sbuild (Debian sbuild) 0.85.0 (04 January 2023) on debian-ci-siliconvalley +==============================================================================+ | hmmer2 2.3.2+dfsg-12 (armel) Sun, 15 Jun 2025 09:53:26 +0000 | +==============================================================================+ Package: hmmer2 Version: 2.3.2+dfsg-12 Source Version: 2.3.2+dfsg-12 Distribution: unstable Machine Architecture: amd64 Host Architecture: armel Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-4b2a39e2-ba12-42ad-9f66-60214a75dbbb' with '<>' I: NOTICE: Log filtering will replace 'build/hmmer2-9qK8FQ/resolver-2oEskO' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://localhost:3142/debian unstable InRelease [208 kB] Get:2 http://localhost:3142/debian unstable/contrib Sources.diff/Index [63.3 kB] Get:3 http://localhost:3142/debian unstable/main Sources.diff/Index [63.6 kB] Get:4 http://localhost:3142/debian unstable/main amd64 Packages.diff/Index [63.6 kB] Get:5 http://localhost:3142/debian unstable/contrib Sources T-2025-06-15-0805.48-F-2025-06-15-0805.48.pdiff [867 B] Get:6 http://localhost:3142/debian unstable/main Sources T-2025-06-15-0219.19-F-2025-06-15-0219.19.pdiff [3027 B] Get:5 http://localhost:3142/debian unstable/contrib Sources T-2025-06-15-0805.48-F-2025-06-15-0805.48.pdiff [867 B] Get:7 http://localhost:3142/debian unstable/main amd64 Packages T-2025-06-15-0805.48-F-2025-06-15-0219.19.pdiff [42.3 kB] Get:6 http://localhost:3142/debian unstable/main Sources T-2025-06-15-0219.19-F-2025-06-15-0219.19.pdiff [3027 B] Get:7 http://localhost:3142/debian unstable/main amd64 Packages T-2025-06-15-0805.48-F-2025-06-15-0219.19.pdiff [42.3 kB] Get:8 http://localhost:3142/debian unstable/main armel Packages [9548 kB] Fetched 9993 kB in 2s (4470 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'hmmer2' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/hmmer2.git Please use: git clone https://salsa.debian.org/med-team/hmmer2.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 355 kB of source archives. Get:1 http://localhost:3142/debian unstable/main hmmer2 2.3.2+dfsg-12 (dsc) [2236 B] Get:2 http://localhost:3142/debian unstable/main hmmer2 2.3.2+dfsg-12 (tar) [332 kB] Get:3 http://localhost:3142/debian unstable/main hmmer2 2.3.2+dfsg-12 (diff) [21.1 kB] Fetched 355 kB in 0s (797 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/hmmer2-9qK8FQ/hmmer2-2.3.2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/hmmer2-9qK8FQ' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libperl4-corelibs-perl, libsquid-dev, pkgconf, dh-exec, rename, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armel:amd64, libc-dev:armel, libstdc++-dev:armel Filtered Build-Depends: debhelper-compat (= 13), libperl4-corelibs-perl, libsquid-dev, pkgconf, dh-exec, rename, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armel:amd64, libc-dev:armel, libstdc++-dev:armel dpkg-deb: warning: root directory /<>/sbuild-build-depends-main-dummy has unusual owner or group 1000:119 dpkg-deb: hint: you might need to pass --root-owner-group, see for further details dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [778 B] Get:5 copy:/<>/apt_archive ./ Packages [821 B] Fetched 2208 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... Execute external solver... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabi bsdextrautils cpp-14-arm-linux-gnueabi cpp-arm-linux-gnueabi crossbuild-essential-armel debhelper dh-autoreconf dh-exec dh-strip-nondeterminism dwz fakeroot file g++-14-arm-linux-gnueabi g++-arm-linux-gnueabi gcc-14-arm-linux-gnueabi gcc-14-arm-linux-gnueabi-base gcc-14-base:armel gcc-14-cross-base-ports gcc-arm-linux-gnueabi gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan8:armel libasan8-armel-cross libatomic1:armel libatomic1-armel-cross libc6:armel libc6-armel-cross libc6-dev:armel libc6-dev-armel-cross libcrypt-dev:armel libcrypt1:armel libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libgcc-14-dev:armel libgcc-14-dev-armel-cross libgcc-s1:armel libgcc-s1-armel-cross libgomp1:armel libgomp1-armel-cross libmagic-mgc libmagic1t64 libperl4-corelibs-perl libpipeline1 libpkgconf3 libsquid-dev:armel libsquid1t64:armel libstdc++-14-dev:armel libstdc++-14-dev-armel-cross libstdc++6:armel libstdc++6-armel-cross libtool libubsan1:armel libubsan1-armel-cross libuchardet0 libunistring5 libxml2 linux-libc-dev-armel-cross m4 man-db pkgconf:armel pkgconf-bin po-debconf rename sensible-utils Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-14-locales cpp-14-doc cpp-doc dh-make gcc-14-doc manpages-dev flex bison gdb-arm-linux-gnueabi gcc-doc gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff glibc-doc:armel libc-l10n:armel locales:armel libnss-nis:armel libnss-nisplus:armel manpages-dev:armel biosquid:armel libstdc++-14-doc:armel libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libidn2-0:armel libarchive-cpio-perl libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabi bsdextrautils cpp-14-arm-linux-gnueabi cpp-arm-linux-gnueabi crossbuild-essential-armel debhelper dh-autoreconf dh-exec dh-strip-nondeterminism dwz fakeroot file g++-14-arm-linux-gnueabi g++-arm-linux-gnueabi gcc-14-arm-linux-gnueabi gcc-14-arm-linux-gnueabi-base gcc-14-base:armel gcc-14-cross-base-ports gcc-arm-linux-gnueabi gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan8:armel libasan8-armel-cross libatomic1:armel libatomic1-armel-cross libc6:armel libc6-armel-cross libc6-dev:armel libc6-dev-armel-cross libcrypt-dev:armel libcrypt1:armel libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libgcc-14-dev:armel libgcc-14-dev-armel-cross libgcc-s1:armel libgcc-s1-armel-cross libgomp1:armel libgomp1-armel-cross libmagic-mgc libmagic1t64 libperl4-corelibs-perl libpipeline1 libpkgconf3 libsquid-dev:armel libsquid1t64:armel libstdc++-14-dev:armel libstdc++-14-dev-armel-cross libstdc++6:armel libstdc++6-armel-cross libtool libubsan1:armel libubsan1-armel-cross libuchardet0 libunistring5 libxml2 linux-libc-dev-armel-cross m4 man-db pkgconf:armel pkgconf-bin po-debconf rename sbuild-build-depends-main-dummy:armel sensible-utils 0 upgraded, 74 newly installed, 0 to remove and 0 not upgraded. Need to get 78.3 MB of archives. After this operation, 319 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [956 B] Get:2 http://localhost:3142/debian unstable/main amd64 sensible-utils all 0.0.25 [25.0 kB] Get:3 http://localhost:3142/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get:4 http://localhost:3142/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get:5 http://localhost:3142/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get:6 http://localhost:3142/debian unstable/main amd64 gettext-base amd64 0.23.1-2 [243 kB] Get:7 http://localhost:3142/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get:8 http://localhost:3142/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get:9 http://localhost:3142/debian unstable/main amd64 bsdextrautils amd64 2.41-5 [94.6 kB] Get:10 http://localhost:3142/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get:11 http://localhost:3142/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get:12 http://localhost:3142/debian unstable/main amd64 m4 amd64 1.4.19-8 [294 kB] Get:13 http://localhost:3142/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get:14 http://localhost:3142/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get:15 http://localhost:3142/debian unstable/main amd64 automake all 1:1.17-4 [862 kB] Get:16 http://localhost:3142/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get:17 http://localhost:3142/debian unstable/main amd64 binutils-arm-linux-gnueabi amd64 2.44-3 [1500 kB] Get:18 http://localhost:3142/debian unstable/main amd64 gcc-14-arm-linux-gnueabi-base amd64 14.2.0-19cross1 [49.7 kB] Get:19 http://localhost:3142/debian unstable/main amd64 cpp-14-arm-linux-gnueabi amd64 14.2.0-19cross1 [10.4 MB] Get:20 http://localhost:3142/debian unstable/main amd64 cpp-arm-linux-gnueabi amd64 4:14.2.0-1 [4132 B] Get:21 http://localhost:3142/debian unstable/main amd64 gcc-14-cross-base-ports all 14.2.0-19cross1 [44.9 kB] Get:22 http://localhost:3142/debian unstable/main amd64 libc6-armel-cross all 2.41-8cross1 [942 kB] Get:23 http://localhost:3142/debian unstable/main amd64 libgcc-s1-armel-cross all 14.2.0-19cross1 [39.0 kB] Get:24 http://localhost:3142/debian unstable/main amd64 libgomp1-armel-cross all 14.2.0-19cross1 [110 kB] Get:25 http://localhost:3142/debian unstable/main amd64 libatomic1-armel-cross all 14.2.0-19cross1 [9316 B] Get:26 http://localhost:3142/debian unstable/main amd64 libasan8-armel-cross all 14.2.0-19cross1 [2542 kB] Get:27 http://localhost:3142/debian unstable/main amd64 libstdc++6-armel-cross all 14.2.0-19cross1 [546 kB] Get:28 http://localhost:3142/debian