https://launchpad.net/ubuntu/+source/delly/1.1.8-1/+build/26914573 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos01-arm64-030 5.4.0-164-generic #181-Ubuntu SMP Fri Sep 1 13:42:23 UTC 2023 aarch64 Buildd toolchain package versions: launchpad-buildd_235~645~ubuntu20.04.1 python3-lpbuildd_235~645~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.11 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1.1. Syncing the system clock with the buildd NTP service... 26 Oct 18:19:33 ntpdate[1828]: adjust time server 10.211.37.1 offset 0.000960 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-26914573 --image-type chroot /home/buildd/filecache-default/59612f0fc5bae33f6226b6e60c2e882b82c04bd0 Creating target for build PACKAGEBUILD-26914573 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-26914573 Starting target for build PACKAGEBUILD-26914573 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-26914573 'deb http://ftpmaster.internal/ubuntu noble main universe' 'deb http://ftpmaster.internal/ubuntu noble-security main universe' 'deb http://ftpmaster.internal/ubuntu noble-updates main universe' 'deb http://ftpmaster.internal/ubuntu noble-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-26914573 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-26914573 Updating target for build PACKAGEBUILD-26914573 Get:1 http://ftpmaster.internal/ubuntu noble InRelease [213 kB] Get:2 http://ftpmaster.internal/ubuntu noble-security InRelease [74.9 kB] Get:3 http://ftpmaster.internal/ubuntu noble-updates InRelease [74.9 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease [74.9 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main armhf Packages [1334 kB] Get:6 http://ftpmaster.internal/ubuntu noble/universe armhf Packages [13.9 MB] Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main armhf Packages [68.0 kB] Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main Translation-en [30.4 kB] Get:9 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf Packages [150 kB] Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe Translation-en [76.1 kB] Fetched 16.0 MB in 44s (364 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: apt apt-utils bash-completion debianutils libapt-pkg6.0 libc-bin libc-dev-bin libc6 libc6-dev libssl3 libsystemd-shared libsystemd0 libudev1 libxxhash0 libzstd1 openssl systemd systemd-dev systemd-sysv 19 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 16.0 MB of archives. After this operation, 5120 B disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main armhf debianutils armhf 5.14 [88.0 kB] Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc6-dev armhf 2.38-3ubuntu1 [1347 kB] Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc-dev-bin armhf 2.38-3ubuntu1 [18.9 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc6 armhf 2.38-3ubuntu1 [2818 kB] Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc-bin armhf 2.38-3ubuntu1 [532 kB] Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libssl3 armhf 3.0.10-1ubuntu2.1 [1572 kB] Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libzstd1 armhf 1.5.5+dfsg2-2 [265 kB] Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd-sysv armhf 253.5-1ubuntu7 [11.5 kB] Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd-dev all 253.5-1ubuntu7 [78.5 kB] Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd armhf 253.5-1ubuntu7 [3043 kB] Get:11 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsystemd-shared armhf 253.5-1ubuntu7 [1781 kB] Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsystemd0 armhf 253.5-1ubuntu7 [379 kB] Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libudev1 armhf 253.5-1ubuntu7 [151 kB] Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libxxhash0 armhf 0.8.2-2 [31.3 kB] Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libapt-pkg6.0 armhf 2.7.6 [960 kB] Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main armhf apt armhf 2.7.6 [1360 kB] Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main armhf apt-utils armhf 2.7.6 [212 kB] Get:18 http://ftpmaster.internal/ubuntu noble-proposed/main armhf openssl armhf 3.0.10-1ubuntu2.1 [1158 kB] Get:19 http://ftpmaster.internal/ubuntu noble-proposed/main armhf bash-completion all 1:2.11-8 [180 kB] Preconfiguring packages ... Fetched 16.0 MB in 44s (362 kB/s) (Reading database ... 13362 files and directories currently installed.) Preparing to unpack .../debianutils_5.14_armhf.deb ... Unpacking debianutils (5.14) over (5.8-1) ... Setting up debianutils (5.14) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../libc6-dev_2.38-3ubuntu1_armhf.deb ... Unpacking libc6-dev:armhf (2.38-3ubuntu1) over (2.38-1ubuntu6) ... Preparing to unpack .../libc-dev-bin_2.38-3ubuntu1_armhf.deb ... Unpacking libc-dev-bin (2.38-3ubuntu1) over (2.38-1ubuntu6) ... Preparing to unpack .../libc6_2.38-3ubuntu1_armhf.deb ... Unpacking libc6:armhf (2.38-3ubuntu1) over (2.38-1ubuntu6) ... Setting up libc6:armhf (2.38-3ubuntu1) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../libc-bin_2.38-3ubuntu1_armhf.deb ... Unpacking libc-bin (2.38-3ubuntu1) over (2.38-1ubuntu6) ... Setting up libc-bin (2.38-3ubuntu1) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../libssl3_3.0.10-1ubuntu2.1_armhf.deb ... Unpacking libssl3:armhf (3.0.10-1ubuntu2.1) over (3.0.10-1ubuntu2) ... Preparing to unpack .../libzstd1_1.5.5+dfsg2-2_armhf.deb ... Unpacking libzstd1:armhf (1.5.5+dfsg2-2) over (1.5.5+dfsg2-1ubuntu2) ... Setting up libzstd1:armhf (1.5.5+dfsg2-2) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../systemd-sysv_253.5-1ubuntu7_armhf.deb ... Unpacking systemd-sysv (253.5-1ubuntu7) over (253.5-1ubuntu6) ... Preparing to unpack .../systemd-dev_253.5-1ubuntu7_all.deb ... Unpacking systemd-dev (253.5-1ubuntu7) over (253.5-1ubuntu6) ... Setting up libssl3:armhf (3.0.10-1ubuntu2.1) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../systemd_253.5-1ubuntu7_armhf.deb ... Unpacking systemd (253.5-1ubuntu7) over (253.5-1ubuntu6) ... Preparing to unpack .../libsystemd-shared_253.5-1ubuntu7_armhf.deb ... Unpacking libsystemd-shared:armhf (253.5-1ubuntu7) over (253.5-1ubuntu6) ... Preparing to unpack .../libsystemd0_253.5-1ubuntu7_armhf.deb ... Unpacking libsystemd0:armhf (253.5-1ubuntu7) over (253.5-1ubuntu6) ... Setting up libsystemd0:armhf (253.5-1ubuntu7) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../libudev1_253.5-1ubuntu7_armhf.deb ... Unpacking libudev1:armhf (253.5-1ubuntu7) over (253.5-1ubuntu6) ... Setting up libudev1:armhf (253.5-1ubuntu7) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../libxxhash0_0.8.2-2_armhf.deb ... Unpacking libxxhash0:armhf (0.8.2-2) over (0.8.1-1) ... Setting up libxxhash0:armhf (0.8.2-2) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0_2.7.6_armhf.deb ... Unpacking libapt-pkg6.0:armhf (2.7.6) over (2.7.3) ... Setting up libapt-pkg6.0:armhf (2.7.6) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../archives/apt_2.7.6_armhf.deb ... Unpacking apt (2.7.6) over (2.7.3) ... Setting up apt (2.7.6) ... (Reading database ... 