https://launchpad.net/ubuntu/+source/hmmer2/2.3.2+dfsg-12/+build/28055510 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-016 5.4.0-176-generic #196-Ubuntu SMP Fri Mar 22 16:46:20 UTC 2024 aarch64 Buildd toolchain package versions: launchpad-buildd_236~650~ubuntu20.04.1 python3-lpbuildd_236~650~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... 14 Apr 18:45:36 ntpdate[1843]: adjust time server 10.211.37.1 offset -0.006531 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=noble --arch=arm64 PACKAGEBUILD-28055510 --image-type chroot /home/buildd/filecache-default/0aaa0d191106d33e51979a9c6a062e50b7f5b3b2 Creating target for build PACKAGEBUILD-28055510 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=noble --arch=arm64 PACKAGEBUILD-28055510 Starting target for build PACKAGEBUILD-28055510 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=noble --arch=arm64 PACKAGEBUILD-28055510 '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-28055510 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=noble --arch=arm64 PACKAGEBUILD-28055510 Updating target for build PACKAGEBUILD-28055510 Get:1 http://ftpmaster.internal/ubuntu noble InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu noble-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu noble-updates InRelease [89.7 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 Packages [1382 kB] Get:6 http://ftpmaster.internal/ubuntu noble/main Translation-en [512 kB] Get:7 http://ftpmaster.internal/ubuntu noble/universe arm64 Packages [15.0 MB] Get:8 http://ftpmaster.internal/ubuntu noble/universe Translation-en [6032 kB] Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [366 kB] Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main Translation-en [131 kB] Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [390 kB] Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe Translation-en [147 kB] Fetched 24.5 MB in 5s (5204 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libnsl-dev libperl5.36 libtirpc-dev libunistring2 perl-modules-5.36 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libapt-pkg6.0* libdb5.3* libext2fs2* libgdbm-compat4* libgdbm6* libgnutls30* libhogweed6* libnettle8* libnpth0* libpng16-16* libreadline8* libssl3* libtirpc3* usrmerge* The following NEW packages will be installed: cpp-13-aarch64-linux-gnu cpp-aarch64-linux-gnu g++-13-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-13-aarch64-linux-gnu gcc-14-base gcc-aarch64-linux-gnu libapt-pkg6.0t64 libdb5.3t64 libext2fs2t64 libgdbm-compat4t64 libgdbm6t64 libgnutls30t64 libhogweed6t64 libnettle8t64 libnpth0t64 libperl5.38t64 libpng16-16t64 libreadline8t64 libssl3t64 libtirpc3t64 libunistring5 perl-modules-5.38 The following packages will be upgraded: advancecomp apt apt-utils base-files base-passwd bash bash-completion binutils binutils-aarch64-linux-gnu binutils-common bsdextrautils bsdutils bzip2 ca-certificates coreutils cpp cpp-13 dash debconf debconf-i18n debianutils diffutils dpkg dpkg-dev e2fsprogs fakeroot findutils g++ g++-13 gcc gcc-13 gcc-13-base gpg gpg-agent gpgconf gpgv grep gzip hostname init init-system-helpers krb5-locales libacl1 libapparmor1 libargon2-1 libasan8 libassuan0 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libfakeroot libfdisk1 libffi8 libgcc-13-dev libgcc-s1 libgcrypt20 libgmp10 libgomp1 libgpg-error-l10n libgpg-error0 libgpm2 libgprofng0 libgssapi-krb5-2 libhwasan0 libidn2-0 libip4tc2 libisl23 libitm1 libjansson4 libjson-c5 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblocale-gettext-perl liblockfile-bin liblockfile1 liblsan0 liblz4-1 liblzma5 libmd0 libmount1 libmpc3 libmpfr6 libncursesw6 libnsl-dev libnsl2 libnss-nisplus libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libproc2-0 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsframe1 libsmartcols1 libsqlite3-0 libss2 libstdc++-13-dev libstdc++6 libsystemd-shared libsystemd0 libtasn1-6 libtext-charwidth-perl libtext-iconv-perl libtinfo6 libtirpc-common libtirpc-dev libtsan2 libubsan1 libudev1 libuuid1 libxxhash0 libzstd1 linux-libc-dev lockfile-progs login logsave lto-disabled-list make mawk mount ncurses-base ncurses-bin openssl optipng passwd patch perl perl-base pinentry-curses procps psmisc readline-common rpcsvc-proto sed sensible-utils systemd systemd-dev systemd-sysv sysvinit-utils tar tzdata ubuntu-keyring util-linux uuid-runtime xz-utils zlib1g 175 upgraded, 23 newly installed, 14 to remove and 0 not upgraded. Need to get 116 MB of archives. After this operation, 77.4 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu noble/main arm64 libnsl-dev arm64 1.3.0-3build3 [72.5 kB] Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcrypt-dev arm64 1:4.4.36-4build1 [118 kB] Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 rpcsvc-proto arm64 1.4.2-0ubuntu7 [64.8 kB] Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 libc6-dev arm64 2.39-0ubuntu8 [1596 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 libc-dev-bin arm64 2.39-0ubuntu8 [19.7 kB] Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 libtirpc-common all 1.3.4+ds-1.1build1 [8094 B] Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 libtirpc-dev arm64 1.3.4+ds-1.1build1 [201 kB] Get:8 http://ftpmaster.internal/ubuntu noble/universe arm64 libnss-nisplus arm64 1.3-5build1 [22.5 kB] Get:9 http://ftpmaster.internal/ubuntu noble/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.1build1 [83.6 kB] Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 libgssapi-krb5-2 arm64 1.20.1-6ubuntu2 [141 kB] Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 libkrb5-3 arm64 1.20.1-6ubuntu2 [349 kB] Get:12 http://ftpmaster.internal/ubuntu noble/main arm64 libk5crypto3 arm64 1.20.1-6ubuntu2 [85.6 kB] Get:13 http://ftpmaster.internal/ubuntu noble/main arm64 libkrb5support0 arm64 1.20.1-6ubuntu2 [33.9 kB] Get:14 http://ftpmaster.internal/ubuntu noble/main arm64 libacl1 arm64 2.3.2-1build1 [17.0 kB] Get:15 http://ftpmaster.internal/ubuntu noble/main arm64 libapparmor1 arm64 4.0.0-beta3-0ubuntu3 [50.0 kB] Get:16 http://ftpmaster.internal/ubuntu noble/main arm64 libaudit-common all 1:3.1.2-2.1build1 [5736 B] Get:17 http://ftpmaster.internal/ubuntu noble/main arm64 libcap-ng0 arm64 0.8.4-2build2 [14.8 kB] Get:18 http://ftpmaster.internal/ubuntu noble/main arm64 libaudit1 arm64 1:3.1.2-2.1build1 [47.6 kB] Get:19 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libblkid1 arm64 2.39.3-9ubuntu6 [123 kB] Get:20 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcap2 arm64 1:2.66-5ubuntu2 [30.2 kB] Get:21 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcrypt1 arm64 1:4.4.36-4build1 [85.9 kB] Get:22 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgpg-error-l10n all 1.47-3build2 [8064 B] Get:23 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgpg-error0 arm64 1.47-3build2 [70.0 kB] Get:24 http://ftpmaster.internal/ubuntu noble/main arm64 libgcrypt20 arm64 1.10.3-2build1 [472 kB] Get:25 http://ftpmaster.internal/ubuntu noble/main arm64 liblzma5 arm64 5.6.1+really5.4.5-1 [125 kB] Get:26 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libzstd1 arm64 1.5.5+dfsg2-2build1 [271 kB] Get:27 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libkmod2 arm64 31+20240202-2ubuntu6 [51.7 kB] Get:28 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 liblz4-1 arm64 1.9.4-1build1 [64.1 kB] Get:29 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpcre2-8-0 arm64 10.42-4ubuntu2 [212 kB] Get:30 http://ftpmaster.internal/ubuntu noble/main arm64 libselinux1 arm64 3.5-2ubuntu2 [79.9 kB] Get:31 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libmount1 arm64 2.39.3-9ubuntu6 [133 kB] Get:32 http://ftpmaster.internal/ubuntu noble/main arm64 perl-modules-5.38 all 5.38.2-3.2build2 [3110 kB] Get:33 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-7 [732 kB] Get:34 http://ftpmaster.internal/ubuntu noble/main arm64 libgdbm6t64 arm64 1.23-5.1build1 [34.4 kB] Get:35 http://ftpmaster.internal/ubuntu noble/main arm64 libgdbm-compat4t64 arm64 1.23-5.1build1 [6578 B] Get:36 http://ftpmaster.internal/ubuntu noble/main arm64 libperl5.38t64 arm64 5.38.2-3.2build2 [4774 kB] Get:37 http://ftpmaster.internal/ubuntu noble/main arm64 perl arm64 5.38.2-3.2build2 [231 kB] Get:38 http://ftpmaster.internal/ubuntu noble/main arm64 perl-base arm64 5.38.2-3.2build2 [1777 kB] Get:39 http://ftpmaster.internal/ubuntu noble/main arm64 liblocale-gettext-perl arm64 1.07-6ubuntu5 [15.3 kB] Get:40 http://ftpmaster.internal/ubuntu noble/main arm64 libtext-iconv-perl arm64 1.7-8build3 [13.1 kB] Get:41 http://ftpmaster.internal/ubuntu noble/main arm64 libtext-charwidth-perl arm64 0.04-11build3 [9406 B] Get:42 http://ftpmaster.internal/ubuntu noble/main arm64 libc6 arm64 2.39-0ubuntu8 [2774 kB] Get:43 http://ftpmaster.internal/ubuntu noble/main arm64 libc-bin arm64 2.39-0ubuntu8 [591 kB] Get:44 http://ftpmaster.internal/ubuntu noble/main arm64 openssl arm64 3.0.13-0ubuntu3 [984 kB] Get:45 http://ftpmaster.internal/ubuntu noble/main arm64 libsystemd-shared arm64 255.4-1ubuntu7 [2016 kB] Get:46 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcryptsetup12 arm64 2:2.7.0-1ubuntu4 [262 kB] Get:47 http://ftpmaster.internal/ubuntu noble/main arm64 libssl3t64 arm64 3.0.13-0ubuntu3 [1793 kB] Get:48 http://ftpmaster.internal/ubuntu noble/main arm64 systemd-dev all 255.4-1ubuntu7 [104 kB] Get:49 http://ftpmaster.internal/ubuntu noble/main arm64 systemd-sysv arm64 255.4-1ubuntu7 [11.9 