I: pbuilder: network access will be disabled during build I: Current time: Sun Apr 28 22:35:07 +14 2024 I: pbuilder-time-stamp: 1714293307 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [seer_1.1.4-7.dsc] I: copying [./seer_1.1.4.orig.tar.gz] I: copying [./seer_1.1.4-7.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Nov 6 14:42:46 2022 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./seer_1.1.4-7.dsc: no acceptable signature found dpkg-source: info: extracting seer in seer-1.1.4 dpkg-source: info: unpacking seer_1.1.4.orig.tar.gz dpkg-source: info: unpacking seer_1.1.4-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_lib_location.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying gcc11.patch dpkg-source: info: applying typos.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4028845/tmp/hooks/D01_modify_environment starting debug: Running on codethink04-arm64. 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 Apr 28 08:35 /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/4028845/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/4028845/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]="21" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.2.21(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=f4f743bf354946c988694f2c41a716bd LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-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=4028845 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.S3mCo3hb/pbuilderrc_utAs --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.S3mCo3hb/b2 --logfile b2/build.log seer_1.1.4-7.dsc' SUDO_GID=109 SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://192.168.101.4:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-20-cloud-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Apr 23 11:23 /bin -> usr/bin I: user script /srv/workspace/pbuilder/4028845/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), libarmadillo-dev, libdlib-dev, libhdf5-dev, libgzstream-dev, libboost-dev, libboost-program-options-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19940 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 libarmadillo-dev; however: Package libarmadillo-dev is not installed. pbuilder-satisfydepends-dummy depends on libdlib-dev; however: Package libdlib-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libgzstream-dev; however: Package libgzstream-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-program-options-dev; however: Package libboost-program-options-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} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libboost-dev{a} libboost-program-options-dev{a} libboost-program-options1.83-dev{a} libboost-program-options1.83.0{a} libboost1.83-dev{a} libbsd0{a} libdebhelper-perl{a} libdlib-data{a} libdlib-dev{a} libdlib19.1t64{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgzstream-dev{a} libgzstream0{a} libhwloc15{a} libicu72{a} libjpeg62-turbo{a} liblapack3{a} libllvm17{a} libmagic-mgc{a} libmagic1{a} libopencv-core-dev{a} libopencv-core406{a} libpipeline1{a} libpng-dev{a} libpng16-16t64{a} libpthread-stubs0-dev{a} libpython3-dev{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8t64{a} libsensors-config{a} libsensors5{a} libsqlite3-dev{a} libsub-override-perl{a} libtbb-dev{a} libtbb12{a} libtbbbind-2-5{a} libtbbmalloc2{a} libtool{a} libuchardet0{a} libvulkan1{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb1{a} libxau-dev{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcb1-dev{a} libxdmcp-dev{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxml2{a} libxshmfence1{a} libxxf86vm1{a} libz3-4{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} pybind11-dev{a} readline-common{a} sensible-utils{a} tzdata{a} x11proto-dev{a} xorg-sgml-doctools{a} xtrans-dev{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libeigen3-dev libhwloc-plugins libltdl-dev libmail-sendmail-perl libpng-tools lynx mesa-vulkan-drivers wget 0 packages upgraded, 111 newly installed, 0 to remove and 0 not upgraded. Need to get 157 MB of archives. After unpacking 639 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: libarmadillo-dev but it is not installable Depends: libhdf5-dev but it is not installable The following actions will resolve these dependencies: Remove the following packages: 1) libssl3 [3.1.5-1 (now)] Install the