unstable/main amd64 libubsan1-armel-cross all 14.2.0-19cross1 [1035 kB] Get:29 http://localhost:3142/debian unstable/main amd64 libgcc-14-dev-armel-cross all 14.2.0-19cross1 [763 kB] Get:30 http://localhost:3142/debian unstable/main amd64 gcc-14-arm-linux-gnueabi amd64 14.2.0-19cross1 [19.8 MB] Get:31 http://localhost:3142/debian unstable/main amd64 gcc-arm-linux-gnueabi amd64 4:14.2.0-1 [1452 B] Get:32 http://localhost:3142/debian unstable/main amd64 linux-libc-dev-armel-cross all 6.12.29-1cross1 [2381 kB] Get:33 http://localhost:3142/debian unstable/main amd64 libc6-dev-armel-cross all 2.41-8cross1 [1357 kB] Get:34 http://localhost:3142/debian unstable/main amd64 libstdc++-14-dev-armel-cross all 14.2.0-19cross1 [2344 kB] Get:35 http://localhost:3142/debian unstable/main amd64 g++-14-arm-linux-gnueabi amd64 14.2.0-19cross1 [11.4 MB] Get:36 http://localhost:3142/debian unstable/main amd64 g++-arm-linux-gnueabi amd64 4:14.2.0-1 [1204 B] Get:37 http://localhost:3142/debian unstable/main amd64 crossbuild-essential-armel all 12.12 [3552 B] Get:38 http://localhost:3142/debian unstable/main amd64 libdebhelper-perl all 13.24.2 [90.9 kB] Get:39 http://localhost:3142/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get:40 http://localhost:3142/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:41 http://localhost:3142/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:42 http://localhost:3142/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get:43 http://localhost:3142/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get:44 http://localhost:3142/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get:45 http://localhost:3142/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:46 http://localhost:3142/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get:47 http://localhost:3142/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-1 [698 kB] Get:48 http://localhost:3142/debian unstable/main amd64 gettext amd64 0.23.1-2 [1680 kB] Get:49 http://localhost:3142/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:50 http://localhost:3142/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:51 http://localhost:3142/debian unstable/main amd64 debhelper all 13.24.2 [919 kB] Get:52 http://localhost:3142/debian unstable/main amd64 dh-exec amd64 0.30 [25.6 kB] Get:53 http://localhost:3142/debian unstable/main amd64 libfakeroot amd64 1.37.1.2-1 [29.7 kB] Get:54 http://localhost:3142/debian unstable/main amd64 fakeroot amd64 1.37.1.2-1 [76.0 kB] Get:55 http://localhost:3142/debian unstable/main armel gcc-14-base armel 14.2.0-19 [49.4 kB] Get:56 http://localhost:3142/debian unstable/main armel libgcc-s1 armel 14.2.0-19 [38.9 kB] Get:57 http://localhost:3142/debian unstable/main armel libc6 armel 2.41-8 [2263 kB] Get:58 http://localhost:3142/debian unstable/main armel libasan8 armel 14.2.0-19 [2550 kB] Get:59 http://localhost:3142/debian unstable/main armel libatomic1 armel 14.2.0-19 [9572 B] Get:60 http://localhost:3142/debian unstable/main armel libcrypt1 armel 1:4.4.38-1 [97.4 kB] Get:61 http://localhost:3142/debian unstable/main armel libcrypt-dev armel 1:4.4.38-1 [127 kB] Get:62 http://localhost:3142/debian unstable/main armel libc6-dev armel 2.41-8 [1361 kB] Get:63 http://localhost:3142/debian unstable/main armel libgomp1 armel 14.2.0-19 [112 kB] Get:64 http://localhost:3142/debian unstable/main armel libstdc++6 armel 14.2.0-19 [594 kB] Get:65 http://localhost:3142/debian unstable/main armel libubsan1 armel 14.2.0-19 [1036 kB] Get:66 http://localhost:3142/debian unstable/main armel libgcc-14-dev armel 14.2.0-19 [761 kB] Get:67 http://localhost:3142/debian unstable/main amd64 libperl4-corelibs-perl all 0.005-1 [39.0 kB] Get:68 http://localhost:3142/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get:69 http://localhost:3142/debian unstable/main armel libsquid1t64 armel 1.9g+cvs20050121-15.1+b2 [65.8 kB] Get:70 http://localhost:3142/debian unstable/main armel libsquid-dev armel 1.9g+cvs20050121-15.1+b2 [134 kB] Get:71 http://localhost:3142/debian unstable/main armel libstdc++-14-dev armel 14.2.0-19 [2378 kB] Get:72 http://localhost:3142/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get:73 http://localhost:3142/debian unstable/main armel pkgconf armel 1.8.1-4 [26.1 kB] Get:74 http://localhost:3142/debian unstable/main amd64 rename all 2.02-1 [21.8 kB] Preconfiguring packages ... Fetched 78.3 MB in 1s (67.9 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 12888 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2_amd64.deb ... Unpacking gettext-base (0.23.1-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... 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Selecting previously unselected package sbuild-build-depends-main-dummy:armel. Preparing to unpack .../73-sbuild-build-depends-main-dummy_0.invalid.0_armel.deb ... Unpacking sbuild-build-depends-main-dummy:armel (0.invalid.0) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up binutils-arm-linux-gnueabi (2.44-3) ... Setting up bsdextrautils (2.41-5) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up gcc-14-base:armel (14.2.0-19) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.24.2) ... Setting up libperl4-corelibs-perl (0.005-1) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2) ... Setting up m4 (1.4.19-8) ... 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 (1:5.46-5) ... Setting up libfakeroot:amd64 (1.37.1.2-1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up linux-libc-dev-armel-cross (6.12.29-1cross1) ... Setting up fakeroot (1.37.1.2-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up gcc-14-arm-linux-gnueabi-base:amd64 (14.2.0-19cross1) ... Setting up autotools-dev (20240727.1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up autoconf (2.72-3.1) ... Setting up libc6-armel-cross (2.41-8cross1) ... Setting up dwz (0.15-1+b1) ... Setting up gcc-14-cross-base-ports (14.2.0-19cross1) ... Setting up sensible-utils (0.0.25) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libc6-dev-armel-cross (2.41-8cross1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-1) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-2) ... Setting up libgomp1-armel-cross (14.2.0-19cross1) ... Setting up libtool (2.5.4-4) ... Setting up cpp-14-arm-linux-gnueabi (14.2.0-19cross1) ... Setting up libgcc-s1-armel-cross (14.2.0-19cross1) ... Setting up libstdc++6-armel-cross (14.2.0-19cross1) ... Setting up libatomic1-armel-cross (14.2.0-19cross1) ... Setting up pkgconf:armel (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up cpp-arm-linux-gnueabi (4:14.2.0-1) ... Setting up libubsan1-armel-cross (14.2.0-19cross1) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-9) ... Setting up libasan8-armel-cross (14.2.0-19cross1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libgcc-14-dev-armel-cross (14.2.0-19cross1) ... Setting up debhelper (13.24.2) ... Setting up dh-exec (0.30) ... Setting up gcc-14-arm-linux-gnueabi (14.2.0-19cross1) ... Setting up libstdc++-14-dev-armel-cross (14.2.0-19cross1) ... Setting up g++-14-arm-linux-gnueabi (14.2.0-19cross1) ... Setting up gcc-arm-linux-gnueabi (4:14.2.0-1) ... Setting up g++-arm-linux-gnueabi (4:14.2.0-1) ... Setting up crossbuild-essential-armel (12.12) ... Setting up libgcc-s1:armel (14.2.0-19) ... Setting up libc6:armel (2.41-8) ... Setting up libasan8:armel (14.2.0-19) ... Setting up libsquid1t64:armel (1.9g+cvs20050121-15.1+b2) ... Setting up libstdc++6:armel (14.2.0-19) ... Setting up libcrypt1:armel (1:4.4.38-1) ... Setting up libgomp1:armel (14.2.0-19) ... Setting up libsquid-dev:armel (1.9g+cvs20050121-15.1+b2) ... Setting up libatomic1:armel (14.2.0-19) ... Setting up libubsan1:armel (14.2.0-19) ... Setting up libcrypt-dev:armel (1:4.4.38-1) ... Setting up libc6-dev:armel (2.41-8) ... Setting up libgcc-14-dev:armel (14.2.0-19) ... Setting up libstdc++-14-dev:armel (14.2.0-19) ... Setting up sbuild-build-depends-main-dummy:armel (0.invalid.0) ... Processing triggers for libc-bin (2.41-8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armel included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-32-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.129-1 (2025-03-06) amd64 (x86_64) Toolchain package versions: binutils_2.44-3 dpkg-dev_1.22.20 g++-14_14.2.0-19 gcc-14_14.2.0-19 libc6-dev_2.41-8 libstdc++-14-dev_14.2.0-19 libstdc++-14-dev-armel-cross_14.2.0-19cross1 libstdc++6_14.2.0-19 libstdc++6-armel-cross_14.2.0-19cross1 linux-libc-dev_6.12.32-1 Package versions: apt_3.0.2 apt-utils_3.0.2 autoconf_2.72-3.1 automake_1:1.17-4 autopoint_0.23.1-2 autotools-dev_20240727.1 base-files_13.8 base-passwd_3.6.7 bash_5.2.37-2+b2 binutils_2.44-3 binutils-arm-linux-gnueabi_2.44-3 binutils-common_2.44-3 binutils-x86-64-linux-gnu_2.44-3 bsdextrautils_2.41-5 bsdutils_1:2.41-5 build-essential_12.12 