kB] Get:50 http://ftpmaster.internal/ubuntu noble/main arm64 systemd arm64 255.4-1ubuntu7 [3403 kB] Get:51 http://ftpmaster.internal/ubuntu noble/main arm64 libsystemd0 arm64 255.4-1ubuntu7 [424 kB] Get:52 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpam-modules-bin arm64 1.5.3-5ubuntu5 [50.4 kB] Get:53 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpam-modules arm64 1.5.3-5ubuntu5 [278 kB] Get:54 http://ftpmaster.internal/ubuntu noble/main arm64 libnettle8t64 arm64 3.9.1-2.2build1 [192 kB] Get:55 http://ftpmaster.internal/ubuntu noble/main arm64 libhogweed6t64 arm64 3.9.1-2.2build1 [199 kB] Get:56 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libp11-kit0 arm64 0.25.3-4ubuntu2 [276 kB] Get:57 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libunistring5 arm64 1.1-2build1 [530 kB] Get:58 http://ftpmaster.internal/ubuntu noble/main arm64 libgnutls30t64 arm64 3.8.3-1.1ubuntu3 [942 kB] Get:59 http://ftpmaster.internal/ubuntu noble/main arm64 libapt-pkg6.0t64 arm64 2.7.14build2 [935 kB] Get:60 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 bzip2 arm64 1.0.8-5.1 [34.0 kB] Get:61 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libbz2-1.0 arm64 1.0.8-5.1 [35.7 kB] Get:62 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 gcc-14-base arm64 14-20240412-0ubuntu1 [47.6 kB] Get:63 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgcc-s1 arm64 14-20240412-0ubuntu1 [61.7 kB] Get:64 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libstdc++6 arm64 14-20240412-0ubuntu1 [748 kB] Get:65 http://ftpmaster.internal/ubuntu noble/main arm64 libudev1 arm64 255.4-1ubuntu7 [173 kB] Get:66 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libxxhash0 arm64 0.8.2-2build1 [21.7 kB] Get:67 http://ftpmaster.internal/ubuntu noble/main arm64 zlib1g arm64 1:1.3.dfsg-3.1ubuntu2 [61.7 kB] Get:68 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgmp10 arm64 2:6.3.0+dfsg-2ubuntu6 [243 kB] Get:69 http://ftpmaster.internal/ubuntu noble/main arm64 libffi8 arm64 3.4.6-1build1 [22.7 kB] Get:70 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libidn2-0 arm64 2.3.7-2build1 [67.2 kB] Get:71 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libtasn1-6 arm64 4.19.0-3build1 [43.1 kB] Get:72 http://ftpmaster.internal/ubuntu noble/main arm64 libdebconfclient0 arm64 0.271ubuntu3 [11.3 kB] Get:73 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 base-passwd arm64 3.6.3build1 [51.1 kB] Get:74 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libassuan0 arm64 2.5.6-1build1 [36.8 kB] Get:75 http://ftpmaster.internal/ubuntu noble/main arm64 libsqlite3-0 arm64 3.45.1-1ubuntu2 [703 kB] Get:76 http://ftpmaster.internal/ubuntu noble/main arm64 gpg arm64 2.4.4-2ubuntu17 [548 kB] Get:77 http://ftpmaster.internal/ubuntu noble/main arm64 libreadline8t64 arm64 8.2-4build1 [153 kB] Get:78 http://ftpmaster.internal/ubuntu noble/main arm64 readline-common all 8.2-4build1 [56.5 kB] Get:79 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libncursesw6 arm64 6.4+20240113-1ubuntu2 [145 kB] Get:80 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libtinfo6 arm64 6.4+20240113-1ubuntu2 [104 kB] Get:81 http://ftpmaster.internal/ubuntu noble/main arm64 gpg-agent arm64 2.4.4-2ubuntu17 [221 kB] Get:82 http://ftpmaster.internal/ubuntu noble/main arm64 gpgconf arm64 2.4.4-2ubuntu17 [103 kB] Get:83 http://ftpmaster.internal/ubuntu noble/main arm64 pinentry-curses arm64 1.2.1-3ubuntu5 [34.3 kB] Get:84 http://ftpmaster.internal/ubuntu noble/main arm64 init-system-helpers all 1.66ubuntu1 [39.4 kB] Get:85 http://ftpmaster.internal/ubuntu noble/main arm64 libnpth0t64 arm64 1.6-3.1build1 [8144 B] Get:86 http://ftpmaster.internal/ubuntu noble/main arm64 gpgv arm64 2.4.4-2ubuntu17 [150 kB] Get:87 http://ftpmaster.internal/ubuntu noble/main arm64 ubuntu-keyring all 2023.11.28.1 [11.1 kB] Get:88 http://ftpmaster.internal/ubuntu noble/main arm64 libseccomp2 arm64 2.5.5-1ubuntu3 [51.1 kB] Get:89 http://ftpmaster.internal/ubuntu noble/main arm64 apt-utils arm64 2.7.14build2 [205 kB] Get:90 http://ftpmaster.internal/ubuntu noble/main arm64 apt arm64 2.7.14build2 [1336 kB] Get:91 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 debconf-i18n all 1.5.86ubuntu1 [205 kB] Get:92 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 debconf all 1.5.86ubuntu1 [124 kB] Get:93 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpam0g arm64 1.5.3-5ubuntu5 [67.8 kB] Get:94 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libargon2-1 arm64 0~20190702+dfsg-4build1 [20.5 kB] Get:95 http://ftpmaster.internal/ubuntu noble/main arm64 libdevmapper1.02.1 arm64 2:1.02.185-3ubuntu3 [128 kB] Get:96 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libjson-c5 arm64 0.17-1build1 [36.4 kB] Get:97 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libuuid1 arm64 2.39.3-9ubuntu6 [35.4 kB] Get:98 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libfdisk1 arm64 2.39.3-9ubuntu6 [142 kB] Get:99 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 mount arm64 2.39.3-9ubuntu6 [116 kB] Get:100 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcom-err2 arm64 1.47.0-2.4~exp1ubuntu4 [22.4 kB] Get:101 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libkeyutils1 arm64 1.6.3-3build1 [9654 B] Get:102 http://ftpmaster.internal/ubuntu noble/main arm64 libnsl2 arm64 1.3.0-3build3 [41.6 kB] Get:103 http://ftpmaster.internal/ubuntu noble/main arm64 linux-libc-dev arm64 6.8.0-22.22 [1571 kB] Get:104 http://ftpmaster.internal/ubuntu noble/main arm64 base-files arm64 13ubuntu9 [73.9 kB] Get:105 http://ftpmaster.internal/ubuntu noble/main arm64 debianutils arm64 5.17build1 [90.2 kB] Get:106 http://ftpmaster.internal/ubuntu noble/main arm64 bash arm64 5.2.21-2ubuntu4 [780 kB] Get:107 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 bsdutils arm64 1:2.39.3-9ubuntu6 [97.7 kB] Get:108 http://ftpmaster.internal/ubuntu noble/main arm64 coreutils arm64 9.4-3ubuntu6 [1363 kB] Get:109 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 tar arm64 1.35+dfsg-3build1 [248 kB] Get:110 http://ftpmaster.internal/ubuntu noble/main arm64 dpkg arm64 1.22.6ubuntu6 [1265 kB] Get:111 http://ftpmaster.internal/ubuntu noble/main arm64 dash arm64 0.5.12-6ubuntu5 [90.4 kB] Get:112 http://ftpmaster.internal/ubuntu noble/main arm64 diffutils arm64 1:3.10-1build1 [175 kB] Get:113 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 findutils arm64 4.9.0-5build1 [300 kB] Get:114 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 grep arm64 3.11-4build1 [159 kB] Get:115 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 gzip arm64 1.12-1ubuntu3 [97.2 kB] Get:116 http://ftpmaster.internal/ubuntu noble/main arm64 hostname arm64 3.23+nmu2ubuntu2 [11.0 kB] Get:117 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 login arm64 1:4.13+dfsg1-4ubuntu3 [200 kB] Get:118 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 ncurses-bin arm64 6.4+20240113-1ubuntu2 [186 kB] Get:119 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 sed arm64 4.9-2build1 [191 kB] Get:120 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 util-linux arm64 2.39.3-9ubuntu6 [1114 kB] Get:121 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 ncurses-base all 6.4+20240113-1ubuntu2 [25.5 kB] Get:122 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 sysvinit-utils arm64 3.08-6ubuntu3 [33.8 kB] Get:123 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 logsave arm64 1.47.0-2.4~exp1ubuntu4 [22.2 kB] Get:124 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libext2fs2t64 arm64 1.47.0-2.4~exp1ubuntu4 [225 kB] Get:125 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 e2fsprogs arm64 1.47.0-2.4~exp1ubuntu4 [594 kB] Get:126 http://ftpmaster.internal/ubuntu noble/main arm64 optipng arm64 0.7.8+ds-1build2 [109 kB] Get:127 http://ftpmaster.internal/ubuntu noble/main arm64 libpng16-16t64 arm64 1.6.43-5build1 [185 kB] Get:128 http://ftpmaster.internal/ubuntu noble/main arm64 init arm64 1.66ubuntu1 [6186 B] Get:129 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libsmartcols1 arm64 2.39.3-9ubuntu6 [64.4 kB] Get:130 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 uuid-runtime arm64 2.39.3-9ubuntu6 [32.5 kB] Get:131 http://ftpmaster.internal/ubuntu noble/main arm64 libattr1 arm64 1:2.5.2-1build1 [11.0 kB] Get:132 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libmd0 arm64 1.1.0-2build1 [24.6 kB] Get:133 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpam-runtime all 1.5.3-5ubuntu5 [40.8 kB] Get:134 http://ftpmaster.internal/ubuntu noble/main arm64 libsemanage-common all 3.5-1build5 [10.1 kB] Get:135 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libsepol2 arm64 3.5-2build1 [291 kB] Get:136 http://ftpmaster.internal/ubuntu noble/main arm64 libsemanage2 arm64 3.5-1build5 [90.8 kB] Get:137 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 passwd arm64 1:4.13+dfsg1-4ubuntu3 [839 kB] Get:138 http://ftpmaster.internal/ubuntu noble/main arm64 libproc2-0 arm64 2:4.0.4-4ubuntu3 [58.5 kB] Get:139 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libss2 arm64 1.47.0-2.4~exp1ubuntu4 [16.5 kB] Get:140 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 mawk arm64 1.3.4.20240123-1build1 [124 kB] Get:141 http://ftpmaster.internal/ubuntu noble/main arm64 procps arm64 2:4.0.4-4ubuntu3 [708 kB] Get:142 http://ftpmaster.internal/ubuntu noble/main arm64 sensible-utils all 0.0.22 [22.5 kB] Get:143 http://ftpmaster.internal/ubuntu noble/main