sbuild (Debian sbuild) 0.85.9 (29 May 2024) on carme.larted.org.uk +==============================================================================+ | seer 1.1.4-7 (amd64) Wed, 05 Jun 2024 06:15:59 +0000 | +==============================================================================+ Package: seer Version: 1.1.4-7 Source Version: 1.1.4-7 Distribution: perl-5.40-throwaway Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: full I: NOTICE: Log filtering will replace 'var/run/schroot/mount/perl-5.40-amd64-debomatic-941ab6da-7d8c-4697-8225-f20624239216' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup seer_1.1.4-7 perl-5.40-throwaway amd64 ------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup seer_1.1.4-7 perl-5.40-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: NOTICE: Log filtering will replace 'build/seer-NSWEFG/resolver-jWMaap' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.40 InRelease [3039 B] Get:2 http://localhost:3142/debian unstable InRelease [198 kB] Get:1 file:/srv/reprepro perl-5.40 InRelease [3039 B] Get:3 http://localhost:3142/debian sid InRelease [198 kB] Get:4 http://localhost:3142/debian unstable/main amd64 Packages.diff/Index [63.6 kB] Get:5 http://localhost:3142/debian unstable/main amd64 Packages T-2024-06-05-0204.17-F-2024-06-03-0205.12.pdiff [116 kB] Get:6 file:/srv/reprepro perl-5.40/main amd64 Packages [598 kB] Get:5 http://localhost:3142/debian unstable/main amd64 Packages T-2024-06-05-0204.17-F-2024-06-03-0205.12.pdiff [116 kB] Get:7 http://localhost:3142/debian sid/main Sources.diff/Index [63.6 kB] Get:8 http://localhost:3142/debian sid/main Sources T-2024-06-05-0204.17-F-2024-06-03-0205.12.pdiff [76.9 kB] Get:8 http://localhost:3142/debian sid/main Sources T-2024-06-05-0204.17-F-2024-06-03-0205.12.pdiff [76.9 kB] Fetched 716 kB in 2s (299 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: bsdutils libblkid1 libmount1 libsmartcols1 libssl3t64 libuuid1 login passwd util-linux 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 5660 kB of archives. After this operation, 53.2 kB disk space will be freed. Get:1 http://localhost:3142/debian unstable/main amd64 bsdutils amd64 1:2.40.1-8 [104 kB] Get:2 http://localhost:3142/debian unstable/main amd64 login amd64 1:4.13+dfsg1-5 [590 kB] Get:3 http://localhost:3142/debian unstable/main amd64 libsmartcols1 amd64 2.40.1-8 [137 kB] Get:4 http://localhost:3142/debian unstable/main amd64 libuuid1 amd64 2.40.1-8 [34.7 kB] Get:5 http://localhost:3142/debian unstable/main amd64 libblkid1 amd64 2.40.1-8 [166 kB] Get:6 http://localhost:3142/debian unstable/main amd64 libmount1 amd64 2.40.1-8 [197 kB] Get:7 http://localhost:3142/debian unstable/main amd64 util-linux amd64 2.40.1-8 [1210 kB] Get:8 http://localhost:3142/debian unstable/main amd64 passwd amd64 1:4.13+dfsg1-5 [974 kB] Get:9 http://localhost:3142/debian unstable/main amd64 libssl3t64 amd64 3.2.2-1 [2246 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 5660 kB in 0s (134 MB/s) (Reading database ... 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Processing triggers for libc-bin (2.38-12) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/seer_1.1.4-7.dsc exists in /srv/debomatic/incoming; copying to chroot I: NOTICE: Log filtering will replace 'build/seer-NSWEFG/seer-1.1.4' with '<>' I: NOTICE: Log filtering will replace 'build/seer-NSWEFG' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libarmadillo-dev, libdlib-dev, libhdf5-dev, libgzstream-dev, libboost-dev, libboost-program-options-dev, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), libarmadillo-dev, libdlib-dev, libhdf5-dev, libgzstream-dev, libboost-dev, libboost-program-options-dev, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [722 B] Get:5 copy:/<>/apt_archive ./ Packages [754 B] Fetched 2085 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libarmadillo-dev libarmadillo12 libarpack2-dev libarpack2t64 libblas-dev libblas3 libboost-dev libboost-program-options-dev libboost-program-options1.83-dev libboost-program-options1.83.0 libboost1.83-dev libbrotli1 libbsd0 libcom-err2 libcurl4-openssl-dev libcurl4t64 libdebhelper-perl libdlib-data libdlib-dev libdlib19.1t64 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-radeon1 libdrm2 libedit2 libelf1t64 libexpat1 libexpat1-dev libfakeroot libfile-stripnondeterminism-perl libgfortran5 libgl1-mesa-dri libglapi-mesa libglvnd0 libglx-mesa0 libglx0 libgssapi-krb5-2 libgzstream-dev libgzstream0 libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-dev libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libhwloc15 libicu72 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 libllvm17t64 libmagic-mgc libmagic1t64 libnghttp2-14 libopencv-core-dev libopencv-core406t64 libpciaccess0 libpipeline1 libpng-dev libpng16-16t64 libpsl5t64 libpython3-dev libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libpython3.11t64 librtmp1 libsensors-config libsensors5 libsqlite3-dev libssh2-1t64 libssl-dev libsuperlu-dev libsuperlu6 libsz2 libtbb-dev libtbb12 libtbbbind-2-5 libtbbmalloc2 libtool libuchardet0 libvulkan1 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext6 libxfixes3 libxml2 libxshmfence1 libxxf86vm1 libz3-4 m4 man-db media-types netbase po-debconf pybind11-dev sensible-utils tzdata x11proto-dev xorg-sgml-doctools xtrans-dev zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libitpp-dev liblapack-doc libboost-doc libboost1.83-doc libboost-atomic1.83-dev libboost-chrono1.83-dev libboost-container1.83-dev libboost-context1.83-dev libboost-contract1.83-dev libboost-coroutine1.83-dev libboost-date-time1.83-dev libboost-exception1.83-dev libboost-fiber1.83-dev libboost-filesystem1.83-dev libboost-graph-parallel1.83-dev libboost-graph1.83-dev libboost-iostreams1.83-dev libboost-json1.83-dev libboost-locale1.83-dev libboost-log1.83-dev libboost-math1.83-dev libboost-mpi-python1.83-dev libboost-mpi1.83-dev libboost-nowide1.83-dev libboost-numpy1.83-dev libboost-python1.83-dev libboost-random1.83-dev libboost-regex1.83-dev libboost-serialization1.83-dev libboost-stacktrace1.83-dev libboost-system1.83-dev libboost-test1.83-dev libboost-thread1.83-dev libboost-timer1.83-dev libboost-type-erasure1.83-dev libboost-url1.83-dev libboost-wave1.83-dev libboost1.83-tools-dev libmpfrc++-dev libntl-dev libcurl4-doc libidn-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkgconf krb5-doc krb5-user libhdf5-doc libhwloc-contrib-plugins pciutils lm-sensors sqlite3-doc libssl-doc libsuperlu-doc libtbb-doc libtool-doc gfortran | fortran95-compiler gcj-jdk libx11-doc libxcb-doc m4-doc apparmor less www-browser libmail-box-perl pybind11-doc Recommended packages: curl | wget | lynx ca-certificates libarchive-cpio-perl libhwloc-plugins krb5-locales libpng-tools publicsuffix libltdl-dev mesa-vulkan-drivers | vulkan-icd libmail-sendmail-perl libeigen3-dev The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libarmadillo-dev libarmadillo12 libarpack2-dev libarpack2t64 libblas-dev libblas3 libboost-dev libboost-program-options-dev libboost-program-options1.83-dev libboost-program-options1.83.0 libboost1.83-dev libbrotli1 libbsd0 libcom-err2 libcurl4-openssl-dev libcurl4t64 libdebhelper-perl libdlib-data libdlib-dev libdlib19.1t64 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-radeon1 libdrm2 libedit2 libelf1t64 libexpat1 libexpat1-dev libfakeroot libfile-stripnondeterminism-perl