bzip2_1.0.8-6 coreutils_9.7-3 cpp_4:14.2.0-1 cpp-14_14.2.0-19 cpp-14-arm-linux-gnueabi_14.2.0-19cross1 cpp-14-x86-64-linux-gnu_14.2.0-19 cpp-arm-linux-gnueabi_4:14.2.0-1 cpp-x86-64-linux-gnu_4:14.2.0-1 crossbuild-essential-armel_12.12 dash_0.5.12-12 debconf_1.5.91 debhelper_13.24.2 debian-archive-keyring_2025.1 debianutils_5.23.1 dh-autoreconf_20 dh-exec_0.30 dh-strip-nondeterminism_1.14.1-2 diffutils_1:3.10-4 dpkg_1.22.20 dpkg-dev_1.22.20 dwz_0.15-1+b1 fakeroot_1.37.1.2-1 file_1:5.46-5 findutils_4.10.0-3 g++_4:14.2.0-1 g++-14_14.2.0-19 g++-14-arm-linux-gnueabi_14.2.0-19cross1 g++-14-x86-64-linux-gnu_14.2.0-19 g++-arm-linux-gnueabi_4:14.2.0-1 g++-x86-64-linux-gnu_4:14.2.0-1 gcc_4:14.2.0-1 gcc-14_14.2.0-19 gcc-14-arm-linux-gnueabi_14.2.0-19cross1 gcc-14-arm-linux-gnueabi-base_14.2.0-19cross1 gcc-14-base_14.2.0-19 gcc-14-cross-base-ports_14.2.0-19cross1 gcc-14-x86-64-linux-gnu_14.2.0-19 gcc-arm-linux-gnueabi_4:14.2.0-1 gcc-x86-64-linux-gnu_4:14.2.0-1 gettext_0.23.1-2 gettext-base_0.23.1-2 grep_3.11-4 groff-base_1.23.0-9 gzip_1.13-1 hostname_3.25 init-system-helpers_1.68 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2+b1 libapt-pkg7.0_3.0.2 libarchive-zip-perl_1.68-1 libasan8_14.2.0-19 libasan8-armel-cross_14.2.0-19cross1 libatomic1_14.2.0-19 libatomic1-armel-cross_14.2.0-19cross1 libattr1_1:2.5.2-3 libaudit-common_1:4.0.2-2 libaudit1_1:4.0.2-2+b2 libbinutils_2.44-3 libblkid1_2.41-5 libbsd0_0.12.2-2 libbz2-1.0_1.0.8-6 libc-bin_2.41-8 libc-dev-bin_2.41-8 libc6_2.41-8 libc6-armel-cross_2.41-8cross1 libc6-dev_2.41-8 libc6-dev-armel-cross_2.41-8cross1 libcap-ng0_0.8.5-4+b1 libcap2_1:2.75-8 libcc1-0_14.2.0-19 libcrypt-dev_1:4.4.38-1 libcrypt1_1:4.4.38-1 libctf-nobfd0_2.44-3 libctf0_2.44-3 libdb5.3t64_5.3.28+dfsg2-9 libdebconfclient0_0.278 libdebhelper-perl_13.24.2 libdpkg-perl_1.22.20 libelf1t64_0.192-4 libfakeroot_1.37.1.2-1 libfile-stripnondeterminism-perl_1.14.1-2 libgcc-14-dev_14.2.0-19 libgcc-14-dev-armel-cross_14.2.0-19cross1 libgcc-s1_14.2.0-19 libgcc-s1-armel-cross_14.2.0-19cross1 libgdbm-compat4t64_1.24-2 libgdbm6t64_1.24-2 libgmp10_2:6.3.0+dfsg-3 libgomp1_14.2.0-19 libgomp1-armel-cross_14.2.0-19cross1 libgprofng0_2.44-3 libhogweed6t64_3.10.1-1 libhwasan0_14.2.0-19 libisl23_0.27-1 libitm1_14.2.0-19 libjansson4_2.14-2+b3 liblastlog2-2_2.41-5 liblsan0_14.2.0-19 liblz4-1_1.10.0-4 liblzma5_5.8.1-1 libmagic-mgc_1:5.46-5 libmagic1t64_1:5.46-5 libmd0_1.1.0-2+b1 libmount1_2.41-5 libmpc3_1.3.1-1+b3 libmpfr6_4.2.2-1 libnettle8t64_3.10.1-1 libpam-modules_1.7.0-3 libpam-modules-bin_1.7.0-3 libpam-runtime_1.7.0-3 libpam0g_1.7.0-3 libpcre2-8-0_10.45-1 libperl4-corelibs-perl_0.005-1 libperl5.40_5.40.1-3 libpipeline1_1.5.8-1 libpkgconf3_1.8.1-4 libquadmath0_14.2.0-19 libseccomp2_2.6.0-2 libselinux1_3.8.1-1 libsemanage-common_3.8.1-1 libsemanage2_3.8.1-1 libsepol2_3.8.1-1 libsframe1_2.44-3 libsmartcols1_2.41-5 libsqlite3-0_3.46.1-6 libsquid-dev_1.9g+cvs20050121-15.1+b2 libsquid1t64_1.9g+cvs20050121-15.1+b2 libssl3t64_3.5.0-2 libstdc++-14-dev_14.2.0-19 libstdc++-14-dev-armel-cross_14.2.0-19cross1 libstdc++6_14.2.0-19 libstdc++6-armel-cross_14.2.0-19cross1 libsystemd0_257.6-1 libtinfo6_6.5+20250216-2 libtool_2.5.4-4 libtsan2_14.2.0-19 libubsan1_14.2.0-19 libubsan1-armel-cross_14.2.0-19cross1 libuchardet0_0.0.8-1+b2 libudev1_257.6-1 libunistring5_1.3-2 libuuid1_2.41-5 libxml2_2.12.7+dfsg+really2.9.14-1 libxxhash0_0.8.3-2 libzstd1_1.5.7+dfsg-1 linux-libc-dev_6.12.32-1 linux-libc-dev-armel-cross_6.12.29-1cross1 login_1:4.16.0-2+really2.41-5 login.defs_1:4.17.4-2 m4_1.4.19-8 make_4.4.1-2 man-db_2.13.1-1 mawk_1.3.4.20250131-1 mount_2.41-5 ncurses-base_6.5+20250216-2 ncurses-bin_6.5+20250216-2 openssl-provider-legacy_3.5.0-2 passwd_1:4.17.4-2 patch_2.8-1 perl_5.40.1-3 perl-base_5.40.1-3 perl-modules-5.40_5.40.1-3 pkgconf_1.8.1-4 pkgconf-bin_1.8.1-4 po-debconf_1.0.21+nmu1 rename_2.02-1 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.25 sqv_1.3.0-3 sysvinit-utils_3.14-4 tar_1.35+dfsg-3.1 tzdata_2025b-3 util-linux_2.41-5 xz-utils_5.8.1-1 zlib1g_1:1.3.dfsg+really1.3.1-1+b1 +------------------------------------------------------------------------------+ | 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----- 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 CONFIG_SITE=/etc/dpkg-cross/cross-config.armel DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=crossqa OLDPWD=/home/crossqa PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SBUILD_CONFIG=/tmp/tmp.NueUQFa3ZE/sbuild.conf SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=sid-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1000 SCHROOT_GROUP=crossqa SCHROOT_SESSION_ID=sid-amd64-sbuild-4b2a39e2-ba12-42ad-9f66-60214a75dbbb SCHROOT_UID=1000 SCHROOT_USER=crossqa SHELL=/bin/sh USER=crossqa XDG_SESSION_CLASS=user dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -aarmel -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package hmmer2 dpkg-buildpackage: info: source version 2.3.2+dfsg-12 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type arm-linux-gnueabi does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armel 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 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.m4:2845: 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.m4:697: 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.m4:2918: AC_TRY_LINK is expanded from... configure.ac:289: ACX_PTHREAD is expanded from... lib/m4sugar/m4sh.m4:697: 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=x86_64-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/arm-linux-gnueabi --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --host=arm-linux-gnueabi --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 arm-linux-gnueabi-gcc... arm-linux-gnueabi-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... yes checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether arm-linux-gnueabi-gcc accepts -g... yes checking for arm-linux-gnueabi-gcc option to enable C11 features... none needed checking for arm-linux-gnueabi-ranlib... arm-linux-gnueabi-ranlib checking for ar... /usr/bin/ar checking for arm-linux-gnueabi-pkg-config... /usr/bin/arm-linux-gnueabi-pkg-config checking pkg-config is at least version 0.9.0... yes checking build system type... x86_64-pc-linux-gnu checking host system type... arm-unknown-linux-gnueabi 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... arm-linux-gnueabi-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 -j1 make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/src' arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmalign.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c alphabet.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c core_algorithms.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c debug.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c display.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c emit.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c emulation.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c fast_algorithms.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c histogram.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmio.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c mathsupport.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c masks.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c misc.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c modelmakers.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c plan7.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c plan9.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c postprob.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c prior.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c pvm.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c threads.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c tophits.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c trace.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -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/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmbuild.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -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/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmcalibrate.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -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/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmconvert.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -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/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmemit.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -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/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmfetch.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -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/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmindex.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -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/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmpfam.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -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/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -D_XOPEN_SOURCE=500 `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -c hmmsearch.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fPIC -D_XOPEN_SOURCE=500 -DHAVE_CONFIG_H -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/arm-linux-gnueabi-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 arm-linux-gnueabi-ranlib libhmmer.a chmod 644 libhmmer.a make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/testsuite' arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -I../src -c alignalign_test.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o alignalign_test -L../src alignalign_test.o -lhmmer `/usr/bin/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -I../src -c evd_test.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o evd_test -L../src evd_test.o -lhmmer `/usr/bin/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -I../src -c masks_test.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o masks_test -L../src masks_test.o -lhmmer `/usr/bin/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -I../src -c parsingviterbi_test.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o parsingviterbi_test -L../src parsingviterbi_test.o -lhmmer `/usr/bin/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -I../src -c tophits_test.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o tophits_test -L../src tophits_test.o -lhmmer `/usr/bin/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -I../src -c trace_test.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o trace_test -L../src trace_test.o -lhmmer `/usr/bin/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -I../src -c viterbi_exercise.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o viterbi_exercise -L../src viterbi_exercise.o -lhmmer `/usr/bin/arm-linux-gnueabi-pkg-config --libs libsquid` -lm arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H `/usr/bin/arm-linux-gnueabi-pkg-config --cflags libsquid` -I../src -c weeviterbi_test.c arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_XOPEN_SOURCE=500 -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -o weeviterbi_test -L../src weeviterbi_test.o -lhmmer `/usr/bin/arm-linux-gnueabi-pkg-config --libs libsquid` -lm 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 -j1 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@/arm-linux-gnueabi/" \ -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 dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux.so.3.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 dpkg-deb: building package 'hmmer2' in '../hmmer2_2.3.2+dfsg-12_armel.deb'. dpkg-deb: building package 'hmmer2-dbgsym' in '../hmmer2-dbgsym_2.3.2+dfsg-12_armel.deb'. dpkg-deb: building package 'libhmmer2-dev' in '../libhmmer2-dev_2.3.2+dfsg-12_armel.deb'. dpkg-genbuildinfo --build=any -O../hmmer2_2.3.2+dfsg-12_armel.buildinfo dpkg-genchanges --build=any -O../hmmer2_2.3.2+dfsg-12_armel.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 2025-06-15T09:54:01Z +------------------------------------------------------------------------------+ | Finished Timed Build Commands | +------------------------------------------------------------------------------+ rm -Rf /<>/ ---------------------------------------------- I: Finished running 'rm -Rf /<>/'. Finished processing commands. -------------------------------------------------------------------------------- Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ hmmer2_2.3.2+dfsg-12_armel.changes: ----------------------------------- Format: 1.8 Date: Thu, 11 Apr 2024 09:59:24 +0200 Source: hmmer2 Binary: hmmer2 hmmer2-dbgsym libhmmer2-dev Built-For-Profiles: cross nocheck Architecture: armel Version: 2.3.2+dfsg-12 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team 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: 498cc07c32ea04c8a5890f1a2f337229fd154ae0 1248692 hmmer2-dbgsym_2.3.2+dfsg-12_armel.deb 6f8a716a2941a5adf013a65b3fa934bd5c39d4dd 5376 hmmer2_2.3.2+dfsg-12_armel.buildinfo d3ec4b9ecbb2065195e8e71e920f19388c7da953 277268 hmmer2_2.3.2+dfsg-12_armel.deb 6faa9eba1a08a4f7de7474009f7cbfb32e62d8b6 87324 libhmmer2-dev_2.3.2+dfsg-12_armel.deb Checksums-Sha256: 11b860500d2a20aab55ac43b1892c038cb026a0f75dbfe48a75fcae0323836f0 1248692 hmmer2-dbgsym_2.3.2+dfsg-12_armel.deb 8ef7e06e7dfef7563437578de9abccd9f71e58912c1b154dad85f06ace741c90 5376 hmmer2_2.3.2+dfsg-12_armel.buildinfo b366cc0a09806107459d46387cc4a67b2d16ca073fb7fa72861949e12804367b 277268 hmmer2_2.3.2+dfsg-12_armel.deb 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binutils-x86-64-linux-gnu (= 2.44-3), bsdextrautils (= 2.41-5), bsdutils (= 1:2.41-5), build-essential (= 12.12), bzip2 (= 1.0.8-6), coreutils (= 9.7-3), cpp (= 4:14.2.0-1), cpp-14 (= 14.2.0-19), cpp-14-x86-64-linux-gnu (= 14.2.0-19), cpp-x86-64-linux-gnu (= 4:14.2.0-1), dash (= 0.5.12-12), debconf (= 1.5.91), debhelper (= 13.24.2), debianutils (= 5.23.1), dh-autoreconf (= 20), dh-exec (= 0.30), dh-strip-nondeterminism (= 1.14.1-2), diffutils (= 1:3.10-4), dpkg (= 1.22.20), dpkg-dev (= 1.22.20), dwz (= 0.15-1+b1), file (= 1:5.46-5), findutils (= 4.10.0-3), g++ (= 4:14.2.0-1), g++-14 (= 14.2.0-19), g++-14-x86-64-linux-gnu (= 14.2.0-19), g++-x86-64-linux-gnu (= 4:14.2.0-1), gcc (= 4:14.2.0-1), gcc-14 (= 14.2.0-19), gcc-14-base (= 14.2.0-19), gcc-14-x86-64-linux-gnu (= 14.2.0-19), gcc-x86-64-linux-gnu (= 4:14.2.0-1), gettext (= 0.23.1-2), gettext-base (= 0.23.1-2), grep (= 3.11-4), groff-base (= 1.23.0-9), gzip (= 1.13-1), hostname (= 3.25), init-system-helpers (= 1.68), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-2+b1), libarchive-zip-perl (= 1.68-1), libasan8 (= 14.2.0-19), libatomic1 (= 14.2.0-19), libattr1 (= 1:2.5.2-3), libaudit-common (= 1:4.0.2-2), libaudit1 (= 1:4.0.2-2+b2), libbinutils (= 2.44-3), libblkid1 (= 2.41-5), libbz2-1.0 (= 1.0.8-6), libc-bin (= 2.41-8), libc-dev-bin (= 2.41-8), libc6 (= 2.41-8), libc6-dev (= 2.41-8), libcap-ng0 (= 0.8.5-4+b1), libcap2 (= 1:2.75-8), libcc1-0 (= 14.2.0-19), libcrypt-dev (= 1:4.4.38-1), libcrypt1 (= 1:4.4.38-1), libctf-nobfd0 (= 2.44-3), libctf0 (= 2.44-3), libdb5.3t64 (= 5.3.28+dfsg2-9), libdebconfclient0 (= 0.278), libdebhelper-perl (= 13.24.2), libdpkg-perl (= 1.22.20), libelf1t64 (= 0.192-4), libfile-stripnondeterminism-perl (= 1.14.1-2), libgcc-14-dev (= 14.2.0-19), libgcc-s1 (= 14.2.0-19), libgdbm-compat4t64 (= 1.24-2), libgdbm6t64 (= 1.24-2), libgmp10 (= 2:6.3.0+dfsg-3), libgomp1 (= 14.2.0-19), libgprofng0 (= 2.44-3), libhwasan0 (= 14.2.0-19), libisl23 (= 0.27-1), libitm1 (= 14.2.0-19), libjansson4 (= 2.14-2+b3), liblastlog2-2 (= 2.41-5), liblsan0 (= 14.2.0-19), liblzma5 (= 5.8.1-1), libmagic-mgc (= 1:5.46-5), libmagic1t64 (= 1:5.46-5), libmd0 (= 1.1.0-2+b1), libmount1 (= 2.41-5), libmpc3 (= 1.3.1-1+b3), libmpfr6 (= 4.2.2-1), libpam-modules (= 1.7.0-3), libpam-modules-bin (= 1.7.0-3), libpam-runtime (= 1.7.0-3), libpam0g (= 1.7.0-3), libpcre2-8-0 (= 10.45-1), libperl4-corelibs-perl (= 0.005-1), libperl5.40 (= 5.40.1-3), libpipeline1 (= 1.5.8-1), libpkgconf3 (= 1.8.1-4), libquadmath0 (= 14.2.0-19), libseccomp2 (= 2.6.0-2), libselinux1 (= 3.8.1-1), libsframe1 (= 2.44-3), libsmartcols1 (= 2.41-5), libsqlite3-0 (= 3.46.1-6), libsquid-dev (= 1.9g+cvs20050121-15.1+b2), libsquid1t64 (= 1.9g+cvs20050121-15.1+b2), libssl3t64 (= 3.5.0-2), libstdc++-14-dev (= 14.2.0-19), libstdc++6 (= 14.2.0-19), libsystemd0 (= 257.6-1), libtinfo6 (= 6.5+20250216-2), libtool (= 2.5.4-4), libtsan2 (= 14.2.0-19), libubsan1 (= 14.2.0-19), libuchardet0 (= 0.0.8-1+b2), libudev1 (= 257.6-1), libunistring5 (= 1.3-2), libuuid1 (= 2.41-5), libxml2 (= 2.12.7+dfsg+really2.9.14-1), libzstd1 (= 1.5.7+dfsg-1), linux-libc-dev (= 6.12.32-1), m4 (= 1.4.19-8), make (= 4.4.1-2), man-db (= 2.13.1-1), mawk (= 1.3.4.20250131-1), ncurses-base (= 6.5+20250216-2), ncurses-bin (= 6.5+20250216-2), openssl-provider-legacy (= 3.5.0-2), patch (= 2.8-1), perl (= 5.40.1-3), perl-base (= 5.40.1-3), perl-modules-5.40 (= 5.40.1-3), pkgconf (= 1.8.1-4), pkgconf-bin (= 1.8.1-4), po-debconf (= 1.0.21+nmu1), rename (= 2.02-1), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.25), sysvinit-utils (= 3.14-4), tar (= 1.35+dfsg-3.1), util-linux (= 2.41-5), xz-utils (= 5.8.1-1), zlib1g (= 1:1.3.dfsg+really1.3.1-1+b1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" SOURCE_DATE_EPOCH="1712822364" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ hmmer2-dbgsym_2.3.2+dfsg-12_armel.deb ------------------------------------- new Debian package, version 2.0. size 1248692 bytes: control archive=996 bytes. 