arm64 ca-certificates all 20240203 [159 kB] Get:144 http://ftpmaster.internal/ubuntu noble/main arm64 krb5-locales all 1.20.1-6ubuntu2 [13.8 kB] Get:145 http://ftpmaster.internal/ubuntu noble/main arm64 tzdata all 2024a-2ubuntu1 [273 kB] Get:146 http://ftpmaster.internal/ubuntu noble/main arm64 bash-completion all 1:2.11-8 [180 kB] Get:147 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 bsdextrautils arm64 2.39.3-9ubuntu6 [71.5 kB] Get:148 http://ftpmaster.internal/ubuntu noble/main arm64 libgpm2 arm64 1.20.7-11 [14.7 kB] Get:149 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libip4tc2 arm64 1.8.10-3ubuntu2 [23.4 kB] Get:150 http://ftpmaster.internal/ubuntu noble/main arm64 libjansson4 arm64 2.14-2build2 [34.4 kB] Get:151 http://ftpmaster.internal/ubuntu noble/main arm64 psmisc arm64 23.7-1build1 [178 kB] Get:152 http://ftpmaster.internal/ubuntu noble/main arm64 xz-utils arm64 5.6.1+really5.4.5-1 [268 kB] Get:153 http://ftpmaster.internal/ubuntu noble/main arm64 advancecomp arm64 2.5-1build1 [177 kB] Get:154 http://ftpmaster.internal/ubuntu noble/main arm64 libgprofng0 arm64 2.42-4ubuntu2 [777 kB] Get:155 http://ftpmaster.internal/ubuntu noble/main arm64 libctf0 arm64 2.42-4ubuntu2 [95.7 kB] Get:156 http://ftpmaster.internal/ubuntu noble/main arm64 libctf-nobfd0 arm64 2.42-4ubuntu2 [99.8 kB] Get:157 http://ftpmaster.internal/ubuntu noble/main arm64 binutils-aarch64-linux-gnu arm64 2.42-4ubuntu2 [3291 kB] Get:158 http://ftpmaster.internal/ubuntu noble/main arm64 libbinutils arm64 2.42-4ubuntu2 [767 kB] Get:159 http://ftpmaster.internal/ubuntu noble/main arm64 binutils arm64 2.42-4ubuntu2 [18.1 kB] Get:160 http://ftpmaster.internal/ubuntu noble/main arm64 binutils-common arm64 2.42-4ubuntu2 [239 kB] Get:161 http://ftpmaster.internal/ubuntu noble/main arm64 libsframe1 arm64 2.42-4ubuntu2 [14.4 kB] Get:162 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libubsan1 arm64 14-20240412-0ubuntu1 [1155 kB] Get:163 http://ftpmaster.internal/ubuntu noble/main arm64 g++-13 arm64 13.2.0-23ubuntu3 [14.5 kB] Get:164 http://ftpmaster.internal/ubuntu noble/main arm64 libstdc++-13-dev arm64 13.2.0-23ubuntu3 [2378 kB] Get:165 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgomp1 arm64 14-20240412-0ubuntu1 [144 kB] Get:166 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libitm1 arm64 14-20240412-0ubuntu1 [27.9 kB] Get:167 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libatomic1 arm64 14-20240412-0ubuntu1 [11.4 kB] Get:168 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libasan8 arm64 14-20240412-0ubuntu1 [2921 kB] Get:169 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 liblsan0 arm64 14-20240412-0ubuntu1 [1286 kB] Get:170 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libhwasan0 arm64 14-20240412-0ubuntu1 [1604 kB] Get:171 http://ftpmaster.internal/ubuntu noble/main arm64 gcc-13 arm64 13.2.0-23ubuntu3 [469 kB] Get:172 http://ftpmaster.internal/ubuntu noble/main arm64 libgcc-13-dev arm64 13.2.0-23ubuntu3 [2468 kB] Get:173 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libtsan2 arm64 14-20240412-0ubuntu1 [2692 kB] Get:174 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcc1-0 arm64 14-20240412-0ubuntu1 [44.7 kB] Get:175 http://ftpmaster.internal/ubuntu noble/main arm64 cpp-13 arm64 13.2.0-23ubuntu3 [1030 B] Get:176 http://ftpmaster.internal/ubuntu noble/main arm64 gcc-13-base arm64 13.2.0-23ubuntu3 [48.7 kB] Get:177 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libisl23 arm64 0.26-3build1 [669 kB] Get:178 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libmpfr6 arm64 4.2.1-1build1 [329 kB] Get:179 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libmpc3 arm64 1.3.1-1build1 [56.4 kB] Get:180 http://ftpmaster.internal/ubuntu noble/main arm64 gcc-13-aarch64-linux-gnu arm64 13.2.0-23ubuntu3 [20.1 MB] Get:181 http://ftpmaster.internal/ubuntu noble/main arm64 g++-13-aarch64-linux-gnu arm64 13.2.0-23ubuntu3 [11.7 MB] Get:182 http://ftpmaster.internal/ubuntu noble/main arm64 cpp-13-aarch64-linux-gnu arm64 13.2.0-23ubuntu3 [10.3 MB] Get:183 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 g++ arm64 4:13.2.0-7ubuntu2 [1082 B] Get:184 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 gcc arm64 4:13.2.0-7ubuntu2 [5012 B] Get:185 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 cpp arm64 4:13.2.0-7ubuntu2 [22.4 kB] Get:186 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 cpp-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu2 [5408 B] Get:187 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 gcc-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu2 [1200 B] Get:188 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 g++-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu2 [962 B] Get:189 http://ftpmaster.internal/ubuntu noble/main arm64 dpkg-dev all 1.22.6ubuntu6 [1074 kB] Get:190 http://ftpmaster.internal/ubuntu noble/main arm64 libdpkg-perl all 1.22.6ubuntu6 [268 kB] Get:191 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 patch arm64 2.7.6-7build3 [101 kB] Get:192 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 make arm64 4.3-4.1build2 [178 kB] Get:193 http://ftpmaster.internal/ubuntu noble/main arm64 lto-disabled-list all 47 [12.4 kB] Get:194 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libfakeroot arm64 1.33-1build1 [32.6 kB] Get:195 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 fakeroot arm64 1.33-1build1 [66.9 kB] Get:196 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 liblockfile-bin arm64 1.17-1build3 [11.0 kB] Get:197 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 liblockfile1 arm64 1.17-1build3 [6874 B] Get:198 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 lockfile-progs arm64 0.1.19build2 [8440 B] Preconfiguring packages ... 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Unpacking systemd (255.4-1ubuntu7) over (253.5-1ubuntu6) ... dpkg: warning: unable to delete old directory '/lib/systemd/system-preset': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system-generators': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/user@0.service.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/user@.service.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/user-.slice.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/timers.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/systemd-localed.service.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/sysinit.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/sockets.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/rescue.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/rc-local.service.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/multi-user.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/initrd.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/initrd-root-fs.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/initrd-root-device.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/graphical.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/getty.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/network': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/journald.conf.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/modprobe.d': Directory not empty Preparing to unpack .../libsystemd0_255.4-1ubuntu7_arm64.deb ... 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(both '/usr/bin/bunzip2' and '/usr/bin/bzcat') dpkg: warning: old file '/bin/bzip2' is the same as several new files! (both '/usr/bin/bzcat' and '/usr/bin/bzip2') dpkg: warning: old file '/bin/bzcat' is the same as several new files! (both '/usr/bin/bunzip2' and '/usr/bin/bzcat') dpkg: warning: old file '/bin/bzcat' is the same as several new files! (both '/usr/bin/bzcat' and '/usr/bin/bzip2') dpkg: warning: old file '/bin/bunzip2' is the same as several new files! (both '/usr/bin/bunzip2' and '/usr/bin/bzcat') dpkg: warning: old file '/bin/bunzip2' is the same as several new files! (both '/usr/bin/bzcat' and '/usr/bin/bzip2') Preparing to unpack .../libbz2-1.0_1.0.8-5.1_arm64.deb ... Unpacking libbz2-1.0:arm64 (1.0.8-5.1) over (1.0.8-5build1) ... Setting up libbz2-1.0:arm64 (1.0.8-5.1) ... Selecting previously unselected package gcc-14-base:arm64. (Reading database ... 15788 files and directories currently installed.) 