libgfortran5 libgl1-mesa-dri libglapi-mesa libglvnd0 libglx-mesa0 libglx0 libgssapi-krb5-2 libgzstream-dev libgzstream0 libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhdf5-dev libhdf5-fortran-102t64 libhdf5-hl-100t64 libhdf5-hl-cpp-100t64 libhdf5-hl-fortran-100t64 libhwloc15 libicu72 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 libllvm17t64 libmagic-mgc libmagic1t64 libnghttp2-14 libopencv-core-dev libopencv-core406t64 libpciaccess0 libpipeline1 libpng-dev libpng16-16t64 libpsl5t64 libpython3-dev libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libpython3.11t64 librtmp1 libsensors-config libsensors5 libsqlite3-dev libssh2-1t64 libssl-dev libsuperlu-dev libsuperlu6 libsz2 libtbb-dev libtbb12 libtbbbind-2-5 libtbbmalloc2 libtool libuchardet0 libvulkan1 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext6 libxfixes3 libxml2 libxshmfence1 libxxf86vm1 libz3-4 m4 man-db media-types netbase po-debconf pybind11-dev sbuild-build-depends-main-dummy sensible-utils tzdata x11proto-dev xorg-sgml-doctools xtrans-dev zlib1g-dev 0 upgraded, 146 newly installed, 0 to remove and 0 not upgraded. Need to get 180 MB of archives. After this operation, 729 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [928 B] Get:2 http://localhost:3142/debian unstable/main amd64 tzdata all 2024a-4 [255 kB] Get:3 http://localhost:3142/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get:4 http://localhost:3142/debian unstable/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get:5 http://localhost:3142/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get:6 http://localhost:3142/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get:7 http://localhost:3142/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get:8 http://localhost:3142/debian unstable/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get:9 http://localhost:3142/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get:10 http://localhost:3142/debian unstable/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get:11 http://localhost:3142/debian unstable/main amd64 bsdextrautils amd64 2.40.1-8 [96.0 kB] Get:12 http://localhost:3142/debian unstable/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get:13 http://localhost:3142/debian unstable/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get:14 http://localhost:3142/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get:15 http://localhost:3142/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get:16 http://localhost:3142/debian unstable/main amd64 autoconf all 2.71-3 [332 kB] Get:17 http://localhost:3142/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:18 http://localhost:3142/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:19 http://localhost:3142/debian unstable/main amd64 autopoint all 0.21-14 [496 kB] Get:20 http://localhost:3142/debian unstable/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get:21 http://localhost:3142/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get:22 http://localhost:3142/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:23 http://localhost:3142/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:24 http://localhost:3142/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get:25 http://localhost:3142/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get:26 http://localhost:3142/debian unstable/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get:27 http://localhost:3142/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:28 http://localhost:3142/debian unstable/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get:29 http://localhost:3142/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg-3 [670 kB] Get:30 http://localhost:3142/debian unstable/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get:31 http://localhost:3142/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:32 http://localhost:3142/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:33 http://localhost:3142/debian unstable/main amd64 debhelper all 13.15.3 [901 kB] Get:34 http://localhost:3142/debian unstable/main amd64 libfakeroot amd64 1.34-1 [28.9 kB] Get:35 http://localhost:3142/debian unstable/main amd64 fakeroot amd64 1.34-1 [74.0 kB] Get:36 http://localhost:3142/debian unstable/main amd64 hdf5-helpers amd64 1.10.10+repack-3.3 [23.4 kB] Get:37 http://localhost:3142/debian unstable/main amd64 libaec0 amd64 1.1.3-1 [23.4 kB] Get:38 http://localhost:3142/debian unstable/main amd64 libsz2 amd64 1.1.3-1 [7740 B] Get:39 http://localhost:3142/debian unstable/main amd64 libaec-dev amd64 1.1.3-1 [21.0 kB] Get:40 http://localhost:3142/debian unstable/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:41 http://localhost:3142/debian unstable/main amd64 libgfortran5 amd64 14.1.0-1 [836 kB] Get:42 http://localhost:3142/debian unstable/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:43 http://localhost:3142/debian unstable/main amd64 libarpack2t64 amd64 3.9.1-1.1+b1 [104 kB] Get:44 http://localhost:3142/debian unstable/main amd64 libsuperlu6 amd64 6.0.1+dfsg1-1+b1 [170 kB] Get:45 http://localhost:3142/debian unstable/main amd64 libarmadillo12 amd64 1:12.8.2+dfsg-1+b1 [102 kB] Get:46 http://localhost:3142/debian unstable/main amd64 libblas-dev amd64 3.12.0-3 [159 kB] Get:47 http://localhost:3142/debian unstable/main amd64 liblapack-dev amd64 3.12.0-3 [4880 kB] Get:48 http://localhost:3142/debian unstable/main amd64 libarpack2-dev amd64 3.9.1-1.1+b1 [119 kB] Get:49 http://localhost:3142/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b3 [305 kB] Get:50 http://localhost:3142/debian unstable/main amd64 libkrb5support0 amd64 1.20.1-6+b1 [33.3 kB] Get:51 http://localhost:3142/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get:52 http://localhost:3142/debian unstable/main amd64 libk5crypto3 amd64 1.20.1-6+b1 [79.8 kB] Get:53 http://localhost:3142/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:54 http://localhost:3142/debian unstable/main amd64 libkrb5-3 amd64 1.20.1-6+b1 [333 kB] Get:55 http://localhost:3142/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.20.1-6+b1 [135 kB] Get:56 http://localhost:3142/debian unstable/main amd64 libnghttp2-14 amd64 1.61.0-1+b1 [75.6 kB] Get:57 http://localhost:3142/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:58 http://localhost:3142/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:59 http://localhost:3142/debian unstable/main amd64 libssh2-1t64 amd64 1.11.0-5 [215 kB] Get:60 http://localhost:3142/debian unstable/main amd64 libcurl4t64 amd64 8.8.0-1 [441 kB] Get:61 http://localhost:3142/debian unstable/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-3.3 [1241 kB] Get:62 http://localhost:3142/debian unstable/main amd64 libhdf5-fortran-102t64 amd64 1.10.10+repack-3.3 [89.3 kB] Get:63 http://localhost:3142/debian unstable/main amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-3.3 [63.3 kB] Get:64 http://localhost:3142/debian unstable/main amd64 libhdf5-hl-fortran-100t64 amd64 1.10.10+repack-3.3 [40.4 kB] Get:65 http://localhost:3142/debian unstable/main amd64 libhdf5-cpp-103-1t64 amd64 1.10.10+repack-3.3 [131 kB] Get:66 http://localhost:3142/debian unstable/main amd64 libhdf5-hl-cpp-100t64 amd64 1.10.10+repack-3.3 [21.3 kB] Get:67 http://localhost:3142/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get:68 http://localhost:3142/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get:69 