Running as unit: rb-build-amd64_4-55659.service ==================================================================================== Fri Jun 6 05:16:53 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_4) on jenkins, called using "ionos15-amd64 ionos1-amd64" as arguments. Fri Jun 6 05:16:53 UTC 2025 - actually running "reproducible_build.sh" (md5sum 44ec6a3142940d5e9a7ab76543d96029) as "/tmp/jenkins-script-KffQgkVP" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Jun 6 05:16:53 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos15-amd64.debian.net is marked as down. Fri Jun 6 05:16:53 UTC 2025 - checking via ssh if ionos15-amd64.debian.net is up. removed '/tmp/read-only-fs-test-Fgg7lj' Fri Jun 6 05:16:54 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Fri Jun 6 05:16:54 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-HGE2AX' ok, let's check if libpdb-redo is building anywhere yet… ok, libpdb-redo is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of libpdb-redo in experimental on amd64 on jenkins now. 1st build will be done on ionos15-amd64.debian.net. 2nd build will be done on ionos1-amd64.debian.net. ============================================================================= Fri Jun 6 05:17:12 UTC 2025 I: starting to build libpdb-redo/experimental/amd64 on jenkins on '2025-06-06 05:16' Fri Jun 6 05:17:12 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_4/55659/console.log 1749187032 amd64 experimental libpdb-redo Fri Jun 6 05:17:12 UTC 2025 I: Downloading source for experimental/libpdb-redo=3.3.0-1 --2025-06-06 05:17:12-- http://cdn-fastly.deb.debian.org/debian/pool/main/libp/libpdb-redo/libpdb-redo_3.3.0-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2268 (2.2K) [text/prs.lines.tag] Saving to: ‘libpdb-redo_3.3.0-1.dsc’ 0K .. 100% 244M=0s 2025-06-06 05:17:13 (244 MB/s) - ‘libpdb-redo_3.3.0-1.dsc’ saved [2268/2268] --2025-06-06 05:17:12-- http://cdn-fastly.deb.debian.org/debian/pool/main/libp/libpdb-redo/libpdb-redo_3.3.0-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2268 (2.2K) [text/prs.lines.tag] Saving to: ‘libpdb-redo_3.3.0-1.dsc’ 0K .. 100% 244M=0s 2025-06-06 05:17:13 (244 MB/s) - ‘libpdb-redo_3.3.0-1.dsc’ saved [2268/2268] Fri Jun 6 05:17:13 UTC 2025 I: libpdb-redo_3.3.0-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libpdb-redo Binary: libpdb-redo-dev, libpdb-redo3.3 Architecture: any Version: 3.3.0-1 Maintainer: Debian Med Packaging Team Uploaders: Maarten L. Hekkelman Homepage: https://github.com/PDB-REDO/libpdb-redo Standards-Version: 4.7.0 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, libcatch2-dev, pkgconf, libgsl-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-redo3.3 deb libs optional arch=any Checksums-Sha1: bd699dedfb2ef17854d69a33778414ec7d23ff28 879329 libpdb-redo_3.3.0.orig.tar.gz 571a28dcdfebd21d4656074b630746e74a87b689 6808 libpdb-redo_3.3.0-1.debian.tar.xz Checksums-Sha256: 88bc7e1b1dba7e0a7b32aa3af9d43f3c0e67fedb520762b794506031b433bcc5 879329 libpdb-redo_3.3.0.orig.tar.gz 6f499e6b2bc18a0d52b566e2c3efc446952f2fe2ca496d79f27180963bb382a4 6808 libpdb-redo_3.3.0-1.debian.tar.xz Files: 7fbf91221b0dc69705c59db912393e7f 879329 libpdb-redo_3.3.0.orig.tar.gz 0951a5549879a8d4597de68ec127d3d7 6808 libpdb-redo_3.3.0-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEdyKS9veshfrgQdQe5fQ/nCc08ocFAmf074MSHG1lcmt5c0Bk ZWJpYW4ub3JnAAoJEOX0P5wnNPKHcDcP/RZZvNVJLOZXeHRWMNV3q47ocuJnZtrY DSvAL715iZXUccDNrCr24KaeqC6UiqcWTYr9zFs4DR50Qg23Ms1Dsb0/QSVyzi+K Z+/lk+241SZx+eimDxyt63hfL0moX0hdLNG+6rkoU7MXT2djlH2A6hTMBfNzANg4 +K3cDPL/N75PKal5zRicaHk94iaBCqNOTS5meWxH2/TGp4xb7eW/ee+IFcgYOtNP fWfPqSyEy04n+2qGe0gn26CoFpcXJ5BWVHI5dNDAfqAxe/PHPIaFC+iKSfXPT4bQ DTpPllwwDE72jse+Vyydw/1FIWkVtFiGLyHMTWlrcUc8Lf8tPf3qqxlUgZY5dmNK 66czOKGXFanC+NKpaY0H7CEHecLZD8iBCfirQ//fPJKSBsWwg9BpN0yK4dh7IsP4 2XD5Xbpzz0wn2hnN5knuF0wlc1ooaqkpmNSOeEIuk1IBf6i5o54ChpafZO6EMK4W w2Omndd8/Z5oKjEKyDho9OOD91pTT9aB9M8V0zBUNg1dR/3CQOgf1PfsOkHwHz6s wzRVglWTnVlXryHH6O0z4+vf6zk3w4I8ty+NQMKS9jrFOBu6CWK+MnuB20wOU7SC EwGclc8Tf+c7zd9nWoCI4zgYUr+diChRjgduWpAZkMVIeLhjNfd9vr5BKrG4zUZW JuxxG9Y++Idb =xWEK -----END PGP SIGNATURE----- Fri Jun 6 05:17:13 UTC 2025 I: Checking whether the package is not for us Fri Jun 6 05:17:13 UTC 2025 I: Starting 1st build on remote node ionos15-amd64.debian.net. Fri Jun 6 05:17:13 UTC 2025 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Fri Jun 6 05:17:13 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos15-amd64.debian.net is marked as down. Fri Jun 6 05:17:13 UTC 2025 - checking via ssh if ionos15-amd64.debian.net is up. removed '/tmp/read-only-fs-test-aTOUXV' ==================================================================================== Thu Jul 9 11:40:13 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos15-amd64, called using "1 libpdb-redo experimental /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR 3.3.0-1" as arguments. Thu Jul 9 11:40:13 UTC 2026 - actually running "reproducible_build.sh" (md5sum 44ec6a3142940d5e9a7ab76543d96029) as "/tmp/jenkins-script-cHGLBOUh" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu Jul 9 11:40:13 UTC 2026 I: Downloading source for experimental/libpdb-redo=3.3.0-1 Reading package lists... NOTICE: 'libpdb-redo' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libpdb-redo.git Please use: git clone https://salsa.debian.org/med-team/libpdb-redo.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 888 kB of source archives. Get:1 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (dsc) [2268 B] Get:2 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (tar) [879 kB] Get:3 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (diff) [6808 B] Fetched 888 kB in 0s (6409 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'libpdb-redo' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libpdb-redo.git Please use: git clone https://salsa.debian.org/med-team/libpdb-redo.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 888 kB of source archives. Get:1 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (dsc) [2268 B] Get:2 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (tar) [879 kB] Get:3 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (diff) [6808 B] Fetched 888 kB in 0s (6409 kB/s) Download complete and in download only mode ============================================================================= Building libpdb-redo in experimental on amd64 on ionos15-amd64 now. Date: Thu Jul 9 11:40:13 UTC 2026 Date UTC: Thu Jul 9 11:40:13 UTC 2026 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Wed Jul 8 23:40:13 -12 2026 I: pbuilder-time-stamp: 1783597213 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/experimental-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_3.3.0-1.dsc] I: copying [./libpdb-redo_3.3.0.orig.tar.gz] I: copying [./libpdb-redo_3.3.0-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./libpdb-redo_3.3.0-1.dsc: no acceptable signature found dpkg-source: info: extracting libpdb-redo in libpdb-redo-3.3.0 dpkg-source: info: unpacking libpdb-redo_3.3.0.orig.tar.gz dpkg-source: info: unpacking libpdb-redo_3.3.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2490048/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='experimental' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='b5a20f7ae57b4cfaa833d37fb4db3974' 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='2490048' 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.JZuHkcnR/pbuilderrc_Dxz2 --distribution experimental --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b1 --logfile b1/build.log libpdb-redo_3.3.0-1.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos15-amd64 6.12.22+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.22-1~bpo12+1 (2025-04-25) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2490048/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), libcifpp-dev (>= 7), cmake, libcatch2-dev, pkgconf, libgsl-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 ... 19850 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 libcatch2-dev; however: Package libcatch2-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-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-regex-dev{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libcatch2-dev{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} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgnutls30t64{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} libicu76{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} libllvm17t64{a} libmagic-mgc{a} libmagic1t64{a} libmmdb2-0{a} libmmdb2-dev{a} libmunge2{a} libnghttp2-14{a} libnghttp3-9{a} libnl-3-200{a} libnl-route-3-200{a} libnuma1{a} libopenmpi40{a} libp11-kit0{a} libpciaccess0{a} libpipeline1{a} libpkgconf3{a} libpmix2t64{a} libproc2-0{a} libpsl5t64{a} libpsm2-2{a} librdmacm1t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtasn1-6{a} libtool{a} libuchardet0{a} libucx0{a} libunistring5{a} libuv1t64{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{a} libz3-4{a} libze1{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, 129 newly installed, 0 to remove and 0 not upgraded. Need to get 137 MB of archives. After unpacking 701 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-8 [65.4 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-8 [881 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.25 [25.0 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2 [243 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41-5 [94.6 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-8 [294 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-4 [862 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.31.6-2 [2268 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-1 [698 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.4-3 [349 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.2-1+b1 [24.3 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 26 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libidn2-0 amd64 2.3.8-2 [109 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1.1 [76.0 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.4.8-2 [24.1 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.14.1-1 [391 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.7.1-1 [108 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.31.6-2 [12.0 MB] Get: 48 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 54 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2 [1680 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.2 [919 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b1 [54.3 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 libnl-3-200 amd64 3.7.0-2 [59.4 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libnl-route-3-200 amd64 3.7.0-2 [182 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libibverbs1 amd64 56.1-1 [62.4 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 ibverbs-providers amd64 56.1-1 [357 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libnuma1 amd64 2.0.19-1 [22.2 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 librdmacm1t64 amd64 56.1-1 [70.4 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 libfabric1 amd64 2.1.0-1.1 [706 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 libhwloc15 amd64 2.12.0-4 [164 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 libmunge2 amd64 0.5.16-1 [19.7 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b3 [51.9 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.12-1 [343 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libxnvctrl0 amd64 535.171.04-1+b2 [14.2 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libze1 amd64 1.20.6-1 [473 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 ocl-icd-libopencl1 amd64 2.3.3-1 [42.9 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libhwloc-plugins amd64 2.12.0-4 [23.5 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libpmix2t64 amd64 5.0.7-1 [660 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libllvm17t64 amd64 1:17.0.6-21+b1 [23.6 MB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.124-2 [8288 B] Get: 89 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.124-2 [39.0 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.124-2 [22.6 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 libhsakmt1 amd64 6.2.4+ds-1 [61.1 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libhsa-runtime64-1 amd64 6.1.2-3 [535 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 libamdhip64-5 amd64 5.7.1-6 [8924 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 libibumad3 amd64 56.1-1 [30.0 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 libibmad5 amd64 56.1-1 [44.5 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 libucx0 amd64 1.18.1+ds-2+b1 [1196 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 libopenmpi40 amd64 5.0.7-1 [2365 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 fftw2 amd64 2.1.5-7+b1 [251 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 fftw-dev amd64 2.1.5-7+b1 [291 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 libicu76 amd64 76.1-4 [9722 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 icu-devtools amd64 76.1-4 [215 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libboost1.83-dev amd64 1.83.0-4.2 [10.6 MB] Get: 103 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83.0 amd64 1.83.0-4.2 [330 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 libicu-dev amd64 76.1-4 [10.8 MB] Get: 105 