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Setting up procps (2:4.0.4-4ubuntu3) ... Installing new version of config file /etc/sysctl.conf ... Setting up mawk (1.3.4.20240123-1build1) ... Setting up libkrb5-3:arm64 (1.20.1-6ubuntu2) ... Setting up liblockfile1:arm64 (1.17-1build3) ... Setting up libperl5.38t64:arm64 (5.38.2-3.2build2) ... Setting up libtsan2:arm64 (14-20240412-0ubuntu1) ... Setting up libbinutils:arm64 (2.42-4ubuntu2) ... Setting up libisl23:arm64 (0.26-3build1) ... Setting up libc-dev-bin (2.39-0ubuntu8) ... Setting up openssl (3.0.13-0ubuntu3) ... Setting up libgpg-error-l10n (1.47-3build2) ... Setting up readline-common (8.2-4build1) ... Setting up libcc1-0:arm64 (14-20240412-0ubuntu1) ... Setting up liblocale-gettext-perl (1.07-6ubuntu5) ... Setting up liblsan0:arm64 (14-20240412-0ubuntu1) ... Setting up libitm1:arm64 (14-20240412-0ubuntu1) ... Setting up libctf0:arm64 (2.42-4ubuntu2) ... Setting up pinentry-curses (1.2.1-3ubuntu5) ... Setting up apt-utils (2.7.14build2) ... Setting up cpp-13-aarch64-linux-gnu (13.2.0-23ubuntu3) ... Setting up debconf-i18n (1.5.86ubuntu1) ... Setting up e2fsprogs (1.47.0-2.4~exp1ubuntu4) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 14 added, 5 removed; done. Setting up perl (5.38.2-3.2build2) ... Setting up cpp-aarch64-linux-gnu (4:13.2.0-7ubuntu2) ... Setting up libgprofng0:arm64 (2.42-4ubuntu2) ... Setting up optipng (0.7.8+ds-1build2) ... Setting up lockfile-progs (0.1.19build2) ... Setting up libgssapi-krb5-2:arm64 (1.20.1-6ubuntu2) ... Setting up libdpkg-perl (1.22.6ubuntu6) ... Setting up libreadline8t64:arm64 (8.2-4build1) ... Setting up libgcc-13-dev:arm64 (13.2.0-23ubuntu3) ... Setting up gpgconf (2.4.4-2ubuntu17) ... Setting up libc6-dev:arm64 (2.39-0ubuntu8) ... Setting up gpg (2.4.4-2ubuntu17) ... Setting up libstdc++-13-dev:arm64 (13.2.0-23ubuntu3) ... Setting up gpg-agent (2.4.4-2ubuntu17) ... Setting up cpp-13 (13.2.0-23ubuntu3) ... Setting up libtirpc3t64:arm64 (1.3.4+ds-1.1build1) ... Setting up binutils-aarch64-linux-gnu (2.42-4ubuntu2) ... Setting up binutils (2.42-4ubuntu2) ... Setting up gcc-13-aarch64-linux-gnu (13.2.0-23ubuntu3) ... Setting up dpkg-dev (1.22.6ubuntu6) ... Setting up libtirpc-dev:arm64 (1.3.4+ds-1.1build1) ... Setting up gcc-13 (13.2.0-23ubuntu3) ... Setting up cpp (4:13.2.0-7ubuntu2) ... Setting up libnsl2:arm64 (1.3.0-3build3) ... Setting up g++-13-aarch64-linux-gnu (13.2.0-23ubuntu3) ... Setting up gcc-aarch64-linux-gnu (4:13.2.0-7ubuntu2) ... Setting up g++-13 (13.2.0-23ubuntu3) ... Setting up libnss-nisplus:arm64 (1.3-5build1) ... Setting up gcc (4:13.2.0-7ubuntu2) ... Setting up libnsl-dev:arm64 (1.3.0-3build3) ... Setting up g++-aarch64-linux-gnu (4:13.2.0-7ubuntu2) ... Setting up g++ (4:13.2.0-7ubuntu2) ... Processing triggers for libc-bin (2.39-0ubuntu8) ... Processing triggers for debianutils (5.17build1) ... (Reading database ... 15845 files and directories currently installed.) Purging configuration files for libssl3:arm64 (3.0.10-1ubuntu2) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-28055510 arm64 noble-proposed -c chroot:build-PACKAGEBUILD-28055510 --arch=arm64 --dist=noble-proposed --nolog hmmer2_2.3.2+dfsg-12.dsc Initiating build PACKAGEBUILD-28055510 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-176-generic #196-Ubuntu SMP Fri Mar 22 16:46:20 UTC 2024 aarch64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos02-arm64-016.buildd +==============================================================================+ | hmmer2 2.3.2+dfsg-12 (arm64) Sun, 14 Apr 2024 18:46:42 +0000 | +==============================================================================+ Package: hmmer2 Version: 2.3.2+dfsg-12 Source Version: 2.3.2+dfsg-12 Distribution: noble-proposed Machine Architecture: arm64 Host Architecture: arm64 Build Architecture: arm64 Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-28055510/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/hmmer2-HbH4UA/resolver-oNh5k7' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- hmmer2_2.3.2+dfsg-12.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/hmmer2-HbH4UA/hmmer2-2.3.2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/hmmer2-HbH4UA' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libperl4-corelibs-perl, libsquid-dev, pkgconf, dh-exec, rename, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), libperl4-corelibs-perl, libsquid-dev, pkgconf, dh-exec, rename, 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 [408 B] Get:5 copy:/<>/apt_archive ./ Packages [489 B] Fetched 1854 B in 0s (87.4 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 libgssapi-krb5-2 libip4tc2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblocale-gettext-perl libnsl-dev libnsl2 libnss-nis libnss-nisplus libperl5.36 libtext-charwidth-perl libtext-iconv-perl libtext-wrapi18n-perl libtirpc-common libtirpc-dev libtirpc3t64 libunistring2 openssl perl-modules-5.36 psmisc uuid-runtime Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev debhelper debugedit dh-autoreconf dh-exec dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdw1t64 libelf1t64 libfile-stripnondeterminism-perl libicu74 libmagic-mgc libmagic1t64 libperl4-corelibs-perl libpipeline1 libpkgconf3 libsquid-dev libsquid1t64 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db pkgconf pkgconf-bin po-debconf rename Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff biosquid libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev debhelper debugedit dh-autoreconf dh-exec dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdw1t64 libelf1t64 libfile-stripnondeterminism-perl libicu74 libmagic-mgc libmagic1t64 libperl4-corelibs-perl libpipeline1 libpkgconf3 libsquid-dev libsquid1t64 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db pkgconf pkgconf-bin po-debconf rename sbuild-build-depends-main-dummy 0 upgraded, 39 newly installed, 0 to remove and 0 not upgraded. Need to get 19.2 MB of archives. After this operation, 72.0 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [708 B] Get:2 http://ftpmaster.internal/ubuntu noble/main arm64 libelf1t64 arm64 0.190-1.1build4 [58.0 kB] Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libicu74 arm64 74.2-1ubuntu3 [10.8 MB] Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 libxml2 arm64 2.9.14+dfsg-1.3ubuntu3 [735 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 libmagic-mgc arm64 1:5.45-3build1 [307 kB] Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 libmagic1t64 arm64 1:5.45-3build1 [85.7 kB] Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 file arm64 1:5.45-3build1 [22.0 kB] Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 gettext-base arm64 0.21-14ubuntu2 [37.6 kB] Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libuchardet0 arm64 0.0.8-1build1 [75.4 kB] Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 groff-base arm64 1.23.0-3build2 [993 kB] Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 libpipeline1 arm64 1.5.7-2 [23.7 kB] Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 man-db arm64 2.12.0-4build2 [1232 kB] Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 m4 arm64 1.4.19-4build1 [240 kB] Get:14 http://ftpmaster.internal/ubuntu noble/main arm64 autoconf all 2.71-3 [339 kB] Get:15 http://ftpmaster.internal/ubuntu noble/main arm64 autotools-dev all 20220109.1 [44.9 kB] Get:16 http://ftpmaster.internal/ubuntu noble/main arm64 automake all 1:1.16.5-1.3ubuntu1 [558 kB] Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 autopoint all 0.21-14ubuntu2 [422 kB] Get:18 http://ftpmaster.internal/ubuntu noble/main arm64 libdebhelper-perl all 13.14.1ubuntu5 [89.8 kB] Get:19 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libtool all 2.4.7-7build1 [166 kB] Get:20 http://ftpmaster.internal/ubuntu noble/main arm64 dh-autoreconf all 20 [16.1 kB] Get:21 http://ftpmaster.internal/ubuntu noble/main arm64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:22 http://ftpmaster.internal/ubuntu noble/main arm64 libsub-override-perl all 0.10-1 [10.0 kB] Get:23 http://ftpmaster.internal/ubuntu noble/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:24 http://ftpmaster.internal/ubuntu noble/main arm64 dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:25 http://ftpmaster.internal/ubuntu noble/main arm64 libdw1t64 arm64 0.190-1.1build4 [258 kB] Get:26 http://ftpmaster.internal/ubuntu noble/main arm64 debugedit arm64 1:5.0-5build2 [45.3 kB] Get:27 http://ftpmaster.internal/ubuntu noble/main arm64 dwz arm64 0.15-1build6 [113 kB] Get:28 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 gettext arm64 0.21-14ubuntu2 [845 kB] Get:29 http://ftpmaster.internal/ubuntu noble/main arm64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:30 http://ftpmaster.internal/ubuntu noble/main arm64 po-debconf all 1.0.21+nmu1 [233 kB] Get:31 http://ftpmaster.internal/ubuntu noble/main arm64 debhelper all 13.14.1ubuntu5 [869 kB] Get:32 http://ftpmaster.internal/ubuntu noble/main arm64 libperl4-corelibs-perl all 0.005-1 [38.1 kB] Get:33 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpkgconf3 arm64 1.8.1-2build1 [31.2 kB] Get:34 http://ftpmaster.internal/ubuntu noble/universe arm64 libsquid1t64 arm64 1.9g+cvs20050121-15.1build1 [79.8 kB] Get:35 http://ftpmaster.internal/ubuntu noble/universe arm64 libsquid-dev arm64 1.9g+cvs20050121-15.1build1 [157 kB] Get:36 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 pkgconf-bin arm64 1.8.1-2build1 [20.5 kB] Get:37 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 pkgconf arm64 1.8.1-2build1 [16.8 kB] Get:38 http://ftpmaster.internal/ubuntu noble/universe arm64 rename all 2.02-1 [20.3 kB] Get:39 http://ftpmaster.internal/ubuntu noble/main arm64 dh-exec arm64 0.29build1 [25.6 kB] Preconfiguring packages ... Fetched 19.2 MB in 1s (13.4 MB/s) Selecting previously unselected package libelf1t64:arm64. (Reading database ... 15845 files and directories currently installed.) Preparing to unpack .../00-libelf1t64_0.190-1.1build4_arm64.deb ... Unpacking libelf1t64:arm64 (0.190-1.1build4) ... Selecting previously unselected package libicu74:arm64. Preparing to unpack .../01-libicu74_74.2-1ubuntu3_arm64.deb ... Unpacking libicu74:arm64 (74.2-1ubuntu3) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../02-libxml2_2.9.14+dfsg-1.3ubuntu3_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.3ubuntu3) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.45-3build1_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3build1) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../04-libmagic1t64_1%3a5.45-3build1_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3build1) ... 