http://localhost:3142/debian unstable/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3 [290 kB] Get:70 http://localhost:3142/debian unstable/main amd64 libjpeg-dev amd64 1:2.1.5-3 [71.9 kB] Get:71 http://localhost:3142/debian unstable/main amd64 libcurl4-openssl-dev amd64 8.8.0-1 [548 kB] Get:72 http://localhost:3142/debian unstable/main amd64 libssl-dev amd64 3.2.2-1 [2701 kB] Get:73 http://localhost:3142/debian unstable/main amd64 libhdf5-dev amd64 1.10.10+repack-3.3 [2639 kB] Get:74 http://localhost:3142/debian unstable/main amd64 libsuperlu-dev amd64 6.0.1+dfsg1-1+b1 [21.8 kB] Get:75 http://localhost:3142/debian unstable/main amd64 libarmadillo-dev amd64 1:12.8.2+dfsg-1+b1 [410 kB] Get:76 http://localhost:3142/debian unstable/main amd64 libboost1.83-dev amd64 1.83.0-3 [10.6 MB] Get:77 http://localhost:3142/debian unstable/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get:78 http://localhost:3142/debian unstable/main amd64 libboost-program-options1.83.0 amd64 1.83.0-3 [345 kB] Get:79 http://localhost:3142/debian unstable/main amd64 libboost-program-options1.83-dev amd64 1.83.0-3 [373 kB] Get:80 http://localhost:3142/debian unstable/main amd64 libboost-program-options-dev amd64 1.83.0.2+b2 [3612 B] Get:81 http://localhost:3142/debian unstable/main amd64 libbsd0 amd64 0.12.2-1 [131 kB] Get:82 http://localhost:3142/debian unstable/main amd64 libdlib-data all 19.24+dfsg-2 [63.4 MB] Get:83 http://localhost:3142/debian unstable/main amd64 libpng16-16t64 amd64 1.6.43-5 [278 kB] Get:84 http://localhost:3142/debian unstable/main amd64 libdlib19.1t64 amd64 19.24+dfsg-2 [3755 kB] Get:85 http://localhost:3142/debian unstable/main amd64 libglvnd0 amd64 1.7.0-1+b1 [56.3 kB] Get:86 http://localhost:3142/debian unstable/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get:87 http://localhost:3142/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get:88 http://localhost:3142/debian unstable/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get:89 http://localhost:3142/debian unstable/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:90 http://localhost:3142/debian unstable/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get:91 http://localhost:3142/debian unstable/main amd64 libdrm-common all 2.4.120-2 [7688 B] Get:92 http://localhost:3142/debian unstable/main amd64 libdrm2 amd64 2.4.120-2 [38.1 kB] Get:93 http://localhost:3142/debian unstable/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get:94 http://localhost:3142/debian unstable/main amd64 libglapi-mesa amd64 24.1.0-2 [36.6 kB] Get:95 http://localhost:3142/debian unstable/main amd64 libx11-xcb1 amd64 2:1.8.7-1+b1 [232 kB] Get:96 http://localhost:3142/debian unstable/main amd64 libxcb-dri2-0 amd64 1.17.0-2 [106 kB] Get:97 http://localhost:3142/debian unstable/main amd64 libxcb-dri3-0 amd64 1.17.0-2 [107 kB] Get:98 http://localhost:3142/debian unstable/main amd64 libxcb-glx0 amd64 1.17.0-2 [122 kB] Get:99 http://localhost:3142/debian unstable/main amd64 libxcb-present0 amd64 1.17.0-2 [105 kB] Get:100 http://localhost:3142/debian unstable/main amd64 libxcb-randr0 amd64 1.17.0-2 [116 kB] Get:101 http://localhost:3142/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get:102 http://localhost:3142/debian unstable/main amd64 libxcb-sync1 amd64 1.17.0-2 [108 kB] Get:103 http://localhost:3142/debian unstable/main amd64 libxcb-xfixes0 amd64 1.17.0-2 [109 kB] Get:104 http://localhost:3142/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:105 http://localhost:3142/debian unstable/main amd64 libxfixes3 amd64 1:6.0.0-2+b1 [20.3 kB] Get:106 http://localhost:3142/debian unstable/main amd64 libxshmfence1 amd64 1.3-1+b1 [8852 B] Get:107 http://localhost:3142/debian unstable/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:108 http://localhost:3142/debian unstable/main amd64 libvulkan1 amd64 1.3.283.0-1 [125 kB] Get:109 http://localhost:3142/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.120-2 [21.4 kB] Get:110 http://localhost:3142/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b1 [51.9 kB] Get:111 http://localhost:3142/debian unstable/main amd64 libdrm-intel1 amd64 2.4.120-2 [62.7 kB] Get:112 http://localhost:3142/debian unstable/main amd64 libdrm-radeon1 amd64 2.4.120-2 [22.2 kB] Get:113 http://localhost:3142/debian unstable/main amd64 libedit2 amd64 3.1-20240517-1 [93.3 kB] Get:114 http://localhost:3142/debian unstable/main amd64 libz3-4 amd64 4.8.12-3.1+b2 [7346 kB] Get:115 http://localhost:3142/debian unstable/main amd64 libllvm17t64 amd64 1:17.0.6-12 [23.7 MB] Get:116 http://localhost:3142/debian unstable/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get:117 http://localhost:3142/debian unstable/main amd64 libsensors5 amd64 1:3.6.0-10 [34.7 kB] Get:118 http://localhost:3142/debian unstable/main amd64 libgl1-mesa-dri amd64 24.1.0-2 [8638 kB] Get:119 http://localhost:3142/debian unstable/main amd64 libglx-mesa0 amd64 24.1.0-2 [151 kB] Get:120 http://localhost:3142/debian unstable/main amd64 libglx0 amd64 1.7.0-1+b1 [35.0 kB] Get:121 http://localhost:3142/debian unstable/main amd64 libtbbmalloc2 amd64 2021.11.0-2 [48.6 kB] Get:122 http://localhost:3142/debian unstable/main amd64 libhwloc15 amd64 2.10.0-1+b1 [161 kB] Get:123 http://localhost:3142/debian unstable/main amd64 libtbbbind-2-5 amd64 2021.11.0-2 [14.1 kB] Get:124 http://localhost:3142/debian unstable/main amd64 libtbb12 amd64 2021.11.0-2 [87.6 kB] Get:125 http://localhost:3142/debian unstable/main amd64 libopencv-core406t64 amd64 4.6.0+dfsg-13.1+b3 [1116 kB] Get:126 http://localhost:3142/debian unstable/main amd64 libtbb-dev amd64 2021.11.0-2 [193 kB] Get:127 http://localhost:3142/debian unstable/main amd64 libopencv-core-dev amd64 4.6.0+dfsg-13.1+b3 [1863 kB] Get:128 http://localhost:3142/debian unstable/main amd64 libpng-dev amd64 1.6.43-5 [360 kB] Get:129 http://localhost:3142/debian unstable/main amd64 libsqlite3-dev amd64 3.46.0-1 [1096 kB] Get:130 http://localhost:3142/debian unstable/main amd64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get:131 http://localhost:3142/debian unstable/main amd64 x11proto-dev all 2024.1-1 [603 kB] Get:132 http://localhost:3142/debian unstable/main amd64 libxau-dev amd64 1:1.0.9-1+b1 [21.3 kB] Get:133 http://localhost:3142/debian unstable/main amd64 libxdmcp-dev amd64 1:1.1.2-3+b1 [40.8 kB] Get:134 http://localhost:3142/debian unstable/main amd64 xtrans-dev all 1.4.0-1 [98.7 kB] Get:135 http://localhost:3142/debian unstable/main amd64 libxcb1-dev amd64 1.17.0-2 [181 kB] Get:136 http://localhost:3142/debian unstable/main amd64 libx11-dev amd64 2:1.8.7-1+b1 [875 kB] Get:137 http://localhost:3142/debian unstable/main amd64 libpython3.11-minimal amd64 3.11.9-1 [817 kB] Get:138 http://localhost:3142/debian unstable/main amd64 libpython3.11-stdlib amd64 3.11.9-1 [1792 kB] Get:139 http://localhost:3142/debian unstable/main amd64 libpython3.11t64 amd64 3.11.9-1 [1960 kB] Get:140 http://localhost:3142/debian unstable/main amd64 libexpat1-dev amd64 2.6.2-1 [155 kB] Get:141 http://localhost:3142/debian unstable/main amd64 libpython3.11-dev amd64 3.11.9-1 [4513 kB] Get:142 http://localhost:3142/debian unstable/main amd64 libpython3-dev amd64 3.11.8-1 [9560 B] Get:143 http://localhost:3142/debian unstable/main amd64 pybind11-dev all 2.12.0-1 [198 kB] Get:144 http://localhost:3142/debian unstable/main amd64 libdlib-dev amd64 19.24+dfsg-2 [2056 kB] Get:145 http://localhost:3142/debian unstable/main amd64 libgzstream0 amd64 1.5+git20171107.9a20658-2 [7228 B] Get:146 http://localhost:3142/debian unstable/main amd64 libgzstream-dev amd64 1.5+git20171107.9a20658-2 [7380 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 180 MB in 6s (28.1 MB/s) Selecting previously unselected package tzdata. (Reading database ... 