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83-dev amd64 1.83.0-4.2 [346 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 libboost-regex-dev amd64 1.83.0.2+b2 [3864 B] Get: 107 http://deb.debian.org/debian unstable/main amd64 libcatch2-dev amd64 3.7.1-0.5 [613 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 libccp4-data all 8.0.0-4 [62.7 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 libccp4c0t64 amd64 8.0.0-4 [89.9 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-19 [836 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 libmmdb2-0 amd64 2.0.22-1+b2 [342 kB] Get: 112 http://deb.debian.org/debian unstable/main amd64 libccp4f0t64 amd64 8.0.0-4 [208 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libccp4-dev amd64 8.0.0-4 [42.9 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libcifpp-data all 7.0.9-1 [484 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libcifpp7 amd64 7.0.9-1 [1032 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 117 http://deb.debian.org/debian unstable/main amd64 libcifpp-dev amd64 7.0.9-1 [111 kB] Get: 118 http://deb.debian.org/debian unstable/main amd64 sfftw2 amd64 2.1.5-7+b1 [254 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libclipper2 amd64 2.1.20201109-2+b3 [1183 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libmmdb2-dev amd64 2.0.22-1+b2 [92.9 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 sfftw-dev amd64 2.1.5-7+b1 [293 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 libclipper-dev amd64 2.1.20201109-2+b3 [82.4 kB] Get: 123 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libeigen3-dev all 3.4.0-5 [1034 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 libgslcblas0 amd64 2.8+dfsg-5 [116 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libgsl28 amd64 2.8+dfsg-5 [994 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 libgsl-dev amd64 2.8+dfsg-5 [1222 kB] Fetched 137 MB in 4s (37.5 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (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 ... 19850 files and directories currently installed.) Preparing to unpack .../000-libproc2-0_2%3a4.0.4-8_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-8) ... Selecting previously unselected package procps. Preparing to unpack .../001-procps_2%3a4.0.4-8_amd64.deb ... Unpacking procps (2:4.0.4-8) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../004-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../005-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../006-gettext-base_0.23.1-2_amd64.deb ... Unpacking gettext-base (0.23.1-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../007-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../008-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../009-bsdextrautils_2.41-5_amd64.deb ... Unpacking bsdextrautils (2.41-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../010-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../011-man-db_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../012-m4_1.4.19-8_amd64.deb ... Unpacking m4 (1.4.19-8) ... Selecting previously unselected package autoconf. Preparing to unpack .../013-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../014-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../015-automake_1%3a1.17-4_all.deb ... Unpacking automake (1:1.17-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../016-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package cmake-data. Preparing to unpack .../017-cmake-data_3.31.6-2_all.deb ... Unpacking cmake-data (3.31.6-2) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../018-libxml2_2.12.7+dfsg+really2.9.14-1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-1) ... Selecting previously unselected package libarchive13t64:amd64. Preparing to unpack .../019-libarchive13t64_3.7.4-3_amd64.deb ... Unpacking libarchive13t64:amd64 (3.7.4-3) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../020-libbrotli1_1.1.0-2+b7_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b7) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../021-libkrb5support0_1.21.3-5_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-5) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../022-libcom-err2_1.47.2-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../023-libk5crypto3_1.21.3-5_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-5) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../024-libkeyutils1_1.6.3-6_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-6) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../025-libkrb5-3_1.21.3-5_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-5) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../026-libgssapi-krb5-2_1.21.3-5_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-5) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../027-libunistring5_1.3-2_amd64.deb ... Unpacking libunistring5:amd64 (1.3-2) ... Selecting previously unselected package libidn2-0:amd64. Preparing to unpack .../028-libidn2-0_2.3.8-2_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.8-2) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../029-libsasl2-modules-db_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../030-libsasl2-2_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:amd64. Preparing to unpack .../031-libldap2_2.6.10+dfsg-1_amd64.deb ... Unpacking libldap2:amd64 (2.6.10+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../032-libnghttp2-14_1.64.0-1.1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1.1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../033-libnghttp3-9_1.8.0-1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.8.0-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../034-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../035-libffi8_3.4.8-2_amd64.deb ... Unpacking libffi8:amd64 (3.4.8-2) ... Selecting previously unselected package libp11-kit0:amd64. Preparing to unpack .../036-libp11-kit0_0.25.5-3_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-3) ... Selecting previously unselected package libtasn1-6:amd64. Preparing to unpack .../037-libtasn1-6_4.20.0-2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.20.0-2) ... Selecting previously unselected package libgnutls30t64:amd64. Preparing to unpack .../038-libgnutls30t64_3.8.9-2_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.9-2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../039-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../040-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../041-libcurl4t64_8.14.1-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.14.1-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../042-libexpat1_2.7.1-1_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-1) ... Selecting previously unselected package libjsoncpp26:amd64. Preparing to unpack .../043-libjsoncpp26_1.9.6-3_amd64.deb ... Unpacking libjsoncpp26:amd64 (1.9.6-3) ... Selecting previously unselected package librhash1:amd64. Preparing to unpack .../044-librhash1_1.4.6-1_amd64.deb ... Unpacking librhash1:amd64 (1.4.6-1) ... Selecting previously unselected package libuv1t64:amd64. Preparing to unpack .../045-libuv1t64_1.50.0-2_amd64.deb ... Unpacking libuv1t64:amd64 (1.50.0-2) ... Selecting previously unselected package cmake. Preparing to unpack .../046-cmake_3.31.6-2_amd64.deb ... Unpacking cmake (3.31.6-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../047-libdebhelper-perl_13.24.2_all.deb ... Unpacking libdebhelper-perl (13.24.2) ... Selecting previously unselected package libtool. Preparing to unpack .../048-libtool_2.5.4-4_all.deb ... Unpacking libtool (2.5.4-4) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../049-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. 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Setting up libxext6:amd64 (2:1.3.4-1+b3) ... Setting up libcifpp7:amd64 (7.0.9-1) ... Setting up libidn2-0:amd64 (2.3.8-2) ... Setting up libccp4f0t64:amd64 (8.0.0-4) ... Setting up pkgconf:amd64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnl-route-3-200:amd64 (3.7.0-2) ... Setting up libxnvctrl0:amd64 (535.171.04-1+b2) ... Setting up dh-autoreconf (20) ... Setting up libllvm17t64:amd64 (1:17.0.6-21+b1) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Setting up libeigen3-dev (3.4.0-5) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up icu-devtools (76.1-4) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up libdrm2:amd64 (2.4.124-2) ... Setting up groff-base (1.23.0-9) ... Setting up libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Setting up libarchive13t64:amd64 (3.7.4-3) ... Setting up libicu-dev:amd64 (76.1-4) ... Setting up libdrm-amdgpu1:amd64 (2.4.124-2) ... Setting up libgnutls30t64:amd64 (3.8.9-2) ... Setting up libibverbs1:amd64 (56.1-1) ... Setting up libccp4-dev:amd64 (8.0.0-4) ... Setting up ibverbs-providers:amd64 (56.1-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libhwloc-plugins:amd64 (2.12.0-4) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libboost-regex1.83-dev:amd64 (1.83.0-4.2) ... Setting up libpmix2t64:amd64 (5.0.7-1) ... Setting up librdmacm1t64:amd64 (56.1-1) ... Setting up libboost-regex-dev:amd64 (1.83.0.2+b2) ... Setting up libhsakmt1:amd64 (6.2.4+ds-1) ... Setting up libfabric1:amd64 (2.1.0-1.1) ... Setting up libcurl4t64:amd64 (8.14.1-1) ... Setting up debhelper (13.24.2) ... Setting up libcifpp-dev:amd64 (7.0.9-1) ... Setting up libhsa-runtime64-1:amd64 (6.1.2-3) ... Setting up cmake (3.31.6-2) ... Setting up libamdhip64-5:amd64 (5.7.1-6) ... Setting up libucx0:amd64 (1.18.1+ds-2+b1) ... Setting up libopenmpi40:amd64 (5.0.7-1) ... Setting up sfftw2 (2.1.5-7+b1) ... Setting up fftw2 (2.1.5-7+b1) ... Setting up sfftw-dev (2.1.5-7+b1) ... Setting up libclipper2:amd64 (2.1.20201109-2+b3) ... Setting up fftw-dev (2.1.5-7+b1) ... Setting up libclipper-dev:amd64 (2.1.20201109-2+b3) ... Processing triggers for libc-bin (2.41-8) ... 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-3.3.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../libpdb-redo_3.3.0-1_source.changes dpkg-buildpackage: info: source package libpdb-redo dpkg-buildpackage: info: source version 3.3.0-1 dpkg-buildpackage: info: source distribution experimental dpkg-buildpackage: info: source changed by Maarten L. Hekkelman dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 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-3.3.0' dh_auto_configure -- -DBUILD_SHARED_LIBS=ON -DPDB_REDO_BUILD_TESTS=ON -DBUILD_MINIMIZER=OFF cd obj-x86_64-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/x86_64-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/x86_64-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/x86_64-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/x86_64-linux-gnu/libclipper-ccp4.so -- Looking for clipper/clipper-contrib.h - /usr/include -- Found CCP4: /usr/lib/x86_64-linux-gnu/libclipper-contrib.so -- CCP4 include directory: /usr/include -- Found GSL: /usr/include (found version "2.8") fof cifpp data dir: /usr/share/libcifpp -- 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 -- Configuring done (4.0s) -- 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-3.3.0/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0' dh_auto_build cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.3.0 -B/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles/pdb-redo.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o [ 35%] Building CXX object CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/DistanceMap.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/AtomShape.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/BondMap.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Ramachandran.cpp [ 47%] Building CXX object CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o [ 47%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Compound.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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Statistics.cpp [ 70%] Building CXX object CMakeFiles/pdb-redo.dir/src/Version.cpp.o [ 70%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Version.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/TLS.cpp [ 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-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,--dependency-file=CMakeFiles/pdb-redo.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libpdb-redo.so.3.3 -o libpdb-redo.so.3.3.0 "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/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/bin/cmake -E cmake_symlink_library libpdb-redo.so.3.3.0 libpdb-redo.so.3.3 libpdb-redo.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 76%] Built target pdb-redo make -f test/CMakeFiles/pdb-redo-unit-test.dir/build.make test/CMakeFiles/pdb-redo-unit-test.dir/depend make -f test/CMakeFiles/restr2ccd-test.dir/build.make test/CMakeFiles/restr2ccd-test.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/CMakeFiles/pdb-redo-unit-test.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/CMakeFiles/restr2ccd-test.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f test/CMakeFiles/pdb-redo-unit-test.dir/build.make test/CMakeFiles/pdb-redo-unit-test.dir/build make -f test/CMakeFiles/restr2ccd-test.dir/build.make test/CMakeFiles/restr2ccd-test.