sbuild (Debian sbuild) 0.85.10 (30 May 2024) on carme.larted.org.uk +==============================================================================+ | seer 1.1.4-8 (amd64) Sat, 03 Aug 2024 06:11:26 +0000 | +==============================================================================+ Package: seer Version: 1.1.4-8 Source Version: 1.1.4-8 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-a770d6bf-49fa-4c11-ace6-a65480f93d2c' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup seer_1.1.4-8 perl-5.40-throwaway amd64 ------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup seer_1.1.4-8 perl-5.40-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: NOTICE: Log filtering will replace 'build/seer-h3VQWV/resolver-6danlQ' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.40 InRelease [3042 B] Hit:2 http://deb.debian.org/debian unstable InRelease Get:1 file:/srv/reprepro perl-5.40 InRelease [3042 B] Hit:3 http://localhost:3142/debian sid InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/seer_1.1.4-8.dsc exists in /srv/debomatic/incoming; copying to chroot I: NOTICE: Log filtering will replace 'build/seer-h3VQWV/seer-1.1.4' with '<>' I: NOTICE: Log filtering will replace 'build/seer-h3VQWV' 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 libarmadillo14 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 libbrotli-dev libbrotli1 libcom-err2 libcurl4-openssl-dev libcurl4t64 libdebhelper-perl libdlib-data libdlib-dev libdlib19.2 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-radeon1 libdrm2 libedit2 libelf1t64 libevent-2.1-7t64 libexpat1 libexpat1-dev libfakeroot libfile-stripnondeterminism-perl libgfortran5 libgl1-mesa-dri libglapi-mesa libglvnd0 libglx-mesa0 libglx0 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev 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 libidn2-dev libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 libllvm17t64 libmagic-mgc libmagic1t64 libnghttp2-14 libnghttp2-dev libopencv-core-dev libopencv-core406t64 libp11-kit-dev libpciaccess0 libpipeline1 libpkgconf3 libpng-dev libpng16-16t64 libpsl-dev libpsl5t64 libpython3-dev libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 librtmp-dev librtmp1 libsensors-config libsensors5 libsqlite3-dev libssh2-1-dev libssh2-1t64 libssl-dev libsuperlu-dev libsuperlu6 libsz2 libtasn1-6-dev libtbb-dev libtbb12 libtbbbind-2-5 libtbbmalloc2 libtool libuchardet0 libunbound8 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 libzstd-dev m4 man-db media-types netbase nettle-dev pkgconf pkgconf-bin 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 gmp-doc libgmp10-doc libmpfr-dev dns-root-data gnutls-bin gnutls-doc krb5-doc krb5-user libhdf5-doc libhwloc-contrib-plugins libnghttp2-doc p11-kit-doc 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 libtasn1-doc 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 libarmadillo14 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 libbrotli-dev libbrotli1 libcom-err2 libcurl4-openssl-dev libcurl4t64 libdebhelper-perl libdlib-data libdlib-dev libdlib19.2 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-radeon1 libdrm2 libedit2 libelf1t64 libevent-2.1-7t64 libexpat1 libexpat1-dev libfakeroot libfile-stripnondeterminism-perl libgfortran5 libgl1-mesa-dri libglapi-mesa libglvnd0 libglx-mesa0 libglx0 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev 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 libidn2-dev libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 libllvm17t64 libmagic-mgc libmagic1t64 libnghttp2-14 libnghttp2-dev libopencv-core-dev libopencv-core406t64 libp11-kit-dev libpciaccess0 libpipeline1 libpkgconf3 libpng-dev libpng16-16t64 libpsl-dev libpsl5t64 libpython3-dev libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 librtmp-dev librtmp1 libsensors-config libsensors5 libsqlite3-dev libssh2-1-dev libssh2-1t64 libssl-dev libsuperlu-dev libsuperlu6 libsz2 libtasn1-6-dev libtbb-dev libtbb12 libtbbbind-2-5 libtbbmalloc2 libtool libuchardet0 libunbound8 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 libzstd-dev m4 man-db media-types netbase nettle-dev pkgconf pkgconf-bin po-debconf pybind11-dev sbuild-build-depends-main-dummy sensible-utils tzdata x11proto-dev xorg-sgml-doctools xtrans-dev zlib1g-dev 0 upgraded, 165 newly installed, 0 to remove and 0 not upgraded. Need to get 189 MB of archives. After this operation, 759 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://deb.debian.org/debian unstable/main amd64 tzdata all 2024a-4 [255 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-1 [96.1 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.12.1-2 [1411 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.71-3 [332 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.16 [88.6 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:23 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get:26 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.191-2 [188 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg-3+b1 [671 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:32 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:33 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.16 [891 kB] Get:34 http://deb.debian.org/debian unstable/main amd64 libfakeroot amd64 1.35.1-1 [28.6 kB] Get:35 http://deb.debian.org/debian unstable/main amd64 fakeroot amd64 1.35.1-1 [74.5 kB] Get:36 http://deb.debian.org/debian unstable/main amd64 hdf5-helpers amd64 1.10.10+repack-4 [23.5 kB] Get:37 http://deb.debian.org/debian unstable/main amd64 libaec0 amd64 1.1.3-1 [23.4 kB] Get:38 http://deb.debian.org/debian unstable/main amd64 libsz2 amd64 1.1.3-1 [7740 B] Get:39 http://deb.debian.org/debian unstable/main amd64 libaec-dev amd64 1.1.3-1 [21.0 kB] Get:40 http://deb.debian.org/debian unstable/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:41 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-1 [837 kB] Get:42 http://deb.debian.org/debian