21765 files and directories currently installed.) Preparing to unpack .../000-tzdata_2024a-4_all.deb ... Unpacking tzdata (2024a-4) ... Selecting previously unselected package netbase. Preparing to unpack .../001-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../004-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../005-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. 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Unpacking libelf1t64:amd64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../025-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../026-libicu72_72.1-4+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-4+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../027-libxml2_2.12.7+dfsg-3_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg-3) ... Selecting previously unselected package gettext. Preparing to unpack .../028-gettext_0.21-14+b1_amd64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../029-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 .../030-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... 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Setting up m4 (1.4.19-4) ... Setting up libcom-err2:amd64 (1.47.1-1) ... Setting up file (1:5.45-3) ... Setting up libaec0:amd64 (1.1.3-1) ... Setting up libfakeroot:amd64 (1.34-1) ... Setting up libelf1t64:amd64 (0.191-1+b1) ... Setting up libkrb5support0:amd64 (1.20.1-6+b1) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Jun 5 06:16:29 UTC 2024. Universal Time is now: Wed Jun 5 06:16:29 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up fakeroot (1.34-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up xtrans-dev (1.4.0-1) ... Setting up autotools-dev (20220109.1) ... Setting up libz3-4:amd64 (4.8.12-3.1+b2) ... Setting up libblas3:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libexpat1-dev:amd64 (2.6.2-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3) ... Setting up libsqlite3-dev:amd64 (3.46.0-1) ... Setting up libboost-program-options-dev:amd64 (1.83.0.2+b2) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.1.5-3) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libssl-dev:amd64 (3.2.2-1) ... Setting up libpng16-16t64:amd64 (1.6.43-5) ... Setting up libhwloc15:amd64 (2.10.0-1+b1) ... Setting up autopoint (0.21-14) ... Setting up libsensors5:amd64 (1:3.6.0-10) ... Setting up libk5crypto3:amd64 (1.20.1-6+b1) ... Setting up libglapi-mesa:amd64 (24.1.0-2) ... Setting up libgfortran5:amd64 (14.1.0-1) ... Setting up libvulkan1:amd64 (1.3.283.0-1) ... Setting up autoconf (2.71-3) ... Setting up libgzstream0:amd64 (1.5+git20171107.9a20658-2) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libxshmfence1:amd64 (1.3-1+b1) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up xorg-sgml-doctools (1:1.11-1.1) ... Setting up netbase (6.4) ... Configuration file '/etc/protocols' ==> File on system created by you or by a script. ==> File also in package provided by package maintainer. ==> Using current old file as you requested. Configuration file '/etc/services' ==> File on system created by you or by a script. ==> File also in package provided by package maintainer. ==> Using current old file as you requested. Setting up libkrb5-3:amd64 (1.20.1-6+b1) ... Setting up libboost-dev:amd64 (1.83.0.2+b2) ... Setting up libpython3.11-minimal:amd64 (3.11.9-1) ... Setting up libssh2-1t64:amd64 (1.11.0-5) ... Setting up libbsd0:amd64 (0.12.2-1) ... Setting up libdrm-common (2.4.120-2) ... Setting up libxml2:amd64 (2.12.7+dfsg-3) ... Setting up libdlib-data (19.24+dfsg-2) ... Setting up libblas-dev:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode Setting up libsz2:amd64 (1.1.3-1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up x11proto-dev (2024.1-1) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3+b1) ... Setting up liblapack3:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.17.0-2) ... Setting up gettext (0.21-14+b1) ... Setting up libarpack2t64:amd64 (3.9.1-1.1+b1) ... Setting up libxcb-xfixes0:amd64 (1.17.0-2) ... Setting up libxau-dev:amd64 (1:1.0.9-1+b1) ... Setting up libtool (2.4.7-7) ... Setting up libxcb-glx0:amd64 (1.17.0-2) ... Setting up libpython3.11-stdlib:amd64 (3.11.9-1) ... Setting up libedit2:amd64 (3.1-20240517-1) ... Setting up libpython3.11t64:amd64 (3.11.9-1) ... Setting up libpng-dev:amd64 (1.6.43-5) ... Setting up libaec-dev:amd64 (1.1.3-1) ... Setting up libjpeg-dev:amd64 (1:2.1.5-3) ... Setting up libxcb-shm0:amd64 (1.17.0-2) ... Setting up libsuperlu6:amd64 (6.0.1+dfsg1-1+b1) ... Setting up libtbbbind-2-5:amd64 (2021.11.0-2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libxcb-present0:amd64 (1.17.0-2) ... Setting up libgzstream-dev:amd64 (1.5+git20171107.9a20658-2) ... Setting up dh-autoreconf (20) ... Setting up libxdmcp-dev:amd64 (1:1.1.2-3+b1) ... Setting up libdlib19.1t64:amd64 (19.24+dfsg-2) ... Setting up libllvm17t64:amd64 (1:17.0.6-12) ... Setting up libxcb-sync1:amd64 (1.17.0-2) ... Setting up libpython3.11-dev:amd64 (3.11.9-1) ... Setting up liblapack-dev:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode Setting up libgssapi-krb5-2:amd64 (1.20.1-6+b1) ... Setting up libxcb-dri2-0:amd64 (1.17.0-2) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libdrm2:amd64 (2.4.120-2) ... Setting up groff-base (1.23.0-4) ... Setting up libxcb-randr0:amd64 (1.17.0-2) ... Setting up libx11-6:amd64 (2:1.8.7-1+b1) ... Setting up libsuperlu-dev:amd64 (6.0.1+dfsg1-1+b1) ... Setting up libarmadillo12 (1:12.8.2+dfsg-1+b1) ... Setting up libdrm-amdgpu1:amd64 (2.4.120-2) ... Setting up libxcb-dri3-0:amd64 (1.17.0-2) ... Setting up libx11-xcb1:amd64 (2:1.8.7-1+b1) ... Setting up libarpack2-dev:amd64 (3.9.1-1.1+b1) ... Setting up libpython3-dev:amd64 (3.11.8-1) ... Setting up libxcb1-dev:amd64 (1.17.0-2) ... Setting up libcurl4t64:amd64 (8.8.0-1) ... Setting up libdrm-radeon1:amd64 (2.4.120-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libdrm-intel1:amd64 (2.4.120-2) ... Setting up libgl1-mesa-dri:amd64 (24.1.0-2) ... Setting up libx11-dev:amd64 (2:1.8.7-1+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libtbb12:amd64 (2021.11.0-2) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up pybind11-dev (2.12.0-1) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b1) ... Setting up libcurl4-openssl-dev:amd64 (8.8.0-1) ... Setting up libtbb-dev:amd64 (2021.11.0-2) ... Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-3.3) ... Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-3.3) ... Setting up libglx-mesa0:amd64 (24.1.0-2) ... Setting up libglx0:amd64 (1.7.0-1+b1) ... Setting up libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-3.3) ... Setting up libhdf5-fortran-102t64:amd64 (1.10.10+repack-3.3) ... Setting up debhelper (13.15.3) ... Setting up libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-3.3) ... Setting up libopencv-core406t64:amd64 (4.6.0+dfsg-13.1+b3) ... Setting up libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-3.3) ... Setting up libhdf5-dev (1.10.10+repack-3.3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libopencv-core-dev:amd64 (4.6.0+dfsg-13.1+b3) ... Setting up libarmadillo-dev (1:12.8.2+dfsg-1+b1) ... Setting up libdlib-dev:amd64 (19.24+dfsg-2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.38-12) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) amd64 (x86_64) Toolchain package versions: binutils_2.42-4 dpkg-dev_1.22.6 g++-13_13.2.0-25 gcc-13_13.2.0-25 libc6-dev_2.38-12 libstdc++-13-dev_13.2.0-25 libstdc++6_14.1.0-1 linux-libc-dev_6.8.12-1 Package versions: adduser_3.137 apt_2.9.4 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-14 autotools-dev_20220109.1 base-files_13.2 base-passwd_3.6.3 bash_5.2.21-2+b1 binutils_2.42-4 binutils-common_2.42-4 binutils-x86-64-linux-gnu_2.42-4 bsdextrautils_2.40.1-8 bsdutils_1:2.40.1-8 build-essential_12.10 bzip2_1.0.8-5.1 coreutils_9.4-3.1 cpp_4:13.2.0-7 cpp-13_13.2.0-25 cpp-13-x86-64-linux-gnu_13.2.0-25 cpp-x86-64-linux-gnu_4:13.2.0-7 dash_0.5.12-8 debconf_1.5.86 debhelper_13.15.3 debian-archive-keyring_2023.4 debianutils_5.17 dh-autoreconf_20 dh-strip-nondeterminism_1.14.0-1 diffutils_1:3.10-1 dirmngr_2.2.43-7 dpkg_1.22.6 dpkg-dev_1.22.6 dwz_0.15-1+b1 eatmydata_131-2 fakeroot_1.34-1 file_1:5.45-3 findutils_4.9.0-6 g++_4:13.2.0-7 g++-13_13.2.0-25 g++-13-x86-64-linux-gnu_13.2.0-25 g++-x86-64-linux-gnu_4:13.2.0-7 gcc_4:13.2.0-7 gcc-13_13.2.0-25 gcc-13-base_13.2.0-25 gcc-13-x86-64-linux-gnu_13.2.0-25 gcc-14-base_14.1.0-1 gcc-x86-64-linux-gnu_4:13.2.0-7 gettext_0.21-14+b1 gettext-base_0.21-14+b1 gnupg_2.2.43-7 gnupg-l10n_2.2.43-7 gnupg-utils_2.2.43-7 gpg_2.2.43-7 gpg-agent_2.2.43-7 gpg-wks-client_2.2.43-7 gpgconf_2.2.43-7 gpgsm_2.2.43-7 gpgv_2.2.43-7 grep_3.11-4 groff-base_1.23.0-4 gzip_1.12-1.1 hdf5-helpers_1.10.10+repack-3.3 hostname_3.23+nmu2 init-system-helpers_1.66 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2 libaec-dev_1.1.3-1 libaec0_1.1.3-1 libapt-pkg6.0t64_2.9.4 libarchive-zip-perl_1.68-1 libarmadillo-dev_1:12.8.2+dfsg-1+b1 libarmadillo12_1:12.8.2+dfsg-1+b1 libarpack2-dev_3.9.1-1.1+b1 libarpack2t64_3.9.1-1.1+b1 libasan8_14.1.0-1 libassuan0_2.5.6-1+b1 libatomic1_14.1.0-1 libattr1_1:2.5.2-1 libaudit-common_1:3.1.2-2.1 libaudit1_1:3.1.2-2.1 libbinutils_2.42-4 libblas-dev_3.12.0-3 libblas3_3.12.0-3 libblkid1_2.40.1-8 libboost-dev_1.83.0.2+b2 libboost-program-options-dev_1.83.0.2+b2 libboost-program-options1.83-dev_1.83.0-3 libboost-program-options1.83.0_1.83.0-3 libboost1.83-dev_1.83.0-3 libbrotli1_1.1.0-2+b3 libbsd0_0.12.2-1 libbz2-1.0_1.0.8-5.1 libc-bin_2.38-12 libc-dev-bin_2.38-12 libc-l10n_2.38-12 libc6_2.38-12 libc6-dev_2.38-12 libcap-ng0_0.8.5-1 libcap2_1:2.66-5 libcc1-0_14.1.0-1 libcom-err2_1.47.1-1 libcrypt-dev_1:4.4.36-4 libcrypt1_1:4.4.36-4 libctf-nobfd0_2.42-4 libctf0_2.42-4 libcurl4-openssl-dev_8.8.0-1 libcurl4t64_8.8.0-1 libdb5.3t64_5.3.28+dfsg2-7 libdebconfclient0_0.272 libdebhelper-perl_13.15.3 libdlib-data_19.24+dfsg-2 libdlib-dev_19.24+dfsg-2 libdlib19.1t64_19.24+dfsg-2 libdpkg-perl_1.22.6 libdrm-amdgpu1_2.4.120-2 libdrm-common_2.4.120-2 libdrm-intel1_2.4.120-2 libdrm-radeon1_2.4.120-2 libdrm2_2.4.120-2 libeatmydata1_131-2 libedit2_3.1-20240517-1 libelf1t64_0.191-1+b1 libexpat1_2.6.2-1 libexpat1-dev_2.6.2-1 libfakeroot_1.34-1 libffi8_3.4.6-1 libfile-stripnondeterminism-perl_1.14.0-1 libgcc-13-dev_13.2.0-25 libgcc-s1_14.1.0-1 libgcrypt20_1.10.3-3 libgdbm-compat4t64_1.23-5.1+b1 libgdbm6t64_1.23-5.1+b1 libgfortran5_14.1.0-1 libgl1-mesa-dri_24.1.0-2 libglapi-mesa_24.1.0-2 libglvnd0_1.7.0-1+b1 libglx-mesa0_24.1.0-2 libglx0_1.7.0-1+b1 libgmp10_2:6.3.0+dfsg-2+b1 libgnutls30t64_3.8.5-4 libgomp1_14.1.0-1 libgpg-error0_1.49-2 libgprofng0_2.42-4 libgssapi-krb5-2_1.20.1-6+b1 libgzstream-dev_1.5+git20171107.9a20658-2 libgzstream0_1.5+git20171107.9a20658-2 libhdf5-103-1t64_1.10.10+repack-3.3 libhdf5-cpp-103-1t64_1.10.10+repack-3.3 libhdf5-dev_1.10.10+repack-3.3 libhdf5-fortran-102t64_1.10.10+repack-3.3 libhdf5-hl-100t64_1.10.10+repack-3.3 libhdf5-hl-cpp-100t64_1.10.10+repack-3.3 libhdf5-hl-fortran-100t64_1.10.10+repack-3.3 libhogweed6t64_3.9.1-2.2 libhwasan0_14.1.0-1 libhwloc15_2.10.0-1+b1 libicu72_72.1-4+b1 libidn2-0_2.3.7-2 libisl23_0.26-3+b2 libitm1_14.1.0-1 libjansson4_2.14-2+b2 libjpeg-dev_1:2.1.5-3 libjpeg62-turbo_1:2.1.5-3 libjpeg62-turbo-dev_1:2.1.5-3 libk5crypto3_1.20.1-6+b1 libkeyutils1_1.6.3-3 libkrb5-3_1.20.1-6+b1 libkrb5support0_1.20.1-6+b1 libksba8_1.6.6-1 liblapack-dev_3.12.0-3 liblapack3_3.12.0-3 libldap-2.5-0_2.5.17+dfsg-1+b1 libllvm17t64_1:17.0.6-12 liblsan0_14.1.0-1 liblz4-1_1.9.4-2 liblzma5_5.6.1+really5.4.5-1 libmagic-mgc_1:5.45-3 libmagic1t64_1:5.45-3 libmd0_1.1.0-2 libmount1_2.40.1-8 libmpc3_1.3.1-1+b2 libmpfr6_4.2.1-1+b1 libncursesw6_6.5-2 libnettle8t64_3.9.1-2.2 libnghttp2-14_1.61.0-1+b1 libnpth0t64_1.6-3.1 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libstdc++6_14.1.0-1 libsuperlu-dev_6.0.1+dfsg1-1+b1 libsuperlu6_6.0.1+dfsg1-1+b1 libsystemd0_256~rc3-7 libsz2_1.1.3-1 libtasn1-6_4.19.0-3+b2 libtbb-dev_2021.11.0-2 libtbb12_2021.11.0-2 libtbbbind-2-5_2021.11.0-2 libtbbmalloc2_2021.11.0-2 libtinfo6_6.5-2 libtool_2.4.7-7 libtsan2_14.1.0-1 libubsan1_14.1.0-1 libuchardet0_0.0.8-1+b1 libudev1_256~rc3-7 libunistring5_1.2-1 libuuid1_2.40.1-8 libvulkan1_1.3.283.0-1 libx11-6_2:1.8.7-1+b1 libx11-data_2:1.8.7-1 libx11-dev_2:1.8.7-1+b1 libx11-xcb1_2:1.8.7-1+b1 libxau-dev_1:1.0.9-1+b1 libxau6_1:1.0.9-1+b1 libxcb-dri2-0_1.17.0-2 libxcb-dri3-0_1.17.0-2 libxcb-glx0_1.17.0-2 libxcb-present0_1.17.0-2 libxcb-randr0_1.17.0-2 libxcb-shm0_1.17.0-2 libxcb-sync1_1.17.0-2 libxcb-xfixes0_1.17.0-2 libxcb1_1.17.0-2 libxcb1-dev_1.17.0-2 libxdmcp-dev_1:1.1.2-3+b1 libxdmcp6_1:1.1.2-3+b1 libxext6_2:1.3.4-1+b1 libxfixes3_1:6.0.0-2+b1 libxml2_2.12.7+dfsg-3 libxshmfence1_1.3-1+b1 libxxf86vm1_1:1.1.4-1+b2 libxxhash0_0.8.2-2+b1 libz3-4_4.8.12-3.1+b2 libzstd1_1.5.5+dfsg2-2 linux-libc-dev_6.8.12-1 locales-all_2.38-12 login_1:4.13+dfsg1-5 m4_1.4.19-4 make_4.3-4.1 man-db_2.12.1-1 mawk_1.3.4.20240123-1 media-types_10.1.0 ncurses-base_6.5-2 ncurses-bin_6.5-2 netbase_6.4 passwd_1:4.13+dfsg1-5 patch_2.7.6-7 perl_5.40.0~rc1-1 perl-base_5.40.0~rc1-1 perl-modules-5.38_5.38.2-5 perl-modules-5.40_5.40.0~rc1-1 pinentry-curses_1.2.1-3+b2 po-debconf_1.0.21+nmu1 pybind11-dev_2.12.0-1 readline-common_8.2-4 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.22 sysvinit-utils_3.09-1 tar_1.35+dfsg-3 tzdata_2024a-4 usr-is-merged_39 util-linux_2.40.1-8 x11proto-dev_2024.1-1 xorg-sgml-doctools_1:1.11-1.1 xtrans-dev_1.4.0-1 xz-utils_5.6.1+really5.4.5-1 zlib1g_1:1.3.dfsg+really1.3.1-1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: seer Binary: seer Architecture: any Version: 1.1.4-7 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://github.com/johnlees/seer Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/seer Vcs-Git: https://salsa.debian.org/med-team/seer.