following packages: 2) hdf5-helpers [1.10.10+repack-3+b1 (testing)] 3) libaec-dev [1.1.3-1 (testing)] 4) libaec0 [1.1.3-1 (testing)] 5) libarmadillo-dev [1:12.6.7+dfsg-1 (testing)] 6) libarmadillo12 [1:12.6.7+dfsg-1 (testing)] 7) libarpack2 [3.9.1-1+b1 (testing)] 8) libarpack2-dev [3.9.1-1+b1 (testing)] 9) libblis-serial-dev [0.9.0-1+b2 (testing)] 10) libblis4-serial [0.9.0-1+b2 (testing)] 11) libbrotli1 [1.1.0-2+b3 (testing)] 12) libcurl3t64-gnutls [8.7.1-3 (testing)] 13) libcurl4-gnutls-dev [8.7.1-3 (testing)] 14) libcurl4t64 [8.7.1-3 (testing)] 15) libhdf5-103-1 [1.10.10+repack-3+b1 (testing)] 16) libhdf5-cpp-103-1 [1.10.10+repack-3+b1 (testing)] 17) libhdf5-dev [1.10.10+repack-3+b1 (testing)] 18) libhdf5-fortran-102 [1.10.10+repack-3+b1 (testing)] 19) libhdf5-hl-100 [1.10.10+repack-3+b1 (testing)] 20) libhdf5-hl-cpp-100 [1.10.10+repack-3+b1 (testing)] 21) libhdf5-hl-fortran-100 [1.10.10+repack-3+b1 (testing)] 22) libjpeg62-turbo-dev [1:2.1.5-2+b2 (testing)] 23) liblapack-dev [3.12.0-3 (testing)] 24) libldap-2.5-0 [2.5.13+dfsg-5+b3 (testing)] 25) libnghttp2-14 [1.59.0-1 (testing)] 26) libpsl5t64 [0.21.2-1.1 (testing)] 27) librtmp1 [2.4+20151223.gitfa8646d.1-2+b4 (testing)] 28) libsasl2-2 [2.1.28+dfsg1-4+b1 (testing)] 29) libsasl2-modules-db [2.1.28+dfsg1-4+b1 (testing)] 30) libssh2-1t64 [1.11.0-4.1+b2 (testing)] 31) libssl-dev [3.2.1-3 (testing)] 32) libssl3t64 [3.2.1-3 (testing)] 33) libsuperlu-dev [6.0.1+dfsg1-1+b1 (testing)] 34) libsuperlu6 [6.0.1+dfsg1-1+b1 (testing)] 35) libsz2 [1.1.3-1 (testing)] The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} hdf5-helpers{a} intltool-debian{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libarmadillo-dev{a} libarmadillo12{a} libarpack2{a} libarpack2-dev{a} libblas3{a} libblis-serial-dev{a} libblis4-serial{a} libboost-dev{a} libboost-program-options-dev{a} libboost-program-options1.83-dev{a} libboost-program-options1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libbsd0{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdlib-data{a} libdlib-dev{a} libdlib19.1t64{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgzstream-dev{a} libgzstream0{a} libhdf5-103-1{a} libhdf5-cpp-103-1{a} libhdf5-dev{a} libhdf5-fortran-102{a} libhdf5-hl-100{a} libhdf5-hl-cpp-100{a} libhdf5-hl-fortran-100{a} libhwloc15{a} libicu72{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} libllvm17{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libopencv-core-dev{a} libopencv-core406{a} libpipeline1{a} libpng-dev{a} libpng16-16t64{a} libpsl5t64{a} libpthread-stubs0-dev{a} libpython3-dev{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsqlite3-dev{a} libssh2-1t64{a} libssl-dev{a} libssl3t64{a} libsub-override-perl{a} libsuperlu-dev{a} libsuperlu6{a} libsz2{a} libtbb-dev{a} libtbb12{a} libtbbbind-2-5{a} libtbbmalloc2{a} libtool{a} libuchardet0{a} libvulkan1{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb1{a} libxau-dev{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcb1-dev{a} libxdmcp-dev{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxml2{a} libxshmfence1{a} libxxf86vm1{a} libz3-4{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} pybind11-dev{a} readline-common{a} sensible-utils{a} tzdata{a} x11proto-dev{a} xorg-sgml-doctools{a} xtrans-dev{a} zlib1g-dev{a} The following packages will be REMOVED: libssl3{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libeigen3-dev libhwloc-plugins libldap-common libltdl-dev libmail-sendmail-perl libpng-tools libsasl2-modules lynx mesa-vulkan-drivers publicsuffix wget 0 packages upgraded, 145 newly installed, 1 to remove and 0 not upgraded. Need to get 175 MB of archives. After unpacking 726 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libssl3t64 arm64 3.2.1-3 [2537 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 tzdata all 2024a-3 [255 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 netbase all 6.4 [12.8 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-4 [69.3 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.22 [22.4 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-2+b1 [314 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 libmagic1 arm64 1:5.45-2+b1 [100 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-2+b1 [43.2 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.21-14+b1 [160 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-3+b1 [1126 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.39.3-6 [90.0 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.12.0-3 [1385 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 media-types all 10.1.0 [26.9 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.71-3 [332 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.21-14 [496 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 28 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.9.14+dfsg-1.3+b3 [624 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.21-14+b1 [1249 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.15.3 [901 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 hdf5-helpers arm64 1.10.10+repack-3+b1 [23.5 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 libaec0 arm64 1.1.3-1 [22.1 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libsz2 arm64 1.1.3-1 [7664 B] Get: 39 http://deb.debian.org/debian trixie/main arm64 libaec-dev arm64 1.1.3-1 [19.7 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.0-3 [91.7 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 libblis4-serial arm64 0.9.0-1+b2 [791 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14-20240330-1 [361 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.0-3 [1757 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libarpack2 arm64 3.9.1-1+b1 [81.2 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libsuperlu6 arm64 6.0.1+dfsg1-1+b1 [141 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libarmadillo12 arm64 1:12.6.7+dfsg-1 [102 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libblis-serial-dev arm64 0.9.0-1+b2 [884 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 liblapack-dev arm64 3.12.0-3 [3584 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libarpack2-dev arm64 3.9.1-1+b1 [98.2 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b3 [295 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-4+b1 [20.2 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-4+b1 [55.5 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libldap-2.5-0 arm64 2.5.13+dfsg-5+b3 [172 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.59.0-1 [70.2 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1 [56.8 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b4 [56.7 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.0-4.1+b2 [207 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 libcurl4t64 arm64 8.7.1-3 [412 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 libhdf5-103-1 arm64 1.10.10+repack-3+b1 [1036 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 libhdf5-fortran-102 arm64 1.10.10+repack-3+b1 [87.9 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 libhdf5-hl-100 arm64 1.10.10+repack-3+b1 [59.9 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libhdf5-hl-fortran-100 arm64 1.10.10+repack-3+b1 [38.5 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libhdf5-cpp-103-1 arm64 1.10.10+repack-3+b1 [119 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 libhdf5-hl-cpp-100 arm64 1.10.10+repack-3+b1 [21.1 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg-3.1 [915 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-2+b2 [172 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo-dev arm64 1:2.1.5-2+b2 [293 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 libcurl3t64-gnutls arm64 8.7.1-3 [405 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 libcurl4-gnutls-dev arm64 8.7.1-3 [523 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libssl-dev arm64 3.2.1-3 [3089 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libhdf5-dev arm64 1.10.10+repack-3+b1 [2691 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 libsuperlu-dev arm64 6.0.1+dfsg1-1+b1 [21.8 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 libarmadillo-dev arm64 1:12.6.7+dfsg-1 [408 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 libboost1.83-dev arm64 1.83.0-2+b2 [10.6 MB] Get: 75 http://deb.debian.org/debian trixie/main arm64 libboost-dev arm64 1.83.0.2+b2 [3828 B] Get: 76 http://deb.debian.org/debian trixie/main arm64 libboost-program-options1.83.0 arm64 1.83.0-2+b2 [332 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 libboost-program-options1.83-dev arm64 1.83.0-2+b2 [369 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libboost-program-options-dev arm64 1.83.0.2+b2 [3600 B] Get: 