707 bytes, 12 lines control 1038 bytes, 10 lines md5sums Package: hmmer2-dbgsym Source: hmmer2 Version: 2.3.2+dfsg-12 Auto-Built-Package: debug-symbols Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 2860 Depends: hmmer2 (= 2.3.2+dfsg-12) Section: debug Priority: optional Description: debug symbols for hmmer2 Build-Ids: 21de90df55b058855e03f7f650afa7c5781cf103 25de1cd0639254adf10ad34684c1f7efb049eabb 2f63f25dcb682dc690063368b509f0fe96b3628f 670497f2a95d57c83b8fa385da9d23769348674d 99094c096d22135f92203bea0d6bcd348bdfb7c7 c1af90044c0494632d61360c57a8a758e7750fe9 d9bfbb51cbda3886d2ba7045ae05641283911e9d f4651cf6d311f7d27d63ee7df8e4949c6d31814b ff757dc22cb2c4478ceb07c881016d2f1847ae70 drwxr-xr-x root/root 0 2024-04-11 07:59 ./ 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root/root 0 2024-04-11 07:59 ./usr/lib/debug/.dwz/arm-linux-gnueabi/ -rw-r--r-- root/root 16684 2024-04-11 07:59 ./usr/lib/debug/.dwz/arm-linux-gnueabi/hmmer2.debug 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/ lrwxrwxrwx root/root 0 2024-04-11 07:59 ./usr/share/doc/hmmer2-dbgsym -> hmmer2 hmmer2_2.3.2+dfsg-12_armel.deb ------------------------------ new Debian package, version 2.0. size 277268 bytes: control archive=2564 bytes. 849 bytes, 20 lines control 5091 bytes, 69 lines md5sums Package: hmmer2 Version: 2.3.2+dfsg-12 Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 2383 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 199072 2024-04-11 07:59 ./usr/bin/hmm2align -rwxr-xr-x root/root 201080 2024-04-11 07:59 ./usr/bin/hmm2build -rwxr-xr-x root/root 198976 2024-04-11 07:59 ./usr/bin/hmm2calibrate -rwxr-xr-x root/root 198856 2024-04-11 07:59 ./usr/bin/hmm2convert -rwxr-xr-x root/root 198776 2024-04-11 07:59 ./usr/bin/hmm2emit -rwxr-xr-x root/root 198508 2024-04-11 07:59 ./usr/bin/hmm2fetch -rwxr-xr-x root/root 198424 2024-04-11 07:59 ./usr/bin/hmm2index -rwxr-xr-x root/root 199828 2024-04-11 07:59 ./usr/bin/hmm2pfam -rwxr-xr-x root/root 199640 2024-04-11 07:59 ./usr/bin/hmm2search drwxr-xr-x root/root 0 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-rw-r--r-- root/root 2015 2024-04-11 07:59 ./usr/share/doc/hmmer2/examples/Makefile -rw-r--r-- root/root 1757 2024-04-11 07:59 ./usr/share/doc/hmmer2/examples/Makefile.in -rw-r--r-- root/root 392 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/Optiontests.fa -rw-r--r-- root/root 126 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/Optiontests.nfa -rw-r--r-- root/root 168 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/Optiontests.nslx -rw-r--r-- root/root 2122 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/Optiontests.pam -rw-r--r-- root/root 2816 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/Optiontests.pri -rw-r--r-- root/root 297 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/Optiontests.slx -rw-r--r-- root/root 3271 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/Optiontests.sto -rw-r--r-- root/root 2684 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/README -rw-r--r-- root/root 7729 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/alignalign_test.c -rw-r--r-- root/root 9913 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/evd_test.c -rw-r--r-- root/root 592 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/exercises-pvm.sqc -rw-r--r-- root/root 548 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/exercises-threaded.sqc -rw-r--r-- root/root 10522 2024-04-11 07:59 ./usr/share/doc/hmmer2/examples/exercises.sqc -rw-r--r-- root/root 1611 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/fitting_test.c -rw-r--r-- root/root 16930 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/fn3-bin -rw-r--r-- root/root 16930 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/fn3-bin-swap -rw-r--r-- root/root 31906 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/fn3.hmm -rw-r--r-- root/root 20514 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/fn3.seed -rw-r--r-- root/root 3926 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/masks_test.c -rw-r--r-- root/root 5491 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/parsingviterbi_test.c -rwxr-xr-x root/root 17674 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/sqc -rwxr-xr-x root/root 876 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/test1-conversion.pl -rw-r--r-- root/root 27349 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/titin.fa -rw-r--r-- root/root 4900 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tophits_test.c -rw-r--r-- root/root 4781 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/trace_test.c -rw-r--r-- root/root 4313 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/trace_test.hmm -rw-r--r-- root/root 514 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/trace_test.seq -rw-r--r-- root/root 112 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/trace_test.slx drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/share/doc/hmmer2/examples/tutorial/ -rw-r--r-- root/root 1489 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/Artemia.fa -rw-r--r-- root/root 418 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/amino.null -rw-r--r-- root/root 3014 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/amino.pri -rw-r--r-- root/root 33550 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/fn3.sto -rw-r--r-- root/root 25284 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/globins50.msf -rw-r--r-- root/root 101046 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/globins630.fa -rw-r--r-- root/root 195 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/nucleic.null -rw-r--r-- root/root 745 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/nucleic.pri -rw-r--r-- root/root 112640 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/pkinase.sto -rw-r--r-- root/root 29502 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/rrm.hmm -rw-r--r-- root/root 18294 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/tutorial/rrm.sto -rw-r--r-- root/root 5363 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/viterbi_exercise.c -rw-r--r-- root/root 5202 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/weeviterbi_test.c -rw-r--r-- root/root 27073 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/weeviterbi_test.hmm -rw-r--r-- root/root 535 2003-10-04 19:01 ./usr/share/doc/hmmer2/examples/weeviterbi_test.seq drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/share/man/ drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/share/man/man1/ -rw-r--r-- root/root 1748 2024-04-11 07:59 ./usr/share/man/man1/hmm2align.1.gz -rw-r--r-- root/root 4765 2024-04-11 07:59 ./usr/share/man/man1/hmm2build.1.gz -rw-r--r-- root/root 1703 2024-04-11 07:59 ./usr/share/man/man1/hmm2calibrate.1.gz -rw-r--r-- root/root 1113 2024-04-11 07:59 ./usr/share/man/man1/hmm2convert.1.gz -rw-r--r-- root/root 1364 2024-04-11 07:59 ./usr/share/man/man1/hmm2emit.1.gz -rw-r--r-- root/root 945 2024-04-11 07:59 ./usr/share/man/man1/hmm2fetch.1.gz -rw-r--r-- root/root 752 2024-04-11 07:59 ./usr/share/man/man1/hmm2index.1.gz -rw-r--r-- root/root 3395 2024-04-11 07:59 ./usr/share/man/man1/hmm2pfam.1.gz -rw-r--r-- root/root 3046 2024-04-11 07:59 ./usr/share/man/man1/hmm2search.1.gz -rw-r--r-- root/root 1691 2024-04-11 07:59 ./usr/share/man/man1/hmmer2.1.gz libhmmer2-dev_2.3.2+dfsg-12_armel.deb ------------------------------------- new Debian package, version 2.0. size 87324 bytes: control archive=1104 bytes. 