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 88%] Building CXX object test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o [ 88%] Building CXX object test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.3.0/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -MF CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o.d -o CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.3.0/test/restr2ccd-test.cpp cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.3.0/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -MF CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o.d -o CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.3.0/test/pdb-redo-unit-test.cpp [ 94%] Linking CXX executable restr2ccd-test cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/restr2ccd-test.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/restr2ccd-test.dir/link.d "CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o" -o restr2ccd-test -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu ../libpdb-redo.so.3.3.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 94%] Built target restr2ccd-test [100%] Linking CXX executable pdb-redo-unit-test cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/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-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pdb-redo-unit-test.dir/link.d "CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o" -o pdb-redo-unit-test -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu ../libpdb-redo.so.3.3.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [100%] Built target pdb-redo-unit-test make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' dh_auto_test cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j42 UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-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 Connected to MAKE jobserver test 1 Start 1: pdb-redo-unit-test 1: Test command: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/pdb-redo-unit-test "--data-dir" "/build/reproducible-path/libpdb-redo-3.3.0/test" 1: Working Directory: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test 1: Test timeout computed to be: 1500 test 2 Start 2: restr2ccd-test 2: Test command: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/restr2ccd-test "--data-dir" "/build/reproducible-path/libpdb-redo-3.3.0/test" 2: Working Directory: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test 2: Test timeout computed to be: 1500 2: CCD components.cif resource was not found 2: Randomness seeded to: 3795648935 2: Could not load the mon_lib_list.cif file from CCP4, please make sure you have installed CCP4 and sourced the environment. 2: 2: Configuration error: 2: 2: The attempt to retrieve compound information for "Z57-a" 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: The current order of compound factory objects is: 2: 2: CCD components file: "/build/reproducible-path/libpdb-redo-3.3.0/test/minimal-components.cif" 2: =============================================================================== 2: All tests passed (12 assertions in 1 test case) 2: 1/2 Test #2: restr2ccd-test ................... Passed 0.01 sec 1: Randomness seeded to: 412909094 1: Reading map from "/build/reproducible-path/libpdb-redo-3.3.0/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: 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... done 1: 1: Intercept & gradient before LS: -0.0761355 (0.000425541) 0.113376 (0.000666368) 1: 1: Rescale SD(delta-rho) using Q-Q plot for asym A: 1: ====================================================== 1: Input & updated SD(delta-rho): 0.123854 ; 0.137896 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: 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-3.3.0/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... 1: Configuration error: 1: 1: The attempt to retrieve compound information for "U_K" 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-3.3.0/test/minimal-components.cif" 1: 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 (0.000800546) -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: 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: All tests passed (738136 assertions in 7 test cases) 1: 2/2 Test #1: pdb-redo-unit-test ............... Passed 2.52 sec 100% tests passed, 0 tests failed out of 2 Total Test time (real) = 2.52 sec make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/libpdb-redo-3.3.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.3.0 -B/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/libpdb-redo.so.3.3.0 -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/libpdb-redo.so.3.3 -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/libpdb-redo.so -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets-none.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Restraints.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Version.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/MapMaker.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Statistics.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/DistanceMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/ClipperWrapper.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/TLS.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/exports.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/ResolutionCalculator.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Minimizer.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Compound.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/AtomShape.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/BondMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/SkipList.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfig.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfigVersion.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/libpdb-redo.pc make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-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 dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libpdb-redo-dev' in '../libpdb-redo-dev_3.3.0-1_amd64.deb'. dpkg-deb: building package 'libpdb-redo3.3' in '../libpdb-redo3.3_3.3.0-1_amd64.deb'. dpkg-deb: building package 'libpdb-redo3.3-dbgsym' in '../libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libpdb-redo_3.3.0-1_amd64.buildinfo dpkg-genchanges --build=binary -O../libpdb-redo_3.3.0-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full 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/2490048 and its subdirectories I: Current time: Wed Jul 8 23:42:09 -12 2026 I: pbuilder-time-stamp: 1783597329 Thu Jul 9 11:42:09 UTC 2026 I: Signing ./b1/libpdb-redo_3.3.0-1_amd64.buildinfo as libpdb-redo_3.3.0-1_amd64.buildinfo.asc Thu Jul 9 11:42:09 UTC 2026 I: Signed ./b1/libpdb-redo_3.3.0-1_amd64.buildinfo as ./b1/libpdb-redo_3.3.0-1_amd64.buildinfo.asc Thu Jul 9 11:42:09 UTC 2026 - build #1 for libpdb-redo/experimental/amd64 on ionos15-amd64 done. Starting cleanup. All cleanup done. Thu Jul 9 11:42:09 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-cHGLBOUh, removing. /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Jun 6 05:19 b1 drwxr-xr-x 2 jenkins jenkins 4096 Jun 6 05:17 b2 -rw-r--r-- 1 jenkins jenkins 2268 Apr 8 09:53 libpdb-redo_3.3.0-1.dsc -rw------- 1 jenkins jenkins 3419 Jun 6 05:17 rbuildlog.PV60LpU /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b1: total 7860 -rw-r--r-- 1 jenkins jenkins 85773 Jun 6 05:19 build.log -rw-r--r-- 1 jenkins jenkins 630924 Jun 6 05:19 libpdb-redo-dev_3.3.0-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 6063968 Jun 6 05:19 libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 332580 Jun 6 05:19 libpdb-redo3.3_3.3.0-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 6808 Jun 6 05:19 libpdb-redo_3.3.0-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2268 Jun 6 05:19 libpdb-redo_3.3.0-1.dsc -rw-r--r-- 1 jenkins jenkins 8472 Jun 6 05:19 libpdb-redo_3.3.0-1_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 9354 Jun 6 05:19 libpdb-redo_3.3.0-1_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1774 Jun 6 05:19 libpdb-redo_3.3.0-1_amd64.changes -rw-r--r-- 1 jenkins jenkins 1524 Jun 6 05:19 libpdb-redo_3.3.0-1_source.changes -rw-r--r-- 1 jenkins jenkins 879329 Jun 6 05:19 libpdb-redo_3.3.0.orig.tar.gz /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b2: total 0 Fri Jun 6 05:19:10 UTC 2025 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Jul 8 23:40:13 -12 2026 I: pbuilder-time-stamp: 1783597213 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/experimental-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_3.3.0-1.dsc] I: copying [./libpdb-redo_3.3.0.orig.tar.gz] I: copying [./libpdb-redo_3.3.0-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./libpdb-redo_3.3.0-1.dsc: no acceptable signature found dpkg-source: info: extracting libpdb-redo in libpdb-redo-3.3.0 dpkg-source: info: unpacking libpdb-redo_3.3.0.orig.tar.gz dpkg-source: info: unpacking libpdb-redo_3.3.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2490048/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='experimental' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='b5a20f7ae57b4cfaa833d37fb4db3974' 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='2490048' 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.JZuHkcnR/pbuilderrc_Dxz2 --distribution experimental --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b1 --logfile b1/build.log libpdb-redo_3.3.0-1.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos15-amd64 6.12.22+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.22-1~bpo12+1 (2025-04-25) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2490048/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), libcifpp-dev (>= 7), cmake, libcatch2-dev, pkgconf, libgsl-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 ... 19850 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 libcatch2-dev; however: Package libcatch2-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-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-regex-dev{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libcatch2-dev{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} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgnutls30t64{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} libicu76{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} libllvm17t64{a} libmagic-mgc{a} libmagic1t64{a} libmmdb2-0{a} libmmdb2-dev{a} libmunge2{a} libnghttp2-14{a} libnghttp3-9{a} libnl-3-200{a} libnl-route-3-200{a} libnuma1{a} libopenmpi40{a} libp11-kit0{a} libpciaccess0{a} libpipeline1{a} libpkgconf3{a} libpmix2t64{a} libproc2-0{a} libpsl5t64{a} libpsm2-2{a} librdmacm1t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtasn1-6{a} libtool{a} libuchardet0{a} libucx0{a} libunistring5{a} libuv1t64{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{a} libz3-4{a} libze1{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, 129 newly installed, 0 to remove and 0 not upgraded. Need to get 137 MB of archives. After unpacking 701 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-8 [65.4 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-8 [881 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.25 [25.0 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2 [243 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41-5 [94.6 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-8 [294 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-4 [862 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.31.6-2 [2268 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-1 [698 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.4-3 [349 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.2-1+b1 [24.3 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 26 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libidn2-0 amd64 2.3.8-2 [109 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1.1 [76.0 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.4.8-2 [24.1 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.14.1-1 [391 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.7.1-1 [108 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.31.6-2 [12.0 MB] Get: 48 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 54 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2 [1680 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.2 [919 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b1 [54.3 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 libnl-3-200 amd64 3.7.0-2 [59.4 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libnl-route-3-200 amd64 3.7.0-2 [182 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libibverbs1 amd64 56.1-1 [62.4 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 ibverbs-providers amd64 56.1-1 [357 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libnuma1 amd64 2.0.19-1 [22.2 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 librdmacm1t64 amd64 56.1-1 [70.4 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 libfabric1 amd64 2.1.0-1.1 [706 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 libhwloc15 amd64 2.12.0-4 [164 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 libmunge2 amd64 0.5.16-1 [19.7 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b3 [51.9 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.12-1 [343 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libxnvctrl0 amd64 535.171.04-1+b2 [14.2 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libze1 amd64 1.20.6-1 [473 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 