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Setting up libmagic1t64:arm64 (1:5.45-3build1) ... Setting up gettext-base (0.21-14ubuntu2) ... Setting up m4 (1.4.19-4build1) ... Setting up rename (2.02-1) ... update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode Setting up file (1:5.45-3build1) ... Setting up libelf1t64:arm64 (0.190-1.1build4) ... Setting up libdw1t64:arm64 (0.190-1.1build4) ... Setting up autotools-dev (20220109.1) ... Setting up libpkgconf3:arm64 (1.8.1-2build1) ... Setting up autopoint (0.21-14ubuntu2) ... Setting up pkgconf-bin (1.8.1-2build1) ... Setting up autoconf (2.71-3) ... Setting up libicu74:arm64 (74.2-1ubuntu3) ... Setting up dwz (0.15-1build6) ... Setting up libuchardet0:arm64 (0.0.8-1build1) ... Setting up debugedit (1:5.0-5build2) ... Setting up libsub-override-perl (0.10-1) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.3ubuntu3) ... Setting up libsquid1t64:arm64 (1.9g+cvs20050121-15.1build1) ... Setting up automake (1:1.16.5-1.3ubuntu1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-14ubuntu2) ... Setting up libtool (2.4.7-7build1) ... Setting up libsquid-dev (1.9g+cvs20050121-15.1build1) ... Setting up pkgconf:arm64 (1.8.1-2build1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-3build2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.0-4build2) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /usr/lib/systemd/system/man-db.timer. Setting up debhelper (13.14.1ubuntu5) ... Setting up dh-exec (0.29build1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.39-0ubuntu8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-176-generic #196-Ubuntu SMP Fri Mar 22 16:46:20 UTC 2024 arm64 (aarch64) Toolchain package versions: binutils_2.42-4ubuntu2 dpkg-dev_1.22.6ubuntu6 g++-13_13.2.0-23ubuntu3 gcc-13_13.2.0-23ubuntu3 libc6-dev_2.39-0ubuntu8 libstdc++-13-dev_13.2.0-23ubuntu3 libstdc++6_14-20240412-0ubuntu1 linux-libc-dev_6.8.0-22.22 Package versions: adduser_3.137ubuntu1 advancecomp_2.5-1build1 apt_2.7.14build2 apt-utils_2.7.14build2 autoconf_2.71-3 automake_1:1.16.5-1.3ubuntu1 autopoint_0.21-14ubuntu2 autotools-dev_20220109.1 base-files_13ubuntu9 base-passwd_3.6.3build1 bash_5.2.21-2ubuntu4 bash-completion_1:2.11-8 binutils_2.42-4ubuntu2 binutils-aarch64-linux-gnu_2.42-4ubuntu2 binutils-common_2.42-4ubuntu2 bsdextrautils_2.39.3-9ubuntu6 bsdutils_1:2.39.3-9ubuntu6 build-essential_12.10ubuntu1 bzip2_1.0.8-5.1 ca-certificates_20240203 coreutils_9.4-3ubuntu6 cpp_4:13.2.0-7ubuntu2 cpp-13_13.2.0-23ubuntu3 cpp-13-aarch64-linux-gnu_13.2.0-23ubuntu3 cpp-aarch64-linux-gnu_4:13.2.0-7ubuntu2 dash_0.5.12-6ubuntu5 debconf_1.5.86ubuntu1 debconf-i18n_1.5.86ubuntu1 debhelper_13.14.1ubuntu5 debianutils_5.17build1 debugedit_1:5.0-5build2 dh-autoreconf_20 dh-exec_0.29build1 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.10-1build1 dpkg_1.22.6ubuntu6 dpkg-dev_1.22.6ubuntu6 dwz_0.15-1build6 e2fsprogs_1.47.0-2.4~exp1ubuntu4 fakeroot_1.33-1build1 file_1:5.45-3build1 findutils_4.9.0-5build1 g++_4:13.2.0-7ubuntu2 g++-13_13.2.0-23ubuntu3 g++-13-aarch64-linux-gnu_13.2.0-23ubuntu3 g++-aarch64-linux-gnu_4:13.2.0-7ubuntu2 gcc_4:13.2.0-7ubuntu2 gcc-13_13.2.0-23ubuntu3 gcc-13-aarch64-linux-gnu_13.2.0-23ubuntu3 gcc-13-base_13.2.0-23ubuntu3 gcc-14-base_14-20240412-0ubuntu1 gcc-aarch64-linux-gnu_4:13.2.0-7ubuntu2 gettext_0.21-14ubuntu2 gettext-base_0.21-14ubuntu2 gpg_2.4.4-2ubuntu17 gpg-agent_2.4.4-2ubuntu17 gpgconf_2.4.4-2ubuntu17 gpgv_2.4.4-2ubuntu17 grep_3.11-4build1 groff-base_1.23.0-3build2 gzip_1.12-1ubuntu3 hostname_3.23+nmu2ubuntu2 init_1.66ubuntu1 init-system-helpers_1.66ubuntu1 intltool-debian_0.35.0+20060710.6 krb5-locales_1.20.1-6ubuntu2 libacl1_2.3.2-1build1 libapparmor1_4.0.0-beta3-0ubuntu3 libapt-pkg6.0t64_2.7.14build2 libarchive-zip-perl_1.68-1 libargon2-1_0~20190702+dfsg-4build1 libasan8_14-20240412-0ubuntu1 libassuan0_2.5.6-1build1 libatomic1_14-20240412-0ubuntu1 libattr1_1:2.5.2-1build1 libaudit-common_1:3.1.2-2.1build1 libaudit1_1:3.1.2-2.1build1 libbinutils_2.42-4ubuntu2 libblkid1_2.39.3-9ubuntu6 libbz2-1.0_1.0.8-5.1 libc-bin_2.39-0ubuntu8 libc-dev-bin_2.39-0ubuntu8 libc6_2.39-0ubuntu8 libc6-dev_2.39-0ubuntu8 libcap-ng0_0.8.4-2build2 libcap2_1:2.66-5ubuntu2 libcc1-0_14-20240412-0ubuntu1 libcom-err2_1.47.0-2.4~exp1ubuntu4 libcrypt-dev_1:4.4.36-4build1 libcrypt1_1:4.4.36-4build1 libcryptsetup12_2:2.7.0-1ubuntu4 libctf-nobfd0_2.42-4ubuntu2 libctf0_2.42-4ubuntu2 libdb5.3t64_5.3.28+dfsg2-7 libdebconfclient0_0.271ubuntu3 libdebhelper-perl_13.14.1ubuntu5 libdevmapper1.02.1_2:1.02.185-3ubuntu3 libdpkg-perl_1.22.6ubuntu6 libdw1t64_0.190-1.1build4 libelf1t64_0.190-1.1build4 libext2fs2t64_1.47.0-2.4~exp1ubuntu4 libfakeroot_1.33-1build1 libfdisk1_2.39.3-9ubuntu6 libffi8_3.4.6-1build1 libfile-stripnondeterminism-perl_1.13.1-1 libgcc-13-dev_13.2.0-23ubuntu3 libgcc-s1_14-20240412-0ubuntu1 libgcrypt20_1.10.3-2build1 libgdbm-compat4t64_1.23-5.1build1 libgdbm6t64_1.23-5.1build1 libgmp10_2:6.3.0+dfsg-2ubuntu6 libgnutls30t64_3.8.3-1.1ubuntu3 libgomp1_14-20240412-0ubuntu1 libgpg-error-l10n_1.47-3build2 libgpg-error0_1.47-3build2 libgpm2_1.20.7-11 libgprofng0_2.42-4ubuntu2 libgssapi-krb5-2_1.20.1-6ubuntu2 libhogweed6t64_3.9.1-2.2build1 libhwasan0_14-20240412-0ubuntu1 libicu74_74.2-1ubuntu3 libidn2-0_2.3.7-2build1 libip4tc2_1.8.10-3ubuntu2 libisl23_0.26-3build1 libitm1_14-20240412-0ubuntu1 libjansson4_2.14-2build2 libjson-c5_0.17-1build1 libk5crypto3_1.20.1-6ubuntu2 libkeyutils1_1.6.3-3build1 libkmod2_31+20240202-2ubuntu6 libkrb5-3_1.20.1-6ubuntu2 libkrb5support0_1.20.1-6ubuntu2 liblocale-gettext-perl_1.07-6ubuntu5 liblockfile-bin_1.17-1build3 liblockfile1_1.17-1build3 liblsan0_14-20240412-0ubuntu1 liblz4-1_1.9.4-1build1 liblzma5_5.6.1+really5.4.5-1 libmagic-mgc_1:5.45-3build1 libmagic1t64_1:5.45-3build1 libmd0_1.1.0-2build1 libmount1_2.39.3-9ubuntu6 libmpc3_1.3.1-1build1 libmpfr6_4.2.1-1build1 libncursesw6_6.4+20240113-1ubuntu2 libnettle8t64_3.9.1-2.2build1 libnpth0t64_1.6-3.1build1 libnsl-dev_1.3.0-3build3 libnsl2_1.3.0-3build3 libnss-nis_3.1-0ubuntu6 libnss-nisplus_1.3-5build1 libp11-kit0_0.25.3-4ubuntu2 libpam-modules_1.5.3-5ubuntu5 libpam-modules-bin_1.5.3-5ubuntu5 libpam-runtime_1.5.3-5ubuntu5 libpam0g_1.5.3-5ubuntu5 libpcre2-8-0_10.42-4ubuntu2 libperl4-corelibs-perl_0.005-1 libperl5.36_5.36.0-9ubuntu1 libperl5.38t64_5.38.2-3.2build2 libpipeline1_1.5.7-2 libpkgconf3_1.8.1-2build1 libpng16-16t64_1.6.43-5build1 libproc2-0_2:4.0.4-4ubuntu3 libreadline8t64_8.2-4build1 libseccomp2_2.5.5-1ubuntu3 libselinux1_3.5-2ubuntu2 libsemanage-common_3.5-1build5 libsemanage2_3.5-1build5 libsepol2_3.5-2build1 libsframe1_2.42-4ubuntu2 libsmartcols1_2.39.3-9ubuntu6 libsqlite3-0_3.45.1-1ubuntu2 libsquid-dev_1.9g+cvs20050121-15.1build1 libsquid1t64_1.9g+cvs20050121-15.1build1 libss2_1.47.0-2.4~exp1ubuntu4 libssl3t64_3.0.13-0ubuntu3 libstdc++-13-dev_13.2.0-23ubuntu3 libstdc++6_14-20240412-0ubuntu1 libsub-override-perl_0.10-1 libsystemd-shared_255.4-1ubuntu7 libsystemd0_255.4-1ubuntu7 libtasn1-6_4.19.0-3build1 libtext-charwidth-perl_0.04-11build3 libtext-iconv-perl_1.7-8build3 libtext-wrapi18n-perl_0.06-10 libtinfo6_6.4+20240113-1ubuntu2 libtirpc-common_1.3.4+ds-1.1build1 libtirpc-dev_1.3.4+ds-1.1build1 libtirpc3t64_1.3.4+ds-1.1build1 libtool_2.4.7-7build1 libtsan2_14-20240412-0ubuntu1 libubsan1_14-20240412-0ubuntu1 libuchardet0_0.0.8-1build1 libudev1_255.4-1ubuntu7 libunistring2_1.0-2 libunistring5_1.1-2build1 libuuid1_2.39.3-9ubuntu6 libxml2_2.9.14+dfsg-1.3ubuntu3 libxxhash0_0.8.2-2build1 libzstd1_1.5.5+dfsg2-2build1 linux-libc-dev_6.8.0-22.22 lockfile-progs_0.1.19build2 login_1:4.13+dfsg1-4ubuntu3 logsave_1.47.0-2.4~exp1ubuntu4 lto-disabled-list_47 m4_1.4.19-4build1 make_4.3-4.1build2 man-db_2.12.0-4build2 mawk_1.3.4.20240123-1build1 mount_2.39.3-9ubuntu6 ncurses-base_6.4+20240113-1ubuntu2 ncurses-bin_6.4+20240113-1ubuntu2 openssl_3.0.13-0ubuntu3 optipng_0.7.8+ds-1build2 passwd_1:4.13+dfsg1-4ubuntu3 patch_2.7.6-7build3 perl_5.38.2-3.2build2 perl-base_5.38.2-3.2build2 perl-modules-5.36_5.36.0-9ubuntu1 perl-modules-5.38_5.38.2-3.2build2 pinentry-curses_1.2.1-3ubuntu5 pkgbinarymangler_154 pkgconf_1.8.1-2build1 pkgconf-bin_1.8.1-2build1 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3.1 procps_2:4.0.4-4ubuntu3 psmisc_23.7-1build1 readline-common_8.2-4build1 rename_2.02-1 rpcsvc-proto_1.4.2-0ubuntu7 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2build1 sensible-utils_0.0.22 systemd_255.4-1ubuntu7 systemd-dev_255.4-1ubuntu7 systemd-sysv_255.4-1ubuntu7 sysvinit-utils_3.08-6ubuntu3 tar_1.35+dfsg-3build1 tzdata_2024a-2ubuntu1 ubuntu-keyring_2023.11.28.1 util-linux_2.39.3-9ubuntu6 uuid-runtime_2.39.3-9ubuntu6 xz-utils_5.6.1+really5.4.5-1 zlib1g_1:1.3.dfsg-3.1ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: hmmer2 Binary: hmmer2, hmmer2-doc, libhmmer2-dev Architecture: any all Version: 2.3.2+dfsg-12 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://hmmer.janelia.org/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/hmmer2 Vcs-Git: https://salsa.debian.org/med-team/hmmer2.git Testsuite: autopkgtest Testsuite-Triggers: build-essential, libperl4-corelibs-perl, libsquid-dev, pkg-config Build-Depends: debhelper-compat (= 13), libperl4-corelibs-perl, libsquid-dev, pkgconf, dh-exec, rename Package-List: hmmer2 deb science optional arch=any hmmer2-doc deb doc optional arch=all libhmmer2-dev deb libdevel optional arch=any Checksums-Sha1: 7467176def6174e90edd239558b6fcc2cb8033df 331828 hmmer2_2.3.2+dfsg.orig.tar.xz 062cd885dfd33766c3303b641a9fd2ad123990c4 21136 hmmer2_2.3.2+dfsg-12.debian.tar.xz Checksums-Sha256: f9cd50acc23743648cb7de020c249bce396c3d07e0afe7e5418620cffa07bb44 331828 hmmer2_2.3.2+dfsg.orig.tar.xz 1dd6e7702c9a6540fd8a3b53d535c98e822a7dfdbc76388f81b0cdc731e42f2a 21136 hmmer2_2.3.2+dfsg-12.debian.tar.xz Files: 4f8c9fd7c7de00fb8cfab499931ee4ba 331828 hmmer2_2.3.2+dfsg.orig.tar.xz 5d8ec6eb7213aa0fc5ec00a3be5af26b 21136 hmmer2_2.3.2+dfsg-12.