876 bytes, 22 lines control 696 bytes, 10 lines md5sums Package: libhmmer2-dev Source: hmmer2 Version: 2.3.2+dfsg-12 Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 282 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/arm-linux-gnueabi/ -rw-r--r-- root/root 216748 2024-04-11 07:59 ./usr/lib/arm-linux-gnueabi/libhmmer.a drwxr-xr-x root/root 0 2024-04-11 07:59 ./usr/lib/arm-linux-gnueabi/pkgconfig/ -rw-r--r-- root/root 263 2024-04-11 07:59 ./usr/lib/arm-linux-gnueabi/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 2161 2024-04-11 07:59 ./usr/share/doc/libhmmer2-dev/changelog.gz -rw-r--r-- root/root 1411 2024-04-11 07:59 ./usr/share/doc/libhmmer2-dev/copyright lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: warning: root directory /<>/sbuild-build-depends-lintian-dummy has unusual owner or group 1000:119 dpkg-deb: hint: you might need to pass --root-owner-group, see for further details dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [615 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [1360 B] Get:5 copy:/<>/apt_archive ./ Packages [1439 B] Fetched 3414 B in 0s (0 B/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... Execute external solver... The following additional packages will be installed: appstream ca-certificates diffstat gpg gpgconf iso-codes libaliased-perl libappstream5 libapt-pkg-perl libassuan9 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libbrotli1 libcapture-tiny-perl libcgi-pm-perl libclass-data-inheritable-perl libclass-inspector-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcom-err2 libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libcurl3t64-gnutls libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdata-validate-ip-perl libdata-validate-uri-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libencode-locale-perl libexception-class-perl libffi8 libfile-basedir-perl libfile-find-rule-perl libfile-listing-perl libfile-sharedir-perl libfont-ttf-perl libgcrypt20 libglib2.0-0t64 libgnutls30t64 libgpg-error0 libgssapi-krb5-2 libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libidn2-0 libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libio-string-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libksba8 libldap2 liblist-compare-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libncursesw6 libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnpth0t64 libnumber-compare-perl libp11-kit0 libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libproc2-0 libpsl5t64 libreadline8t64 libregexp-wildcards-perl librole-tiny-perl librtmp1 libsasl2-2 libsasl2-modules-db libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libssh2-1t64 libstemmer0d libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libsyntax-keyword-try-perl libtasn1-6 libterm-readkey-perl libtext-charwidth-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-wrapi18n-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxmlb2 libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase openssl patchutils perl-openssl-defaults plzip procps readline-common shared-mime-info t1utils ucf unzip Suggested packages: apt-config-icons isoquery libxml-parser-perl rng-tools low-memory-monitor gnutls-bin krb5-doc krb5-user libdata-dump-perl libcrypt-ssleay-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libbusiness-isbn-perl libmime-base32-perl libregexp-ipv6-perl libauthen-ntlm-perl binutils-multiarch libtext-template-perl readline-doc zip Recommended packages: gnupg libcgi-fast-perl libglib2.0-data xdg-user-dirs libgpg-error-l10n libhtml-format-perl libio-compress-brotli-perl krb5-locales libldap-common liblist-someutils-xs-perl libfreezethaw-perl libgpm2 libmath-base85-perl libsocket6-perl libpackage-stash-xs-perl publicsuffix libsasl2-modules libxstring-perl libdata-dump-perl libhttp-daemon-perl libmailtools-perl libxml-sax-expat-perl psmisc linux-sysctl-defaults The following NEW packages will be installed: appstream ca-certificates diffstat gpg gpgconf iso-codes libaliased-perl libappstream5 libapt-pkg-perl libassuan9 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libbrotli1 libcapture-tiny-perl libcgi-pm-perl libclass-data-inheritable-perl libclass-inspector-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcom-err2 libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libcurl3t64-gnutls libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdata-validate-ip-perl libdata-validate-uri-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libencode-locale-perl libexception-class-perl libffi8 libfile-basedir-perl libfile-find-rule-perl libfile-listing-perl libfile-sharedir-perl libfont-ttf-perl libgcrypt20 libglib2.0-0t64 libgnutls30t64 libgpg-error0 libgssapi-krb5-2 libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libidn2-0 libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libio-string-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libksba8 libldap2 liblist-compare-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libncursesw6 libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnpth0t64 libnumber-compare-perl libp11-kit0 libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libproc2-0 libpsl5t64 libreadline8t64 libregexp-wildcards-perl librole-tiny-perl librtmp1 libsasl2-2 libsasl2-modules-db libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libssh2-1t64 libstemmer0d libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libsyntax-keyword-try-perl libtasn1-6 libterm-readkey-perl libtext-charwidth-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-wrapi18n-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxmlb2 libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase openssl patchutils perl-openssl-defaults plzip procps readline-common sbuild-build-depends-lintian-dummy:armel shared-mime-info t1utils ucf unzip 0 upgraded, 174 newly installed, 0 to remove and 0 not upgraded. Need to get 22.6 MB of archives. After this operation, 88.1 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [848 B] Get:2 http://localhost:3142/debian unstable/main amd64 netbase all 6.5 [12.4 kB] Get:3 http://localhost:3142/debian unstable/main amd64 libncursesw6 amd64 6.5+20250216-2 [135 kB] Get:4 http://localhost:3142/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-8 [65.4 kB] Get:5 http://localhost:3142/debian unstable/main amd64 procps amd64 2:4.0.4-8 [881 kB] Get:6 http://localhost:3142/debian unstable/main amd64 readline-common all 8.2-6 [69.4 kB] Get:7 http://localhost:3142/debian unstable/main amd64 openssl amd64 3.5.0-2 [1490 kB] Get:8 http://localhost:3142/debian unstable/main amd64 ca-certificates all 20250419 [162 kB] Get:9 http://localhost:3142/debian unstable/main amd64 libtext-charwidth-perl amd64 0.04-11+b4 [9476 B] Get:10 http://localhost:3142/debian unstable/main amd64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get:11 http://localhost:3142/debian unstable/main amd64 ucf all 3.0052 [43.3 kB] 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unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get:55 http://localhost:3142/debian unstable/main amd64 libdynaloader-functions-perl all 0.004-2 [12.2 kB] Get:56 http://localhost:3142/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.009-2 [15.6 kB] Get:57 http://localhost:3142/debian unstable/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get:58 http://localhost:3142/debian unstable/main amd64 libmodule-runtime-perl all 0.018-1 [17.8 kB] Get:59 http://localhost:3142/debian unstable/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get:60 http://localhost:3142/debian unstable/main amd64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get:61 http://localhost:3142/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get:62 http://localhost:3142/debian unstable/main amd64 libvariable-magic-perl amd64 0.64-1+b1 [44.9 kB] Get:63 http://localhost:3142/debian unstable/main amd64 libb-hooks-endofscope-perl all 0.28-2 [17.6 kB] Get:64 http://localhost:3142/debian unstable/main amd64 libberkeleydb-perl amd64 0.66-1 [121 kB] Get:65 http://localhost:3142/debian unstable/main amd64 libcapture-tiny-perl all 0.50-1 [24.6 kB] Get:66 http://localhost:3142/debian unstable/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get:67 http://localhost:3142/debian unstable/main amd64 liburi-perl all 5.30-1 [105 kB] Get:68 http://localhost:3142/debian unstable/main amd64 libhtml-parser-perl amd64 3.83-1+b2 [99.7 kB] Get:69 http://localhost:3142/debian unstable/main amd64 libcgi-pm-perl all 4.68-1 [217 kB] Get:70 http://localhost:3142/debian unstable/main amd64 libclass-data-inheritable-perl all 0.10-1 [8632 B] Get:71 http://localhost:3142/debian unstable/main amd64 libclass-inspector-perl all 1.36-3 [17.5 kB] Get:72 http://localhost:3142/debian unstable/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get:73 http://localhost:3142/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b5 [36.1 kB] Get:74 http://localhost:3142/debian unstable/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get:75 http://localhost:3142/debian unstable/main amd64 libconfig-tiny-perl all 2.30-1 [18.9 kB] Get:76 http://localhost:3142/debian unstable/main amd64 libparams-util-perl amd64 1.102-3+b1 [24.4 kB] Get:77 http://localhost:3142/debian unstable/main amd64 libsub-install-perl all 0.929-1 [10.5 kB] Get:78 http://localhost:3142/debian unstable/main amd64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get:79 http://localhost:3142/debian unstable/main amd64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get:80 http://localhost:3142/debian unstable/main amd64 libconst-fast-perl all 0.014-2 [8792 B] Get:81 http://localhost:3142/debian unstable/main amd64 libcpanel-json-xs-perl amd64 4.39-1 [130 kB] Get:82 http://localhost:3142/debian unstable/main amd64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get:83 http://localhost:3142/debian unstable/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get:84 http://localhost:3142/debian unstable/main amd64 