ocl-icd-libopencl1 amd64 2.3.3-1 [42.9 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libhwloc-plugins amd64 2.12.0-4 [23.5 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libpmix2t64 amd64 5.0.7-1 [660 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libllvm17t64 amd64 1:17.0.6-21+b1 [23.6 MB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.124-2 [8288 B] Get: 89 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.124-2 [39.0 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.124-2 [22.6 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 libhsakmt1 amd64 6.2.4+ds-1 [61.1 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libhsa-runtime64-1 amd64 6.1.2-3 [535 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 libamdhip64-5 amd64 5.7.1-6 [8924 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 libibumad3 amd64 56.1-1 [30.0 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 libibmad5 amd64 56.1-1 [44.5 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 libucx0 amd64 1.18.1+ds-2+b1 [1196 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 libopenmpi40 amd64 5.0.7-1 [2365 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 fftw2 amd64 2.1.5-7+b1 [251 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 fftw-dev amd64 2.1.5-7+b1 [291 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 libicu76 amd64 76.1-4 [9722 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 icu-devtools amd64 76.1-4 [215 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libboost1.83-dev amd64 1.83.0-4.2 [10.6 MB] Get: 103 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83.0 amd64 1.83.0-4.2 [330 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 libicu-dev amd64 76.1-4 [10.8 MB] Get: 105 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83-dev amd64 1.83.0-4.2 [346 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 libboost-regex-dev amd64 1.83.0.2+b2 [3864 B] Get: 107 http://deb.debian.org/debian unstable/main amd64 libcatch2-dev amd64 3.7.1-0.5 [613 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 libccp4-data all 8.0.0-4 [62.7 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 libccp4c0t64 amd64 8.0.0-4 [89.9 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-19 [836 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 libmmdb2-0 amd64 2.0.22-1+b2 [342 kB] Get: 112 http://deb.debian.org/debian unstable/main amd64 libccp4f0t64 amd64 8.0.0-4 [208 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libccp4-dev amd64 8.0.0-4 [42.9 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libcifpp-data all 7.0.9-1 [484 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libcifpp7 amd64 7.0.9-1 [1032 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 117 http://deb.debian.org/debian unstable/main amd64 libcifpp-dev amd64 7.0.9-1 [111 kB] Get: 118 http://deb.debian.org/debian unstable/main amd64 sfftw2 amd64 2.1.5-7+b1 [254 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libclipper2 amd64 2.1.20201109-2+b3 [1183 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libmmdb2-dev amd64 2.0.22-1+b2 [92.9 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 sfftw-dev amd64 2.1.5-7+b1 [293 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 libclipper-dev amd64 2.1.20201109-2+b3 [82.4 kB] Get: 123 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libeigen3-dev all 3.4.0-5 [1034 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 libgslcblas0 amd64 2.8+dfsg-5 [116 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libgsl28 amd64 2.8+dfsg-5 [994 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 libgsl-dev amd64 2.8+dfsg-5 [1222 kB] Fetched 137 MB in 4s (37.5 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (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 ... 19850 files and directories currently installed.) Preparing to unpack .../000-libproc2-0_2%3a4.0.4-8_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-8) ... Selecting previously unselected package procps. Preparing to unpack .../001-procps_2%3a4.0.4-8_amd64.deb ... Unpacking procps (2:4.0.4-8) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../004-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../005-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../006-gettext-base_0.23.1-2_amd64.deb ... Unpacking gettext-base (0.23.1-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../007-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../008-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../009-bsdextrautils_2.41-5_amd64.deb ... Unpacking bsdextrautils (2.41-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../010-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../011-man-db_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../012-m4_1.4.19-8_amd64.deb ... Unpacking m4 (1.4.19-8) ... Selecting previously unselected package autoconf. Preparing to unpack .../013-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../014-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../015-automake_1%3a1.17-4_all.deb ... Unpacking automake (1:1.17-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../016-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package cmake-data. Preparing to unpack .../017-cmake-data_3.31.6-2_all.deb ... Unpacking cmake-data (3.31.6-2) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../018-libxml2_2.12.7+dfsg+really2.9.14-1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-1) ... Selecting previously unselected package libarchive13t64:amd64. Preparing to unpack .../019-libarchive13t64_3.7.4-3_amd64.deb ... Unpacking libarchive13t64:amd64 (3.7.4-3) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../020-libbrotli1_1.1.0-2+b7_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b7) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../021-libkrb5support0_1.21.3-5_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-5) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../022-libcom-err2_1.47.2-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../023-libk5crypto3_1.21.3-5_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-5) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../024-libkeyutils1_1.6.3-6_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-6) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../025-libkrb5-3_1.21.3-5_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-5) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../026-libgssapi-krb5-2_1.21.3-5_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-5) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../027-libunistring5_1.3-2_amd64.deb ... Unpacking libunistring5:amd64 (1.3-2) ... Selecting previously unselected package libidn2-0:amd64. Preparing to unpack .../028-libidn2-0_2.3.8-2_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.8-2) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../029-libsasl2-modules-db_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../030-libsasl2-2_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:amd64. Preparing to unpack .../031-libldap2_2.6.10+dfsg-1_amd64.deb ... Unpacking libldap2:amd64 (2.6.10+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../032-libnghttp2-14_1.64.0-1.1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1.1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../033-libnghttp3-9_1.8.0-1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.8.0-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../034-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../035-libffi8_3.4.8-2_amd64.deb ... Unpacking libffi8:amd64 (3.4.8-2) ... Selecting previously unselected package libp11-kit0:amd64. Preparing to unpack .../036-libp11-kit0_0.25.5-3_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-3) ... Selecting previously unselected package libtasn1-6:amd64. Preparing to unpack .../037-libtasn1-6_4.20.0-2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.20.0-2) ... Selecting previously unselected package libgnutls30t64:amd64. Preparing to unpack .../038-libgnutls30t64_3.8.9-2_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.9-2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../039-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../040-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../041-libcurl4t64_8.14.1-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.14.1-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../042-libexpat1_2.7.1-1_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-1) ... Selecting previously unselected package libjsoncpp26:amd64. Preparing to unpack .../043-libjsoncpp26_1.9.6-3_amd64.deb ... Unpacking libjsoncpp26:amd64 (1.9.6-3) ... Selecting previously unselected package librhash1:amd64. Preparing to unpack .../044-librhash1_1.4.6-1_amd64.deb ... Unpacking librhash1:amd64 (1.4.6-1) ... Selecting previously unselected package libuv1t64:amd64. Preparing to unpack .../045-libuv1t64_1.50.0-2_amd64.deb ... Unpacking libuv1t64:amd64 (1.50.0-2) ... Selecting previously unselected package cmake. Preparing to unpack .../046-cmake_3.31.6-2_amd64.deb ... Unpacking cmake (3.31.6-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../047-libdebhelper-perl_13.24.2_all.deb ... Unpacking libdebhelper-perl (13.24.2) ... Selecting previously unselected package libtool. Preparing to unpack .../048-libtool_2.5.4-4_all.deb ... Unpacking libtool (2.5.4-4) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../049-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../050-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 .../051-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../052-dh-strip-nondeterminism_1.14.1-2_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-2) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../053-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../054-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../055-gettext_0.23.1-2_amd64.deb ... Unpacking gettext (0.23.1-2) ... Selecting previously unselected package intltool-debian. 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Setting up libucx0:amd64 (1.18.1+ds-2+b1) ... Setting up libopenmpi40:amd64 (5.0.7-1) ... Setting up sfftw2 (2.1.5-7+b1) ... Setting up fftw2 (2.1.5-7+b1) ... Setting up sfftw-dev (2.1.5-7+b1) ... Setting up libclipper2:amd64 (2.1.20201109-2+b3) ... Setting up fftw-dev (2.1.5-7+b1) ... Setting up libclipper-dev:amd64 (2.1.20201109-2+b3) ... Processing triggers for libc-bin (2.41-8) ... 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-3.3.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../libpdb-redo_3.3.0-1_source.changes dpkg-buildpackage: info: source package libpdb-redo dpkg-buildpackage: info: source version 3.3.0-1 dpkg-buildpackage: info: source distribution experimental dpkg-buildpackage: info: source changed by Maarten L. Hekkelman dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 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-3.3.0' dh_auto_configure -- -DBUILD_SHARED_LIBS=ON -DPDB_REDO_BUILD_TESTS=ON -DBUILD_MINIMIZER=OFF cd obj-x86_64-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/x86_64-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/x86_64-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/x86_64-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/x86_64-linux-gnu/libclipper-ccp4.so -- Looking for clipper/clipper-contrib.h - /usr/include -- Found CCP4: /usr/lib/x86_64-linux-gnu/libclipper-contrib.so -- CCP4 include directory: /usr/include -- Found GSL: /usr/include (found version "2.8") fof cifpp data dir: /usr/share/libcifpp -- 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 -- Configuring done (4.0s) -- 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-3.3.0/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0' dh_auto_build cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.3.0 -B/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles/pdb-redo.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o [ 35%] Building CXX object CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/DistanceMap.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/AtomShape.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/BondMap.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Ramachandran.cpp [ 47%] Building CXX object CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o [ 47%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Compound.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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Statistics.cpp [ 70%] Building CXX object CMakeFiles/pdb-redo.dir/src/Version.cpp.o [ 70%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Version.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/TLS.cpp [ 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-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,--dependency-file=CMakeFiles/pdb-redo.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libpdb-redo.so.3.3 -o libpdb-redo.so.3.3.0 "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/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/bin/cmake -E cmake_symlink_library libpdb-redo.so.3.3.0 libpdb-redo.so.3.3 libpdb-redo.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 76%] Built target pdb-redo make -f test/CMakeFiles/pdb-redo-unit-test.dir/build.make test/CMakeFiles/pdb-redo-unit-test.dir/depend make -f test/CMakeFiles/restr2ccd-test.dir/build.make test/CMakeFiles/restr2ccd-test.