13361 files and directories currently installed.) Preparing to unpack .../apt-utils_2.7.6_armhf.deb ... Unpacking apt-utils (2.7.6) over (2.7.3) ... Preparing to unpack .../openssl_3.0.10-1ubuntu2.1_armhf.deb ... Unpacking openssl (3.0.10-1ubuntu2.1) over (3.0.10-1ubuntu2) ... Preparing to unpack .../bash-completion_1%3a2.11-8_all.deb ... Unpacking bash-completion (1:2.11-8) over (1:2.11-7) ... Setting up apt-utils (2.7.6) ... Setting up systemd-dev (253.5-1ubuntu7) ... Setting up bash-completion (1:2.11-8) ... Setting up libsystemd-shared:armhf (253.5-1ubuntu7) ... Setting up libc-dev-bin (2.38-3ubuntu1) ... Setting up openssl (3.0.10-1ubuntu2.1) ... Setting up systemd (253.5-1ubuntu7) ... Initializing machine ID from random generator. Setting up libc6-dev:armhf (2.38-3ubuntu1) ... Setting up systemd-sysv (253.5-1ubuntu7) ... Processing triggers for libc-bin (2.38-3ubuntu1) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-26914573 armhf noble-proposed -c chroot:build-PACKAGEBUILD-26914573 --arch=armhf --dist=noble-proposed --nolog delly_1.1.8-1.dsc Initiating build PACKAGEBUILD-26914573 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-164-generic #181-Ubuntu SMP Fri Sep 1 13:42:23 UTC 2023 armv7l sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos01-arm64-030.buildd +==============================================================================+ | delly 1.1.8-1 (armhf) Thu, 26 Oct 2023 18:21:10 +0000 | +==============================================================================+ Package: delly Version: 1.1.8-1 Source Version: 1.1.8-1 Distribution: noble-proposed Machine Architecture: arm64 Host Architecture: armhf Build Architecture: armhf Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-26914573/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/delly-zCA2Wx/resolver-LJm98G' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- delly_1.1.8-1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/delly-zCA2Wx/delly-1.1.8' with '<>' I: NOTICE: Log filtering will replace 'build/delly-zCA2Wx' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libboost-date-time-dev, libboost-program-options-dev, libboost-system-dev, libboost-filesystem-dev, libboost-iostreams-dev, libhts-dev, libbz2-dev, zlib1g-dev, chrpath, debhelper, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), libboost-date-time-dev, libboost-program-options-dev, libboost-system-dev, libboost-filesystem-dev, libboost-iostreams-dev, libhts-dev, libbz2-dev, zlib1g-dev, chrpath, debhelper, 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 [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [438 B] Get:5 copy:/<>/apt_archive ./ Packages [520 B] Fetched 1915 B in 0s (61.5 kB/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 packages were automatically installed and are no longer required: apt-utils bash-completion ca-certificates debconf-i18n krb5-locales libgpg-error-l10n libgpm2 liblocale-gettext-perl libnss-nis libnss-nisplus libtext-charwidth-perl libtext-iconv-perl libtext-wrapi18n-perl openssl psmisc uuid-runtime Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev chrpath debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libboost-date-time-dev libboost-date-time1.74-dev libboost-date-time1.74.0 libboost-filesystem-dev libboost-filesystem1.74-dev libboost-filesystem1.74.0 libboost-iostreams-dev libboost-iostreams1.74-dev libboost-iostreams1.74.0 libboost-program-options-dev libboost-program-options1.74-dev libboost-program-options1.74.0 libboost-regex1.74-dev libboost-regex1.74.0 libboost-serialization1.74-dev libboost-serialization1.74.0 libboost-system-dev libboost-system1.74-dev libboost-system1.74.0 libboost1.74-dev libbrotli1 libbz2-dev libcurl3-gnutls libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libdw1 libelf1 libfile-stripnondeterminism-perl libhts-dev libhts3 libhtscodecs2 libicu-dev libicu72 libldap2 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 librtmp1 libsasl2-2 libsasl2-modules-db libssh-4 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-stacktrace1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev libcurl4-doc libgnutls28-dev libidn-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkg-config icu-doc liblzma-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx bzip2-doc libarchive-cpio-perl libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev chrpath debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libboost-date-time-dev libboost-date-time1.74-dev libboost-date-time1.74.0 libboost-filesystem-dev libboost-filesystem1.74-dev libboost-filesystem1.74.0 libboost-iostreams-dev libboost-iostreams1.74-dev libboost-iostreams1.74.0 libboost-program-options-dev libboost-program-options1.74-dev libboost-program-options1.74.0 libboost-regex1.74-dev libboost-regex1.74.0 libboost-serialization1.74-dev libboost-serialization1.74.0 libboost-system-dev libboost-system1.74-dev libboost-system1.74.0 libboost1.74-dev libbrotli1 libbz2-dev libcurl3-gnutls libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libdw1 libelf1 libfile-stripnondeterminism-perl libhts-dev libhts3 libhtscodecs2 libicu-dev libicu72 libldap2 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 librtmp1 libsasl2-2 libsasl2-modules-db libssh-4 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf sbuild-build-depends-main-dummy zlib1g-dev 0 upgraded, 72 newly installed, 0 to remove and 0 not upgraded. Need to get 48.8 MB of archives. After this operation, 298 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [732 B] Get:2 http://ftpmaster.internal/ubuntu noble/main armhf libelf1 armhf 0.189-4 [48.7 kB] Get:3 http://ftpmaster.internal/ubuntu noble/main armhf libicu72 armhf 72.1-3ubuntu3 [10.5 MB] Get:4 http://ftpmaster.internal/ubuntu noble/main armhf libxml2 armhf 2.9.14+dfsg-1.3 [591 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main armhf libmagic-mgc armhf 1:5.44-3 [293 kB] Get:6 http://ftpmaster.internal/ubuntu noble/main armhf libmagic1 armhf 1:5.44-3 [80.3 kB] Get:7 http://ftpmaster.internal/ubuntu noble/main armhf file armhf 1:5.44-3 [20.9 kB] Get:8 http://ftpmaster.internal/ubuntu noble/main armhf gettext-base armhf 0.21-13 [37.5 kB] Get:9 http://ftpmaster.internal/ubuntu noble/main armhf libuchardet0 armhf 0.0.7-1build2 [75.7 kB] Get:10 http://ftpmaster.internal/ubuntu noble/main armhf