79 http://deb.debian.org/debian trixie/main arm64 libbsd0 arm64 0.12.2-1 [129 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libdlib-data all 19.24+dfsg-1.1 [63.4 MB] Get: 81 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.43-5 [272 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 libdlib19.1t64 arm64 19.24+dfsg-1.1 [3688 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libglvnd0 arm64 1.7.0-1+b1 [41.7 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.9-1+b1 [18.1 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.2-3+b1 [24.3 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.15-1 [143 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.7-1 [328 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.7-1+b1 [775 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libdrm-common all 2.4.120-2 [7688 B] Get: 90 http://deb.debian.org/debian trixie/main arm64 libdrm2 arm64 2.4.120-2 [37.5 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.2-1 [88.7 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 libglapi-mesa arm64 23.3.5-1 [45.5 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 libx11-xcb1 arm64 2:1.8.7-1+b1 [232 kB] Get: 94 http://deb.debian.org/debian trixie/main arm64 libxcb-dri2-0 arm64 1.15-1 [107 kB] Get: 95 http://deb.debian.org/debian trixie/main arm64 libxcb-dri3-0 arm64 1.15-1 [107 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 libxcb-glx0 arm64 1.15-1 [123 kB] Get: 97 http://deb.debian.org/debian trixie/main arm64 libxcb-present0 arm64 1.15-1 [106 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libxcb-randr0 arm64 1.15-1 [117 kB] Get: 99 http://deb.debian.org/debian trixie/main arm64 libxcb-shm0 arm64 1.15-1 [106 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 libxcb-sync1 arm64 1.15-1 [109 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 libxcb-xfixes0 arm64 1.15-1 [110 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 libxext6 arm64 2:1.3.4-1+b1 [51.7 kB] Get: 103 http://deb.debian.org/debian trixie/main arm64 libxfixes3 arm64 1:6.0.0-2+b1 [20.5 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 libxshmfence1 arm64 1.3-1+b1 [9080 B] Get: 105 http://deb.debian.org/debian trixie/main arm64 libxxf86vm1 arm64 1:1.1.4-1+b2 [20.1 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libvulkan1 arm64 1.3.280.0-1 [119 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 libdrm-amdgpu1 arm64 2.4.120-2 [21.0 kB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libdrm-nouveau2 arm64 2.4.120-2 [18.7 kB] Get: 109 http://deb.debian.org/debian trixie/main arm64 libdrm-radeon1 arm64 2.4.120-2 [21.1 kB] Get: 110 http://deb.debian.org/debian trixie/main arm64 libedit2 arm64 3.1-20230828-1+b1 [89.1 kB] Get: 111 http://deb.debian.org/debian trixie/main arm64 libz3-4 arm64 4.8.12-3.1+b2 [6508 kB] Get: 112 http://deb.debian.org/debian trixie/main arm64 libllvm17 arm64 1:17.0.6-5 [21.3 MB] Get: 113 http://deb.debian.org/debian trixie/main arm64 libsensors-config all 1:3.6.0-9 [14.6 kB] Get: 114 http://deb.debian.org/debian trixie/main arm64 libsensors5 arm64 1:3.6.0-9 [33.9 kB] Get: 115 http://deb.debian.org/debian trixie/main arm64 libgl1-mesa-dri arm64 23.3.5-1 [6928 kB] Get: 116 http://deb.debian.org/debian trixie/main arm64 libglx-mesa0 arm64 23.3.5-1 [150 kB] Get: 117 http://deb.debian.org/debian trixie/main arm64 libglx0 arm64 1.7.0-1+b1 [31.0 kB] Get: 118 http://deb.debian.org/debian trixie/main arm64 libtbbmalloc2 arm64 2021.11.0-2 [35.0 kB] Get: 119 http://deb.debian.org/debian trixie/main arm64 libhwloc15 arm64 2.10.0-1+b1 [140 kB] Get: 120 http://deb.debian.org/debian trixie/main arm64 libtbbbind-2-5 arm64 2021.11.0-2 [13.7 kB] Get: 121 http://deb.debian.org/debian trixie/main arm64 libtbb12 arm64 2021.11.0-2 [63.1 kB] Get: 122 http://deb.debian.org/debian trixie/main arm64 libopencv-core406 arm64 4.6.0+dfsg-13+b3 [875 kB] Get: 123 http://deb.debian.org/debian trixie/main arm64 libtbb-dev arm64 2021.11.0-2 [193 kB] Get: 124 http://deb.debian.org/debian trixie/main arm64 libopencv-core-dev arm64 4.6.0+dfsg-13+b3 [1627 kB] Get: 125 http://deb.debian.org/debian trixie/main arm64 libpng-dev arm64 1.6.43-5 [356 kB] Get: 126 http://deb.debian.org/debian trixie/main arm64 libsqlite3-dev arm64 3.45.1-1 [1040 kB] Get: 127 http://deb.debian.org/debian trixie/main arm64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get: 