libiterator-perl all 0.03+ds1-2 [18.8 kB] Get:85 http://localhost:3142/debian unstable/main amd64 libiterator-util-perl all 0.02+ds1-2 [14.0 kB] Get:86 http://localhost:3142/debian unstable/main amd64 libdata-dpath-perl all 0.60-1 [41.8 kB] Get:87 http://localhost:3142/debian unstable/main amd64 libdata-messagepack-perl amd64 1.02-2 [32.6 kB] Get:88 http://localhost:3142/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-4 [31.5 kB] Get:89 http://localhost:3142/debian unstable/main amd64 libdata-validate-domain-perl all 0.15-1 [11.9 kB] Get:90 http://localhost:3142/debian unstable/main amd64 libnet-ipv6addr-perl all 1.02-1 [21.7 kB] Get:91 http://localhost:3142/debian unstable/main amd64 libnet-netmask-perl all 2.0002-2 [28.6 kB] Get:92 http://localhost:3142/debian unstable/main amd64 libnetaddr-ip-perl amd64 4.079+dfsg-2+b5 [98.1 kB] Get:93 http://localhost:3142/debian unstable/main amd64 libdata-validate-ip-perl all 0.31-1 [20.6 kB] Get:94 http://localhost:3142/debian unstable/main amd64 libdata-validate-uri-perl all 0.07-3 [11.0 kB] Get:95 http://localhost:3142/debian unstable/main amd64 libdevel-size-perl amd64 0.84-1+b1 [24.2 kB] Get:96 http://localhost:3142/debian unstable/main amd64 libemail-address-xs-perl amd64 1.05-1+b4 [29.4 kB] Get:97 http://localhost:3142/debian unstable/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get:98 http://localhost:3142/debian unstable/main amd64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:99 http://localhost:3142/debian unstable/main amd64 libfile-basedir-perl all 0.09-2 [15.1 kB] Get:100 http://localhost:3142/debian unstable/main amd64 libnumber-compare-perl all 0.03-3 [6332 B] Get:101 http://localhost:3142/debian unstable/main amd64 libtext-glob-perl all 0.11-3 [7676 B] Get:102 http://localhost:3142/debian unstable/main amd64 libfile-find-rule-perl all 0.34-4 [25.6 kB] Get:103 http://localhost:3142/debian unstable/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:104 http://localhost:3142/debian unstable/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get:105 http://localhost:3142/debian unstable/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get:106 http://localhost:3142/debian unstable/main amd64 libfile-sharedir-perl all 1.118-3 [16.0 kB] Get:107 http://localhost:3142/debian unstable/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get:108 http://localhost:3142/debian unstable/main amd64 libfont-ttf-perl all 1.06-2 [318 kB] Get:109 http://localhost:3142/debian unstable/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get:110 http://localhost:3142/debian unstable/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get:111 http://localhost:3142/debian unstable/main amd64 libhttp-message-perl all 7.00-2 [79.8 kB] Get:112 http://localhost:3142/debian unstable/main amd64 libhtml-form-perl all 6.12-1 [32.3 kB] Get:113 http://localhost:3142/debian unstable/main amd64 libhtml-html5-entities-perl all 0.004-3 [21.0 kB] Get:114 http://localhost:3142/debian unstable/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get:115 http://localhost:3142/debian unstable/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get:116 http://localhost:3142/debian unstable/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get:117 http://localhost:3142/debian unstable/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get:118 http://localhost:3142/debian unstable/main amd64 libnet-ssleay-perl amd64 1.94-3 [339 kB] Get:119 http://localhost:3142/debian unstable/main amd64 libio-socket-ssl-perl all 2.089-1 [223 kB] Get:120 http://localhost:3142/debian unstable/main amd64 libnet-http-perl all 6.23-1 [23.9 kB] Get:121 http://localhost:3142/debian unstable/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get:122 http://localhost:3142/debian unstable/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:123 http://localhost:3142/debian unstable/main amd64 libwww-perl all 6.78-1 [183 kB] Get:124 http://localhost:3142/debian unstable/main amd64 libhtml-tokeparser-simple-perl all 3.16-4 [39.1 kB] Get:125 http://localhost:3142/debian unstable/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get:126 http://localhost:3142/debian unstable/main amd64 libio-interactive-perl all 1.027-1 [11.8 kB] Get:127 http://localhost:3142/debian unstable/main amd64 libipc-run3-perl all 0.049-1 [31.5 kB] Get:128 http://localhost:3142/debian unstable/main amd64 libjson-maybexs-perl all 1.004008-1 [12.9 kB] Get:129 http://localhost:3142/debian unstable/main amd64 liblist-compare-perl all 0.55-2 [65.7 kB] Get:130 http://localhost:3142/debian unstable/main amd64 liblist-someutils-perl all 0.59-1 [37.1 kB] Get:131 http://localhost:3142/debian unstable/main amd64 liblist-utilsby-perl all 0.12-2 [15.5 kB] Get:132 http://localhost:3142/debian unstable/main amd64 liblz1 amd64 1.15-3 [39.0 kB] Get:133 http://localhost:3142/debian unstable/main amd64 liblzo2-2 amd64 2.10-3+b1 [55.1 kB] Get:134 http://localhost:3142/debian unstable/main amd64 libmarkdown2 amd64 2.2.7-2.1 [36.0 kB] Get:135 http://localhost:3142/debian unstable/main amd64 libmldbm-perl all 2.05-4 [16.8 kB] Get:136 http://localhost:3142/debian unstable/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:137 http://localhost:3142/debian unstable/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get:138 http://localhost:3142/debian unstable/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get:139 http://localhost:3142/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:140 http://localhost:3142/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-2 [7156 B] Get:141 http://localhost:3142/debian unstable/main amd64 libmouse-perl amd64 2.5.11-1+b1 [144 kB] Get:142 http://localhost:3142/debian unstable/main amd64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get:143 http://localhost:3142/debian unstable/main amd64 libsub-identify-perl amd64 0.14-3+b3 [11.3 kB] Get:144 http://localhost:3142/debian unstable/main amd64 libsub-name-perl amd64 0.28-1 [12.2 kB] Get:145 http://localhost:3142/debian unstable/main amd64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get:146 http://localhost:3142/debian unstable/main amd64 libpath-tiny-perl all 0.148-1 [56.7 kB] Get:147 http://localhost:3142/debian unstable/main amd64 libperlio-gzip-perl amd64 0.20-1+b4 [17.5 kB] Get:148 http://localhost:3142/debian unstable/main amd64 libperlio-utf8-strict-perl amd64 0.010-1+b3 [11.4 kB] Get:149 http://localhost:3142/debian unstable/main amd64 libproc-processtable-perl amd64 0.636-1+b3 [42.3 kB] Get:150 http://localhost:3142/debian unstable/main amd64 libregexp-wildcards-perl all 1.05-3 [14.1 kB] Get:151 http://localhost:3142/debian unstable/main amd64 libsereal-decoder-perl amd64 5.004+ds-1+b3 [100 kB] Get:152 http://localhost:3142/debian unstable/main amd64 libsereal-encoder-perl amd64 5.004+ds-1+b3 [104 kB] Get:153 http://localhost:3142/debian unstable/main amd64 libsort-versions-perl all 1.62-3 [8928 B] Get:154 http://localhost:3142/debian unstable/main amd64 libxs-parse-keyword-perl amd64 0.48-2 [65.7 kB] Get:155 http://localhost:3142/debian unstable/main amd64 libsyntax-keyword-try-perl amd64 0.30-1+b1 [27.4 kB] Get:156 http://localhost:3142/debian unstable/main amd64 libterm-readkey-perl amd64 2.38-2+b4 [24.6 kB] Get:157 http://localhost:3142/debian unstable/main amd64 libtext-levenshteinxs-perl amd64 0.03-5+b4 [8720 B] Get:158 http://localhost:3142/debian unstable/main amd64 libtext-markdown-discount-perl amd64 0.18-1 [13.1 kB] Get:159 http://localhost:3142/debian unstable/main amd64 libtext-xslate-perl amd64 3.5.9-2+b1 [174 kB] Get:160 http://localhost:3142/debian unstable/main amd64 libtime-duration-perl all 1.21-2 [13.1 kB] Get:161 http://localhost:3142/debian unstable/main amd64 libtime-moment-perl amd64 0.44-2+b4 [73.2 kB] Get:162 http://localhost:3142/debian unstable/main amd64 libunicode-utf8-perl amd64 0.62-3 [20.1 kB] Get:163 http://localhost:3142/debian unstable/main amd64 libwww-mechanize-perl all 2.19-1 [114 kB] Get:164 http://localhost:3142/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:165 http://localhost:3142/debian unstable/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:166 http://localhost:3142/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-4 [53.4 kB] Get:167 http://localhost:3142/debian unstable/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-5+b2 [314 kB] Get:168 http://localhost:3142/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.903.0+ds-1 [35.4 kB] Get:169 http://localhost:3142/debian unstable/main amd64 plzip amd64 1.12-3 [65.0 kB] Get:170 http://localhost:3142/debian unstable/main amd64 lzop amd64 1.04-2 [84.2 kB] Get:171 http://localhost:3142/debian unstable/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get:172 http://localhost:3142/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:173 http://localhost:3142/debian unstable/main amd64 unzip amd64 6.0-29 [173 kB] Get:174 http://localhost:3142/debian unstable/main amd64 lintian all 2.122.0 [1063 kB] Preconfiguring packages ... Fetched 22.6 MB in 0s (106 MB/s) Selecting previously unselected package netbase. (Reading database ... 