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/CMakeFiles/pdb-redo-unit-test.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/CMakeFiles/restr2ccd-test.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f test/CMakeFiles/pdb-redo-unit-test.dir/build.make test/CMakeFiles/pdb-redo-unit-test.dir/build make -f test/CMakeFiles/restr2ccd-test.dir/build.make test/CMakeFiles/restr2ccd-test.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 88%] Building CXX object test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o [ 88%] Building CXX object test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.3.0/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -MF CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o.d -o CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.3.0/test/restr2ccd-test.cpp cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.3.0/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -MF CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o.d -o CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.3.0/test/pdb-redo-unit-test.cpp [ 94%] Linking CXX executable restr2ccd-test cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/restr2ccd-test.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/restr2ccd-test.dir/link.d "CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o" -o restr2ccd-test -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu ../libpdb-redo.so.3.3.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 94%] Built target restr2ccd-test [100%] Linking CXX executable pdb-redo-unit-test cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/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-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pdb-redo-unit-test.dir/link.d "CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o" -o pdb-redo-unit-test -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu ../libpdb-redo.so.3.3.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [100%] Built target pdb-redo-unit-test make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' dh_auto_test cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j42 UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-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 Connected to MAKE jobserver test 1 Start 1: pdb-redo-unit-test 1: Test command: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/pdb-redo-unit-test "--data-dir" "/build/reproducible-path/libpdb-redo-3.3.0/test" 1: Working Directory: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test 1: Test timeout computed to be: 1500 test 2 Start 2: restr2ccd-test 2: Test command: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/restr2ccd-test "--data-dir" "/build/reproducible-path/libpdb-redo-3.3.0/test" 2: Working Directory: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test 2: Test timeout computed to be: 1500 2: CCD components.cif resource was not found 2: Randomness seeded to: 3795648935 2: Could not load the mon_lib_list.cif file from CCP4, please make sure you have installed CCP4 and sourced the environment. 2: 2: Configuration error: 2: 2: The attempt to retrieve compound information for "Z57-a" 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: The current order of compound factory objects is: 2: 2: CCD components file: "/build/reproducible-path/libpdb-redo-3.3.0/test/minimal-components.cif" 2: =============================================================================== 2: All tests passed (12 assertions in 1 test case) 2: 1/2 Test #2: restr2ccd-test ................... Passed 0.01 sec 1: Randomness seeded to: 412909094 1: Reading map from "/build/reproducible-path/libpdb-redo-3.3.0/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: 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... done 1: 1: Intercept & gradient before LS: -0.0761355 (0.000425541) 0.113376 (0.000666368) 1: 1: Rescale SD(delta-rho) using Q-Q plot for asym A: 1: ====================================================== 1: Input & updated SD(delta-rho): 0.123854 ; 0.137896 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: 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-3.3.0/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... 1: Configuration error: 1: 1: The attempt to retrieve compound information for "U_K" 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-3.3.0/test/minimal-components.cif" 1: 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 (0.000800546) -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: 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: All tests passed (738136 assertions in 7 test cases) 1: 2/2 Test #1: pdb-redo-unit-test ............... Passed 2.52 sec 100% tests passed, 0 tests failed out of 2 Total Test time (real) = 2.52 sec make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/libpdb-redo-3.3.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.3.0 -B/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/libpdb-redo.so.3.3.0 -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/libpdb-redo.so.3.3 -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/libpdb-redo.so -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets-none.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Restraints.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Version.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/MapMaker.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Statistics.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/DistanceMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/ClipperWrapper.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/TLS.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/exports.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/ResolutionCalculator.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Minimizer.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Compound.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/AtomShape.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/BondMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/SkipList.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfig.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfigVersion.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/libpdb-redo.pc make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-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 dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libpdb-redo-dev' in '../libpdb-redo-dev_3.3.0-1_amd64.deb'. dpkg-deb: building package 'libpdb-redo3.3' in '../libpdb-redo3.3_3.3.0-1_amd64.deb'. dpkg-deb: building package 'libpdb-redo3.3-dbgsym' in '../libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libpdb-redo_3.3.0-1_amd64.buildinfo dpkg-genchanges --build=binary -O../libpdb-redo_3.3.0-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full 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/2490048 and its subdirectories I: Current time: Wed Jul 8 23:42:09 -12 2026 I: pbuilder-time-stamp: 1783597329 Fri Jun 6 05:19:10 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Fri Jun 6 05:19:10 UTC 2025 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Fri Jun 6 05:19:10 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Fri Jun 6 05:19:10 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-CW2RFg' ==================================================================================== Fri Jun 6 05:19:11 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "2 libpdb-redo experimental /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR 3.3.0-1" as arguments. Fri Jun 6 05:19:11 UTC 2025 - actually running "reproducible_build.sh" (md5sum 44ec6a3142940d5e9a7ab76543d96029) as "/tmp/jenkins-script-Ij5KOqlX" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Jun 6 05:19:12 UTC 2025 I: Downloading source for experimental/libpdb-redo=3.3.0-1 Reading package lists... NOTICE: 'libpdb-redo' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libpdb-redo.git Please use: git clone https://salsa.debian.org/med-team/libpdb-redo.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 888 kB of source archives. Get:1 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (dsc) [2268 B] Get:2 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (tar) [879 kB] Get:3 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (diff) [6808 B] Fetched 888 kB in 0s (19.2 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'libpdb-redo' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libpdb-redo.git Please use: git clone https://salsa.debian.org/med-team/libpdb-redo.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 888 kB of source archives. Get:1 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (dsc) [2268 B] Get:2 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (tar) [879 kB] Get:3 http://cdn-fastly.deb.debian.org/debian experimental/main libpdb-redo 3.3.0-1 (diff) [6808 B] Fetched 888 kB in 0s (19.2 MB/s) Download complete and in download only mode ============================================================================= Re-Building libpdb-redo in experimental on amd64 on ionos1-amd64 now. Date: Fri Jun 6 05:19:12 UTC 2025 Date UTC: Fri Jun 6 05:19:12 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/pbuilderrc_buFn + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' libpdb-redo = debian-installer -o libpdb-redo = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' libpdb-redo = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/pbuilderrc_buFn --distribution experimental --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b2 --logfile b2/build.log libpdb-redo_3.3.0-1.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Fri Jun 6 19:19:12 +14 2025 I: pbuilder-time-stamp: 1749187152 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/experimental-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_3.3.0-1.dsc] I: copying [./libpdb-redo_3.3.0.orig.tar.gz] I: copying [./libpdb-redo_3.3.0-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./libpdb-redo_3.3.0-1.dsc: no acceptable signature found dpkg-source: info: extracting libpdb-redo in libpdb-redo-3.3.0 dpkg-source: info: unpacking libpdb-redo_3.3.0.orig.tar.gz dpkg-source: info: unpacking libpdb-redo_3.3.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Jun 6 05:19 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.37(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' DIRSTACK=() DISTRIBUTION=experimental EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=b567c4ceeacf4b9593bf657a876cfa8e LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=1337656 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/pbuilderrc_buFn --distribution experimental --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b2 --logfile b2/build.log libpdb-redo_3.3.0-1.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-37-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.140-1 (2025-05-22) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 19:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), libcifpp-dev (>= 7), cmake, libcatch2-dev, pkgconf, libgsl-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 ... 19850 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 libcatch2-dev; however: Package libcatch2-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-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-regex-dev{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libcatch2-dev{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} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgnutls30t64{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} libicu76{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} libllvm17t64{a} libmagic-mgc{a} libmagic1t64{a} libmmdb2-0{a} libmmdb2-dev{a} libmunge2{a} libnghttp2-14{a} libnghttp3-9{a} libnl-3-200{a} libnl-route-3-200{a} libnuma1{a} libopenmpi40{a} libp11-kit0{a} libpciaccess0{a} libpipeline1{a} libpkgconf3{a} libpmix2t64{a} libproc2-0{a} libpsl5t64{a} libpsm2-2{a} librdmacm1t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtasn1-6{a} libtool{a} libuchardet0{a} libucx0{a} libunistring5{a} libuv1t64{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{a} libz3-4{a} libze1{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, 129 newly installed, 0 to remove and 0 not upgraded. Need to get 137 MB of archives. After unpacking 701 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-8 [65.4 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-8 [881 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.25 [25.0 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2 [243 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41-5 [94.6 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-8 [294 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-4 [862 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.31.6-2 [2268 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-1 [698 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.4-3 [349 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.2-1+b1 [24.3 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 26 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libidn2-0 amd64 2.3.8-2 [109 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1.1 [76.0 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.4.8-2 [24.1 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.14.1-1 [391 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.7.1-1 [108 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.31.6-2 [12.0 MB] Get: 48 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 54 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2 [1680 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.2 [919 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b1 [54.3 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 libnl-3-200 amd64 3.7.0-2 [59.4 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libnl-route-3-200 amd64 3.7.0-2 [182 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libibverbs1 amd64 56.1-1 [62.4 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 ibverbs-providers amd64 56.1-1 [357 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libnuma1 amd64 2.0.19-1 [22.2 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 librdmacm1t64 amd64 56.1-1 [70.4 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 libfabric1 amd64 2.1.0-1.1 [706 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 libhwloc15 amd64 2.12.0-4 [164 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 libmunge2 amd64 0.5.16-1 [19.7 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b3 [51.9 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.12-1 [343 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libxnvctrl0 amd64 535.171.04-1+b2 [14.2 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libze1 amd64 1.20.6-1 [473 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 ocl-icd-libopencl1 amd64 2.3.3-1 [42.9 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libhwloc-plugins amd64 2.12.0-4 [23.5 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libpmix2t64 amd64 5.0.7-1 [660 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libllvm17t64 amd64 1:17.0.6-21+b1 [23.6 MB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.124-2 [8288 B] Get: 89 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.124-2 [39.0 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.124-2 [22.6 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 libhsakmt1 amd64 6.2.4+ds-1 [61.1 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libhsa-runtime64-1 amd64 6.1.2-3 [535 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 libamdhip64-5 amd64 5.7.1-6 [8924 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 libibumad3 amd64 56.1-1 [30.0 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 libibmad5 amd64 56.1-1 [44.5 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 libucx0 amd64 1.18.1+ds-2+b1 [1196 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 libopenmpi40 amd64 5.0.7-1 [2365 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 fftw2 amd64 2.1.5-7+b1 [251 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 fftw-dev amd64 2.1.5-7+b1 [291 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 libicu76 amd64 76.1-4 [9722 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 icu-devtools amd64 76.1-4 [215 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libboost1.83-dev amd64 1.83.0-4.2 [10.6 MB] Get: 103 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83.0 amd64 1.83.0-4.2 [330 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 libicu-dev amd64 76.1-4 [10.8 MB] Get: 105 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83-dev amd64 1.83.0-4.2 [346 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 libboost-regex-dev amd64 1.83.0.2+b2 [3864 B] Get: 107 http://deb.debian.org/debian unstable/main amd64 libcatch2-dev amd64 3.7.1-0.5 [613 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 libccp4-data all 8.0.0-4 [62.7 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 libccp4c0t64 amd64 8.0.0-4 [89.9 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-19 [836 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 libmmdb2-0 amd64 2.0.22-1+b2 [342 kB] Get: 112 http://deb.debian.org/debian unstable/main amd64 libccp4f0t64 amd64 8.0.0-4 [208 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libccp4-dev amd64 8.0.0-4 [42.9 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libcifpp-data all 7.0.9-1 [484 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libcifpp7 amd64 7.0.9-1 [1032 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 117 http://deb.debian.org/debian unstable/main amd64 libcifpp-dev amd64 7.0.9-1 [111 kB] Get: 118 http://deb.debian.org/debian unstable/main amd64 sfftw2 amd64 2.1.5-7+b1 [254 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libclipper2 amd64 2.1.20201109-2+b3 [1183 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libmmdb2-dev amd64 2.0.22-1+b2 [92.9 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 sfftw-dev amd64 2.1.5-7+b1 [293 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 libclipper-dev amd64 2.1.20201109-2+b3 [82.4 kB] Get: 123 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libeigen3-dev all 3.4.0-5 [1034 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 libgslcblas0 amd64 2.8+dfsg-5 [116 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libgsl28 amd64 2.8+dfsg-5 [994 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 libgsl-dev amd64 2.8+dfsg-5 [1222 kB] Fetched 137 MB in 4s (31.8 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (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 ... 19850 files and directories currently installed.) Preparing to unpack .../000-libproc2-0_2%3a4.0.4-8_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-8) ... Selecting previously unselected package procps. Preparing to unpack .../001-procps_2%3a4.0.4-8_amd64.deb ... Unpacking procps (2:4.0.4-8) ... Selecting previously unselected package sensible-utils. 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Unpacking libgssapi-krb5-2:amd64 (1.21.3-5) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../027-libunistring5_1.3-2_amd64.deb ... Unpacking libunistring5:amd64 (1.3-2) ... Selecting previously unselected package libidn2-0:amd64. Preparing to unpack .../028-libidn2-0_2.3.8-2_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.8-2) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../029-libsasl2-modules-db_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../030-libsasl2-2_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:amd64. Preparing to unpack .../031-libldap2_2.6.10+dfsg-1_amd64.deb ... Unpacking libldap2:amd64 (2.6.10+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. 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Unpacking libnl-3-200:amd64 (3.7.0-2) ... Selecting previously unselected package libnl-route-3-200:amd64. Preparing to unpack .../062-libnl-route-3-200_3.7.0-2_amd64.deb ... Unpacking libnl-route-3-200:amd64 (3.7.0-2) ... Selecting previously unselected package libibverbs1:amd64. Preparing to unpack .../063-libibverbs1_56.1-1_amd64.deb ... Unpacking libibverbs1:amd64 (56.1-1) ... Selecting previously unselected package ibverbs-providers:amd64. Preparing to unpack .../064-ibverbs-providers_56.1-1_amd64.deb ... Unpacking ibverbs-providers:amd64 (56.1-1) ... Selecting previously unselected package libnuma1:amd64. Preparing to unpack .../065-libnuma1_2.0.19-1_amd64.deb ... Unpacking libnuma1:amd64 (2.0.19-1) ... Selecting previously unselected package libpsm2-2. Preparing to unpack .../066-libpsm2-2_11.2.185-2.1_amd64.deb ... Unpacking libpsm2-2 (11.2.185-2.1) ... Selecting previously unselected package librdmacm1t64:amd64. Preparing to unpack .../067-librdmacm1t64_56.1-1_amd64.deb ... 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Setting up libibverbs1:amd64 (56.1-1) ... Setting up libccp4-dev:amd64 (8.0.0-4) ... Setting up ibverbs-providers:amd64 (56.1-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libhwloc-plugins:amd64 (2.12.0-4) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libboost-regex1.83-dev:amd64 (1.83.0-4.2) ... Setting up libpmix2t64:amd64 (5.0.7-1) ... Setting up librdmacm1t64:amd64 (56.1-1) ... Setting up libboost-regex-dev:amd64 (1.83.0.2+b2) ... Setting up libhsakmt1:amd64 (6.2.4+ds-1) ... Setting up libfabric1:amd64 (2.1.0-1.1) ... Setting up libcurl4t64:amd64 (8.14.1-1) ... Setting up debhelper (13.24.2) ... Setting up libcifpp-dev:amd64 (7.0.9-1) ... Setting up libhsa-runtime64-1:amd64 (6.1.2-3) ... Setting up cmake (3.31.6-2) ... Setting up libamdhip64-5:amd64 (5.7.1-6) ... Setting up libucx0:amd64 (1.18.1+ds-2+b1) ... Setting up libopenmpi40:amd64 (5.0.7-1) ... Setting up sfftw2 (2.1.5-7+b1) ... Setting up fftw2 (2.1.5-7+b1) ... Setting up sfftw-dev (2.1.5-7+b1) ... Setting up libclipper2:amd64 (2.1.20201109-2+b3) ... Setting up fftw-dev (2.1.5-7+b1) ... Setting up libclipper-dev:amd64 (2.1.20201109-2+b3) ... Processing triggers for libc-bin (2.41-8) ... 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: user script /srv/workspace/pbuilder/1337656/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for experimental I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/libpdb-redo-3.3.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../libpdb-redo_3.3.0-1_source.changes dpkg-buildpackage: info: source package libpdb-redo dpkg-buildpackage: info: source version 3.3.0-1 dpkg-buildpackage: info: source distribution experimental dpkg-buildpackage: info: source changed by Maarten L. Hekkelman dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 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-3.3.0' dh_auto_configure -- -DBUILD_SHARED_LIBS=ON -DPDB_REDO_BUILD_TESTS=ON -DBUILD_MINIMIZER=OFF cd obj-x86_64-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/x86_64-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/x86_64-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/x86_64-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/x86_64-linux-gnu/libclipper-ccp4.so -- Looking for clipper/clipper-contrib.h - /usr/include -- Found CCP4: /usr/lib/x86_64-linux-gnu/libclipper-contrib.so -- CCP4 include directory: /usr/include -- Found GSL: /usr/include (found version "2.8") fof cifpp data dir: /usr/share/libcifpp -- 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 -- Configuring done (19.7s) -- 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-3.3.0/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0' dh_auto_build cd obj-x86_64-linux-gnu && make -j40 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.3.0 -B/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles/pdb-redo.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 5%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/ClipperWrapper.cpp [ 11%] Building CXX object CMakeFiles/pdb-redo.dir/src/Compound.cpp.o [ 17%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/AtomShape.cpp [ 23%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Compound.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/BondMap.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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/DistanceMap.cpp [ 35%] Building CXX object CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o [ 41%] Building CXX object CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/SkipList.cpp [ 47%] Building CXX object CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o [ 52%] Building CXX object CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o [ 58%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Ramachandran.cpp [ 64%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/ResolutionCalculator.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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Statistics.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/TLS.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Version.cpp [ 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-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,--dependency-file=CMakeFiles/pdb-redo.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libpdb-redo.so.3.3 -o libpdb-redo.so.3.3.0 "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/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/bin/cmake -E cmake_symlink_library libpdb-redo.so.3.3.0 libpdb-redo.so.3.3 libpdb-redo.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 76%] Built target pdb-redo make -f test/CMakeFiles/pdb-redo-unit-test.dir/build.make test/CMakeFiles/pdb-redo-unit-test.dir/depend make -f test/CMakeFiles/restr2ccd-test.dir/build.make test/CMakeFiles/restr2ccd-test.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/CMakeFiles/pdb-redo-unit-test.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.3.0 /build/reproducible-path/libpdb-redo-3.3.0/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/CMakeFiles/restr2ccd-test.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f test/CMakeFiles/pdb-redo-unit-test.dir/build.make test/CMakeFiles/pdb-redo-unit-test.dir/build make -f test/CMakeFiles/restr2ccd-test.dir/build.make test/CMakeFiles/restr2ccd-test.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 88%] Building CXX object test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o [ 88%] Building CXX object test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.3.0/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -MF CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o.d -o CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.3.0/test/pdb-redo-unit-test.cpp cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.3.0/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -MF CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o.d -o CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.3.0/test/restr2ccd-test.cpp [ 94%] Linking CXX executable restr2ccd-test cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/restr2ccd-test.