128 http://deb.debian.org/debian trixie/main arm64 x11proto-dev all 2024.1-1 [603 kB] Get: 129 http://deb.debian.org/debian trixie/main arm64 libxau-dev arm64 1:1.0.9-1+b1 [21.5 kB] Get: 130 http://deb.debian.org/debian trixie/main arm64 libxdmcp-dev arm64 1:1.1.2-3+b1 [40.6 kB] Get: 131 http://deb.debian.org/debian trixie/main arm64 xtrans-dev all 1.4.0-1 [98.7 kB] Get: 132 http://deb.debian.org/debian trixie/main arm64 libpthread-stubs0-dev arm64 0.4-1+b1 [5324 B] Get: 133 http://deb.debian.org/debian trixie/main arm64 libxcb1-dev arm64 1.15-1 [182 kB] Get: 134 http://deb.debian.org/debian trixie/main arm64 libx11-dev arm64 2:1.8.7-1+b1 [861 kB] Get: 135 http://deb.debian.org/debian trixie/main arm64 libpython3.11-minimal arm64 3.11.8-1 [811 kB] Get: 136 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-4 [157 kB] Get: 137 http://deb.debian.org/debian trixie/main arm64 libpython3.11-stdlib arm64 3.11.8-1 [1781 kB] Get: 138 http://deb.debian.org/debian trixie/main arm64 libpython3.11 arm64 3.11.8-1 [1844 kB] Get: 139 http://deb.debian.org/debian trixie/main arm64 libexpat1-dev arm64 2.6.2-1 [278 kB] Get: 140 http://deb.debian.org/debian trixie/main arm64 libpython3.11-dev arm64 3.11.8-1 [4289 kB] Get: 141 http://deb.debian.org/debian trixie/main arm64 libpython3-dev arm64 3.11.6-1 [9460 B] Get: 142 http://deb.debian.org/debian trixie/main arm64 pybind11-dev all 2.11.1-2 [191 kB] Get: 143 http://deb.debian.org/debian trixie/main arm64 libdlib-dev arm64 19.24+dfsg-1.1 [2024 kB] Get: 144 http://deb.debian.org/debian trixie/main arm64 libgzstream0 arm64 1.5+git20171107.9a20658-2 [7288 B] Get: 145 http://deb.debian.org/debian trixie/main arm64 libgzstream-dev arm64 1.5+git20171107.9a20658-2 [7488 B] Fetched 175 MB in 1s (240 MB/s) debconf: delaying package configuration, since apt-utils is not installed dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). coreutils depends on libssl3 (>= 3.0.0). (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 ... 19940 files and directories currently installed.) Removing libssl3:arm64 (3.1.5-1) ... Selecting previously unselected package libssl3t64:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19927 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.2.1-3_arm64.deb ... Unpacking libssl3t64:arm64 (3.2.1-3) ... Setting up libssl3t64:arm64 (3.2.1-3) ... Selecting previously unselected package tzdata. (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 ... 19942 files and directories currently installed.) Preparing to unpack .../000-tzdata_2024a-3_all.deb ... Unpacking tzdata (2024a-3) ... Selecting previously unselected package netbase. Preparing to unpack .../001-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package readline-common. Preparing to unpack .../002-readline-common_8.2-4_all.deb ... Unpacking readline-common (8.2-4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.45-2+b1_arm64.deb ... Unpacking libmagic-mgc (1:5.45-2+b1) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../005-libmagic1_1%3a5.45-2+b1_arm64.deb ... Unpacking libmagic1:arm64 (1:5.45-2+b1) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.45-2+b1_arm64.deb ... Unpacking file (1:5.45-2+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.21-14+b1_arm64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../008-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.23.0-3+b1_arm64.deb ... Unpacking groff-base (1.23.0-3+b1) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.39.3-6_arm64.deb ... Unpacking bsdextrautils (2.39.3-6) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../011-libpipeline1_1.5.7-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.12.0-3_arm64.deb ... Unpacking man-db (2.12.0-3) ... Selecting previously unselected package media-types. Preparing to unpack .../013-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package m4. Preparing to unpack .../014-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../015-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../016-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../017-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../018-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../019-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../020-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../021-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../022-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../023-libsub-override-perl_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../024-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../025-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../026-libelf1t64_0.191-1+b1_arm64.deb ... Unpacking libelf1t64:arm64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../027-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../028-libicu72_72.1-4+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-4+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../029-libxml2_2.9.14+dfsg-1.3+b3_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../030-gettext_0.21-14+b1_arm64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../031-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../032-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../033-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package hdf5-helpers. Preparing to unpack .../034-hdf5-helpers_1.10.10+repack-3+b1_arm64.deb ... Unpacking hdf5-helpers (1.10.10+repack-3+b1) ... Selecting previously unselected package libaec0:arm64. Preparing to unpack .../035-libaec0_1.1.3-1_arm64.deb ... Unpacking libaec0:arm64 (1.1.3-1) ... Selecting previously unselected package libsz2:arm64. Preparing to unpack .../036-libsz2_1.1.3-1_arm64.deb ... Unpacking libsz2:arm64 (1.1.3-1) ... Selecting previously unselected package libaec-dev:arm64. Preparing to unpack .../037-libaec-dev_1.1.3-1_arm64.deb ... Unpacking libaec-dev:arm64 (1.1.3-1) ... Selecting previously unselected package libblas3:arm64. Preparing to unpack .../038-libblas3_3.12.0-3_arm64.deb ... Unpacking libblas3:arm64 (3.12.0-3) ... Selecting previously unselected package libblis4-serial:arm64. Preparing to unpack .../039-libblis4-serial_0.9.0-1+b2_arm64.deb ... Unpacking libblis4-serial:arm64 (0.9.0-1+b2) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../040-libgfortran5_14-20240330-1_arm64.deb ... Unpacking libgfortran5:arm64 (14-20240330-1) ... Selecting previously unselected package liblapack3:arm64. Preparing to unpack .../041-liblapack3_3.12.0-3_arm64.deb ... Unpacking liblapack3:arm64 (3.12.0-3) ... Selecting previously unselected package libarpack2:arm64. Preparing to unpack .../042-libarpack2_3.9.1-1+b1_arm64.deb ... Unpacking libarpack2:arm64 (3.9.1-1+b1) ... Selecting previously unselected package libsuperlu6:arm64. Preparing to unpack .../043-libsuperlu6_6.0.1+dfsg1-1+b1_arm64.deb ... Unpacking libsuperlu6:arm64 (6.0.1+dfsg1-1+b1) ... Selecting previously unselected package libarmadillo12. Preparing to unpack .../044-libarmadillo12_1%3a12.6.7+dfsg-1_arm64.deb ... Unpacking libarmadillo12 (1:12.6.7+dfsg-1) ... Selecting previously unselected package libblis-serial-dev:arm64. 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Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/4028845/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/4028845/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/seer-1.1.4/ && 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 > ../seer_1.1.4-7_source.changes dpkg-buildpackage: info: source package seer dpkg-buildpackage: info: source version 1.1.4-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j12 clean make[1]: Entering directory '/build/reproducible-path/seer-1.1.4' cd src && make clean make[2]: Entering directory '/build/reproducible-path/seer-1.1.4/src' rm -f *.o ~* seer kmds map_back combineKmers filter_seer make[2]: Leaving directory '/build/reproducible-path/seer-1.1.4/src' cd test && make clean make[2]: Entering directory '/build/reproducible-path/seer-1.1.4/test' rm -f *.o ~* tests_passed make[2]: Leaving directory '/build/reproducible-path/seer-1.1.4/test' make[1]: Leaving directory '/build/reproducible-path/seer-1.1.4' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/seer-1.1.4' dh_auto_build -- LDFLAGS+=-L/usr/lib/aarch64-linux-gnu/hdf5/serial make -j12 "INSTALL=install --strip-program=true" LDFLAGS\+=-L/usr/lib/aarch64-linux-gnu/hdf5/serial make[2]: Entering directory '/build/reproducible-path/seer-1.1.4' cd src && make all make[3]: Entering directory '/build/reproducible-path/seer-1.1.4/src' g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o sample.o sample.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o significant_kmer.o significant_kmer.