.1.5-5_arm64.buildinfo.asc'