unstable/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:43 http://deb.debian.org/debian unstable/main amd64 libarpack2t64 amd64 3.9.1-1.1+b2 [104 kB] Get:44 http://deb.debian.org/debian unstable/main amd64 libsuperlu6 amd64 6.0.1+dfsg1-1+b1 [170 kB] Get:45 http://deb.debian.org/debian unstable/main amd64 libarmadillo14 amd64 1:14.0.1+dfsg-2 [102 kB] Get:46 http://deb.debian.org/debian unstable/main amd64 libblas-dev amd64 3.12.0-3 [159 kB] Get:47 http://deb.debian.org/debian unstable/main amd64 liblapack-dev amd64 3.12.0-3 [4880 kB] Get:48 http://deb.debian.org/debian unstable/main amd64 libarpack2-dev amd64 3.9.1-1.1+b2 [119 kB] Get:49 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get:50 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:51 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get:52 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:53 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:54 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:55 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:56 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.62.1-2 [74.9 kB] Get:57 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:58 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:59 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.0-7 [216 kB] Get:60 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.9.1-1 [463 kB] Get:61 http://deb.debian.org/debian unstable/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4 [1253 kB] Get:62 http://deb.debian.org/debian unstable/main amd64 libhdf5-fortran-102t64 amd64 1.10.10+repack-4 [89.5 kB] Get:63 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4 [63.9 kB] Get:64 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-fortran-100t64 amd64 1.10.10+repack-4 [40.5 kB] Get:65 http://deb.debian.org/debian unstable/main amd64 libhdf5-cpp-103-1t64 amd64 1.10.10+repack-4 [130 kB] Get:66 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-cpp-100t64 amd64 1.10.10+repack-4 [21.4 kB] Get:67 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get:68 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get:69 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3 [290 kB] Get:70 http://deb.debian.org/debian unstable/main amd64 libjpeg-dev amd64 1:2.1.5-3 [71.9 kB] Get:71 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b4 [313 kB] Get:72 http://deb.debian.org/debian unstable/main amd64 libidn2-dev amd64 2.3.7-2 [123 kB] Get:73 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-3 [36.2 kB] Get:74 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-3 [29.9 kB] Get:75 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-3 [26.1 kB] Get:76 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.62.1-2 [115 kB] Get:77 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.21.2-1.1 [77.4 kB] Get:78 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-2+b1 [329 kB] Get:79 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-2+b1 [640 kB] Get:80 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10 [181 kB] Get:81 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.20.0-1+b1 [583 kB] Get:82 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.6-2 [439 kB] Get:83 http://deb.debian.org/debian unstable/main amd64 libgnutls-openssl27t64 amd64 3.8.6-2 [439 kB] Get:84 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.25.5-2 [208 kB] Get:85 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.19.0-3+b2 [98.0 kB] Get:86 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10-1 [1316 kB] Get:87 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.6-2 [1381 kB] Get:88 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b4 [67.7 kB] Get:89 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.2.2-1 [2701 kB] Get:90 http://deb.debian.org/debian unstable/main amd64 libssh2-1-dev amd64 1.11.0-7 [357 kB] Get:91 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.6+dfsg-1 [368 kB] Get:92 http://deb.debian.org/debian unstable/main amd64 libcurl4-openssl-dev amd64 8.9.1-1 [572 kB] Get:93 http://deb.debian.org/debian unstable/main amd64 libhdf5-dev amd64 1.10.10+repack-4 [2652 kB] Get:94 http://deb.debian.org/debian unstable/main amd64 libsuperlu-dev amd64 6.0.1+dfsg1-1+b1 [21.8 kB] Get:95 http://deb.debian.org/debian unstable/main amd64 libarmadillo-dev amd64 1:14.0.1+dfsg-2 [412 kB] Get:96 http://deb.debian.org/debian unstable/main amd64 libboost1.83-dev amd64 1.83.0-3.1 [10.6 MB] Get:97 http://deb.debian.org/debian unstable/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get:98 http://deb.debian.org/debian unstable/main amd64 libboost-program-options1.83.0 amd64 1.83.0-3.1 [347 kB] Get:99 http://deb.debian.org/debian unstable/main amd64 libboost-program-options1.83-dev amd64 1.83.0-3.1 [375 kB] Get:100 http://deb.debian.org/debian unstable/main amd64 libboost-program-options-dev amd64 1.83.0.2+b2 [3612 B] Get:101 http://deb.debian.org/debian unstable/main amd64 libdlib-data all 19.24.4+dfsg-2 [63.4 MB] Get:102 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.43-5 [278 kB] Get:103 http://deb.debian.org/debian unstable/main amd64 libdlib19.2 amd64 19.24.4+dfsg-2 [3818 kB] Get:104 http://deb.debian.org/debian unstable/main amd64 libglvnd0 amd64 1.7.0-1+b1 [56.3 kB] Get:105 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get:106 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get:107 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get:108 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:109 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get:110 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.122-1 [7992 B] Get:111 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.122-1 [38.7 kB] Get:112 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get:113 http://deb.debian.org/debian unstable/main amd64 libglapi-mesa amd64 24.1.5-3 [37.1 kB] Get:114 http://deb.debian.org/debian unstable/main amd64 libx11-xcb1 