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o kmer.o kmer.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o covar.o covar.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerCommon.o seerCommon.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerErr.o seerErr.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerIO.o seerIO.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerBasicFilter.o seerBasicFilter.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerMain.o seerMain.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerCmdLine.o seerCmdLine.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerStats.o seerStats.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerContinuousAssoc.o seerContinuousAssoc.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerBinaryAssoc.o seerBinaryAssoc.cpp In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from linkFunction.hpp:6, from seer.hpp:10, from seerMain.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from seerErr.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from linkFunction.hpp:6, from seer.hpp:10, from seerContinuousAssoc.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from linkFunction.hpp:6, from seer.hpp:10, from seerStats.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from linkFunction.hpp:6, from seer.hpp:10, from seerCmdLine.cpp:9: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from seerIO.cpp:12: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/armadillo:26, from kmer.hpp:9, from kmer.cpp:8: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from seerCommon.cpp:9: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from seerBasicFilter.cpp:10: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from linkFunction.hpp:6, from seer.hpp:10, from seerBinaryAssoc.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o logitFunction.o logitFunction.cpp In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from linkFunction.hpp:6, from logitFunction.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o linearFunction.o linearFunction.cpp In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from linkFunction.hpp:6, from linearFunction.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o kmdsMain.o kmdsMain.cpp In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from kmds.hpp:9, from kmdsMain.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o kmdsStruct.o kmdsStruct.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o kmdsCmdLine.o kmdsCmdLine.cpp In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from kmds.hpp:9, from kmdsStruct.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from seercommon.hpp:30, from kmds.hpp:9, from kmdsCmdLine.cpp:8: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o fasta.o fasta.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o mapMain.o mapMain.cpp In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from /usr/include/armadillo:26, from seercommon.hpp:35: /usr/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /usr/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /usr/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o mapCmdLine.o mapCmdLine.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o combineInit.o combineInit.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o combineCmdLine.o combineCmdLine.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o combineKmers.o combineKmers.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o filter_seer.o filter_seer.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o filterCmdLine.o filterCmdLine.cpp g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial significant_kmer.o filter_seer.o filterCmdLine.o -lboost_program_options -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial -o filter_seer g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial fasta.o significant_kmer.o mapMain.o mapCmdLine.o -lboost_program_options -lpthread -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial -o map_back g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial combineInit.o combineCmdLine.o combineKmers.o -lgzstream -lz -lboost_program_options -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial -o combineKmers g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial sample.o significant_kmer.o kmer.o covar.o seerCommon.o seerErr.o seerIO.o seerBasicFilter.o seerMain.o seerCmdLine.o seerStats.o seerContinuousAssoc.o seerBinaryAssoc.o logitFunction.o linearFunction.o -lhdf5 -lgzstream -lz -larmadillo -lboost_program_options -llapack -lblas -lpthread -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial -o seer g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/seer-1.1.