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmYXp30RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtH0rQ/+Nx0cD07oRQUQX/qMb9hbDYgoC5X3s6BG t7cMJgk6/qDEClluc58uQZSVDYFLr2NDaWWf6Avh5vcwGsgiimmU99tV4eu2B2tT 5s7zx6HwEOHLtdsYDGJnPpuNUhiE1wOvzXcabZ9t8PpCRe3ZUkFkmyvSsPXrMdtX SZapCF6fbBB2AG/5JVCYJxrb4BLBxffeLl0/7YsxFaLi0Hm9k49yB9w5K7FTn+9G EmvpkpT0rHVlalEIcZNsHJ8DIfPAcN9DKRL+FxDgh1Z0TNRVQdZ7kS/72QdloAzS QPml++aDp4iI6H0s1RDHfGqJ3d5Ootz/aDktgPUmHH84+WCtTHQkQrJQuQpRfS9i UeORZNpEOpezcVR8aaYlDQTx42O+oeKC3OCYZRZkgEu64uH6zlqRijA1bfUCy/NS UglYqpYqppQBMmUDTy0d3DFk92mSM0EyWz/bN8ton0oyYXwdmjF/Jp774gZLJ5Yw xG7exdw2efasNYcMklZQ2lbrX0ClYu5mC2A+zpuGNL1TnCn3hLNh6Lx1uwZuG4xz 98NPhg6ttguogyizeEpEedDzxwUIhsDWnyr126PIynIIXj0PluqnLI2MKtwfGU6z KRFdTbBUpn83qmm7AHQWGQ0dihSVqgFne4IhuyQ4f93INpqxYKwFtDcBR8veJy8+ P8gYNfTK1/w= =SERy -----END PGP SIGNATURE----- gpgv: Signature made Thu Apr 11 09:03:57 2024 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./hmmer2_2.3.2+dfsg-12.dsc: no acceptable signature found dpkg-source: info: extracting hmmer2 in /<> dpkg-source: info: unpacking hmmer2_2.3.2+dfsg.orig.tar.xz dpkg-source: info: unpacking hmmer2_2.3.2+dfsg-12.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying version2-manpage dpkg-source: info: applying userguidepdf dpkg-source: info: applying spelling.patch dpkg-source: info: applying use_debian_packaged_biosquid.patch dpkg-source: info: applying build_libhmmer.a_with-fPIC.patch dpkg-source: info: applying add-runstatedir-option.patch dpkg-source: info: applying fixup-implicit-function-declaration.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-28055510 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-28055510 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-28055510 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 hmmer2 dpkg-buildpackage: info: source version 2.3.2+dfsg-12 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/<>' dh_clean if [ -e configure_not_used ] ; then mv configure_not_used configure; fi rm -f configure.ac src/config.h make[1]: Leaving directory '/<>' debian/rules binary-arch dh binary-arch dh_update_autotools_config -a cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead debian/rules override_dh_autoreconf make[1]: Entering directory '/<>' cp -a debian/missing-sources/configure.ac . mv configure configure_not_used dh_autoreconf configure.ac:119: warning: underquoted definition of CHECK_GNU_MAKE configure.ac:119: run info Automake 'Extending aclocal' configure.ac:119: or see https://www.gnu.org/software/automake/manual/automake.html#Extending-aclocal configure.ac:161: warning: The macro `AC_TRY_COMPILE' is obsolete. configure.ac:161: You should run autoupdate. ./lib/autoconf/general.m4:2847: AC_TRY_COMPILE is expanded from... configure.ac:161: the top level configure.ac:487: warning: The macro `AC_LANG_C' is obsolete. configure.ac:487: You should run autoupdate. ./lib/autoconf/c.m4:72: AC_LANG_C is expanded from... configure.ac:289: ACX_PTHREAD is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from... configure.ac:487: the top level configure.ac:487: warning: The macro `AC_TRY_LINK' is obsolete. configure.ac:487: You should run autoupdate. ./lib/autoconf/general.m4:2920: AC_TRY_LINK is expanded from... configure.ac:289: ACX_PTHREAD is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from... configure.ac:487: the top level make[1]: Leaving directory '/<>' debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- --enable-threads --enable-lfs PTHREAD_CFLAGS="-D_XOPEN_SOURCE=500" # --enable-pvm ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-threads --enable-lfs PTHREAD_CFLAGS=-D_XOPEN_SOURCE=500 configure: configuring HMMER for your system. configure: This is a full source distribution - using full config checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking for ranlib... ranlib checking for ar... /usr/bin/ar checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu checking whether your make is GNU make... yes, it is. configure: configured for optional LFS, large file support configure: enabled POSIX multithreading support checking for pthread_setconcurrency... yes checking for pthread_attr_setscope... yes checking for pthread_join in LIBS= with CFLAGS=-D_XOPEN_SOURCE=500... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking if more special flags are required for pthreads... no checking for cc_r... gcc checking for ntohs... yes checking for ntohl... yes checking for htons... yes checking for htonl... yes configure: creating ./config.status config.status: creating src/Makefile config.status: creating testsuite/Makefile config.status: creating Makefile config.status: WARNING: 'Makefile.in' seems to ignore the --datarootdir setting config.status: creating src/config.h # avoid duplicated definition of PACKAGE_NAME (basically conflicting with biosquid when used together) sed -i -e '/^#define PACKAGE_NAME /i #ifndef PACKAGE_NAME' \ -e '/^#define PACKAGE_NAME /a #endif' \ -e '/^#define PACKAGE_VERSION /i #ifndef PACKAGE_VERSION' \ -e '/^#define PACKAGE_VERSION /a #endif' \ -e '/^#define _LARGEFILE_SOURCE /i #ifndef _LARGEFILE_SOURCE' \ -e '/^#define _LARGEFILE_SOURCE /a #endif' \ -e '/^#define _LARGEFILE64_SOURCE /i #ifndef _LARGEFILE64_SOURCE' \ -e '/^#define _LARGEFILE64_SOURCE /a #endif' \ -e '/^#define VERSION /i #ifndef VERSION' \ -e '/^#define VERSION /a #endif' \ src/config.h make[1]: Leaving directory '/<>' dh_auto_build -a make -j4 make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/src' gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmalign.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c alphabet.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c core_algorithms.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c debug.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c display.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c emit.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c emulation.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c fast_algorithms.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c histogram.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmio.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c mathsupport.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c masks.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c misc.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c modelmakers.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c plan7.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c plan9.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c postprob.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c prior.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c pvm.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c threads.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c tophits.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c trace.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmbuild.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmcalibrate.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmconvert.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmemit.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmfetch.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmindex.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmpfam.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/pkg-config --cflags libsquid` -c hmmsearch.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -o hmmalign hmmalign.o alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -o hmmcalibrate hmmcalibrate.o alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -o hmmconvert hmmconvert.o alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -o hmmemit hmmemit.o alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -o hmmfetch hmmfetch.o alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -o hmmindex hmmindex.o alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -o hmmpfam hmmpfam.o alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -o hmmsearch hmmsearch.o alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -o hmmbuild hmmbuild.o alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o `/usr/bin/pkg-config --libs libsquid` -lm make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/src' /usr/bin/ar rcv libhmmer.a alphabet.o core_algorithms.o debug.o display.o emit.o emulation.o fast_algorithms.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o postprob.o prior.o pvm.o threads.o tophits.o trace.o a - alphabet.o a - core_algorithms.o a - debug.o a - display.o a - emit.o a - emulation.o a - fast_algorithms.o a - histogram.o a - hmmio.o a - mathsupport.o a - masks.o a - misc.o a - modelmakers.o a - plan7.o a - plan9.o a - postprob.o a - prior.o a - pvm.o a - threads.o a - tophits.o a - trace.o ranlib libhmmer.a chmod 644 libhmmer.a make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/testsuite' gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H `/usr/bin/pkg-config --cflags libsquid` -I../src -c alignalign_test.