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/restr2ccd-test.dir/link.d "CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o" -o restr2ccd-test -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu ../libpdb-redo.so.3.3.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [ 94%] Built target restr2ccd-test [100%] Linking CXX executable pdb-redo-unit-test cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/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-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pdb-redo-unit-test.dir/link.d "CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o" -o pdb-redo-unit-test -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu ../libpdb-redo.so.3.3.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' [100%] Built target pdb-redo-unit-test make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' dh_auto_test cd obj-x86_64-linux-gnu && make -j40 test ARGS\+=--verbose ARGS\+=-j40 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j40 UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-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 Connected to MAKE jobserver test 1 Start 1: pdb-redo-unit-test 1: Test command: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/pdb-redo-unit-test "--data-dir" "/build/reproducible-path/libpdb-redo-3.3.0/test" 1: Working Directory: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test 1: Test timeout computed to be: 1500 test 2 Start 2: restr2ccd-test 2: Test command: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test/restr2ccd-test "--data-dir" "/build/reproducible-path/libpdb-redo-3.3.0/test" 2: Working Directory: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test 2: Test timeout computed to be: 1500 2: CCD components.cif resource was not found 2: Randomness seeded to: 782522530 2: Could not load the mon_lib_list.cif file from CCP4, please make sure you have installed CCP4 and sourced the environment. 2: 2: Configuration error: 2: 2: The attempt to retrieve compound information for "U8U" 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: The current order of compound factory objects is: 2: 2: CCD components file: "/build/reproducible-path/libpdb-redo-3.3.0/test/minimal-components.cif" 2: =============================================================================== 2: All tests passed (12 assertions in 1 test case) 2: 1/2 Test #2: restr2ccd-test ................... Passed 0.21 sec 1: Randomness seeded to: 2486145384 1: Reading map from "/build/reproducible-path/libpdb-redo-3.3.0/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: 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... done 1: 1: Intercept & gradient before LS: -0.0761355 (0.000425541) 0.113376 (0.000666368) 1: 1: Rescale SD(delta-rho) using Q-Q plot for asym A: 1: ====================================================== 1: Input & updated SD(delta-rho): 0.123854 ; 0.137896 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: 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-3.3.0/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... 1: Configuration error: 1: 1: The attempt to retrieve compound information for "U_K" 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-3.3.0/test/minimal-components.cif" 1: 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 (0.000800546) -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: 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: All tests passed (738136 assertions in 7 test cases) 1: 2/2 Test #1: pdb-redo-unit-test ............... Passed 3.83 sec 100% tests passed, 0 tests failed out of 2 Total Test time (real) = 4.24 sec make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/libpdb-redo-3.3.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.3.0 -B/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/libpdb-redo.so.3.3.0 -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/libpdb-redo.so.3.3 -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/libpdb-redo.so -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets-none.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/exports.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Compound.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/DistanceMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Minimizer.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/MapMaker.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/TLS.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Version.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/ClipperWrapper.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/BondMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/ResolutionCalculator.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/AtomShape.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/SkipList.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Statistics.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Restraints.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfig.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfigVersion.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/libpdb-redo.pc make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-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 dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libpdb-redo3.3-dbgsym' in '../libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb'. dpkg-deb: building package 'libpdb-redo-dev' in '../libpdb-redo-dev_3.3.0-1_amd64.deb'. dpkg-deb: building package 'libpdb-redo3.3' in '../libpdb-redo3.3_3.3.0-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libpdb-redo_3.3.0-1_amd64.buildinfo dpkg-genchanges --build=binary -O../libpdb-redo_3.3.0-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1337656 and its subdirectories I: Current time: Fri Jun 6 19:23:49 +14 2025 I: pbuilder-time-stamp: 1749187429 + false + set +x Fri Jun 6 05:23:49 UTC 2025 I: Signing ./b2/libpdb-redo_3.3.0-1_amd64.buildinfo as libpdb-redo_3.3.0-1_amd64.buildinfo.asc Fri Jun 6 05:23:49 UTC 2025 I: Signed ./b2/libpdb-redo_3.3.0-1_amd64.buildinfo as ./b2/libpdb-redo_3.3.0-1_amd64.buildinfo.asc Fri Jun 6 05:23:49 UTC 2025 - build #2 for libpdb-redo/experimental/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Fri Jun 6 05:23:49 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-Ij5KOqlX, removing. /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR: total 104 drwxr-xr-x 2 jenkins jenkins 4096 Jun 6 05:19 b1 drwxr-xr-x 2 jenkins jenkins 4096 Jun 6 05:23 b2 -rw-r--r-- 1 jenkins jenkins 2268 Apr 8 09:53 libpdb-redo_3.3.0-1.dsc -rw------- 1 jenkins jenkins 89479 Jun 6 05:19 rbuildlog.PV60LpU /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b1: total 7888 -rw-r--r-- 1 jenkins jenkins 85773 Jun 6 05:19 build.log -rw-r--r-- 1 jenkins jenkins 630924 Jun 6 05:19 libpdb-redo-dev_3.3.0-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 6063968 Jun 6 05:19 libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 332580 Jun 6 05:19 libpdb-redo3.3_3.3.0-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 6808 Jun 6 05:19 libpdb-redo_3.3.0-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2268 Jun 6 05:19 libpdb-redo_3.3.0-1.dsc -rw-r--r-- 1 jenkins jenkins 8472 Jun 6 05:19 libpdb-redo_3.3.0-1_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 9354 Jun 6 05:19 libpdb-redo_3.3.0-1_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1774 Jun 6 05:19 libpdb-redo_3.3.0-1_amd64.changes -rw-r--r-- 1 jenkins jenkins 1524 Jun 6 05:19 libpdb-redo_3.3.0-1_source.changes -rw-r--r-- 1 jenkins jenkins 879329 Jun 6 05:19 libpdb-redo_3.3.0.orig.tar.gz /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b2: total 7864 -rw-r--r-- 1 jenkins jenkins 87694 Jun 6 05:23 build.log -rw-r--r-- 1 jenkins jenkins 630924 Jun 6 05:23 libpdb-redo-dev_3.3.0-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 6063968 Jun 6 05:23 libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 332580 Jun 6 05:23 libpdb-redo3.3_3.3.0-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 6808 Jun 6 05:23 libpdb-redo_3.3.0-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2268 Jun 6 05:23 libpdb-redo_3.3.0-1.dsc -rw-r--r-- 1 jenkins jenkins 8461 Jun 6 05:23 libpdb-redo_3.3.0-1_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 9343 Jun 6 05:23 libpdb-redo_3.3.0-1_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1774 Jun 6 05:23 libpdb-redo_3.3.0-1_amd64.changes -rw-r--r-- 1 jenkins jenkins 1524 Jun 6 05:23 libpdb-redo_3.3.0-1_source.changes -rw-r--r-- 1 jenkins jenkins 879329 Jun 6 05:23 libpdb-redo_3.3.0.orig.tar.gz Fri Jun 6 05:23:50 UTC 2025 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Fri Jun 6 05:23:50 UTC 2025 I: libpdb-redo_3.3.0-1_amd64.changes: Format: 1.8 Date: Wed, 02 Apr 2025 13:07:03 +0200 Source: libpdb-redo Binary: libpdb-redo-dev libpdb-redo3.3 libpdb-redo3.3-dbgsym Architecture: amd64 Version: 3.3.0-1 Distribution: experimental Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Maarten L. Hekkelman Description: libpdb-redo-dev - Development files for libpdb-redo libpdb-redo3.3 - Library file for libpdb-redo Closes: 1101924 Changes: libpdb-redo (3.3.0-1) experimental; urgency=medium . * New upstream version * Closes: #1101924 Checksums-Sha1: 3a5d65c0593060b7f172a3a47911113ad345f14f 630924 libpdb-redo-dev_3.3.0-1_amd64.deb 3ab51701b2508cc73412e52c4f31acca740979f3 6063968 libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb a3c51785b863e793920b217ccfb3a54615a76652 332580 libpdb-redo3.3_3.3.0-1_amd64.deb 1f770b2c1306d1e8a8b51962a3a2d68fbae363c6 8472 libpdb-redo_3.3.0-1_amd64.buildinfo Checksums-Sha256: 158f63c042514bbdf0a63c3c581c5ee3c2550a993ad301b7b406dadff6a0f756 630924 libpdb-redo-dev_3.3.0-1_amd64.deb f36fac8fe167bf2a88f1081dbd28d3361ee16438f3625086b5231bcf13e539f8 6063968 libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb dfa8791f0a9f9047ebdd3f1619daea54b5355c3b5188b4df9cbe366aad850ef4 332580 libpdb-redo3.3_3.3.0-1_amd64.deb fb5670c1a73bc5f265170958ed5ee04440bc53b09ae312e0f8b68025d8b8a20b 8472 libpdb-redo_3.3.0-1_amd64.buildinfo Files: 59c3004c6c3bb39fedaa7e40c8a437f6 630924 libdevel optional libpdb-redo-dev_3.3.0-1_amd64.deb 6a6fe54f5e3e27b792bee02da75c0909 6063968 debug optional libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb 49dff2c7be1afea490923fd975a50843 332580 libs optional libpdb-redo3.3_3.3.0-1_amd64.deb 4818c318e507a80a76d19ea957057cf4 8472 libs optional libpdb-redo_3.3.0-1_amd64.buildinfo removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/experimental/amd64/libpdb-redo_3.3.0-1.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/experimental/amd64/libpdb-redo_3.3.0-1.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/experimental/amd64/libpdb-redo_3.3.0-1.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/experimental/amd64/libpdb-redo_3.3.0-1.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/experimental/amd64/libpdb-redo_3.3.0-1_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/experimental/amd64/libpdb-redo_3.3.0-1.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-06-06 05:19:10.461251992 +0000 +++ b2/build.log 2025-06-06 05:23:50.323082741 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Jul 8 23:40:13 -12 2026 -I: pbuilder-time-stamp: 1783597213 +I: Current time: Fri Jun 6 19:19:12 +14 2025 +I: pbuilder-time-stamp: 1749187152 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/experimental-reproducible-base.tgz] I: copying local configuration @@ -22,52 +22,84 @@ dpkg-source: info: unpacking libpdb-redo_3.3.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2490048/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Jun 6 05:19 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1337656/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='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='experimental' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' + DIRSTACK=() + DISTRIBUTION=experimental + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='b5a20f7ae57b4cfaa833d37fb4db3974' - 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='2490048' - PS1='# ' - PS2='> ' + INVOCATION_ID=b567c4ceeacf4b9593bf657a876cfa8e + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=1337656 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.JZuHkcnR/pbuilderrc_Dxz2 --distribution experimental --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b1 --logfile b1/build.log libpdb-redo_3.3.0-1.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/pbuilderrc_buFn --distribution experimental --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b2 --logfile b2/build.log libpdb-redo_3.3.0-1.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos15-amd64 6.12.22+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.22-1~bpo12+1 (2025-04-25) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-37-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.140-1 (2025-05-22) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2490048/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 12 19:25 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -252,7 +284,7 @@ Get: 127 http://deb.debian.org/debian unstable/main amd64 libgslcblas0 amd64 2.8+dfsg-5 [116 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libgsl28 amd64 2.8+dfsg-5 [994 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 libgsl-dev amd64 2.8+dfsg-5 [1222 kB] -Fetched 137 MB in 4s (37.5 MB/s) +Fetched 137 MB in 4s (31.8 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (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 ... 