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial sample.o significant_kmer.o kmer.o covar.o seerCommon.o seerErr.o seerIO.o seerBasicFilter.o kmdsMain.o kmdsStruct.o kmdsCmdLine.o -lhdf5 -lgzstream -lz -larmadillo -lboost_program_options -llapack -lblas -lpthread -Wl,-z,relro -Wl,-z,now -L/usr/lib/aarch64-linux-gnu/hdf5/serial -o kmds make[3]: Leaving directory '/build/reproducible-path/seer-1.1.4/src' make[2]: Leaving directory '/build/reproducible-path/seer-1.1.4' make[1]: Leaving directory '/build/reproducible-path/seer-1.1.4' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/seer-1.1.4' if dh_auto_test ; then echo Test passed ; else echo '****************************** TEST FAILED. Please contact upstream *******************************' ; fi make -j12 test make[2]: Entering directory '/build/reproducible-path/seer-1.1.4' cd src && make all make[3]: Entering directory '/build/reproducible-path/seer-1.1.4/src' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/seer-1.1.4/src' cd test && make test make[3]: Entering directory '/build/reproducible-path/seer-1.1.4/test' ./run_test.pl && touch tests_passed PASSED test 1, basic filters PASSED test 2, binary phenotype assocation PASSED test 3, print output PASSED test 4, continuous phenotype assocation PASSED test 5, assocation with population structure PASSED test 6, assocation with covariates PASSED test 7, filter output PASSED test 8, map k-mers make[3]: Leaving directory '/build/reproducible-path/seer-1.1.4/test' make[2]: Leaving directory '/build/reproducible-path/seer-1.1.4' Test passed make[1]: Leaving directory '/build/reproducible-path/seer-1.1.4' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/seer-1.1.4' dh_auto_install -- PREFIX=/build/reproducible-path/seer-1.1.4/debian/seer/usr make -j12 install DESTDIR=/build/reproducible-path/seer-1.1.4/debian/seer AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" PREFIX=/build/reproducible-path/seer-1.1.4/debian/seer/usr make[2]: Entering directory '/build/reproducible-path/seer-1.1.4' cd src && make all make[3]: Entering directory '/build/reproducible-path/seer-1.1.4/src' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/seer-1.1.4/src' cd src && make install make[3]: Entering directory '/build/reproducible-path/seer-1.1.4/src' install -d /build/reproducible-path/seer-1.1.4/debian/seer/usr/bin install seer kmds map_back combineKmers filter_seer /build/reproducible-path/seer-1.1.4/debian/seer/usr/bin make[3]: Leaving directory '/build/reproducible-path/seer-1.1.4/src' make[2]: Leaving directory '/build/reproducible-path/seer-1.1.4' for pl in scripts/*.pl ; do \ plbase=`basename ${pl} .pl` ; \ sed "s+Usage: ./${plbase}.pl+Usage: ${plbase}+" ${pl} > /build/reproducible-path/seer-1.1.4/debian/seer/usr/bin/${plbase} ; \ done # Fix broken usage hint: sed -i "s+Usage: ./hits_to_matrix.pl+Usage: reformat_output+" /build/reproducible-path/seer-1.1.4/debian/seer/usr/bin/reformat_output make[1]: Leaving directory '/build/reproducible-path/seer-1.1.4' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms make[1]: Entering directory '/build/reproducible-path/seer-1.1.4' dh_fixperms find debian -name Makefile -exec chmod -x \{\} \; find debian -name "*.fa" -exec chmod -x \{\} \; make[1]: Leaving directory '/build/reproducible-path/seer-1.1.4' dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/seer/usr/bin/combineKmers was not linked against libz.so.1 (it uses none of the library's symbols) dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'seer' in '../seer_1.1.4-7_arm64.deb'. dpkg-deb: building package 'seer-dbgsym' in '../seer-dbgsym_1.1.4-7_arm64.deb'. dpkg-genbuildinfo --build=binary -O../seer_1.1.4-7_arm64.buildinfo dpkg-genchanges --build=binary -O../seer_1.1.4-7_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/4028845/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/4028845/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/4028845 and its subdirectories I: Current time: Sun Apr 28 22:36:41 +14 2024 I: pbuilder-time-stamp: 1714293401