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), libarmadillo-dev, libdlib-dev, libhdf5-dev, libgzstream-dev, libboost-dev, libboost-program-options-dev Package-List: seer deb science optional arch=any Checksums-Sha1: 01aa93df82b6e563f5e06ae47592ae0d98dce2da 972155 seer_1.1.4.orig.tar.gz 3c37d5d36b4a70310ee2006045bafee49086e129 9180 seer_1.1.4-7.debian.tar.xz Checksums-Sha256: 96e55b9fe2cde089ff05bbcd55088832e90f44a968a81a8dca9f9cffa6faa9c1 972155 seer_1.1.4.orig.tar.gz e5ce6e926a188bdba50a2c3665be704ac5c017a4bc1404cac442d8c553014e51 9180 seer_1.1.4-7.debian.tar.xz Files: e4b331eaf17819aabc545b032148d8c2 972155 seer_1.1.4.orig.tar.gz 89a12c9aed3712fc7d5815c0d9eae452 9180 seer_1.1.4-7.debian.tar.xz Dgit: f316ebd0f54934e69591f8ef62849d3d3a6f2da1 debian archive/debian/1.1.4-7 https://git.dgit.debian.org/seer -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmNnx+YUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdqe2BAAnXHo/Gm/vEFMS80O/nHEVPcISV9q t9O0NPi6iZPu5XmZYyXM/k0Lrlu2/5m4R2wi8X0GXBWuD9dXRK/kzAsn6F4/p+L7 xRCUAQ6Kt+SjgqF04dyHgR3KraI7JV24vaipyvt6Gz4/+hSRpKpIKWJxzxvAvpdW u3W725twcOn61lgtY5QNzMF0pUoHt9irkp24Q/upU3Tjd+sYOlCeDMLgWGhaOOyj LXg95oLsWe7Ja/YxYvaWrk/H5AT2f89Seajs/PMIFM+oki55gh1VxYH47Kphw/n6 xLAo5R+f1222gDP5uUcyaM/G/+QeCwGa6zceVy6TU+qK/6AM5IGsRNl9UvCwUHX4 bXcXh6hOoRV2xxRPrVpW1XEM5PmqgaMkRUgrFxTxhQi3UBrR8inAm/m5Ti6IbVdT MWKWuNsS1PAghueRPe6iU0NUzhQMhrXOfvN/i7GrvqPnLXOf2jMsVMVqovBMz1Bv DEPt91k5raeWlWeFP00DkPgtvz6XLfhkq0nqFo0jVuGUlRzKqWn+awk7lKRudOkk p5i4WBX9fUdOfa2MwAowrzK2Pq2vHOX/8Frv9yr5c8W3nT+A8AIgvuXNiY/wUfxV 8/JlbDoUnHW+fn0zVKFhwKHneP30ShhDrQuBoLaq95D63Th3oHa1MISfeSNnOYkw JLvKS6OIiLadpoc= =fx4x -----END PGP SIGNATURE----- gpgv: Signature made Sun Nov 6 14:42:46 2022 UTC 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 /<> 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 Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network seer_1.1.4-7 perl-5.40-throwaway amd64 ------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network seer_1.1.4-7 perl-5.40-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANG=en_GB.UTF-8 LANGUAGE=en_GB:en LC_ALL=C.UTF-8 LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so LOGNAME=debomatic PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/<> SCHROOT_ALIAS_NAME=perl-5.40-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.40-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.40-amd64-debomatic-941ab6da-7d8c-4697-8225-f20624239216 SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -rfakeroot -Zxz 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 -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j2 clean make[1]: Entering directory '/<>' cd src && make clean make[2]: Entering directory '/<>/src' rm -f *.o ~* seer kmds map_back combineKmers filter_seer make[2]: Leaving directory '/<>/src' cd test && make clean make[2]: Entering directory '/<>/test' rm -f *.o ~* tests_passed make[2]: Leaving directory '/<>/test' make[1]: Leaving directory '/<>' dh_clean dpkg-source -Zxz -b . dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building seer using existing ./seer_1.1.4.orig.tar.gz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building seer in seer_1.1.4-7.debian.tar.xz dpkg-source: info: building seer in seer_1.1.4-7.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build -- LDFLAGS+=-L/usr/lib/x86_64-linux-gnu/hdf5/serial make -j2 "INSTALL=install --strip-program=true" LDFLAGS\+=-L/usr/lib/x86_64-linux-gnu/hdf5/serial make[2]: Entering directory '/<>' cd src && make all make[3]: Entering directory '/<>/src' g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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") | ^ g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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)" | ^~~~~~~ g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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/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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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)" | ^~~~~~~ g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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 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/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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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/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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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)" | ^~~~~~~ g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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/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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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)" | ^~~~~~~ g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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)" | ^~~~~~~ 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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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") | ^ g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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/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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/x86_64-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/x86_64-linux-gnu/hdf5/serial -o seer g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/x86_64-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/x86_64-linux-gnu/hdf5/serial -o kmds g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/x86_64-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/x86_64-linux-gnu/hdf5/serial -Wl,-z,relro -Wl,-z,now -L/usr/lib/x86_64-linux-gnu/hdf5/serial -o map_back g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/x86_64-linux-gnu/hdf5/serial combineInit.o combineCmdLine.o combineKmers.o -lgzstream -lz -lboost_program_options -Wl,-z,relro -Wl,-z,now -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-z,relro -Wl,-z,now -L/usr/lib/x86_64-linux-gnu/hdf5/serial -o combineKmers g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/x86_64-linux-gnu/hdf5/serial significant_kmer.o filter_seer.o filterCmdLine.o -lboost_program_options -Wl,-z,relro -Wl,-z,now -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-z,relro -Wl,-z,now -L/usr/lib/x86_64-linux-gnu/hdf5/serial -o filter_seer make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' if dh_auto_test ; then echo Test passed ; else echo '****************************** TEST FAILED. Please contact upstream *******************************' ; fi make -j2 test make[2]: Entering directory '/<>' cd src && make all make[3]: Entering directory '/<>/src' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/src' cd test && make test make[3]: Entering directory '/<>/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 '/<>/test' make[2]: Leaving directory '/<>' Test passed make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install -- PREFIX=/<>/debian/seer/usr make -j2 install DESTDIR=/<>/debian/seer AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" PREFIX=/<>/debian/seer/usr make[2]: Entering directory '/<>' cd src && make all make[3]: Entering directory '/<>/src' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/src' cd src && make install make[3]: Entering directory '/<>/src' install -d /<>/debian/seer/usr/bin install seer kmds map_back combineKmers filter_seer /<>/debian/seer/usr/bin make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>' for pl in scripts/*.pl ; do \ plbase=`basename ${pl} .pl` ; \ sed "s+Usage: ./${plbase}.pl+Usage: ${plbase}+" ${pl} > /<>/debian/seer/usr/bin/${plbase} ; \ done # Fix broken usage hint: sed -i "s+Usage: ./hits_to_matrix.pl+Usage: reformat_output+" /<>/debian/seer/usr/bin/reformat_output make[1]: Leaving directory '/<>' 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 '/<>' dh_fixperms find debian -name Makefile -exec chmod -x \{\} \; find debian -name "*.fa" -exec chmod -x \{\} \; make[1]: Leaving directory '/<>' 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-dbgsym' in '../seer-dbgsym_1.1.4-7_amd64.deb'. dpkg-deb: building package 'seer' in '../seer_1.1.4-7_amd64.deb'. dpkg-genbuildinfo -O../seer_1.1.4-7_amd64.buildinfo dpkg-genchanges -O../seer_1.1.4-7_amd64.changes dpkg-genchanges: info: not including original source code in upload dpkg-source -Zxz --after-build . dpkg-buildpackage: info: binary and diff upload (original source NOT included) -------------------------------------------------------------------------------- Build finished at 2024-06-05T06:18:03Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ seer_1.1.4-7_amd64.changes: --------------------------- Format: 1.8 Date: Sun, 06 Nov 2022 15:38:02 +0100 Source: seer Binary: seer seer-dbgsym Architecture: source amd64 Version: 1.1.4-7 Distribution: perl-5.40-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: seer - genomic sequence element (kmer) enrichment analysis Changes: seer (1.1.4-7) unstable; urgency=medium . * d/watch: repair github changes; move to git mode. * Standards-Version: 4.6.1 (routine-update) * typos.patch: add; fix typos caught by lintian. * d/m/blastn_to_phandango.1: new manual page. * d/control: add myself to uploaders. * d/copyright: refresh debian/ copyright years. 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Checksums-Sha256: 97c3592aa8e98721cea2eb0a2c22b0ac2611fff48979e936b68c5c9aebca987d 1150 seer_1.1.4-7.dsc 34f0137f872ad36e8e38a1dc78b0dfc7ddf09685e70c7054edd8a2a6e9d27cec 8864188 seer-dbgsym_1.1.4-7_amd64.deb 116ba53fb26a63d478231bd1895572d1fdd0216dd87d55037e40397fa6fa24d6 1197308 seer_1.1.4-7_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Wed, 05 Jun 2024 06:18:03 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-3), automake (= 1:1.16.5-1.3), autopoint (= 0.21-14), autotools-dev (= 20220109.1), base-files (= 13.2), base-passwd (= 3.6.3), bash (= 5.2.21-2+b1), binutils (= 2.42-4), binutils-common (= 2.42-4), binutils-x86-64-linux-gnu (= 2.42-4), bsdextrautils (= 2.40.1-8), bsdutils (= 1:2.40.1-8), build-essential (= 12.10), bzip2 (= 1.0.8-5.1), coreutils (= 9.4-3.1), cpp (= 4:13.2.0-7), cpp-13 (= 13.2.0-25), cpp-13-x86-64-linux-gnu (= 13.2.0-25), cpp-x86-64-linux-gnu (= 4:13.2.0-7), dash (= 0.5.12-8), debconf (= 1.5.86), debhelper (= 13.15.3), debianutils (= 5.17), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.0-1), diffutils (= 1:3.10-1), dpkg (= 1.22.6), dpkg-dev (= 1.22.6), dwz (= 0.15-1+b1), file (= 1:5.45-3), findutils (= 4.9.0-6), g++ (= 4:13.2.0-7), g++-13 (= 13.2.0-25), g++-13-x86-64-linux-gnu (= 13.2.0-25), g++-x86-64-linux-gnu (= 4:13.2.0-7), gcc (= 4:13.2.0-7), gcc-13 (= 13.2.0-25), gcc-13-base (= 13.2.0-25), gcc-13-x86-64-linux-gnu (= 13.2.0-25), gcc-14-base (= 14.1.0-1), gcc-x86-64-linux-gnu (= 4:13.2.0-7), gettext (= 0.21-14+b1), gettext-base (= 0.21-14+b1), grep (= 3.11-4), groff-base (= 1.23.0-4), gzip (= 1.12-1.1), hdf5-helpers (= 1.10.10+repack-3.3), hostname (= 3.23+nmu2), init-system-helpers (= 1.66), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-2), libaec-dev (= 1.1.3-1), libaec0 (= 1.1.3-1), libarchive-zip-perl (= 1.68-1), libarmadillo-dev (= 1:12.8.2+dfsg-1+b1), libarmadillo12 (= 1:12.8.2+dfsg-1+b1), libarpack2-dev (= 3.9.1-1.1+b1), libarpack2t64 (= 3.9.1-1.1+b1), libasan8 (= 14.1.0-1), libatomic1 (= 14.1.0-1), libattr1 (= 1:2.5.2-1), libaudit-common (= 1:3.1.2-2.1), libaudit1 (= 1:3.1.2-2.1), libbinutils (= 2.42-4), libblas-dev (= 3.12.0-3), libblas3 (= 3.12.0-3), libblkid1 (= 2.40.1-8), libboost-dev (= 1.83.0.2+b2), libboost-program-options-dev (= 1.83.0.2+b2), libboost-program-options1.83-dev (= 1.83.0-3), libboost-program-options1.83.0 (= 1.83.0-3), libboost1.83-dev (= 1.83.0-3), libbrotli1 (= 1.1.0-2+b3), libbsd0 (= 0.12.2-1), libbz2-1.0 (= 1.0.8-5.1), libc-bin (= 2.38-12), libc-dev-bin (= 2.38-12), libc6 (= 2.38-12), libc6-dev (= 2.38-12), libcap-ng0 (= 0.8.5-1), libcap2 (= 1:2.66-5), libcc1-0 (= 14.1.0-1), libcom-err2 (= 1.47.1-1), libcrypt-dev (= 1:4.4.36-4), libcrypt1 (= 1:4.4.36-4), libctf-nobfd0 (= 2.42-4), libctf0 (= 2.42-4), libcurl4-openssl-dev (= 8.8.0-1), libcurl4t64 (= 8.8.0-1), libdb5.3t64 (= 5.3.28+dfsg2-7), libdebconfclient0 (= 0.272), libdebhelper-perl (= 13.15.3), libdlib-data (= 19.24+dfsg-2), libdlib-dev (= 19.24+dfsg-2), libdlib19.1t64 (= 19.24+dfsg-2), libdpkg-perl (= 1.22.6), libdrm-amdgpu1 (= 2.4.120-2), libdrm-common (= 2.4.120-2), libdrm-intel1 (= 2.4.120-2), libdrm-radeon1 (= 2.4.120-2), libdrm2 (= 2.4.120-2), libedit2 (= 3.1-20240517-1), libelf1t64 (= 0.191-1+b1), libexpat1 (= 2.6.2-1), libexpat1-dev (= 2.6.2-1), libffi8 (= 3.4.6-1), libfile-stripnondeterminism-perl (= 1.14.0-1), libgcc-13-dev (= 13.2.0-25), libgcc-s1 (= 14.1.0-1), libgdbm-compat4t64 (= 1.23-5.1+b1), libgdbm6t64 (= 1.23-5.1+b1), libgfortran5 (= 14.1.0-1), libgl1-mesa-dri (= 24.1.0-2), libglapi-mesa (= 24.1.0-2), libglvnd0 (= 1.7.0-1+b1), libglx-mesa0 (= 24.1.0-2), libglx0 (= 1.7.0-1+b1), libgmp10 (= 2:6.3.0+dfsg-2+b1), libgnutls30t64 (= 3.8.5-4), libgomp1 (= 14.1.0-1), libgprofng0 (= 2.42-4), libgssapi-krb5-2 (= 1.20.1-6+b1), libgzstream-dev (= 1.5+git20171107.9a20658-2), libgzstream0 (= 1.5+git20171107.9a20658-2), libhdf5-103-1t64 (= 1.10.10+repack-3.3), libhdf5-cpp-103-1t64 (= 1.10.10+repack-3.3), libhdf5-dev (= 1.10.10+repack-3.3), libhdf5-fortran-102t64 (= 1.10.10+repack-3.3), libhdf5-hl-100t64 (= 1.10.10+repack-3.3), libhdf5-hl-cpp-100t64 (= 1.10.10+repack-3.3), libhdf5-hl-fortran-100t64 (= 1.10.10+repack-3.3), libhogweed6t64 (= 3.9.1-2.2), libhwasan0 (= 14.1.0-1), libhwloc15 (= 2.10.0-1+b1), libicu72 (= 72.1-4+b1), libidn2-0 (= 2.3.7-2), libisl23 (= 0.26-3+b2), libitm1 (= 14.1.0-1), libjansson4 (= 2.14-2+b2), libjpeg-dev (= 1:2.1.5-3), libjpeg62-turbo (= 1:2.1.5-3), libjpeg62-turbo-dev (= 1:2.1.5-3), libk5crypto3 (= 1.20.1-6+b1), libkeyutils1 (= 1.6.3-3), libkrb5-3 (= 1.20.1-6+b1), libkrb5support0 (= 1.20.1-6+b1), liblapack-dev (= 3.12.0-3), liblapack3 (= 3.12.0-3), libldap-2.5-0 (= 2.5.17+dfsg-1+b1), libllvm17t64 (= 1:17.0.6-12), liblsan0 (= 14.1.0-1), liblzma5 (= 5.6.1+really5.4.5-1), libmagic-mgc (= 1:5.45-3), libmagic1t64 (= 1:5.45-3), libmd0 (= 1.1.0-2), libmount1 (= 2.40.1-8), libmpc3 (= 1.3.1-1+b2), libmpfr6 (= 4.2.1-1+b1), libncursesw6 (= 6.5-2), libnettle8t64 (= 3.9.1-2.2), libnghttp2-14 (= 1.61.0-1+b1), libopencv-core-dev (= 4.6.0+dfsg-13.1+b3), libopencv-core406t64 (= 4.6.0+dfsg-13.1+b3), libp11-kit0 (= 0.25.3-5), libpam-modules (= 1.5.3-7), libpam-modules-bin (= 1.5.3-7), libpam-runtime (= 1.5.3-7), libpam0g (= 1.5.3-7), libpciaccess0 (= 0.17-3+b1), libpcre2-8-0 (= 10.42-4+b1), libperl5.40 (= 5.40.0~rc1-1), libpipeline1 (= 1.5.7-2), libpng-dev (= 1.6.43-5), libpng16-16t64 (= 1.6.43-5), libpsl5t64 (= 0.21.2-1.1), libpython3-dev (= 3.11.8-1), libpython3.11-dev (= 3.11.9-1), libpython3.11-minimal (= 3.11.9-1), libpython3.11-stdlib (= 3.11.9-1), libpython3.11t64 (= 3.11.9-1), libquadmath0 (= 14.1.0-1), libreadline8t64 (= 8.2-4), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b4), libsasl2-2 (= 2.1.28+dfsg1-6), libsasl2-modules-db (= 2.1.28+dfsg1-6), libseccomp2 (= 2.5.5-1), libselinux1 (= 3.5-2+b2), libsensors-config (= 1:3.6.0-10), libsensors5 (= 1:3.6.0-10), libsframe1 (= 2.42-4), libsmartcols1 (= 2.40.1-8), libsqlite3-0 (= 3.46.0-1), libsqlite3-dev (= 3.46.0-1), libssh2-1t64 (= 1.11.0-5), libssl-dev (= 3.2.2-1), libssl3t64 (= 3.2.2-1), libstdc++-13-dev (= 13.2.0-25), libstdc++6 (= 14.1.0-1), libsuperlu-dev (= 6.0.1+dfsg1-1+b1), libsuperlu6 (= 6.0.1+dfsg1-1+b1), libsystemd0 (= 256~rc3-7), libsz2 (= 1.1.3-1), libtasn1-6 (= 4.19.0-3+b2), libtbb-dev (= 2021.11.0-2), libtbb12 (= 2021.11.0-2), libtbbbind-2-5 (= 2021.11.0-2), libtbbmalloc2 (= 2021.11.0-2), libtinfo6 (= 6.5-2), libtool (= 2.4.7-7), libtsan2 (= 14.1.0-1), libubsan1 (= 14.1.0-1), libuchardet0 (= 0.0.8-1+b1), libudev1 (= 256~rc3-7), libunistring5 (= 1.2-1), libuuid1 (= 2.40.1-8), libvulkan1 (= 1.3.283.0-1), libx11-6 (= 2:1.8.7-1+b1), libx11-data (= 2:1.8.7-1), libx11-dev (= 2:1.8.7-1+b1), libx11-xcb1 (= 2:1.8.7-1+b1), libxau-dev (= 1:1.0.9-1+b1), libxau6 (= 1:1.0.9-1+b1), libxcb-dri2-0 (= 1.17.0-2), libxcb-dri3-0 (= 1.17.0-2), libxcb-glx0 (= 1.17.0-2), libxcb-present0 (= 1.17.0-2), libxcb-randr0 (= 1.17.0-2), libxcb-shm0 (= 1.17.0-2), libxcb-sync1 (= 1.17.0-2), libxcb-xfixes0 (= 1.17.0-2), libxcb1 (= 1.17.0-2), libxcb1-dev (= 1.17.0-2), libxdmcp-dev (= 1:1.1.2-3+b1), libxdmcp6 (= 1:1.1.2-3+b1), libxext6 (= 2:1.3.4-1+b1), libxfixes3 (= 1:6.0.0-2+b1), libxml2 (= 2.12.7+dfsg-3), libxshmfence1 (= 1.3-1+b1), libxxf86vm1 (= 1:1.1.4-1+b2), libz3-4 (= 4.8.12-3.1+b2), libzstd1 (= 1.5.5+dfsg2-2), linux-libc-dev (= 6.8.12-1), login (= 1:4.13+dfsg1-5), m4 (= 1.4.19-4), make (= 4.3-4.1), man-db (= 2.12.1-1), mawk (= 1.3.4.20240123-1), media-types (= 10.1.0), ncurses-base (= 6.5-2), ncurses-bin (= 6.5-2), netbase (= 6.4), patch (= 2.7.6-7), perl (= 5.40.0~rc1-1), perl-base (= 5.40.0~rc1-1), perl-modules-5.40 (= 5.40.0~rc1-1), po-debconf (= 1.0.21+nmu1), pybind11-dev (= 2.12.0-1), readline-common (= 8.2-4), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.22), sysvinit-utils (= 3.09-1), tar (= 1.35+dfsg-3), tzdata (= 2024a-4), usr-is-merged (= 39), util-linux (= 2.40.1-8), x11proto-dev (= 2024.1-1), xorg-sgml-doctools (= 1:1.11-1.1), xtrans-dev (= 1.4.0-1), xz-utils (= 5.6.1+really5.4.5-1), zlib1g (= 1:1.3.dfsg+really1.3.1-1), zlib1g-dev (= 1:1.3.dfsg+really1.3.1-1) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="en_GB.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" SOURCE_DATE_EPOCH="1667745482" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ seer-dbgsym_1.1.4-7_amd64.deb ----------------------------- new Debian package, version 2.0. size 8864188 bytes: control archive=800 bytes. 523 bytes, 12 lines control 611 bytes, 6 lines md5sums Package: seer-dbgsym Source: seer Version: 1.1.4-7 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 9071 Depends: seer (= 1.1.4-7) Section: debug Priority: optional Description: debug symbols for seer Build-Ids: 25f2393fcd5a8a87572f68a69df0221a132ed9b2 71fc8a838216b8a1e914e2aa152dc24ab8765b03 732555e897e9bc19bf098e8ebdb51a9ed837c410 b7f4e29ec0cf59f83c5391e35747aadebfb83282 f40bb2eca91d27a2b07072d4369b24cf8b3b6cfb drwxr-xr-x root/root 0 2022-11-06 14:38 ./ drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/ drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/ drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/debug/ drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/debug/.build-id/25/ -rw-r--r-- root/root 3480440 2022-11-06 14:38 ./usr/lib/debug/.build-id/25/f2393fcd5a8a87572f68a69df0221a132ed9b2.debug drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/debug/.build-id/71/ -rw-r--r-- root/root 462784 2022-11-06 14:38 ./usr/lib/debug/.build-id/71/fc8a838216b8a1e914e2aa152dc24ab8765b03.debug drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/debug/.build-id/73/ -rw-r--r-- root/root 925200 2022-11-06 14:38 ./usr/lib/debug/.build-id/73/2555e897e9bc19bf098e8ebdb51a9ed837c410.debug drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/debug/.build-id/b7/ -rw-r--r-- root/root 402080 2022-11-06 14:38 ./usr/lib/debug/.build-id/b7/f4e29ec0cf59f83c5391e35747aadebfb83282.debug drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/debug/.build-id/f4/ -rw-r--r-- root/root 2815448 2022-11-06 14:38 ./usr/lib/debug/.build-id/f4/0bb2eca91d27a2b07072d4369b24cf8b3b6cfb.debug drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 1184768 2022-11-06 14:38 ./usr/lib/debug/.dwz/x86_64-linux-gnu/seer.debug drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/share/ drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/share/doc/ lrwxrwxrwx root/root 0 2022-11-06 14:38 ./usr/share/doc/seer-dbgsym -> seer seer_1.1.4-7_amd64.deb ---------------------- new Debian package, version 2.0. size 1197308 bytes: control archive=2692 bytes. 1438 bytes, 24 lines control 4326 bytes, 62 lines md5sums Package: seer Version: 1.1.4-7 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 4927 Depends: libarmadillo12 (>= 1:12.8.2+dfsg), libblas3 | libblas.so.3, libboost-program-options1.83.0 (>= 1.83.0), libc6 (>= 2.38), libgcc-s1 (>= 3.0), libgzstream0 (>= 1.5+dfsg), libhdf5-103-1t64, libstdc++6 (>= 13.1), zlib1g (>= 1:1.1.4), libtext-csv-perl Suggests: fsm-lite Section: science Priority: optional Homepage: https://github.com/johnlees/seer Description: genomic sequence element (kmer) enrichment analysis Bacterial genomes vary extensively in terms of both gene content and gene sequence - this plasticity hampers the use of traditional SNP-based methods for identifying all genetic associations with phenotypic variation. SEER provides a computationally scalable and widely applicable statistical method for the identification of sequence elements that are significantly enriched in a phenotype of interest. SEER is applicable to even tens of thousands of genomes by counting variable- length k-mers using a distributed string-mining algorithm. Robust options are provided for association analysis that also correct for the clonal population structure of bacteria. Using large collections of genomes of the major human pathogen Streptococcus pneumoniae, SEER identifies relevant previously characterised resistance determinants for several antibiotics. drwxr-xr-x root/root 0 2022-11-06 14:38 ./ drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/ drwxr-xr-x root/root 0 2022-11-06 14:38 ./usr/bin/ -rwxr-xr-x root/root 4597 2022-11-06 14:38 ./usr/bin/R_mds -rwxr-xr-x root/root 3794 2022-11-06 14:38 ./usr/bin/blast_top_hits -rwxr-xr-x root/root 2152 2022-11-06 14:38 ./usr/bin/blastn_to_phandango -rwxr-xr-x root/root 113048 2022-11-06 14:38 ./usr/bin/combineKmers -rwxr-xr-x root/root 88472 2022-11-06 14:38 ./usr/bin/filter_seer -rwxr-xr-x root/root 1869 2022-11-06 14:38 ./usr/bin/hits_to_fastq -rwxr-xr-x root/root 581048 2022-11-06 14:38 ./usr/bin/kmds -rwxr-xr-x root/root 199080 2022-11-06 14:38 ./usr/bin/map_back -rwxr-xr-x root/root 3200 2022-11-06 14:38 ./usr/bin/mapping_to_phandango -rwxr-xr-x root/root 1208 2022-11-06 14:38 ./usr/bin/mash2matrix 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+------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 122260 Build-Time: 93 Distribution: perl-5.40-throwaway Host Architecture: amd64 Install-Time: 24 Job: /srv/debomatic/incoming/seer_1.1.4-7.dsc Machine Architecture: amd64 Package: seer Package-Time: 124 Source-Version: 1.1.4-7 Space: 122260 Status: successful Version: 1.1.4-7 -------------------------------------------------------------------------------- Finished at 2024-06-05T06:18:03Z Build needed 00:02:04, 122260k disk space