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H `/usr/bin/pkg-config --cflags libsquid` -I../src -c evd_test.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H `/usr/bin/pkg-config --cflags libsquid` -I../src -c masks_test.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H `/usr/bin/pkg-config --cflags libsquid` -I../src -c parsingviterbi_test.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H `/usr/bin/pkg-config --cflags libsquid` -I../src -c tophits_test.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H `/usr/bin/pkg-config --cflags libsquid` -I../src -c trace_test.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H `/usr/bin/pkg-config --cflags libsquid` -I../src -c viterbi_exercise.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wdate-time -D_FORTIFY_SOURCE=3 -DHAVE_CONFIG_H `/usr/bin/pkg-config --cflags libsquid` -I../src -c weeviterbi_test.c gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o alignalign_test -L../src alignalign_test.o -lhmmer `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o evd_test -L../src evd_test.o -lhmmer `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o masks_test -L../src masks_test.o -lhmmer `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o parsingviterbi_test -L../src parsingviterbi_test.o -lhmmer `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o tophits_test -L../src tophits_test.o -lhmmer `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o trace_test -L../src trace_test.o -lhmmer `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o viterbi_exercise -L../src viterbi_exercise.o -lhmmer `/usr/bin/pkg-config --libs libsquid` -lm gcc -g -O2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fdebug-prefix-map=/<>=/usr/src/hmmer2-2.3.2+dfsg-12 -D_XOPEN_SOURCE=500 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o weeviterbi_test -L../src weeviterbi_test.o -lhmmer `/usr/bin/pkg-config --libs libsquid` -lm make[2]: Leaving directory '/<>/testsuite' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' dh_auto_test make -j4 check "TESTSUITEFLAGS=-j4 --verbose" VERBOSE=1 make[2]: Entering directory '/<>' (cd testsuite; make check) make[3]: Entering directory '/<>/testsuite' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. Running test suite exercises. Warning: some tests may take several minutes to complete. ./sqc 2 exercises.sqc . ../src exercise 1 [ hmmalign] ... ok. exercise 2 [ hmmalign/h] ... ok. exercise 3 [ hmmalign/m] ... ok. exercise 4 [ hmmalign/o] ... ok. exercise 5 [ hmmalign/q] ... ok. exercise 6 [ hmmalign/informat] ... ok. exercise 7 [ hmmalign/selex] ... ok. exercise 8 [ hmmalign/a2m] ... ok. exercise 9 [ hmmalign/clustal] ... ok. exercise 10 [ hmmalign/msf] ... ok. exercise 11 [ hmmalign/phylip] ... ok. exercise 12 [ hmmalign/oneline] ... ok. exercise 13 [ hmmalign/withali] ... ok. exercise 14 [ hmmalign/mapali] ... ok. exercise 15 [ hmmbuild] ... ok. exercise 16 [ hmmbuild/h] ... ok. exercise 17 [ hmmbuild/F] ... ok. exercise 18 [ hmmbuild/n] ... ok. exercise 19 [ hmmbuild/o] ... ok. exercise 20 [ hmmbuild/A] ... ok. exercise 21 [ hmmbuild/f] ... ok. exercise 22 [ hmmbuild/g] ... ok. exercise 23 [ hmmbuild/s] ... ok. exercise 24 [ hmmbuild/fast] ... ok. exercise 25 [ hmmbuild/hand] ... ok. exercise 26 [ hmmbuild/null] ... ok. exercise 27 [ hmmbuild/pam] ... ok. exercise 28 [ hmmbuild/prior] ... ok. exercise 29 [ hmmbuild/wblosum] ... ok. exercise 30 [ hmmbuild/wgsc] ... ok. exercise 31 [ hmmbuild/wme] ... ok. exercise 32 [ hmmbuild/wpb] ... ok. exercise 33 [ hmmbuild/wvoronoi] ... ok. exercise 34 [ hmmbuild/wnone] ... ok. exercise 35 [ hmmbuild/noeff] ... ok. exercise 36 [ hmmbuild/pbswitch] ... ok. exercise 37 [ hmmbuild/amino] ... ok. exercise 38 [ hmmbuild/nucleic] ... ok. exercise 39 [ hmmbuild/archpri] ... ok. exercise 40 [ hmmbuild/binary] ... ok. exercise 41 [ hmmbuild/cfile] ... ok. exercise 42 [ hmmbuild/gapmax] ... ok. exercise 43 [ hmmbuild/idlevel] ... ok. exercise 44 [ hmmbuild/informat] ... ok. exercise 45 [ hmmbuild/pamwgt] ... ok. exercise 46 [ hmmbuild/swentry] ... ok. exercise 47 [ hmmbuild/swexit] ... ok. exercise 48 [ hmmbuild/verbose] ... ok. exercise 49 [ hmmcalibrate] ... ok. exercise 50 [ hmmcalibrate/h] ... ok. exercise 51 [ hmmcalibrate/fixed] ... ok. exercise 52 [ hmmcalibrate/mean] ... ok. exercise 53 [ hmmcalibrate/hist] ... ok. exercise 54 [ hmmcalibrate/num] ... ok. exercise 55 [ hmmcalibrate/sd] ... ok. exercise 56 [ hmmcalibrate/seed] ... ok. exercise 57 [ hmmconvert] ... ok. exercise 58 [ hmmconvert/h] ... ok. exercise 59 [ hmmconvert/F] ... ok. exercise 60 [ hmmconvert/a] ... ok. exercise 61 [ hmmconvert/A] ... ok. exercise 62 [ hmmconvert/b] ... ok. exercise 63 [ hmmconvert/p] ... ok. exercise 64 [ hmmconvert/P] ... ok. exercise 65 [ hmmemit] ... ok. exercise 66 [ hmmemit/a] ... ok. exercise 67 [ hmmemit/c] ... ok. exercise 68 [ hmmemit/h] ... ok. exercise 69 [ hmmemit/n] ... ok. exercise 70 [ hmmemit/o] ... ok. exercise 71 [ hmmemit/q] ... ok. exercise 72 [ hmmemit/seed] ... ok. exercise 73 [ hmmindex] ... ok. exercise 74 [ hmmindex/h] ... ok. exercise 75 [ hmmfetch] ... ok. exercise 76 [ hmmfetch/h] ... ok. exercise 77 [ hmmfetch/n] ... ok. exercise 78 [ hmmpfam] ... ok. exercise 79 [ hmmpfam/h] ... ok. exercise 80 [ hmmpfam/n] ... ok. exercise 81 [ hmmpfam/A] ... ok. exercise 82 [ hmmpfam/E] ... ok. exercise 83 [ hmmpfam/T] ... ok. exercise 84 [ hmmpfam/Z] ... ok. exercise 85 [ hmmpfam/acc] ... ok. exercise 86 [ hmmpfam/compat] ... ok. exercise 87 [ hmmpfam/cut_ga] ... ok. exercise 88 [ hmmpfam/cut_nc] ... ok. exercise 89 [ hmmpfam/cut_tc] ... ok. exercise 90 [ hmmpfam/domE] ... ok. exercise 91 [ hmmpfam/domT] ... ok. exercise 92 [ hmmpfam/forward] ... ok. exercise 93 [ hmmpfam/informat] ... ok. exercise 94 [ hmmpfam/null2] ... ok. exercise 95 [ hmmpfam/xnu] ... ok. exercise 96 [ hmmsearch] ... ok. exercise 97 [ hmmsearch/h] ... ok. exercise 98 [ hmmsearch/A] ... ok. exercise 99 [ hmmsearch/E] ... ok. exercise 100 [ hmmsearch/T] ... ok. exercise 101 [ hmmsearch/Z] ... ok. exercise 102 [ hmmsearch/compat] ... ok. exercise 103 [ hmmsearch/cut_ga] ... ok. exercise 104 [ hmmsearch/cut_nc] ... ok. exercise 105 [ hmmsearch/cut_tc] ... ok. exercise 106 [ hmmsearch/domE] ... ok. exercise 107 [ hmmsearch/domT] ... ok. exercise 108 [ hmmsearch/forward] ... ok. exercise 109 [ hmmsearch/informat] ... ok. exercise 110 [ hmmsearch/null2] ... ok. exercise 111 [ hmmsearch/xnu] ... ok. exercise 112 [ align_align] ... ok. exercise 113 [ evd] ... ok. exercise 114 [ masks] ... ok. exercise 115 [ parsingv] ... ok. exercise 116 [ tophits] ... ok. exercise 117 [ trace] ... ok. exercise 118 [ viterbi] ... ok. exercise 119 [ weeviterbi] ... ok. exercise 120 [ test1/conversion] ... ok. All 120 exercises at level <= 2 passed. System information: Sun Apr 14 18:47:33 UTC 2024 Linux bos02-arm64-016 5.4.0-176-generic #196-Ubuntu SMP Fri Mar 22 16:46:20 UTC 2024 aarch64 aarch64 aarch64 GNU/Linux make[3]: Leaving directory '/<>/testsuite' make[2]: Leaving directory '/<>' rm -f testsuite/*.ssi cd testsuite && make clean make[2]: Entering directory '/<>/testsuite' rm -f *.o *~ Makefile.bak core alignalign_test evd_test masks_test parsingviterbi_test tophits_test trace_test viterbi_exercise weeviterbi_test TAGS gmon.out make[2]: Leaving directory '/<>/testsuite' make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install -- prefix=/<>/debian/tmp make -j4 install DESTDIR=/<>/hmmer2-2.3.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no prefix=/<>/hmmer2-2.3.2\+dfsg/debian/tmp make[2]: Entering directory '/<>' mkdir -p /<>/debian/tmp/bin mkdir -p /<>/debian/tmp/share/man/man1 for file in hmmalign hmmbuild hmmcalibrate hmmconvert hmmemit hmmfetch hmmindex hmmpfam hmmsearch ; do\ cp src/$file /<>/debian/tmp/bin/;\ done for file in hmmer hmmalign hmmbuild hmmcalibrate hmmconvert hmmemit hmmfetch hmmindex hmmpfam hmmsearch; do\ cp documentation/man/$file.man /<>/debian/tmp/share/man/man1/$file.1;\ done make[2]: Leaving directory '/<>' # lkajan: rename binaries and man pages like this: s/hmm/hmm2/ - except hmmer.1, rename that to hmmer2.1: rename 's/^hmm/hmm2/;' /<>/debian/tmp/bin/* cd /<>/debian/tmp/bin; rename 's/^hmm/hmm2/;' * cd /<>/debian/tmp/share/man/man1; rename 's/^hmm/hmm2/;' * mv /<>/debian/tmp/share/man/man1/hmm2er.1 /<>/debian/tmp/share/man/man1/hmmer2.1 # lkajan: resolve man page hypen issue: sed -i -e 's/--/\\-\\-/g;s/-\([[:alpha:]]\)\b/\\-\1/g;' /<>/debian/tmp/share/man/man1/* make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' sed -e "s/@DEB_HOST_MULTIARCH@/aarch64-linux-gnu/" \ -e "s/@VERSION@/2.3.2/" debian/pkgconfig/libhmmer2.pc.in > debian/pkgconfig/libhmmer2.pc dh_install rm -f debian/pkgconfig/libhmmer2.pc make[1]: Leaving directory '/<>' dh_installdocs -a debian/rules override_dh_installchangelogs make[1]: Entering directory '/<>' dh_installchangelogs -k NOTES make[1]: Leaving directory '/<>' debian/rules override_dh_installexamples make[1]: Entering directory '/<>' cd testsuite && make clean && cd .. make[2]: Entering directory '/<>/testsuite' rm -f *.o *~ Makefile.bak core alignalign_test evd_test masks_test parsingviterbi_test tophits_test trace_test viterbi_exercise weeviterbi_test TAGS gmon.out make[2]: Leaving directory '/<>/testsuite' dh_installexamples mkdir -p /<>/debian/hmmer2/usr/share/doc/hmmer2/examples; cp -a testsuite/* /<>/debian/hmmer2/usr/share/doc/hmmer2/examples/; mkdir /<>/debian/hmmer2/usr/share/doc/hmmer2/examples/tutorial; cp -a tutorial/* /<>/debian/hmmer2/usr/share/doc/hmmer2/examples/tutorial; sed -i "s#hmm#hmm2#g" /<>/debian/hmmer2/usr/share/doc/hmmer2/examples/exercises.sqc sed -i "s#../tut#./tut#g" /<>/debian/hmmer2/usr/share/doc/hmmer2/examples/exercises.sqc find /<>/debian/hmmer2/usr/share/doc/hmmer2/examples -name 'Makefile' | xargs sed -i "s^/<>^.