amd64 2:1.8.7-1+b1 [232 kB] Get:115 http://deb.debian.org/debian unstable/main amd64 libxcb-dri2-0 amd64 1.17.0-2 [106 kB] Get:116 http://deb.debian.org/debian unstable/main amd64 libxcb-dri3-0 amd64 1.17.0-2 [107 kB] Get:117 http://deb.debian.org/debian unstable/main amd64 libxcb-glx0 amd64 1.17.0-2 [122 kB] Get:118 http://deb.debian.org/debian unstable/main amd64 libxcb-present0 amd64 1.17.0-2 [105 kB] Get:119 http://deb.debian.org/debian unstable/main amd64 libxcb-randr0 amd64 1.17.0-2 [116 kB] Get:120 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get:121 http://deb.debian.org/debian unstable/main amd64 libxcb-sync1 amd64 1.17.0-2 [108 kB] Get:122 http://deb.debian.org/debian unstable/main amd64 libxcb-xfixes0 amd64 1.17.0-2 [109 kB] Get:123 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:124 http://deb.debian.org/debian unstable/main amd64 libxfixes3 amd64 1:6.0.0-2+b1 [20.3 kB] Get:125 http://deb.debian.org/debian unstable/main amd64 libxshmfence1 amd64 1.3-1+b1 [8852 B] Get:126 http://deb.debian.org/debian unstable/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:127 http://deb.debian.org/debian unstable/main amd64 libvulkan1 amd64 1.3.283.0-1 [125 kB] Get:128 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.122-1 [22.2 kB] Get:129 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b1 [51.9 kB] Get:130 http://deb.debian.org/debian unstable/main amd64 libdrm-intel1 amd64 2.4.122-1 [63.6 kB] Get:131 http://deb.debian.org/debian unstable/main amd64 libdrm-radeon1 amd64 2.4.122-1 [22.3 kB] Get:132 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20240517-1 [93.3 kB] Get:133 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.8.12-3.1+b2 [7346 kB] Get:134 http://deb.debian.org/debian unstable/main amd64 libllvm17t64 amd64 1:17.0.6-15 [23.6 MB] Get:135 http://deb.debian.org/debian unstable/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get:136 http://deb.debian.org/debian unstable/main amd64 libsensors5 amd64 1:3.6.0-10 [34.7 kB] Get:137 http://deb.debian.org/debian unstable/main amd64 libgl1-mesa-dri amd64 24.1.5-3 [8717 kB] Get:138 http://deb.debian.org/debian unstable/main amd64 libglx-mesa0 amd64 24.1.5-3 [153 kB] Get:139 http://deb.debian.org/debian unstable/main amd64 libglx0 amd64 1.7.0-1+b1 [35.0 kB] Get:140 http://deb.debian.org/debian unstable/main amd64 libtbbmalloc2 amd64 2021.12.0-1 [48.9 kB] Get:141 http://deb.debian.org/debian unstable/main amd64 libhwloc15 amd64 2.11.0-2 [162 kB] Get:142 http://deb.debian.org/debian unstable/main amd64 libtbbbind-2-5 amd64 2021.12.0-1 [14.4 kB] Get:143 http://deb.debian.org/debian unstable/main amd64 libtbb12 amd64 2021.12.0-1 [87.8 kB] Get:144 http://deb.debian.org/debian unstable/main amd64 libopencv-core406t64 amd64 4.6.0+dfsg-13.1+b5 [1114 kB] Get:145 http://deb.debian.org/debian unstable/main amd64 libtbb-dev amd64 2021.12.0-1 [193 kB] Get:146 http://deb.debian.org/debian unstable/main amd64 libopencv-core-dev amd64 4.6.0+dfsg-13.1+b5 [1863 kB] Get:147 http://deb.debian.org/debian unstable/main amd64 libpng-dev amd64 1.6.43-5 [360 kB] Get:148 http://deb.debian.org/debian unstable/main amd64 libsqlite3-dev amd64 3.46.0-1 [1096 kB] Get:149 http://deb.debian.org/debian unstable/main amd64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get:150 http://deb.debian.org/debian unstable/main amd64 x11proto-dev all 2024.1-1 [603 kB] Get:151 http://deb.debian.org/debian unstable/main amd64 libxau-dev amd64 1:1.0.9-1+b1 [21.3 kB] Get:152 http://deb.debian.org/debian unstable/main amd64 libxdmcp-dev amd64 1:1.1.2-3+b1 [40.8 kB] Get:153 http://deb.debian.org/debian unstable/main amd64 xtrans-dev all 1.4.0-1 [98.7 kB] Get:154 http://deb.debian.org/debian unstable/main amd64 libxcb1-dev amd64 1.17.0-2 [181 kB] Get:155 http://deb.debian.org/debian unstable/main amd64 libx11-dev amd64 2:1.8.7-1+b1 [875 kB] Get:156 http://deb.debian.org/debian unstable/main amd64 libpython3.12-minimal amd64 3.12.4-3 [812 kB] Get:157 http://deb.debian.org/debian unstable/main amd64 libpython3.12-stdlib amd64 3.12.4-3 [1950 kB] Get:158 http://deb.debian.org/debian unstable/main amd64 libpython3.12t64 amd64 3.12.4-3 [2114 kB] Get:159 http://deb.debian.org/debian unstable/main amd64 libexpat1-dev amd64 2.6.2-1 [155 kB] Get:160 http://deb.debian.org/debian unstable/main amd64 libpython3.12-dev amd64 3.12.4-3 [5077 kB] Get:161 http://deb.debian.org/debian unstable/main amd64 libpython3-dev amd64 3.12.4-1 [9736 B] Get:162 http://deb.debian.org/debian unstable/main amd64 pybind11-dev all 2.12.0-1 [198 kB] Get:163 http://deb.debian.org/debian unstable/main amd64 libdlib-dev amd64 19.24.4+dfsg-2 [2188 kB] Get:164 http://deb.debian.org/debian unstable/main amd64 libgzstream0 amd64 1.5+git20171107.9a20658-2 [7228 B] Get:165 http://deb.debian.org/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 189 MB in 2s (80.8 MB/s) Selecting previously unselected package tzdata. (Reading database ... 22966 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_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.45-3_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 libnghttp2-14:amd64 (1.62.1-2) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../055-libpsl5t64_0.21.2-1.1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../056-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../057-libssh2-1t64_1.11.0-7_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.0-7) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../058-libcurl4t64_8.9.1-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.9.1-1) ... Selecting previously unselected package libhdf5-103-1t64:amd64. Preparing to unpack .../059-libhdf5-103-1t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-103-1t64:amd64 (1.10.10+repack-4) ... Selecting previously unselected package libhdf5-fortran-102t64:amd64. Preparing to unpack .../060-libhdf5-fortran-102t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-fortran-102t64:amd64 (1.10.10+repack-4) ... Selecting previously unselected package libhdf5-hl-100t64:amd64. Preparing to unpack .../061-libhdf5-hl-100t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-hl-100t64:amd64 (1.10.10+repack-4) ... Selecting previously unselected package libhdf5-hl-fortran-100t64:amd64. Preparing to unpack .../062-libhdf5-hl-fortran-100t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... Selecting previously unselected package libhdf5-cpp-103-1t64:amd64. Preparing to unpack .../063-libhdf5-cpp-103-1t64_1.10.10+repack-4_amd64.deb ... Unpacking libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-4) ... Selecting previously unselected package libhdf5-hl-cpp-100t64:amd64. Preparing to unpack .../064-libhdf5-hl-cpp-100t64_1.10.10+repack-4_amd64.deb ... 