18570 files and directories currently installed.) Preparing to unpack .../000-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package libncursesw6:amd64. Preparing to unpack .../001-libncursesw6_6.5+20250216-2_amd64.deb ... Unpacking libncursesw6:amd64 (6.5+20250216-2) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-8_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-8) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-8_amd64.deb ... Unpacking procps (2:4.0.4-8) ... Selecting previously unselected package readline-common. Preparing to unpack .../004-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.5.0-2_amd64.deb ... Unpacking openssl (3.5.0-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libtext-charwidth-perl:amd64. Preparing to unpack .../007-libtext-charwidth-perl_0.04-11+b4_amd64.deb ... Unpacking libtext-charwidth-perl:amd64 (0.04-11+b4) ... Selecting previously unselected package libtext-wrapi18n-perl. Preparing to unpack .../008-libtext-wrapi18n-perl_0.06-10_all.deb ... Unpacking libtext-wrapi18n-perl (0.06-10) ... Selecting previously unselected package ucf. Preparing to unpack .../009-ucf_3.0052_all.deb ... Moving old data out of the way Unpacking ucf (3.0052) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../010-libffi8_3.4.8-2_amd64.deb ... Unpacking libffi8:amd64 (3.4.8-2) ... Selecting previously unselected package libglib2.0-0t64:amd64. 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Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../023-libgssapi-krb5-2_1.21.3-5_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-5) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../024-libsasl2-modules-db_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../025-libsasl2-2_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:amd64. Preparing to unpack .../026-libldap2_2.6.10+dfsg-1_amd64.deb ... Unpacking libldap2:amd64 (2.6.10+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../027-libnghttp2-14_1.64.0-1.1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1.1) ... Selecting previously unselected package libnghttp3-9:amd64. 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Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../034-libcurl3t64-gnutls_8.14.1-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.14.1-1) ... Selecting previously unselected package libstemmer0d:amd64. Preparing to unpack .../035-libstemmer0d_2.2.0-4+b2_amd64.deb ... Unpacking libstemmer0d:amd64 (2.2.0-4+b2) ... Selecting previously unselected package libxmlb2:amd64. Preparing to unpack .../036-libxmlb2_0.3.22-1_amd64.deb ... Unpacking libxmlb2:amd64 (0.3.22-1) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../037-libyaml-0-2_0.2.5-2_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.5-2) ... Selecting previously unselected package libappstream5:amd64. Preparing to unpack .../038-libappstream5_1.0.5-1_amd64.deb ... Unpacking libappstream5:amd64 (1.0.5-1) ... Selecting previously unselected package appstream. Preparing to unpack .../039-appstream_1.0.5-1_amd64.deb ... Unpacking appstream (1.0.5-1) ... Selecting previously unselected package diffstat. Preparing to unpack .../040-diffstat_1.67-1_amd64.deb ... Unpacking diffstat (1.67-1) ... Selecting previously unselected package libgpg-error0:amd64. Preparing to unpack .../041-libgpg-error0_1.51-4_amd64.deb ... Unpacking libgpg-error0:amd64 (1.51-4) ... Selecting previously unselected package libassuan9:amd64. Preparing to unpack .../042-libassuan9_3.0.2-2_amd64.deb ... Unpacking libassuan9:amd64 (3.0.2-2) ... Selecting previously unselected package libgcrypt20:amd64. Preparing to unpack .../043-libgcrypt20_1.11.0-7_amd64.deb ... Unpacking libgcrypt20:amd64 (1.11.0-7) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../044-libreadline8t64_8.2-6_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-6) ... Selecting previously unselected package gpgconf. Preparing to unpack .../045-gpgconf_2.4.7-21_amd64.deb ... Unpacking gpgconf (2.4.7-21) ... Selecting previously unselected package libksba8:amd64. Preparing to unpack .../046-libksba8_1.6.7-2+b1_amd64.deb ... Unpacking libksba8:amd64 (1.6.7-2+b1) ... Selecting previously unselected package libnpth0t64:amd64. 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Preparing to unpack .../145-libperlio-gzip-perl_0.20-1+b4_amd64.deb ... Unpacking libperlio-gzip-perl (0.20-1+b4) ... Selecting previously unselected package libperlio-utf8-strict-perl. Preparing to unpack .../146-libperlio-utf8-strict-perl_0.010-1+b3_amd64.deb ... Unpacking libperlio-utf8-strict-perl (0.010-1+b3) ... Selecting previously unselected package libproc-processtable-perl:amd64. Preparing to unpack .../147-libproc-processtable-perl_0.636-1+b3_amd64.deb ... Unpacking libproc-processtable-perl:amd64 (0.636-1+b3) ... Selecting previously unselected package libregexp-wildcards-perl. Preparing to unpack .../148-libregexp-wildcards-perl_1.05-3_all.deb ... Unpacking libregexp-wildcards-perl (1.05-3) ... Selecting previously unselected package libsereal-decoder-perl. Preparing to unpack .../149-libsereal-decoder-perl_5.004+ds-1+b3_amd64.deb ... Unpacking libsereal-decoder-perl (5.004+ds-1+b3) ... Selecting previously unselected package libsereal-encoder-perl. 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Setting up libksba8:amd64 (1.6.7-2+b1) ... Setting up libhttp-date-perl (6.06-1) ... Setting up libfile-basedir-perl (0.09-2) ... Setting up libfile-listing-perl (6.16-1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnet-http-perl (6.23-1) ... Setting up libtext-markdown-discount-perl (0.18-1) ... Setting up libexception-class-perl (1.45-1) ... Setting up libdevel-callchecker-perl:amd64 (0.009-2) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libglib2.0-0t64:amd64 (2.84.2-1) ... No schema files found: doing nothing. Setting up libdata-validate-uri-perl (0.07-3) ... Setting up libxs-parse-keyword-perl (0.48-2) ... Setting up shared-mime-info (2.4-5+b2) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up ucf (3.0052) ... Setting up libreadline8t64:amd64 (8.2-6) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libsyntax-keyword-try-perl (0.30-1+b1) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b2) ... Setting up gpgconf (2.4.7-21) ... Setting up libio-socket-ssl-perl (2.089-1) ... Setting up gpg (2.4.7-21) ... Setting up libsub-exporter-perl (0.990-1) ... Setting up libhttp-message-perl (7.00-2) ... Setting up libhtml-form-perl (6.12-1) ... Setting up libgnutls30t64:amd64 (3.8.9-2) ... Setting up libiterator-perl (0.03+ds1-2) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up libiterator-util-perl (0.02+ds1-2) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libxmlb2:amd64 (0.3.22-1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up libcgi-pm-perl (4.68-1) ... Setting up libxml-sax-perl (1.02+dfsg-4) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libmodule-runtime-perl (0.018-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-5+b2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Setting up libconst-fast-perl (0.014-2) ... Setting up libdata-dpath-perl (0.60-1) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.11.0-1) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up libcurl3t64-gnutls:amd64 (8.14.1-1) ... Setting up liblist-someutils-perl (0.59-1) ... Setting up libappstream5:amd64 (1.0.5-1) ... Setting up appstream (1.0.5-1) ... ✔ Metadata cache was updated successfully. Setting up libmoox-aliases-perl (0.001006-2) ... Setting up libb-hooks-endofscope-perl (0.28-2) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libwww-perl (6.78-1) ... Setting up libhtml-tokeparser-simple-perl (3.16-4) ... Setting up libwww-mechanize-perl (2.19-1) ... Setting up lintian (2.122.0) ... Setting up sbuild-build-depends-lintian-dummy:armel (0.invalid.0) ... Processing triggers for libc-bin (2.41-8) ... Processing triggers for man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Running lintian... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: n/a Build-Time: 16 Distribution: unstable Foreign Architectures: armel Host Architecture: armel Install-Time: 9 Job: hmmer2_2.3.2+dfsg-12 Lintian: pass Machine Architecture: amd64 Package: hmmer2 Package-Time: 35 Source-Version: 2.3.2+dfsg-12 Space: n/a Status: successful Version: 2.3.2+dfsg-12 -------------------------------------------------------------------------------- Finished at 2025-06-15T09:54:01Z Build needed 00:00:35, no disk space