^g" make[1]: Leaving directory '/<>' 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 debugedit: debian/hmmer2/usr/bin/hmm2convert: Unknown DWARF DW_FORM_0x1f20 eb544947d41ec5340689af935dfbe730ace21674 debugedit: debian/hmmer2/usr/bin/hmm2fetch: Unknown DWARF DW_FORM_0x1f20 636b2509c653dfb049a47f9b5e2962219cf1b048 debugedit: debian/hmmer2/usr/bin/hmm2index: Unknown DWARF DW_FORM_0x1f20 32c0761b44aa65a9932797faf22330d1d98ca3b2 debugedit: debian/hmmer2/usr/bin/hmm2build: Unknown DWARF DW_FORM_0x1f20 22bea3182061a9b9fc45661e15eb45e08ad15a92 debugedit: debian/hmmer2/usr/bin/hmm2search: Unknown DWARF DW_FORM_0x1f20 2398e4f84b6ddd30b8214e5830a67f7dd3f3058e debugedit: debian/hmmer2/usr/bin/hmm2calibrate: Unknown DWARF DW_FORM_0x1f20 a203b44e17e211a613ec968f8da77efc913983ec debugedit: debian/hmmer2/usr/bin/hmm2emit: Unknown DWARF DW_FORM_0x1f20 2b3e996eaf121cd4fdf49db345ce7eb57e9c7dcb debugedit: debian/hmmer2/usr/bin/hmm2align: Unknown DWARF DW_FORM_0x1f20 8d6f2ca020cf8ddd0f76f85270a4fe2ea2819211 debugedit: debian/hmmer2/usr/bin/hmm2pfam: Unknown DWARF DW_FORM_0x1f20 8c710e68627d1156659669d133f0aaba9d42ada9 dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: Depends field of package libhmmer2-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 pkgstriptranslations: processing libhmmer2-dev (in debian/libhmmer2-dev); do_strip: , oemstrip: pkgstriptranslations: processing hmmer2 (in debian/hmmer2); do_strip: , oemstrip: pkgstriptranslations: processing hmmer2-dbgsym (in debian/.debhelper/hmmer2/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/hmmer2/DEBIAN/control, package hmmer2, directory debian/hmmer2 .. removing usr/share/doc/hmmer2/changelog.gz pkgstripfiles: processing control file: debian/libhmmer2-dev/DEBIAN/control, package libhmmer2-dev, directory debian/libhmmer2-dev .. removing usr/share/doc/libhmmer2-dev/changelog.gz INFO: pkgstripfiles: waiting for lock (libhmmer2-dev) ... pkgstripfiles: Running PNG optimization (using 4 cpus) for package hmmer2 ... pkgstripfiles: processing control file: debian/.debhelper/hmmer2/dbgsym-root/DEBIAN/control, package hmmer2-dbgsym, directory debian/.debhelper/hmmer2/dbgsym-root pkgstripfiles: No PNG files. dpkg-deb: building package 'hmmer2-dbgsym' in 'debian/.debhelper/scratch-space/build-hmmer2/hmmer2-dbgsym_2.3.2+dfsg-12_arm64.deb'. dpkg-deb: building package 'hmmer2' in '../hmmer2_2.3.2+dfsg-12_arm64.deb'. Renaming hmmer2-dbgsym_2.3.2+dfsg-12_arm64.deb to hmmer2-dbgsym_2.3.2+dfsg-12_arm64.ddeb pkgstripfiles: Running PNG optimization (using 4 cpus) for package libhmmer2-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libhmmer2-dev' in '../libhmmer2-dev_2.3.2+dfsg-12_arm64.deb'. dpkg-genbuildinfo --build=any -O../hmmer2_2.3.2+dfsg-12_arm64.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../hmmer2_2.3.2+dfsg-12_arm64.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 2024-04-14T18:47:45Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ hmmer2_2.3.2+dfsg-12_arm64.changes: ----------------------------------- Format: 1.8 Date: Thu, 11 Apr 2024 09:59:24 +0200 Source: hmmer2 Binary: hmmer2 libhmmer2-dev Built-For-Profiles: noudeb Architecture: arm64 Version: 2.3.2+dfsg-12 Distribution: noble-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: hmmer2 - profile hidden Markov models for protein sequence analysis libhmmer2-dev - profile hidden Markov models for protein sequence analysis (devel Changes: hmmer2 (2.3.2+dfsg-12) unstable; urgency=medium . * Drop -fcf-protection=full option in autoplgtest which works on amd64+i386 only and makes the test fail on other architectures * Drop emeritus Laszlo Kajan from Uploaders (thanks for all your work Laszlo) * Standards-Version: 4.7.0 (routine-update) * Use secure URI in Homepage field. * Remove patch hardening.patch that is missing from debian/patches/series. * DEP3 + Forwarded: No Checksums-Sha1: 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contents | +------------------------------------------------------------------------------+ hmmer2_2.3.2+dfsg-12_arm64.deb ------------------------------ new Debian package, version 2.0. size 309384 bytes: control archive=2509 bytes. 928 bytes, 21 lines control 5023 bytes, 68 lines md5sums Package: hmmer2 Version: 2.3.2+dfsg-12 Architecture: arm64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1427 Depends: libc6 (>= 2.34), libsquid1t64 (>= 1.9g+cvs20050121) Recommends: biosquid Suggests: hmmer2-doc (>= 2.3.2+dfsg-12) Section: science Priority: optional Homepage: https://hmmer.janelia.org/ Description: profile hidden Markov models for protein sequence analysis HMMER is an implementation of profile hidden Markov model methods for sensitive searches of biological sequence databases using multiple sequence alignments as queries. . Given a multiple sequence alignment as input, HMMER builds a statistical model called a "hidden Markov model" which can then be used as a query into a sequence database to find (and/or align) additional homologues of the sequence family. drwxr-xr-x root/root 0 2024-04-11 07:59 ./ drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/ drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/bin/ -rwxr-xr-x root/root 134080 2024-04-11 07:59 ./usr/bin/hmm2align -rwxr-xr-x root/root 70656 2024-04-11 07:59 ./usr/bin/hmm2build -rwxr-xr-x root/root 68472 2024-04-11 07:59 ./usr/bin/hmm2calibrate -rwxr-xr-x root/root 68328 2024-04-11 07:59 ./usr/bin/hmm2convert -rwxr-xr-x root/root 68248 2024-04-11 07:59 ./usr/bin/hmm2emit -rwxr-xr-x root/root 67960 2024-04-11 07:59 ./usr/bin/hmm2fetch -rwxr-xr-x root/root 67872 2024-04-11 07:59 ./usr/bin/hmm2index -rwxr-xr-x root/root 134896 2024-04-11 07:59 ./usr/bin/hmm2pfam -rwxr-xr-x root/root 134688 2024-04-11 07:59 ./usr/bin/hmm2search drwxr-xr-x root/root 0 2024-04-11 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1691 2024-04-11 07:59 ./usr/share/man/man1/hmmer2.1.gz libhmmer2-dev_2.3.2+dfsg-12_arm64.deb ------------------------------------- new Debian package, version 2.0. size 101018 bytes: control archive=1003 bytes. 955 bytes, 23 lines control 621 bytes, 9 lines md5sums Package: libhmmer2-dev Source: hmmer2 Version: 2.3.2+dfsg-12 Architecture: arm64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 332 Section: libdevel Priority: optional Multi-Arch: same Homepage: https://hmmer.janelia.org/ Description: profile hidden Markov models for protein sequence analysis (devel) HMMER is an implementation of profile hidden Markov model methods for sensitive searches of biological sequence databases using multiple sequence alignments as queries. . Given a multiple sequence alignment as input, HMMER builds a statistical model called a "hidden Markov model" which can then be used as a query into a sequence database to find (and/or align) additional homologues of the sequence family. . This package contains header files and static library that can be used to link against libhmmer. drwxr-xr-x root/root 0 2024-04-11 07:59 ./ drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/ drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/include/ drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/include/hmmer2/ -rw-r--r-- root/root 4524 2024-04-11 07:59 ./usr/include/hmmer2/config.h -rw-r--r-- root/root 16177 2024-04-11 07:59 ./usr/include/hmmer2/funcs.h -rw-r--r-- root/root 1201 2003-10-04 19:01 ./usr/include/hmmer2/globals.h -rw-r--r-- root/root 1733 2003-10-04 19:01 ./usr/include/hmmer2/postprob.h -rw-r--r-- root/root 24821 2003-10-04 19:01 ./usr/include/hmmer2/structs.h drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/lib/ drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/lib/aarch64-linux-gnu/ -rw-r--r-- root/root 268128 2024-04-11 07:59 ./usr/lib/aarch64-linux-gnu/libhmmer.a drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/lib/aarch64-linux-gnu/pkgconfig/ -rw-r--r-- root/root 263 2024-04-11 07:59 ./usr/lib/aarch64-linux-gnu/pkgconfig/libhmmer2.pc drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/share/ drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/share/doc/libhmmer2-dev/ lrwxrwxrwx root/root 0 2024-04-11 07:59 ./usr/share/doc/libhmmer2-dev/NOTES.gz -> changelog.gz -rw-r--r-- root/root 1231 2024-04-11 07:59 ./usr/share/doc/libhmmer2-dev/changelog.Debian.gz -rw-r--r-- root/root 1411 2024-04-11 07:59 ./usr/share/doc/libhmmer2-dev/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Type: any Build-Space: 18512 Build-Time: 50 Distribution: noble-proposed Host Architecture: arm64 Install-Time: 11 Job: hmmer2_2.3.2+dfsg-12.dsc Machine Architecture: arm64 Package: hmmer2 Package-Time: 63 Source-Version: 2.3.2+dfsg-12 Space: 18512 Status: successful Version: 2.3.2+dfsg-12 -------------------------------------------------------------------------------- Finished at 2024-04-14T18:47:45Z Build needed 00:01:03, 18512k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=noble --arch=arm64 PACKAGEBUILD-28055510 Scanning for processes to kill in build PACKAGEBUILD-28055510