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Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Aug 3 06:11:52 UTC 2024. Universal Time is now: Sat Aug 3 06:11:52 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up fakeroot (1.35.1-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up libxcb-present0:amd64 (1.17.0-2) ... 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 libunbound8:amd64 (1.20.0-1+b1) ... Setting up libpkgconf3:amd64 (1.8.1-3) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b1) ... Setting up libexpat1-dev:amd64 (2.6.2-1) ... 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Setting up libxcb-dri2-0:amd64 (1.17.0-2) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libxshmfence1:amd64 (1.3-1+b1) ... Setting up libxcb-randr0:amd64 (1.17.0-2) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libx11-6:amd64 (2:1.8.7-1+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 (1.21.3-3) ... Setting up libboost-dev:amd64 (1.83.0.2+b2) ... Setting up libssh2-1t64:amd64 (1.11.0-7) ... Setting up libtasn1-6-dev:amd64 (4.19.0-3+b2) ... Setting up libdrm-common (2.4.122-1) ... Setting up libxml2:amd64 (2.12.7+dfsg-3+b1) ... Setting up libdlib-data (19.24.4+dfsg-2) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b4) ... Setting up libp11-kit-dev:amd64 (0.25.5-2) ... 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 libxcb-dri3-0:amd64 (1.17.0-2) ... Setting up libx11-xcb1:amd64 (2:1.8.7-1+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 gettext (0.22.5-2) ... Setting up libarpack2t64:amd64 (3.9.1-1.1+b2) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-2+b1) ... Setting up libxau-dev:amd64 (1:1.0.9-1+b1) ... Setting up libpython3.12-stdlib:amd64 (3.12.4-3) ... Setting up nettle-dev:amd64 (3.10-1) ... Setting up libtool (2.4.7-7) ... 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 libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libsuperlu6:amd64 (6.0.1+dfsg1-1+b1) ... Setting up pkgconf:amd64 (1.8.1-3) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up libtbbbind-2-5:amd64 (2021.12.0-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libdlib19.2:amd64 (19.24.4+dfsg-2) ... Setting up libgzstream-dev:amd64 (1.5+git20171107.9a20658-2) ... Setting up libpython3.12t64:amd64 (3.12.4-3) ... Setting up dh-autoreconf (20) ... Setting up libxdmcp-dev:amd64 (1:1.1.2-3+b1) ... Setting up libllvm17t64:amd64 (1:17.0.6-15) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b1) ... 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 (1.21.3-3) ... Setting up libssh2-1-dev:amd64 (1.11.0-7) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libdrm2:amd64 (2.4.122-1) ... Setting up groff-base (1.23.0-5) ... Setting up libarmadillo14 (1:14.0.1+dfsg-2) ... Setting up libsuperlu-dev:amd64 (6.0.1+dfsg1-1+b1) ... Setting up libdrm-amdgpu1:amd64 (2.4.122-1) ... Setting up libgnutls28-dev:amd64 (3.8.6-2) ... Setting up libnghttp2-dev:amd64 (1.62.1-2) ... Setting up libarpack2-dev:amd64 (3.9.1-1.1+b2) ... Setting up libxcb1-dev:amd64 (1.17.0-2) ... Setting up libcurl4t64:amd64 (8.9.1-1) ... Setting up libdrm-radeon1:amd64 (2.4.122-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libdrm-intel1:amd64 (2.4.122-1) ... Setting up libgl1-mesa-dri:amd64 (24.1.5-3) ... Setting up libx11-dev:amd64 (2:1.8.7-1+b1) ... Setting up libpython3.12-dev:amd64 (3.12.4-3) ... Setting up libtbb12:amd64 (2021.12.0-1) ... Setting up man-db (2.12.1-2) ... Not building database; man-db/auto-update is not 'true'. Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libtbb-dev:amd64 (2021.12.0-1) ... Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-4) ... Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-4) ... Setting up libglx-mesa0:amd64 (24.1.5-3) ... Setting up libpython3-dev:amd64 (3.12.4-1) ... Setting up libglx0:amd64 (1.7.0-1+b1) ... Setting up libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-4) ... Setting up libhdf5-fortran-102t64:amd64 (1.10.10+repack-4) ... Setting up debhelper (13.16) ... Setting up pybind11-dev (2.12.0-1) ... Setting up libcurl4-openssl-dev:amd64 (8.9.1-1) ... Setting up libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-4) ... Setting up libopencv-core406t64:amd64 (4.6.0+dfsg-13.1+b5) ... Setting up libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... Setting up libhdf5-dev (1.10.10+repack-4) ... 