groff-base armhf 1.23.0-2 [948 kB] Get:11 http://ftpmaster.internal/ubuntu noble/main armhf libnghttp2-14 armhf 1.55.1-1 [67.6 kB] Get:12 http://ftpmaster.internal/ubuntu noble/main armhf libpipeline1 armhf 1.5.7-1 [26.2 kB] Get:13 http://ftpmaster.internal/ubuntu noble/main armhf libpsl5 armhf 0.21.2-1 [57.6 kB] Get:14 http://ftpmaster.internal/ubuntu noble/main armhf man-db armhf 2.11.2-3 [1187 kB] Get:15 http://ftpmaster.internal/ubuntu noble/main armhf m4 armhf 1.4.19-3 [235 kB] Get:16 http://ftpmaster.internal/ubuntu noble/main armhf autoconf all 2.71-3 [339 kB] Get:17 http://ftpmaster.internal/ubuntu noble/main armhf autotools-dev all 20220109.1 [44.9 kB] Get:18 http://ftpmaster.internal/ubuntu noble/main armhf automake all 1:1.16.5-1.3 [558 kB] Get:19 http://ftpmaster.internal/ubuntu noble/main armhf autopoint all 0.21-13 [422 kB] Get:20 http://ftpmaster.internal/ubuntu noble/universe armhf chrpath armhf 0.16-2 [11.9 kB] Get:21 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdebhelper-perl all 13.11.7ubuntu1 [85.8 kB] Get:22 http://ftpmaster.internal/ubuntu noble/main armhf libtool all 2.4.7-7 [166 kB] Get:23 http://ftpmaster.internal/ubuntu noble/main armhf dh-autoreconf all 20 [16.1 kB] Get:24 http://ftpmaster.internal/ubuntu noble/main armhf libarchive-zip-perl all 1.68-1 [90.2 kB] Get:25 http://ftpmaster.internal/ubuntu noble/main armhf libsub-override-perl all 0.09-4 [8706 B] Get:26 http://ftpmaster.internal/ubuntu noble/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:27 http://ftpmaster.internal/ubuntu noble/main armhf dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:28 http://ftpmaster.internal/ubuntu noble/main armhf libdw1 armhf 0.189-4 [233 kB] Get:29 http://ftpmaster.internal/ubuntu noble/main armhf debugedit armhf 1:5.0-5 [42.8 kB] Get:30 http://ftpmaster.internal/ubuntu noble/main armhf dwz armhf 0.15-1 [109 kB] Get:31 http://ftpmaster.internal/ubuntu noble/main armhf gettext armhf 0.21-13 [801 kB] Get:32 http://ftpmaster.internal/ubuntu noble/main armhf intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:33 http://ftpmaster.internal/ubuntu noble/main armhf po-debconf all 1.0.21+nmu1 [233 kB] Get:34 http://ftpmaster.internal/ubuntu noble-proposed/main armhf debhelper all 13.11.7ubuntu1 [940 kB] Get:35 http://ftpmaster.internal/ubuntu noble/main armhf icu-devtools armhf 72.1-3ubuntu3 [199 kB] Get:36 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost1.74-dev armhf 1.74.0+ds1-23ubuntu1 [9584 kB] Get:37 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-date-time1.74.0 armhf 1.74.0+ds1-23ubuntu1 [223 kB] Get:38 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-serialization1.74.0 armhf 1.74.0+ds1-23ubuntu1 [319 kB] Get:39 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-serialization1.74-dev armhf 1.74.0+ds1-23ubuntu1 [391 kB] Get:40 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-date-time1.74-dev armhf 1.74.0+ds1-23ubuntu1 [226 kB] Get:41 http://ftpmaster.internal/ubuntu noble/universe armhf libboost-date-time-dev armhf 1.74.0.3ubuntu7 [3248 B] Get:42 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-filesystem1.74.0 armhf 1.74.0+ds1-23ubuntu1 [259 kB] Get:43 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-system1.74.0 armhf 1.74.0+ds1-23ubuntu1 [223 kB] Get:44 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-system1.74-dev armhf 1.74.0+ds1-23ubuntu1 [218 kB] Get:45 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libboost-filesystem1.74-dev armhf 1.74.0+ds1-23ubuntu1 [270 kB] Get:46 http://ftpmaster.internal/ubuntu noble/universe armhf libboost-filesystem-dev armhf 1.74.0.3ubuntu7 [3280 B] Get:47 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-regex1.74.0 armhf 1.74.0+ds1-23ubuntu1 [471 kB] Get:48 http://ftpmaster.internal/ubuntu noble/main armhf libicu-dev armhf 72.1-3ubuntu3 [11.6 MB] Get:49 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-regex1.74-dev armhf 1.74.0+ds1-23ubuntu1 [596 kB] Get:50 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-iostreams1.74.0 armhf 1.74.0+ds1-23ubuntu1 [244 kB] Get:51 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libboost-iostreams1.74-dev armhf 1.74.0+ds1-23ubuntu1 [251 kB] Get:52 http://ftpmaster.internal/ubuntu noble/universe armhf libboost-iostreams-dev armhf 1.74.0.3ubuntu7 [3238 B] Get:53 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-program-options1.74.0 armhf 1.74.0+ds1-23ubuntu1 [331 kB] Get:54 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-program-options1.74-dev armhf 1.74.0+ds1-23ubuntu1 [375 kB] Get:55 http://ftpmaster.internal/ubuntu noble/main armhf libboost-program-options-dev armhf 1.74.0.3ubuntu7 [3266 B] Get:56 http://ftpmaster.internal/ubuntu noble/universe armhf libboost-system-dev armhf 1.74.0.3ubuntu7 [3390 B] Get:57 http://ftpmaster.internal/ubuntu noble/main armhf libbrotli1 armhf 1.0.9-2build8 [296 kB] Get:58 http://ftpmaster.internal/ubuntu noble/main armhf libbz2-dev armhf 1.0.8-5build1 [29.8 kB] Get:59 http://ftpmaster.internal/ubuntu noble/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-3 [18.9 kB] Get:60 http://ftpmaster.internal/ubuntu noble/main armhf libsasl2-2 armhf 2.1.28+dfsg1-3 [49.6 kB] Get:61 http://ftpmaster.internal/ubuntu noble/main armhf libldap2 armhf 2.6.6+dfsg-1~exp1ubuntu1 [170 kB] Get:62 http://ftpmaster.internal/ubuntu noble/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2build4 [52.8 kB] Get:63 http://ftpmaster.internal/ubuntu noble/main armhf libssh-4 armhf 0.10.5-3ubuntu1 [166 kB] Get:64 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcurl3-gnutls armhf 8.2.1-1ubuntu3.1 [275 kB] Get:65 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcurl4-gnutls-dev armhf 8.2.1-1ubuntu3.1 [390 kB] Get:66 http://ftpmaster.internal/ubuntu noble/main armhf libdeflate0 armhf 1.18-1 [40.7 kB] Get:67 http://ftpmaster.internal/ubuntu noble/main armhf libdeflate-dev armhf 1.18-1 [47.6 kB] Get:68 http://ftpmaster.internal/ubuntu noble/universe armhf libhtscodecs2 armhf 1.5.1-1 [67.4 kB] Get:69 http://ftpmaster.internal/ubuntu noble/universe armhf libhts3 armhf 1.17+ds-1 [381 kB] Get:70 http://ftpmaster.internal/ubuntu noble/main armhf liblzma-dev armhf 5.4.1-0.2 [165 kB] Get:71 http://ftpmaster.internal/ubuntu noble/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1ubuntu5 [880 kB] Get:72 http://ftpmaster.internal/ubuntu noble/universe armhf libhts-dev armhf 1.17+ds-1 [1679 kB] Preconfiguring packages ... 