19850 files and directories currently installed.) @@ -783,7 +815,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/libpdb-redo-3.3.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../libpdb-redo_3.3.0-1_source.changes +I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for experimental +I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/libpdb-redo-3.3.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../libpdb-redo_3.3.0-1_source.changes dpkg-buildpackage: info: source package libpdb-redo dpkg-buildpackage: info: source version 3.3.0-1 dpkg-buildpackage: info: source distribution experimental @@ -839,7 +875,7 @@ -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success -- Performing Test COMPILER_HAS_DEPRECATED_ATTR -- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success --- Configuring done (4.0s) +-- Configuring done (19.7s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: @@ -853,7 +889,7 @@ -- Build files have been written to: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0' dh_auto_build - cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j40 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.3.0 -B/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -865,30 +901,30 @@ make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' -[ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o -[ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o +[ 5%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/ClipperWrapper.cpp +[ 11%] Building CXX object CMakeFiles/pdb-redo.dir/src/Compound.cpp.o +[ 17%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/AtomShape.cpp +[ 23%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o +/usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Compound.cpp +/usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/BondMap.cpp [ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o -[ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -[ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o -[ 35%] Building CXX object CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS 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CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o +[ 41%] Building CXX object CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/BondMap.cpp +/usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/SkipList.cpp +[ 47%] Building CXX object CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o +[ 52%] Building CXX object CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o +[ 58%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/Ramachandran.cpp -[ 47%] Building CXX object CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o -[ 47%] Building CXX object CMakeFiles/pdb-redo.dir/src/Compound.cpp.o +[ 64%] 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-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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-ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-3.3.0/src/TLS.cpp +/usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.3.0/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o [ 88%] Building CXX object test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.3.0/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -MF CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o.d -o CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.3.0/test/restr2ccd-test.cpp +[ 88%] Building CXX object test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.3.0/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -MF CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o.d -o CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.3.0/test/pdb-redo-unit-test.cpp +cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.3.0/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -MF CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o.d -o CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.3.0/test/restr2ccd-test.cpp [ 94%] Linking CXX executable restr2ccd-test cd /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/restr2ccd-test.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/restr2ccd-test.dir/link.d "CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o" -o restr2ccd-test -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu ../libpdb-redo.so.3.3.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so @@ -925,10 +961,10 @@ /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' dh_auto_test - cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 + cd obj-x86_64-linux-gnu && make -j40 test ARGS\+=--verbose ARGS\+=-j40 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j42 +/usr/bin/ctest --force-new-ctest-process --verbose -j40 UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/DartConfiguration.tcl @@ -954,12 +990,12 @@ 2: Working Directory: /build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu/test 2: Test timeout computed to be: 1500 2: CCD components.cif resource was not found -2: Randomness seeded to: 3795648935 +2: Randomness seeded to: 782522530 2: Could not load the mon_lib_list.cif file from CCP4, please make sure you have installed CCP4 and sourced the environment. 2: 2: Configuration error: 2: -2: The attempt to retrieve compound information for "Z57-a" failed. +2: The attempt to retrieve compound information for "U8U" 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: @@ -989,8 +1025,8 @@ 2: =============================================================================== 2: All tests passed (12 assertions in 1 test case) 2: -1/2 Test #2: restr2ccd-test ................... Passed 0.01 sec -1: Randomness seeded to: 412909094 +1/2 Test #2: restr2ccd-test ................... Passed 0.21 sec +1: Randomness seeded to: 2486145384 1: Reading map from "/build/reproducible-path/libpdb-redo-3.3.0/test/../examples/1cbs_map.mtz" 1: with labels: FB: FWT,PHWT 1: with labels: FD: DELFWT,PHDELWT @@ -1129,16 +1165,16 @@ 1: =============================================================================== 1: All tests passed (738136 assertions in 7 test cases) 1: -2/2 Test #1: pdb-redo-unit-test ............... Passed 2.52 sec +2/2 Test #1: pdb-redo-unit-test ............... Passed 3.83 sec 100% tests passed, 0 tests failed out of 2 -Total Test time (real) = 2.52 sec +Total Test time (real) = 4.24 sec make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install - cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/libpdb-redo-3.3.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/libpdb-redo-3.3.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.3.0 -B/build/reproducible-path/libpdb-redo-3.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -1154,21 +1190,21 @@ -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets-none.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Restraints.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Version.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/MapMaker.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Statistics.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/exports.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Compound.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/DistanceMap.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/ClipperWrapper.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Minimizer.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/MapMaker.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/TLS.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/exports.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Version.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/ClipperWrapper.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/BondMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/ResolutionCalculator.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Minimizer.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Compound.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/AtomShape.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/BondMap.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/SkipList.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Statistics.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/include/pdb-redo/Restraints.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfig.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfigVersion.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.3.0/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/libpdb-redo.pc @@ -1191,9 +1227,9 @@ dh_gencontrol dh_md5sums dh_builddeb +dpkg-deb: building package 'libpdb-redo3.3-dbgsym' in '../libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb'. dpkg-deb: building package 'libpdb-redo-dev' in '../libpdb-redo-dev_3.3.0-1_amd64.deb'. dpkg-deb: building package 'libpdb-redo3.3' in '../libpdb-redo3.3_3.3.0-1_amd64.deb'. -dpkg-deb: building package 'libpdb-redo3.3-dbgsym' in '../libpdb-redo3.3-dbgsym_3.3.0-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libpdb-redo_3.3.0-1_amd64.buildinfo dpkg-genchanges --build=binary -O../libpdb-redo_3.3.0-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1201,12 +1237,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1337656/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/2490048 and its subdirectories -I: Current time: Wed Jul 8 23:42:09 -12 2026 -I: pbuilder-time-stamp: 1783597329 +I: removing directory /srv/workspace/pbuilder/1337656 and its subdirectories +I: Current time: Fri Jun 6 19:23:49 +14 2025 +I: pbuilder-time-stamp: 1749187429 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/experimental/amd64/libpdb-redo_3.3.0-1.diff: 84.2% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/experimental/amd64/libpdb-redo_3.3.0-1.diff.gz b2/build.log: 82.7% -- replaced with stdout Compressing the 1st log... b1/build.log: 83.2% -- replaced with stdout Fri Jun 6 05:23:51 UTC 2025 I: diffoscope 297 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_libpdb-redo_experimental_amd64_1749187431 + touch /var/log/reproducible-builds/diffoscope_stamp_libpdb-redo_experimental_amd64_1749187431 + RESULT=0 + systemd-run '--description=diffoscope on libpdb-redo/3.3.0-1 in experimental/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_4-55659 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR --run-session -c jenkins-reproducible-unstable-diffoscope-aca9003a-01da-4a34-a5ea-86bd3816f435 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/dbd-tmp-wSFe0r3 ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/libpdb-redo_3.3.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/libpdb-redo_3.3.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/libpdb-redo_3.3.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b1/libpdb-redo_3.3.0-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b2/libpdb-redo_3.3.0-1_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_4-55659.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/libpdb-redo_3.3.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/libpdb-redo_3.3.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/libpdb-redo_3.3.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b1/libpdb-redo_3.3.0-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.JZuHkcnR/b2/libpdb-redo_3.3.0-1_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 156ms CPU time consumed: 158ms _ _ _ _ _ _ | (_) |__ _ __ __| | |__ _ __ ___ __| | ___ | | | '_ \| '_ \ / _` | '_ \ _____| '__/ _ \/ _` |/ _ \ | | | |_) | |_) | (_| | |_) |_____| | | __/ (_| | (_) | |_|_|_.__/| .__/ \__,_|_.__/ |_| \___|\__,_|\___/ |_| Fri Jun 6 05:23:51 UTC 2025 I: diffoscope 297 found no differences in the changes files, and a .buildinfo file also exists. Fri Jun 6 05:23:51 UTC 2025 I: libpdb-redo from experimental built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-06-06 05:23:51] INFO: Starting at 2025-06-06 05:23:51.960486 [2025-06-06 05:23:52] INFO: Generating the pages of 1 package(s) [2025-06-06 05:23:52] CRITICAL: https://tests.reproducible-builds.org/debian/experimental/amd64/libpdb-redo didn't produce a buildlog, even though it has been built. [2025-06-06 05:23:52] INFO: Finished at 2025-06-06 05:23:52.177510, took: 0:00:00.217028 Fri Jun 6 05:23:52 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/experimental/amd64/libpdb-redo.html Fri Jun 6 05:23:52 UTC 2025 I: Removing signed libpdb-redo_3.3.0-1_amd64.buildinfo.asc files: removed './b1/libpdb-redo_3.3.0-1_amd64.buildinfo.asc' removed './b2/libpdb-redo_3.3.0-1_amd64.buildinfo.asc' 1749187432 amd64 experimental libpdb-redo Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/experimental/amd64/libpdb-redo_3.3.0-1.rbuild.log: 81.2% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/experimental/amd64/libpdb-redo_3.3.0-1.rbuild.log.gz [2025-06-06 05:23:52] INFO: Starting at 2025-06-06 05:23:52.436602 [2025-06-06 05:23:52] INFO: Generating the pages of 1 package(s) [2025-06-06 05:23:52] INFO: Finished at 2025-06-06 05:23:52.643880, took: 0:00:00.207281 All cleanup done. Fri Jun 6 05:23:52 UTC 2025 - total duration: 0h 6m 58s. Fri Jun 6 05:23:52 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-KffQgkVP, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 6min 59.231s CPU time consumed: 4.423s