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+b5) ... Setting up libarmadillo-dev (1:14.0.1+dfsg-2) ... Setting up libdlib-dev:amd64 (19.24.4+dfsg-2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.39-6) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.9.7-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.9.7-1 (2024-06-27) amd64 (x86_64) Toolchain package versions: binutils_2.42.90.20240720-2 dpkg-dev_1.22.11 g++-13_13.3.0-4 g++-14_14.2.0-1 gcc-13_13.3.0-4 gcc-14_14.2.0-1 libc6-dev_2.39-6 libstdc++-13-dev_13.3.0-4 libstdc++-14-dev_14.2.0-1 libstdc++6_14.2.0-1 linux-libc-dev_6.9.12-1 Package versions: adduser_3.137 apt_2.9.7 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.22.5-2 autotools-dev_20220109.1 base-files_13.4 base-passwd_3.6.4 bash_5.2.21-2.1 binutils_2.42.90.20240720-2 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libpython3.12-stdlib_3.12.4-3 libpython3.12t64_3.12.4-3 libquadmath0_14.2.0-1 libreadline8t64_8.2-4 librtmp-dev_2.4+20151223.gitfa8646d.1-2+b4 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+b1 libselinux1_3.5-2+b3 libsemanage-common_3.5-1 libsemanage2_3.5-1+b4 libsensors-config_1:3.6.0-10 libsensors5_1:3.6.0-10 libsepol2_3.5-2+b1 libsframe1_2.42.90.20240720-2 libsmartcols1_2.40.2-1 libsqlite3-0_3.46.0-1 libsqlite3-dev_3.46.0-1 libssh2-1-dev_1.11.0-7 libssh2-1t64_1.11.0-7 libssl-dev_3.2.2-1 libssl3t64_3.2.2-1 libstdc++-13-dev_13.3.0-4 libstdc++-14-dev_14.2.0-1 libstdc++6_14.2.0-1 libsuperlu-dev_6.0.1+dfsg1-1+b1 libsuperlu6_6.0.1+dfsg1-1+b1 libsystemd0_256.4-2 libsz2_1.1.3-1 libtasn1-6_4.19.0-3+b2 libtasn1-6-dev_4.19.0-3+b2 libtbb-dev_2021.12.0-1 libtbb12_2021.12.0-1 libtbbbind-2-5_2021.12.0-1 libtbbmalloc2_2021.12.0-1 libtinfo6_6.5-2 libtool_2.4.7-7 libtsan2_14.2.0-1 libubsan1_14.2.0-1 libuchardet0_0.0.8-1+b1 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perl-modules-5.38_5.38.2-5 perl-modules-5.40_5.40.0-1 pinentry-curses_1.2.1-3+b2 pkgconf_1.8.1-3 pkgconf-bin_1.8.1-3 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_0.0.24 sysvinit-utils_3.09-2 tar_1.35+dfsg-3 tzdata_2024a-4 usr-is-merged_39 util-linux_2.40.2-1 x11proto-dev_2024.1-1 xorg-sgml-doctools_1:1.11-1.1 xtrans-dev_1.4.0-1 xz-utils_5.6.2-2 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: 1.1.4-8 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 5aa0a353c526b23aa829e7334114d8dc53db98b6 9428 seer_1.1.4-8.debian.tar.xz Checksums-Sha256: 96e55b9fe2cde089ff05bbcd55088832e90f44a968a81a8dca9f9cffa6faa9c1 972155 seer_1.1.4.orig.tar.gz da8005864a8263d365688589347dde52f8b3b1b8f14815ea2b217d4a517878a7 9428 seer_1.1.4-8.debian.tar.xz Files: e4b331eaf17819aabc545b032148d8c2 972155 seer_1.1.4.orig.tar.gz cdc4d5c7115c74ca5cac6707ab79c095 9428 seer_1.1.4-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmajW6IACgkQYAMWptwn dHY7Sw/+LMOjwUDySwXEGK96jxofSYObOdZ6az9neFTRNYP2ewPbVjRUE8MLtbz9 1K5wQfi8yTKaEAcgsw2srI409p5HjBmkzkf+MYyfaMdeXltyukPKwVfyuV4jcpDz xXQHd8QFOlldv9NWjIrGR/iTdBhVsDwDTaHArQzOw784lnoFRG4UtHMeKniij1Vv d+c+CKsW9khqk0ZJTJIgfsMxgCfrPIwWOZl+UZBlBaJt5C3k4q9ybZur/6pRbhY9 yTdu130Wb+SE51awz+Xzjrd9HEdwvs0PaPVWcicu7XpS+4MoIKiQ77+PG9z2Y03m nJx+1/V21qsWvfy7hJstIvNFiURdWgbylp4GSp9Dd1jitq8U9XpF1VeakFP0ljL+ aNFhLtdbMxo+C/yDn5jAseLVUYTvCKFuY3k3txs1avDUPuI4Cf6D7dn6pdgXTcuo JBTehdE1CGW0Tnra/m4MxxIuWeMFfDBul4+hMK+mFd2Zfze8ogTNPACw1d2d12ud obUK2vi+RzXH8Jn59PhuT2H3ZCQckZXUr7BJKhBB/k0X9JoBjAmtQMkm8n0fxo80 3Ch4hCMEVrxiMspu6LPyici44JwMMP+rdzyfibWb0YkZH5Jv51LC9PCrbrmMhlLN eh4GwwmIoPovbvEwnhWigZBnXfYX6Hw+qj47+DHTVZKk8YtbD+U= =wA1R -----END PGP SIGNATURE----- gpgv: Signature made Fri Jul 26 08:17:38 2024 UTC gpgv: using RSA key 33CB284313E90BD27DCB4523600316A6DC277476 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./seer_1.1.4-8.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_1.1.4-8.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 dpkg-source: info: applying cpp14.patch Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network seer_1.1.4-8 perl-5.40-throwaway amd64 ------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network seer_1.1.4-8 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-a770d6bf-49fa-4c11-ace6-a65480f93d2c 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 1.1.4-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pierre Gruet 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_1.1.4-8.debian.tar.xz dpkg-source: info: building seer in seer_1.1.4-8.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++14 -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++14 -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++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o kmer.o kmer.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -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++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerCommon.o seerCommon.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerErr.o seerErr.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerIO.o seerIO.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerBasicFilter.o seerBasicFilter.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerMain.o seerMain.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerCmdLine.o seerCmdLine.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerStats.o seerStats.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o seerContinuousAssoc.o seerContinuousAssoc.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -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 g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -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 g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -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 g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -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 g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o kmdsStruct.o kmdsStruct.