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Setting up man-db (2.11.2-3) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up libboost-iostreams1.74-dev:armhf (1.74.0+ds1-23ubuntu1) ... Setting up libboost-date-time1.74-dev:armhf (1.74.0+ds1-23ubuntu1) ... Setting up libboost-date-time-dev:armhf (1.74.0.3ubuntu7) ... Setting up debhelper (13.11.7ubuntu1) ... Setting up libboost-iostreams-dev:armhf (1.74.0.3ubuntu7) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.38-3ubuntu1) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-164-generic #181-Ubuntu SMP Fri Sep 1 13:42:23 UTC 2023 arm64 (armv7l) Toolchain package versions: binutils_2.41-5ubuntu1 dpkg-dev_1.22.0ubuntu1 g++-13_13.2.0-4ubuntu3 gcc-13_13.2.0-4ubuntu3 libc6-dev_2.38-3ubuntu1 libstdc++-13-dev_13.2.0-4ubuntu3 libstdc++6_13.2.0-4ubuntu3 linux-libc-dev_6.5.0-9.9 Package versions: adduser_3.137ubuntu1 advancecomp_2.5-1 apt_2.7.6 apt-utils_2.7.6 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-13 autotools-dev_20220109.1 base-files_13ubuntu3 base-passwd_3.6.1 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Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller Homepage: https://github.com/dellytools/delly Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/delly Vcs-Git: https://salsa.debian.org/med-team/delly.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), libboost-date-time-dev, libboost-program-options-dev, libboost-system-dev, libboost-filesystem-dev, libboost-iostreams-dev, libhts-dev, libbz2-dev, zlib1g-dev, chrpath, debhelper Package-List: delly deb science optional arch=any Checksums-Sha1: cf08c2c461916e0c2ed3e0e156a133ed141ac4db 3743720 delly_1.1.8.orig.tar.xz 85b866350db703acd3f9193450034d51a1fb790d 5244 delly_1.1.8-1.debian.tar.xz Checksums-Sha256: 011e6a2a1e2bfcddd3e909ab38974b4220b69f308ef6049420e12112fe967bd3 3743720 delly_1.1.8.orig.tar.xz b3feab4ff9e3654487aafb8836a29703a40ac172d1bf2b343464a3738139e48f 5244 delly_1.1.8-1.debian.tar.xz Files: d803b6a94d7f64c179b7feda0f25679c 3743720 delly_1.1.8.orig.tar.xz 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2D65BC1EB9665A6E97F9730AB3F5945285219E1F gpgv: issuer "rmb@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./delly_1.1.8-1.dsc: no acceptable signature found dpkg-source: info: extracting delly in /<> dpkg-source: info: unpacking delly_1.1.8.orig.tar.xz dpkg-source: info: unpacking delly_1.1.8-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying reproducible.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-26914573 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-26914573 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-26914573 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package delly dpkg-buildpackage: info: source version 1.1.8-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean make -j4 distclean make[2]: Entering directory '/<>' if [ -r src/htslib/Makefile ]; then cd src/htslib && make clean; fi rm -f src/delly src/delly.o rm -f src/delly make[2]: Leaving directory '/<>' rm -rf src/dpe src/delly bin/delly make[1]: Leaving directory '/<>' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build -- BUILT_PROGRAMS="src/delly" PARALLEL=1 make -j4 "INSTALL=install --strip-program=true" BUILT_PROGRAMS=src/delly PARALLEL=1 make[2]: Entering directory '/<>' g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/delly-1.1.8-1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -isystem /usr/include/htslib/ -pedantic -W -Wall -Wno-unknown-pragmas -D__STDC_LIMIT_MACROS -fno-strict-aliasing -fpermissive -fopenmp -DOPENMP -O3 -fno-tree-vectorize -DNDEBUG src/delly.cpp src/edlib.cpp -o src/delly -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/include/htslib/ -lboost_iostreams -lboost_filesystem -lboost_system -lboost_program_options -lboost_date_time -lhts -lz -llzma -lbz2 -Wl,-rpath,/usr/include/htslib/ In file included from src/util.h:15, from src/delly.h:32, from src/delly.cpp:18: src/tags.h:76:32: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 76 | struct SortSVs : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from src/delly.cpp:3: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ src/util.h:61:33: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 61 | struct SortCNVs : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/delly.h:35: src/coverage.h:51:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 51 | struct SortBp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/shortpe.h:36, from src/delly.h:38: src/junction.h:37:40: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 37 | struct SortSRBamRecord : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ src/junction.h:80:37: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct SortJunction : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/shortpe.h:37: src/cluster.h:42:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct SortBamRecords : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ src/cluster.h:71:40: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 71 | struct SortEdgeRecords : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/delly.cpp:21: src/merge.h:68:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 68 | struct SortIScores : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/coral.h:17, from src/delly.cpp:23: src/scan.h:33:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 33 | struct SortScanWindow : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/coral.h:19: src/cnv.h:42:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct SortSVBreakpoint : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/pangenome.h:33, from src/delly.cpp:26: src/gfa.h:43:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 43 | struct SortLinks : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/pangenome.h:34: src/gaf.h:41:40: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct SortAlignRecord : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/delly.cpp:27: src/markdup.h:62:37: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 62 | struct SortSVEvents : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/delly.cpp:28: src/compvcf.h:65:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | struct SortCompSVRecord : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from src/junction.h:16: src/assemble.h: In instantiation of ‘void torali::consensusWfa(const TAlign&, std::string&) [with TAlign = boost::multi_array; std::string = std::__cxx11::basic_string]’: src/assemble.h:703:19: required from ‘int torali::msaWfa(const TConfig&, TSplitReadSet&, std::string&, const std::string&, const std::string&) [with TConfig = TeguaConfig; TSplitReadSet = std::vector >; std::string = std::__cxx11::basic_string]’ src/assemble.h:866:12: required from ‘void torali::assemble(const TConfig&, const TValidRegion&, std::vector&, TSRStore&) [with TConfig = TeguaConfig; TValidRegion = std::vector >; TSRStore = std::vector, std::vector > >]’ src/tegua.h:113:14: required from ‘int32_t torali::runTegua(TConfig&) [with TConfig = TeguaConfig; int32_t = int]’ src/tegua.h:383:19: required from here src/assemble.h:273:17: warning: comparison of integer expressions of different signedness: ‘TAIndex’ {aka ‘int’} and ‘__gnu_cxx::__alloc_traits, unsigned int>::value_type’ {aka ‘unsigned int’} [-Wsign-compare] 273 | if (j < readStart[i]) readStart[i] = j; | ~~^~~~~~~~~~~~ src/assemble.h:274:17: warning: comparison of integer expressions of different signedness: ‘TAIndex’ {aka ‘int’} and ‘__gnu_cxx::__alloc_traits, unsigned int>::value_type’ {aka ‘unsigned int’} [-Wsign-compare] 274 | if (j > readEnd[i]) readEnd[i] = j; | ~~^~~~~~~~~~ src/assemble.h:284:16: warning: comparison of integer expressions of different signedness: ‘TAIndex’ {aka ‘int’} and ‘__gnu_cxx::__alloc_traits, unsigned int>::value_type’ {aka ‘unsigned int’} [-Wsign-compare] 284 | if ((j >= readStart[i]) && (j <= readEnd[i])) { | ~~~^~~~~~~~~~~~~~~~ src/assemble.h:284:39: warning: comparison of integer expressions of different signedness: ‘TAIndex’ {aka ‘int’} and ‘__gnu_cxx::__alloc_traits, unsigned int>::value_type’ {aka ‘unsigned int’} [-Wsign-compare] 284 | if ((j >= readStart[i]) && (j <= readEnd[i])) { | ~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:71, from /usr/include/c++/13/string:51: /usr/include/c++/13/bits/predefined_ops.h: In function ‘bool __gnu_cxx::__ops::_Iter_comp_iter<_Compare>::operator()(_Iterator1, _Iterator2) [with _Iterator1 = __gnu_cxx::__normal_iterator >; _Iterator2 = __gnu_cxx::__normal_iterator >; _Compare = torali::SortCompSVRecord]’: /usr/include/c++/13/bits/predefined_ops.h:157:9: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 157 | operator()(_Iterator1 __it1, _Iterator2 __it2) | ^~~~~~~~ /usr/include/c++/13/bits/predefined_ops.h:157:9: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/arm-linux-gnueabihf/c++/13/bits/c++allocator.h:33, from /usr/include/c++/13/bits/allocator.h:46, from /usr/include/c++/13/string:43: In member function ‘void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = char; _Args = {}; _Tp = char]’, inlined from ‘typename std::enable_if::value>::type boost::allocator_construct(A&, T*, Args&& ...) [with A = std::allocator; T = char; Args = {}]’ at /usr/include/boost/core/allocator_access.hpp:432:16, inlined from ‘void boost::alloc_construct_n(A&, T*, std::size_t) [with A = std::allocator; T = char]’ at /usr/include/boost/core/alloc_construct.hpp:122:35, inlined from ‘void boost::multi_array::allocate_space() [with T = char; unsigned int NumDims = 2; Allocator = std::allocator]’ at /usr/include/boost/multi_array.hpp:548:29, inlined from ‘boost::multi_array::multi_array(const Allocator&) [with T = char; unsigned int NumDims = 2; Allocator = std::allocator]’ at /usr/include/boost/multi_array.hpp:156:19: /usr/include/c++/13/bits/new_allocator.h:187:11: warning: ‘void* __builtin_memset(void*, int, unsigned int)’ offset 0 is out of the bounds [0, 0] [-Warray-bounds=] 187 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /usr/include/boost/move/algorithm.hpp:32, from /usr/include/boost/move/move.hpp:32, from /usr/include/boost/unordered/unordered_set.hpp:19, from /usr/include/boost/unordered_set.hpp:17, from /usr/include/boost/graph/adjacency_list.hpp:20, from src/delly.h:8: /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const torali::CompSVRecord&}; _Tp = torali::CompSVRecord; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const torali::CNV&}; _Tp = torali::CNV; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = torali::CNV; _Alloc = std::allocator]’, inlined from ‘void torali::parseVcfCNV(const TConfig&, bam_hdr_t*, std::vector&) [with TConfig = CountDNAConfig]’ at src/cnv.h:549:16: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {torali::BpCNV}; _Tp = torali::BpCNV; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {torali::CNV}; _Tp = torali::CNV; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {torali::CNV}; _Tp = torali::CNV; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = torali::CNV; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void torali::mergeCNVs(const TConfig&, std::vector&, std::vector&) [with TConfig = CountDNAConfig]’ at src/cnv.h:86:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = torali::CNV; _Alloc = std::allocator]’, inlined from ‘void torali::mergeCNVs(const TConfig&, std::vector&, std::vector&) [with TConfig = CountDNAConfig]’ at src/cnv.h:88:20: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = torali::CNV; _Alloc = std::allocator]’, inlined from ‘void torali::mergeCNVs(const TConfig&, std::vector&, std::vector&) [with TConfig = CountDNAConfig]’ at src/cnv.h:100:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/13/bits/stl_algo.h:61: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = torali::CompSVRecord; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In function ‘void std::__move_median_to_first(_Iterator, _Iterator, _Iterator, _Iterator, _Compare) [with _Iterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘_RandomAccessIterator std::__unguarded_partition_pivot(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1897:34, inlined from ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1931:38: /usr/include/c++/13/bits/stl_algo.h:97:22: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 97 | else if (__comp(__a, __c)) | ~~~~~~^~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:90:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 90 | if (__comp(__b, __c)) | ~~~~~~^~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:92:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 92 | else if (__comp(__a, __c)) | ~~~~~~^~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:99:22: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 99 | else if (__comp(__b, __c)) | ~~~~~~^~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {torali::BpCNV}; _Tp = torali::BpCNV; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = torali::BpCNV; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void torali::callCNVs(const TConfig&, const std::pair&, const std::vector&, const std::vector&, const TGcBias&, const TCoverage&, const bam_hdr_t*, int32_t, std::vector&) [with TConfig = CountDNAConfig; TGcBias = std::vector; TCoverage = std::vector]’ at src/cnv.h:366:38: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {torali::BpCNV}; _Tp = torali::BpCNV; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = torali::BpCNV; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void torali::callCNVs(const TConfig&, const std::pair&, const std::vector&, const std::vector&, const