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -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 g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -DARMA_USE_HDF5=1 -c -o fasta.o fasta.cpp g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wall -O3 -std=c++14 -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++14 -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++14 -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++14 -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++14 -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++14 -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++14 -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++14 -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++14 -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++14 -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++14 -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++14 -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' in '../seer_1.1.4-8_amd64.deb'. dpkg-deb: building package 'seer-dbgsym' in '../seer-dbgsym_1.1.4-8_amd64.deb'. dpkg-genbuildinfo -O../seer_1.1.4-8_amd64.buildinfo dpkg-genchanges -O../seer_1.1.4-8_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 2024-08-03T06:14:12Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ seer_1.1.4-8_amd64.changes: --------------------------- Format: 1.8 Date: Fri, 26 Jul 2024 09:57:43 +0200 Source: seer Binary: seer seer-dbgsym Architecture: source amd64 Version: 1.1.4-8 Distribution: perl-5.40-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: seer - genomic sequence element (kmer) enrichment analysis Closes: 1074123 Changes: seer (1.1.4-8) unstable; urgency=medium . * Team upload * Building with --std=c++14 to comply with newest dlib (Closes: #1074123) Checksums-Sha1: 5329fbe849639dd8bb275c2b35d50b75bb353cd5 1150 seer_1.1.4-8.dsc 5aa0a353c526b23aa829e7334114d8dc53db98b6 9428 seer_1.1.4-8.debian.tar.xz bf573b6c2139bf486b7aa18907d420e4eca421c1 9184672 seer-dbgsym_1.1.4-8_amd64.deb 8f3713c0e445fa68e849d50183152a1fcddedaa5 9884 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seer_1.1.4-8_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: seer Binary: seer seer-dbgsym Architecture: amd64 source Version: 1.1.4-8 Checksums-Md5: 974a3c3f7539990e8c2e5fdcb3eecbe7 1150 seer_1.1.4-8.dsc ec333dd15c67869b004d301ab6aeb111 9184672 seer-dbgsym_1.1.4-8_amd64.deb c4c47ea2ff4c4668563caf9f66faa836 1230152 seer_1.1.4-8_amd64.deb Checksums-Sha1: 5329fbe849639dd8bb275c2b35d50b75bb353cd5 1150 seer_1.1.4-8.dsc bf573b6c2139bf486b7aa18907d420e4eca421c1 9184672 seer-dbgsym_1.1.4-8_amd64.deb d5741eb6625cb1844edad13d933494af90f192b8 1230152 seer_1.1.4-8_amd64.deb Checksums-Sha256: df7d53dd2cc28556ad553475b6aeb1d4029f3622cf7e5fbe50ab4518d002cc1e 1150 seer_1.1.4-8.dsc 43326b66e9f4d0706e6680dc488044a8c3027c326481e5f56bae4876c2f6c2cf 9184672 seer-dbgsym_1.1.4-8_amd64.deb 78978eeef2f47dac2ed930361c4e4bbf2864bf41b33e6b289008f04fab593688 1230152 seer_1.1.4-8_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sat, 03 Aug 2024 06:14:12 +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 (= 0.22.5-2), autotools-dev (= 20220109.1), base-files (= 13.4), base-passwd (= 3.6.4), bash (= 5.2.21-2.1), binutils (= 2.42.90.20240720-2), binutils-common (= 2.42.90.20240720-2), binutils-x86-64-linux-gnu (= 2.42.90.20240720-2), bsdextrautils (= 2.40.2-1), bsdutils (= 1:2.40.2-1), build-essential (= 12.10), bzip2 (= 1.0.8-5.1), coreutils (= 9.4-3.1), cpp (= 4:14.1.0-2), cpp-13 (= 13.3.0-4), cpp-13-x86-64-linux-gnu (= 13.3.0-4), cpp-14 (= 14.2.0-1), cpp-14-x86-64-linux-gnu (= 14.2.0-1), cpp-x86-64-linux-gnu (= 4:14.1.0-2), dash (= 0.5.12-9), debconf (= 1.5.87), debhelper (= 13.16), debianutils (= 5.20), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.0-1), diffutils (= 1:3.10-1), dpkg (= 1.22.11), dpkg-dev (= 1.22.11), dwz (= 0.15-1+b1), file (= 1:5.45-3), findutils (= 4.10.0-2), g++ (= 4:14.1.0-2), g++-14 (= 14.2.0-1), g++-14-x86-64-linux-gnu (= 14.2.0-1), g++-x86-64-linux-gnu (= 4:14.1.0-2), gcc (= 4:14.1.0-2), gcc-13 (= 13.3.0-4), gcc-13-base (= 13.3.0-4), gcc-13-x86-64-linux-gnu (= 13.3.0-4), gcc-14 (= 14.2.0-1), gcc-14-base (= 14.2.0-1), gcc-14-x86-64-linux-gnu (= 14.2.0-1), gcc-x86-64-linux-gnu (= 4:14.1.0-2), gettext (= 0.22.5-2), gettext-base (= 0.22.5-2), grep (= 3.11-4), groff-base (= 1.23.0-5), gzip (= 1.12-1.1), hdf5-helpers (= 1.10.10+repack-4), 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 (= 1:14.0.1+dfsg-2), libarmadillo14 (= 1:14.0.1+dfsg-2), libarpack2-dev (= 3.9.1-1.1+b2), libarpack2t64 (= 3.9.1-1.1+b2), libasan8 (= 14.2.0-1), libatomic1 (= 14.2.0-1), libattr1 (= 1:2.5.2-1), libaudit-common (= 1:3.1.2-4), libaudit1 (= 1:3.1.2-4+b1), libbinutils (= 2.42.90.20240720-2), libblas-dev (= 3.12.0-3), libblas3 (= 3.12.0-3), libblkid1 (= 2.40.2-1), libboost-dev (= 1.83.0.2+b2), libboost-program-options-dev (= 1.83.0.2+b2), libboost-program-options1.83-dev (= 1.83.0-3.1), libboost-program-options1.83.0 (= 1.83.0-3.1), libboost1.83-dev (= 1.83.0-3.1), libbrotli-dev (= 1.1.0-2+b4), libbrotli1 (= 1.1.0-2+b4), libbsd0 (= 0.12.2-1), libbz2-1.0 (= 1.0.8-5.1), libc-bin (= 2.39-6), libc-dev-bin (= 2.39-6), libc6 (= 2.39-6), libc6-dev (= 2.39-6), libcap-ng0 (= 0.8.5-1+b1), libcap2 (= 1:2.66-5), libcc1-0 (= 14.2.0-1), libcom-err2 (= 1.47.1-1), libcrypt-dev (= 1:4.4.36-4), libcrypt1 (= 1:4.4.36-4), libctf-nobfd0 (= 2.42.90.20240720-2), libctf0 (= 2.42.90.20240720-2), libcurl4-openssl-dev (= 8.9.1-1), libcurl4t64 (= 8.9.1-1), libdb5.3t64 (= 5.3.28+dfsg2-7), libdebconfclient0 (= 0.272), libdebhelper-perl (= 13.16), libdlib-data (= 19.24.4+dfsg-2), libdlib-dev (= 19.24.4+dfsg-2), libdlib19.2 (= 19.24.4+dfsg-2), libdpkg-perl (= 1.22.11), libdrm-amdgpu1 (= 2.4.122-1), libdrm-common (= 2.4.122-1), libdrm-intel1 (= 2.4.122-1), libdrm-radeon1 (= 2.4.122-1), libdrm2 (= 2.4.122-1), libedit2 (= 3.1-20240517-1), libelf1t64 (= 0.191-2), libevent-2.1-7t64 (= 2.1.12-stable-10), 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 (= 13.3.0-4), libgcc-14-dev (= 14.2.0-1), libgcc-s1 (= 14.2.0-1), libgdbm-compat4t64 (= 1.23-6), libgdbm6t64 (= 1.23-6), libgfortran5 (= 14.2.0-1), libgl1-mesa-dri (= 24.1.5-3), libglapi-mesa (= 24.1.5-3), libglvnd0 (= 1.7.0-1+b1), libglx-mesa0 (= 24.1.5-3), libglx0 (= 1.7.0-1+b1), libgmp-dev (= 2:6.3.0+dfsg-2+b1), libgmp10 (= 2:6.3.0+dfsg-2+b1), libgmpxx4ldbl (= 2:6.3.0+dfsg-2+b1), libgnutls-dane0t64 (= 3.8.6-2), libgnutls-openssl27t64 (= 3.8.6-2), libgnutls28-dev (= 3.8.6-2), libgnutls30t64 (= 3.8.6-2), libgomp1 (= 14.2.0-1), libgprofng0 (= 2.42.90.20240720-2), libgssapi-krb5-2 (= 1.21.3-3), libgzstream-dev (= 1.5+git20171107.9a20658-2), libgzstream0 (= 1.5+git20171107.9a20658-2), libhdf5-103-1t64 (= 1.10.10+repack-4), libhdf5-cpp-103-1t64 (= 1.10.10+repack-4), libhdf5-dev (= 1.10.10+repack-4), libhdf5-fortran-102t64 (= 1.10.10+repack-4), libhdf5-hl-100t64 (= 1.10.10+repack-4), libhdf5-hl-cpp-100t64 (= 1.10.10+repack-4), libhdf5-hl-fortran-100t64 (= 1.10.10+repack-4), libhogweed6t64 (= 3.10-1), libhwasan0 (= 14.2.0-1), libhwloc15 (= 2.11.0-2), libicu72 (= 72.1-5), libidn2-0 (= 2.3.7-2), libidn2-dev (= 2.3.7-2), libisl23 (= 0.26-3+b2), libitm1 (= 14.2.0-1), 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 (= 1.21.3-3), libkeyutils1 (= 1.6.3-3), libkrb5-3 (= 1.21.3-3), libkrb5support0 (= 1.21.3-3), liblapack-dev (= 3.12.0-3), liblapack3 (= 3.12.0-3), libldap-2.5-0 (= 2.5.18+dfsg-2+b1), libllvm17t64 (= 1:17.0.6-15), liblsan0 (= 14.2.0-1), liblzma5 (= 5.6.2-2), libmagic-mgc (= 1:5.45-3), libmagic1t64 (= 1:5.45-3), libmd0 (= 1.1.0-2), libmount1 (= 2.40.2-1), libmpc3 (= 1.3.1-1+b2), libmpfr6 (= 4.2.1-1+b1), libncursesw6 (= 6.5-2), libnettle8t64 (= 3.10-1), libnghttp2-14 (= 1.62.1-2), libnghttp2-dev (= 1.62.1-2), libopencv-core-dev (= 4.6.0+dfsg-13.1+b5), libopencv-core406t64 (= 4.6.0+dfsg-13.1+b5), libp11-kit-dev (= 0.25.5-2), libp11-kit0 (= 0.25.5-2), 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 (= 5.40.0-1), libpipeline1 (= 1.5.7-2), libpkgconf3 (= 1.8.1-3), libpng-dev (= 1.6.43-5), libpng16-16t64 (= 1.6.43-5), libpsl-dev (= 0.21.2-1.1), libpsl5t64 (= 0.21.2-1.1), libpython3-dev (= 3.12.4-1), libpython3.12-dev (= 3.12.4-3), libpython3.12-minimal (= 3.12.4-3), libpython3.12-stdlib (= 3.12.4-3), libpython3.12t64 (= 3.12.4-3), libquadmath0 (= 14.2.0-1), libreadline8t64 (= 8.2-4), librtmp-dev (= 2.4+20151223.gitfa8646d.1-2+b4), 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+b1), libselinux1 (= 3.5-2+b3), libsensors-config (= 1:3.6.0-10), libsensors5 (= 1:3.6.0-10), libsframe1 (= 2.42.90.20240720-2), libsmartcols1 (= 2.40.2-1), libsqlite3-0 (= 3.46.0-1), libsqlite3-dev (= 3.46.0-1), libssh2-1-dev (= 1.11.0-7), libssh2-1t64 (= 1.11.0-7), libssl-dev (= 3.2.2-1), libssl3t64 (= 3.2.2-1), libstdc++-14-dev (= 14.2.0-1), libstdc++6 (= 14.2.0-1), libsuperlu-dev (= 6.0.1+dfsg1-1+b1), libsuperlu6 (= 6.0.1+dfsg1-1+b1), libsystemd0 (= 256.4-2), libsz2 (= 1.1.3-1), libtasn1-6 (= 4.19.0-3+b2), libtasn1-6-dev (= 4.19.0-3+b2), libtbb-dev (= 2021.12.0-1), libtbb12 (= 2021.12.0-1), libtbbbind-2-5 (= 2021.12.0-1), libtbbmalloc2 (= 2021.12.0-1), libtinfo6 (= 6.5-2), libtool (= 2.4.7-7), libtsan2 (= 14.2.0-1), libubsan1 (= 14.2.0-1), libuchardet0 (= 0.0.8-1+b1), libudev1 (= 256.4-2), libunbound8 (= 1.20.0-1+b1), libunistring5 (= 1.2-1), libuuid1 (= 2.40.2-1), 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+b1), libxshmfence1 (= 1.3-1+b1), libxxf86vm1 (= 1:1.1.4-1+b2), libz3-4 (= 4.8.12-3.1+b2), libzstd-dev (= 1.5.6+dfsg-1), libzstd1 (= 1.5.6+dfsg-1), linux-libc-dev (= 6.9.12-1), m4 (= 1.4.19-4), make (= 4.3-4.1), man-db (= 2.12.1-2), mawk (= 1.3.4.20240622-2), media-types (= 10.1.0), ncurses-base (= 6.5-2), ncurses-bin (= 6.5-2), netbase (= 6.4), nettle-dev (= 3.10-1), patch (= 2.7.6-7), perl (= 5.40.0-1), perl-base (= 5.40.0-1), perl-modules-5.40 (= 5.40.0-1), pkgconf (= 1.8.1-3), pkgconf-bin (= 1.8.1-3), 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 (= 0.0.24), sysvinit-utils (= 3.09-2), tar (= 1.35+dfsg-3), tzdata (= 2024a-4), usr-is-merged (= 39), util-linux (= 2.40.2-1), x11proto-dev (= 2024.1-1), xorg-sgml-doctools (= 1:1.11-1.1), xtrans-dev (= 1.4.0-1), xz-utils (= 5.6.2-2), 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="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" SOURCE_DATE_EPOCH="1721980663" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ seer-dbgsym_1.1.4-8_amd64.deb ----------------------------- new Debian package, version 2.0. size 9184672 bytes: control archive=800 bytes. 523 bytes, 12 lines control 611 bytes, 6 lines md5sums Package: seer-dbgsym Source: seer Version: 1.1.4-8 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 9403 Depends: seer (= 1.1.4-8) Section: debug Priority: optional Description: debug symbols for seer Build-Ids: 28b94a2870dbc5b8d5d23c3a9702f56b36fd8cbc 743621ed37b8f13c5fc0551343fdb98a37e9f6ee a0eb20b4199b94bf376bc4038d83740dd6a2d722 a1e8c7480044e6d8732530ce297064821cea65a1 efc217c5b00f000574122412088d229232b41228 drwxr-xr-x root/root 0 2024-07-26 07:57 ./ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/debug/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/debug/.build-id/28/ -rw-r--r-- root/root 400656 2024-07-26 07:57 ./usr/lib/debug/.build-id/28/b94a2870dbc5b8d5d23c3a9702f56b36fd8cbc.debug drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/debug/.build-id/74/ -rw-r--r-- root/root 988824 2024-07-26 07:57 ./usr/lib/debug/.build-id/74/3621ed37b8f13c5fc0551343fdb98a37e9f6ee.debug drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/debug/.build-id/a0/ -rw-r--r-- root/root 494680 2024-07-26 07:57 ./usr/lib/debug/.build-id/a0/eb20b4199b94bf376bc4038d83740dd6a2d722.debug drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/debug/.build-id/a1/ -rw-r--r-- root/root 3627216 2024-07-26 07:57 ./usr/lib/debug/.build-id/a1/e8c7480044e6d8732530ce297064821cea65a1.debug drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/debug/.build-id/ef/ -rw-r--r-- root/root 2938456 2024-07-26 07:57 ./usr/lib/debug/.build-id/ef/c217c5b00f000574122412088d229232b41228.debug drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 1158640 2024-07-26 07:57 ./usr/lib/debug/.dwz/x86_64-linux-gnu/seer.debug drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/share/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/share/doc/ lrwxrwxrwx root/root 0 2024-07-26 07:57 ./usr/share/doc/seer-dbgsym -> seer seer_1.1.4-8_amd64.deb ---------------------- new Debian package, version 2.0. size 1230152 bytes: control archive=2688 bytes. 