TGcBias&, const TCoverage&, const bam_hdr_t*, int32_t, std::vector&) [with TConfig = CountDNAConfig; TGcBias = std::vector; TCoverage = std::vector]’ at src/cnv.h:396:35: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {torali::BpCNV}; _Tp = torali::BpCNV; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = torali::BpCNV; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void torali::callCNVs(const TConfig&, const std::pair&, const std::vector&, const std::vector&, const TGcBias&, const TCoverage&, const bam_hdr_t*, int32_t, std::vector&) [with TConfig = CountDNAConfig; TGcBias = std::vector; TCoverage = std::vector]’ at src/cnv.h:417:23: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {torali::CNV}; _Tp = torali::CNV; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = torali::CNV; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void torali::callCNVs(const TConfig&, const std::pair&, const std::vector&, const std::vector&, const TGcBias&, const TCoverage&, const bam_hdr_t*, int32_t, std::vector&) [with TConfig = CountDNAConfig; TGcBias = std::vector; TCoverage = std::vector]’ at src/cnv.h:474:16: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = torali::CNV; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘torali::BoLog::BoLog() [with TPrecision = double]’ at src/bolog.h:18:89, inlined from ‘void torali::vcfOutput(const TConfig&, const std::vector&, const TJunctionCountMap&, const TReadCountMap&, const TCountMap&) [with TConfig = Config; TStructuralVariantRecord = StructuralVariantRecord; TJunctionCountMap = std::vector >; TReadCountMap = std::vector >; TCountMap = std::vector >]’ at src/modvcf.h:325:17: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘torali::BoLog::BoLog() [with TPrecision = double]’ at src/bolog.h:18:89, inlined from ‘void torali::vcfOutput(const TConfig&, const std::vector&, const TJunctionCountMap&, const TReadCountMap&, const TCountMap&) [with TConfig = TeguaConfig; TStructuralVariantRecord = StructuralVariantRecord; TJunctionCountMap = std::vector >; TReadCountMap = std::vector >; TCountMap = std::vector >]’ at src/modvcf.h:325:17: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘torali::BoLog::BoLog() [with TPrecision = double]’ at src/bolog.h:18:89, inlined from ‘void torali::vcfOutput(const TConfig&, const std::vector&, const TJunctionCountMap&, const TReadCountMap&, const TCountMap&) [with TConfig = AsmConfig; TStructuralVariantRecord = StructuralVariantRecord; TJunctionCountMap = std::vector >; TReadCountMap = std::vector >; TCountMap = std::vector >]’ at src/modvcf.h:325:17: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = torali::ReadCount; _Alloc = std::allocator]’, inlined from ‘int32_t torali::runAsm(TConfig&) [with TConfig = AsmConfig]’ at src/asmode.h:399:26: /usr/include/c++/13/bits/stl_vector.h:1034:25: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘int32_t torali::runAsm(TConfig&) [with TConfig = AsmConfig]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: by argument 4 of type ‘const std::vector::value_type&’ {aka ‘const torali::ReadCount&’} to ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = torali::ReadCount; _Alloc = std::allocator]’ declared here 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from src/delly.cpp:24: src/asmode.h:399:39: note: ‘’ declared here 399 | rcMap[file_c].resize(svs.size(), ReadCount()); | ^~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = torali::CompSVRecord; _Alloc = std::allocator]’, inlined from ‘bool torali::_loadCompSVs(CompvcfConfig&, const std::string&, std::vector&)’ at src/compvcf.h:325:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = torali::SortCompSVRecord]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘int torali::compvcfRun(CompvcfConfig&)’ at src/compvcf.h:358:9: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = torali::SortCompSVRecord]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘int torali::compvcfRun(CompvcfConfig&)’ at src/compvcf.h:358:9: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = torali::SortCompSVRecord]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘int torali::compvcfRun(CompvcfConfig&)’ at src/compvcf.h:359:9: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = torali::SortCompSVRecord]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘int torali::compvcfRun(CompvcfConfig&)’ at src/compvcf.h:359:9: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = torali::ReadCount; _Alloc = std::allocator]’, inlined from ‘void torali::annotateCoverage(TConfig&, TSampleLibrary&, TSVs&, TCoverageCount&, TCountMap&, TSpanMap&) [with TConfig = Config; TSampleLibrary = std::vector; TSVs = std::vector; TCoverageCount = std::vector >; TCountMap = std::vector >; TSpanMap = std::vector >]’ at src/coverage.h:265:30: /usr/include/c++/13/bits/stl_vector.h:1034:25: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘void torali::annotateCoverage(TConfig&, TSampleLibrary&, TSVs&, TCoverageCount&, TCountMap&, TSpanMap&) [with TConfig = Config; TSampleLibrary = std::vector; TSVs = std::vector; TCoverageCount = std::vector >; TCountMap = std::vector >; TSpanMap = std::vector >]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: by argument 4 of type ‘const std::vector::value_type&’ {aka ‘const torali::ReadCount&’} to ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = torali::ReadCount; _Alloc = std::allocator]’ declared here 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ src/coverage.h:265:43: note: ‘’ declared here 265 | covCount[file_c].resize(svs.size(), TCovPair()); | ^~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = torali::ReadCount; _Alloc = std::allocator]’, inlined from ‘int32_t torali::runTegua(TConfig&) [with TConfig = TeguaConfig]’ at src/tegua.h:166:26: /usr/include/c++/13/bits/stl_vector.h:1034:25: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘int32_t torali::runTegua(TConfig&) [with TConfig = TeguaConfig]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: by argument 4 of type ‘const std::vector::value_type&’ {aka ‘const torali::ReadCount&’} to ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = torali::ReadCount; _Alloc = std::allocator]’ declared here 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from src/delly.cpp:22: src/tegua.h:166:39: note: ‘’ declared here 166 | rcMap[file_c].resize(svs.size(), ReadCount()); | ^~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = torali::ReadCount; _Alloc = std::allocator]’, inlined from ‘int32_t torali::runGraph(TConfig&) [with TConfig = GraphConfig]’ at src/pangenome.h:772:26: /usr/include/c++/13/bits/stl_vector.h:1034:25: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘int32_t