1436 bytes, 24 lines control 4326 bytes, 62 lines md5sums Package: seer Version: 1.1.4-8 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 5071 Depends: libarmadillo14 (>= 1:14.0.1+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 (>= 14), 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 2024-07-26 07:57 ./ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/bin/ -rwxr-xr-x root/root 4597 2024-07-26 07:57 ./usr/bin/R_mds -rwxr-xr-x root/root 3794 2024-07-26 07:57 ./usr/bin/blast_top_hits -rwxr-xr-x root/root 2152 2024-07-26 07:57 ./usr/bin/blastn_to_phandango -rwxr-xr-x root/root 113048 2024-07-26 07:57 ./usr/bin/combineKmers -rwxr-xr-x root/root 88472 2024-07-26 07:57 ./usr/bin/filter_seer -rwxr-xr-x root/root 1869 2024-07-26 07:57 ./usr/bin/hits_to_fastq -rwxr-xr-x root/root 638392 2024-07-26 07:57 ./usr/bin/kmds -rwxr-xr-x root/root 203176 2024-07-26 07:57 ./usr/bin/map_back -rwxr-xr-x root/root 3200 2024-07-26 07:57 ./usr/bin/mapping_to_phandango -rwxr-xr-x root/root 1208 2024-07-26 07:57 ./usr/bin/mash2matrix -rwxr-xr-x root/root 2295 2024-07-26 07:57 ./usr/bin/reformat_output -rwxr-xr-x root/root 916976 2024-07-26 07:57 ./usr/bin/seer drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/share/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/share/doc/seer/ -rw-r--r-- root/root 684 2024-06-16 19:42 ./usr/share/doc/seer/README.Debian -rw-r--r-- root/root 328 2024-06-16 19:42 ./usr/share/doc/seer/README.source -rw-r--r-- root/root 278 2024-06-16 19:42 ./usr/share/doc/seer/README.test -rw-r--r-- root/root 953 2024-07-26 07:57 ./usr/share/doc/seer/changelog.Debian.gz -rw-r--r-- root/root 1176 2024-06-16 19:42 ./usr/share/doc/seer/copyright drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/share/doc/seer/examples/ -rw-r--r-- root/root 2168438 2017-06-20 09:43 ./usr/share/doc/seer/examples/6259_5_16.fa -rw-r--r-- root/root 121 2017-06-20 09:43 ./usr/share/doc/seer/examples/Makefile -rw-r--r-- root/root 196442 2017-06-20 09:43 ./usr/share/doc/seer/examples/all_structure_new -rw-r--r-- root/root 29617 2017-06-20 09:43 ./usr/share/doc/seer/examples/all_structure_new.samples -rw-r--r-- root/root 23 2017-06-20 09:43 ./usr/share/doc/seer/examples/assembly_locations.txt -rw-r--r-- root/root 3011 2017-06-20 09:43 ./usr/share/doc/seer/examples/covariates.txt -rw-r--r-- root/root 65372 2017-06-20 09:43 ./usr/share/doc/seer/examples/example.pheno -rw-r--r-- root/root 63448 2024-07-26 07:57 ./usr/share/doc/seer/examples/example_kmers.gz -rwxr-xr-x root/root 6542 2017-06-20 09:43 ./usr/share/doc/seer/examples/example_wrapper.py -rw-r--r-- root/root 18732 2017-06-20 09:43 ./usr/share/doc/seer/examples/filter_in.txt -rwxr-xr-x root/root 1115 2017-06-20 09:43 ./usr/share/doc/seer/examples/generate_test.pl -rw-r--r-- root/root 233 2017-06-20 09:43 ./usr/share/doc/seer/examples/map_in.txt -rwxr-xr-x root/root 2031 2017-06-20 09:43 ./usr/share/doc/seer/examples/run_test.pl -rw-r--r-- root/root 4530 2017-06-20 09:43 ./usr/share/doc/seer/examples/subset.cont.pheno -rw-r--r-- root/root 4238 2017-06-20 09:43 ./usr/share/doc/seer/examples/subset.pheno -rw-r--r-- root/root 168 2017-06-20 09:43 ./usr/share/doc/seer/examples/test1.e.txt -rw-r--r-- root/root 63 2017-06-20 09:43 ./usr/share/doc/seer/examples/test1.o.txt -rw-r--r-- root/root 171 2017-06-20 09:43 ./usr/share/doc/seer/examples/test2.e.txt -rw-r--r-- root/root 18732 2017-06-20 09:43 ./usr/share/doc/seer/examples/test2.o.txt -rw-r--r-- root/root 170 2017-06-20 09:43 ./usr/share/doc/seer/examples/test3.e.txt -rw-r--r-- root/root 496392 2017-06-20 09:43 ./usr/share/doc/seer/examples/test3.o.txt -rw-r--r-- root/root 174 2017-06-20 09:43 ./usr/share/doc/seer/examples/test4.e.txt -rw-r--r-- root/root 9798 2017-06-20 09:43 ./usr/share/doc/seer/examples/test4.o.txt -rw-r--r-- root/root 171 2017-06-20 09:43 ./usr/share/doc/seer/examples/test5.e.txt -rw-r--r-- root/root 24941 2017-06-20 09:43 ./usr/share/doc/seer/examples/test5.o.txt -rw-r--r-- root/root 171 2017-06-20 09:43 ./usr/share/doc/seer/examples/test6.e.txt -rw-r--r-- root/root 24672 2017-06-20 09:43 ./usr/share/doc/seer/examples/test6.o.txt -rw-r--r-- root/root 55 2017-06-20 09:43 ./usr/share/doc/seer/examples/test7.e.txt -rw-r--r-- root/root 15565 2017-06-20 09:43 ./usr/share/doc/seer/examples/test7.o.txt -rw-r--r-- root/root 121 2017-06-20 09:43 ./usr/share/doc/seer/examples/test8.e.txt -rw-r--r-- root/root 62 2017-06-20 09:43 ./usr/share/doc/seer/examples/test8.o.txt -rw-r--r-- root/root 0 2024-07-26 07:57 ./usr/share/doc/seer/examples/tests_passed -rw-r--r-- root/root 1803 2024-06-16 19:42 ./usr/share/doc/seer/run-unit-test drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/share/man/ drwxr-xr-x root/root 0 2024-07-26 07:57 ./usr/share/man/man1/ -rw-r--r-- root/root 506 2024-07-26 07:57 ./usr/share/man/man1/R_mds.1.gz -rw-r--r-- root/root 501 2024-07-26 07:57 ./usr/share/man/man1/blast_top_hits.1.gz -rw-r--r-- root/root 403 2024-07-26 07:57 ./usr/share/man/man1/blastn_to_phandango.1.gz -rw-r--r-- root/root 461 2024-07-26 07:57 ./usr/share/man/man1/combineKmers.1.gz -rw-r--r-- root/root 543 2024-07-26 07:57 ./usr/share/man/man1/filter_seer.1.gz -rw-r--r-- root/root 408 2024-07-26 07:57 ./usr/share/man/man1/hits_to_fastq.1.gz -rw-r--r-- root/root 906 2024-07-26 07:57 ./usr/share/man/man1/kmds.1.gz -rw-r--r-- root/root 458 2024-07-26 07:57 ./usr/share/man/man1/map_back.1.gz -rw-r--r-- root/root 432 2024-07-26 07:57 ./usr/share/man/man1/mapping_to_phandango.1.gz -rw-r--r-- root/root 466 2024-07-26 07:57 ./usr/share/man/man1/mash2matrix.1.gz -rw-r--r-- root/root 422 2024-07-26 07:57 ./usr/share/man/man1/reformat_output.1.gz -rw-r--r-- root/root 995 2024-07-26 07:57 ./usr/share/man/man1/seer.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 126012 Build-Time: 139 Distribution: perl-5.40-throwaway Host Architecture: amd64 Install-Time: 19 Job: /srv/debomatic/incoming/seer_1.1.4-8.dsc Machine Architecture: amd64 Package: seer Package-Time: 166 Source-Version: 1.1.4-8 Space: 126012 Status: successful Version: 1.1.4-8 -------------------------------------------------------------------------------- Finished at 2024-08-03T06:14:12Z Build needed 00:02:46, 126012k disk space