torali::runGraph(TConfig&) [with TConfig = GraphConfig]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: by argument 4 of type ‘const std::vector::value_type&’ {aka ‘const torali::ReadCount&’} to ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = torali::ReadCount; _Alloc = std::allocator]’ declared here 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ src/pangenome.h:772:39: note: ‘’ declared here 772 | rcMap[file_c].resize(svs.size(), ReadCount()); | ^~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = torali::SortCNVs]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘int32_t torali::bamCount(const TConfig&, const LibraryInfo&, const std::vector&, const std::pair&) [with TConfig = CountDNAConfig]’ at src/coral.h:433:9: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = torali::SortCNVs]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘int32_t torali::bamCount(const TConfig&, const LibraryInfo&, const std::vector&, const std::pair&) [with TConfig = CountDNAConfig]’ at src/coral.h:433:9: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/<>' chrpath -d src/delly make[1]: Leaving directory '/<>' dh_auto_test -a create-stamp debian/debhelper-build-stamp dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/<>' # avoiding redundant compile of delly make[1]: Leaving directory '/<>' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a 09b31b6d9e08596bdeacd2997a96f3f81a5c0dd2 dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: debian/delly/usr/bin/delly contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 pkgstriptranslations: processing delly-dbgsym (in debian/.debhelper/delly/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing delly (in debian/delly); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/delly/dbgsym-root/DEBIAN/control, package delly-dbgsym, directory debian/.debhelper/delly/dbgsym-root dpkg-deb: building package 'delly-dbgsym' in 'debian/.debhelper/scratch-space/build-delly/delly-dbgsym_1.1.8-1_armhf.deb'. pkgstripfiles: processing control file: debian/delly/DEBIAN/control, package delly, directory debian/delly pkgstripfiles: Running PNG optimization (using 4 cpus) for package delly ... pkgstripfiles: No PNG files. dpkg-deb: building package 'delly' in '../delly_1.1.8-1_armhf.deb'. Renaming delly-dbgsym_1.1.8-1_armhf.deb to delly-dbgsym_1.1.8-1_armhf.ddeb dpkg-genbuildinfo --build=any -O../delly_1.1.8-1_armhf.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../delly_1.1.8-1_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2023-10-26T18:25:00Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ delly_1.1.8-1_armhf.changes: ---------------------------- Format: 1.8 Date: Thu, 12 Oct 2023 14:40:44 +0000 Source: delly Binary: delly Built-For-Profiles: noudeb Architecture: armhf Version: 1.1.8-1 Distribution: noble-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Mohammed Bilal Description: delly - Structural variant discovery by read analysis Changes: delly (1.1.8-1) unstable; urgency=medium . * Team upload. * New upstream version * Standards-Version: 4.6.2 (routine-update) Checksums-Sha1: 3e9468520c4b918f5d078a8e1fb3cc85e2584bbc 5517636 delly-dbgsym_1.1.8-1_armhf.ddeb 292ca696f61a430fcb9a8b1457218c4e95681f99 7277 delly_1.1.8-1_armhf.buildinfo 8957afdc59d8b1e32eb2a4ef9df56be37e02847b 372282 delly_1.1.8-1_armhf.deb Checksums-Sha256: ec656072c57e3aa916eab22731b1500ff35ad662fd5bbdf46fd3136f8aa2a059 5517636 delly-dbgsym_1.1.8-1_armhf.ddeb 7ea21d2176f9ea70cf82cb2170102cb214ee1a98b45b54ebb66d01b6001987d6 7277 delly_1.1.8-1_armhf.buildinfo 756611828eb00e3762a54732f9a738657d57db80c6d45666a28384271725fb61 372282 delly_1.1.8-1_armhf.deb Files: bf647a4adc5c309c7a15f95268f70037 5517636 debug optional delly-dbgsym_1.1.8-1_armhf.ddeb 51beeca3d972551fd0160461f7cc2578 7277 science optional delly_1.1.8-1_armhf.buildinfo 3fc0a6b1ecb691e2db3c965dca96026f 372282 science optional delly_1.1.8-1_armhf.deb /<>/delly_1.1.8-1_armhf.changes.new could not be renamed to /<>/delly_1.1.8-1_armhf.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: delly Binary: delly delly-dbgsym Architecture: armhf Version: 1.1.8-1 Checksums-Md5: bf647a4adc5c309c7a15f95268f70037 5517636 delly-dbgsym_1.1.8-1_armhf.ddeb 3fc0a6b1ecb691e2db3c965dca96026f 372282 delly_1.1.8-1_armhf.deb Checksums-Sha1: 3e9468520c4b918f5d078a8e1fb3cc85e2584bbc 5517636 delly-dbgsym_1.1.8-1_armhf.ddeb 8957afdc59d8b1e32eb2a4ef9df56be37e02847b 372282 delly_1.1.8-1_armhf.deb Checksums-Sha256: ec656072c57e3aa916eab22731b1500ff35ad662fd5bbdf46fd3136f8aa2a059 5517636 delly-dbgsym_1.1.8-1_armhf.ddeb 756611828eb00e3762a54732f9a738657d57db80c6d45666a28384271725fb61 372282 delly_1.1.8-1_armhf.deb Build-Origin: Ubuntu Build-Architecture: armhf Build-Date: Thu, 26 Oct 2023 18:24:59 +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 (= 0.21-13), autotools-dev (= 20220109.1), base-files (= 13ubuntu3), base-passwd (= 3.6.1), bash (= 5.2.15-2ubuntu1), binutils (= 2.41-5ubuntu1), binutils-arm-linux-gnueabihf (= 2.41-5ubuntu1), binutils-common (= 2.41-5ubuntu1), bsdextrautils (= 2.39.1-4ubuntu2), bsdutils (= 1:2.39.1-4ubuntu2), build-essential (= 12.10ubuntu1), bzip2 (= 1.0.8-5build1), chrpath (= 0.16-2), coreutils (= 9.1-1ubuntu2), cpp (= 4:13.2.0-1ubuntu1), cpp-13 (= 13.2.0-4ubuntu3), dash (= 0.5.12-6ubuntu1), debconf (= 1.5.82), debhelper (= 13.11.7ubuntu1), debianutils (= 5.14), debugedit (= 1:5.0-5), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.1-1), diffutils (= 1:3.8-4), dpkg (= 1.22.0ubuntu1), dpkg-dev (= 1.22.0ubuntu1), dwz (= 0.15-1), file (= 1:5.44-3), findutils (= 4.9.0-5), g++ (= 4:13.2.0-1ubuntu1), g++-13 (= 13.2.0-4ubuntu3), gcc (= 4:13.2.0-1ubuntu1), gcc-13 (= 13.2.0-4ubuntu3), gcc-13-base (= 13.2.0-4ubuntu3), gettext (= 0.21-13), gettext-base (= 0.21-13), grep (= 3.11-2), groff-base (= 1.23.0-2), gzip (= 1.12-1ubuntu1), hostname (= 3.23+nmu1ubuntu1), icu-devtools (= 72.1-3ubuntu3), init-system-helpers (= 1.65.2ubuntu1), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-3), libarchive-zip-perl (= 1.68-1), libasan8 (= 13.2.0-4ubuntu3), libatomic1 (= 13.2.0-4ubuntu3), libattr1 (= 1:2.5.1-4), libaudit-common (= 1:3.1.1-1), libaudit1 (= 1:3.1.1-1), libbinutils (= 2.41-5ubuntu1), libblkid1 (= 2.39.1-4ubuntu2), libboost-date-time-dev (= 1.74.0.3ubuntu7), libboost-date-time1.74-dev (= 1.74.0+ds1-23ubuntu1), libboost-date-time1.74.0 (= 1.74.0+ds1-23ubuntu1), libboost-filesystem-dev (= 1.74.0.3ubuntu7), libboost-filesystem1.74-dev (= 1.74.0+ds1-23ubuntu1), libboost-filesystem1.74.0 (= 1.74.0+ds1-23ubuntu1), libboost-iostreams-dev (= 1.74.0.3ubuntu7), libboost-iostreams1.74-dev (= 1.74.0+ds1-23ubuntu1), libboost-iostreams1.74.0 (= 1.74.0+ds1-23ubuntu1), libboost-program-options-dev (= 1.74.0.3ubuntu7), libboost-program-options1.74-dev (= 1.74.0+ds1-23ubuntu1), libboost-program-options1.74.0 (= 1.74.0+ds1-23ubuntu1), libboost-regex1.74-dev (= 1.74.0+ds1-23ubuntu1), libboost-regex1.74.0 (= 1.74.0+ds1-23ubuntu1), libboost-serialization1.74-dev (= 1.74.0+ds1-23ubuntu1), libboost-serialization1.74.0 (= 1.74.0+ds1-23ubuntu1), libboost-system-dev (= 1.74.0.3ubuntu7), libboost-system1.74-dev (= 1.74.0+ds1-23ubuntu1), libboost-system1.74.0 (= 1.74.0+ds1-23ubuntu1), libboost1.74-dev (= 1.74.0+ds1-23ubuntu1), libbrotli1 (= 1.0.9-2build8), libbz2-1.0 (= 1.0.8-5build1), libbz2-dev (= 1.0.8-5build1), libc-bin (= 2.38-3ubuntu1), libc-dev-bin (= 2.38-3ubuntu1), libc6 (= 2.38-3ubuntu1), libc6-dev (= 2.38-3ubuntu1), libcap-ng0 (= 0.8.3-1build2), libcap2 (= 1:2.66-4ubuntu1), libcc1-0 (= 13.2.0-4ubuntu3), libcom-err2 (= 1.47.0-2ubuntu1), libcrypt-dev (= 1:4.4.36-2), libcrypt1 (= 1:4.4.36-2), libctf-nobfd0 (= 2.41-5ubuntu1), libctf0 (= 2.41-5ubuntu1), libcurl3-gnutls (= 8.2.1-1ubuntu3.1), libcurl4-gnutls-dev (= 8.2.1-1ubuntu3.1), libdb5.3 (= 5.3.28+dfsg2-2), libdebconfclient0 (= 0.270ubuntu1), libdebhelper-perl (= 13.11.7ubuntu1), libdeflate-dev (= 1.18-1), libdeflate0 (= 1.18-1), libdpkg-perl (= 1.22.0ubuntu1), libdw1 (= 0.189-4), libelf1 (= 0.189-4), libffi8 (= 3.4.4-1), libfile-stripnondeterminism-perl (= 1.13.1-1), libgcc-13-dev (= 13.2.0-4ubuntu3), libgcc-s1 (= 13.2.0-4ubuntu3), libgcrypt20 (= 1.10.2-3ubuntu1), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgmp10 (= 2:6.3.0+dfsg-2ubuntu4), libgnutls30 (= 3.8.1-4ubuntu1), libgomp1 (= 13.2.0-4ubuntu3), libgpg-error0 (= 1.47-2), libgssapi-krb5-2 (= 1.20.1-3ubuntu1), libhogweed6 (= 3.9.1-2), libhts-dev (= 1.17+ds-1), libhts3 (= 1.17+ds-1), libhtscodecs2 (= 1.5.1-1), libicu-dev (= 72.1-3ubuntu3), libicu72 (= 72.1-3ubuntu3), libidn2-0 (= 2.3.4-1), libisl23 (= 0.26-3), libjansson4 (= 2.14-2), libk5crypto3 (= 1.20.1-3ubuntu1), libkeyutils1 (= 1.6.3-2), libkrb5-3 (= 1.20.1-3ubuntu1), libkrb5support0 (= 1.20.1-3ubuntu1), libldap2 (= 2.6.6+dfsg-1~exp1ubuntu1), liblz4-1 (= 1.9.4-1), liblzma-dev (= 5.4.1-0.2), liblzma5 (= 5.4.1-0.2), libmagic-mgc (= 1:5.44-3), libmagic1 (= 1:5.44-3), libmd0 (= 1.1.0-1), libmount1 (= 2.39.1-4ubuntu2), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.2.1-1), libnettle8 (= 3.9.1-2), libnghttp2-14 (= 1.55.1-1), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libp11-kit0 (= 0.25.0-4ubuntu1), libpam-modules (= 1.5.2-6ubuntu1), libpam-modules-bin (= 1.5.2-6ubuntu1), libpam-runtime (= 1.5.2-6ubuntu1), libpam0g (= 1.5.2-6ubuntu1), libpcre2-8-0 (= 10.42-4), libperl5.36 (= 5.36.0-9ubuntu1), libpipeline1 (= 1.5.7-1), libpsl5 (= 0.21.2-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build4), libsasl2-2 (= 2.1.28+dfsg1-3), libsasl2-modules-db (= 2.1.28+dfsg1-3), libseccomp2 (= 2.5.4-1ubuntu3), libselinux1 (= 3.5-1), libsframe1 (= 2.41-5ubuntu1), libsmartcols1 (= 2.39.1-4ubuntu2), libssh-4 (= 0.10.5-3ubuntu1), libssl3 (= 3.0.10-1ubuntu2.1), libstdc++-13-dev (= 13.2.0-4ubuntu3), libstdc++6 (= 13.2.0-4ubuntu3), libsub-override-perl (= 0.09-4), libsystemd0 (= 253.5-1ubuntu7), libtasn1-6 (= 4.19.0-3), libtinfo6 (= 6.4+20230625-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtool (= 2.4.7-7), libubsan1 (= 13.2.0-4ubuntu3), libuchardet0 (= 0.0.7-1build2), libudev1 (= 253.5-1ubuntu7), libunistring2 (= 1.0-2), libuuid1 (= 2.39.1-4ubuntu2), libxml2 (= 2.9.14+dfsg-1.3), libzstd1 (= 1.5.5+dfsg2-2), linux-libc-dev (= 6.5.0-9.9), login (= 1:4.13+dfsg1-1ubuntu1), lto-disabled-list (= 43), m4 (= 1.4.19-3), make (= 4.3-4.1build1), man-db (= 2.11.2-3), mawk (= 1.3.4.20230730-1), ncurses-base (= 6.4+20230625-2), ncurses-bin (= 6.4+20230625-2), patch (= 2.7.6-7build2), perl (= 5.36.0-9ubuntu1), perl-base (= 5.36.0-9ubuntu1), perl-modules-5.36 (= 5.36.0-9ubuntu1), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.9-1), sensible-utils (= 0.0.20), sysvinit-utils (= 3.07-1ubuntu1), tar (= 1.34+dfsg-1.2ubuntu1), util-linux (= 2.39.1-4ubuntu2), xz-utils (= 5.4.1-0.2), zlib1g (= 1:1.2.13.dfsg-1ubuntu5), zlib1g-dev (= 1:1.2.13.dfsg-1ubuntu5) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1697121644" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ delly_1.1.8-1_armhf.deb ----------------------- new Debian package, version 2.0. size 372282 bytes: control archive=877 bytes. 1032 bytes, 17 lines control 312 bytes, 5 lines md5sums Package: delly Version: 1.1.8-1 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 698 Depends: libboost-filesystem1.74.0 (>= 1.74.0+ds1), libboost-iostreams1.74.0 (>= 1.74.0+ds1), libboost-program-options1.74.0 (>= 1.74.0+ds1), libc6 (>= 2.34), libgcc-s1 (>= 3.5), libgomp1 (>= 4.9), libhts3 (>= 1.17), libstdc++6 (>= 13.1) Section: science Priority: optional Homepage: https://github.com/dellytools/delly Description: Structural variant discovery by read analysis Delly performs Structural variant discovery by integrated paired-end and split-read analysis. It discovers, genotypes and visualizes deletions, tandem duplications, inversions and translocations at single-nucleotide resolution in short-read massively parallel sequencing data. It uses paired-ends, split-reads and read-depth to sensitively and accurately delineate genomic rearrangements throughout the genome. drwxr-xr-x root/root 0 2023-10-12 14:40 ./ drwxr-xr-x root/root 0 2023-10-12 14:40 ./usr/ drwxr-xr-x root/root 0 2023-10-12 14:40 ./usr/bin/ -rwxr-xr-x root/root 697876 2023-10-12 14:40 ./usr/bin/delly drwxr-xr-x root/root 0 2023-10-12 14:40 ./usr/share/ drwxr-xr-x root/root 0 2023-10-12 14:40 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-10-12 14:40 ./usr/share/doc/delly/ -rw-r--r-- root/root 1120 2023-10-12 14:40 ./usr/share/doc/delly/changelog.Debian.gz -rw-r--r-- root/root 2645 2023-10-12 14:39 ./usr/share/doc/delly/copyright drwxr-xr-x root/root 0 2023-10-12 14:40 ./usr/share/man/ drwxr-xr-x root/root 0 2023-10-12 14:40 ./usr/share/man/man1/ -rw-r--r-- root/root 291 2023-10-12 14:40 ./usr/share/man/man1/delly.1.gz -rw-r--r-- root/root 336 2023-10-12 14:40 ./usr/share/man/man1/dpe.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: armhf Build Type: any Build-Space: 34416 Build-Time: 80 Distribution: noble-proposed Host Architecture: armhf Install-Time: 148 Job: delly_1.1.8-1.dsc Machine Architecture: arm64 Package: delly Package-Time: 230 Source-Version: 1.1.8-1 Space: 34416 Status: successful Version: 1.1.8-1 -------------------------------------------------------------------------------- Finished at 2023-10-26T18:25:00Z Build needed 00:03:50, 34416k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-26914573 Scanning for processes to kill in build PACKAGEBUILD-26914573