sbuild (Debian sbuild) 0.91.5 (17 December 2025) on carme.larted.org.uk +==============================================================================+ | hmmer 3.4+dfsg-3 (amd64) Sun, 26 Apr 2026 23:23:03 +0000 | +==============================================================================+ Package: hmmer Version: 3.4+dfsg-3 Source Version: 3.4+dfsg-3 Distribution: perl-5.42-throwaway Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: full I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... +------------------------------------------------------------------------------+ | Chroot Setup Commands Sun, 26 Apr 2026 23:23:05 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup hmmer_3.4+dfsg-3 perl-5.42-throwaway amd64 ----------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup hmmer_3.4+dfsg-3 perl-5.42-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Sun, 26 Apr 2026 23:23:05 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.42 InRelease [3042 B] Get:2 http://deb.debian.org/debian unstable InRelease [187 kB] Get:1 file:/srv/reprepro perl-5.42 InRelease [3042 B] Get:3 http://deb.debian.org/debian sid InRelease [187 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 Packages.diff/Index [63.6 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 Packages T-2026-04-26-2001.18-F-2026-04-26-2001.18.pdiff [108 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 Packages T-2026-04-26-2001.18-F-2026-04-26-2001.18.pdiff [108 kB] Get:6 http://deb.debian.org/debian sid/main Sources.diff/Index [63.6 kB] Get:7 http://deb.debian.org/debian sid/main Sources T-2026-04-26-2001.18-F-2026-04-26-2001.18.pdiff [30.1 kB] Get:7 http://deb.debian.org/debian sid/main Sources T-2026-04-26-2001.18-F-2026-04-26-2001.18.pdiff [30.1 kB] Fetched 639 kB in 3s (242 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: bsdutils libassuan9 libblkid1 libbsd0 liblastlog2-2 libmount1 libsmartcols1 libuuid1 util-linux 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2091 kB of archives. After this operation, 2048 B disk space will be freed. Get:1 http://deb.debian.org/debian unstable/main amd64 libsmartcols1 amd64 2.42-5 [144 kB] Get:2 http://deb.debian.org/debian unstable/main amd64 libuuid1 amd64 2.42-5 [33.0 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 libblkid1 amd64 2.42-5 [172 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 libmount1 amd64 2.42-5 [213 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 util-linux amd64 2.42-5 [1222 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 libbsd0 amd64 0.12.2-2+b2 [132 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 bsdutils amd64 1:2.42-5 [90.4 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 libassuan9 amd64 3.0.2-2+b2 [60.7 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 liblastlog2-2 amd64 2.42-5 [23.9 kB] Fetched 2091 kB in 0s (53.6 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 23451 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.42-5_amd64.deb ... Unpacking libsmartcols1:amd64 (2.42-5) over (2.42-4) ... Setting up libsmartcols1:amd64 (2.42-5) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 23451 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.42-5_amd64.deb ... Unpacking bsdutils (1:2.42-5) over (1:2.42-4) ... Preparing to unpack .../libassuan9_3.0.2-2+b2_amd64.deb ... Unpacking libassuan9:amd64 (3.0.2-2+b2) over (3.0.2-2+b1) ... Preparing to unpack .../liblastlog2-2_2.42-5_amd64.deb ... Unpacking liblastlog2-2:amd64 (2.42-5) over (2.42-4) ... Setting up bsdutils (1:2.42-5) ... Setting up liblastlog2-2:amd64 (2.42-5) ... Setting up libassuan9:amd64 (3.0.2-2+b2) ... Processing triggers for libc-bin (2.42-15) ... +------------------------------------------------------------------------------+ | Fetch source files Sun, 26 Apr 2026 23:23:13 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/hmmer_3.4+dfsg-3.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Sun, 26 Apr 2026 23:23:14 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libdivsufsort-dev, python3, build-essential Filtered Build-Depends: debhelper-compat (= 13), libdivsufsort-dev, python3, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/hmmer-Mjf7Ny/resolver-wcdGcW/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/hmmer-Mjf7Ny/resolver-wcdGcW/apt_archive ./ InRelease Get:2 copy:/build/hmmer-Mjf7Ny/resolver-wcdGcW/apt_archive ./ Release [609 B] Ign:3 copy:/build/hmmer-Mjf7Ny/resolver-wcdGcW/apt_archive ./ Release.gpg Get:4 copy:/build/hmmer-Mjf7Ny/resolver-wcdGcW/apt_archive ./ Sources [628 B] Get:5 copy:/build/hmmer-Mjf7Ny/resolver-wcdGcW/apt_archive ./ Packages [667 B] Fetched 1904 B in 0s (123 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdivsufsort-dev libdivsufsort3 libelf1t64 libexpat1 libfile-stripnondeterminism-perl libmagic-mgc libmagic1t64 libpipeline1 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libtool libuchardet0 libxml2-16 m4 man-db media-types netbase po-debconf python3 python3-minimal python3.13 python3.13-minimal sensible-utils tzdata Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff libtool-doc gfortran | fortran95-compiler m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python3.13-venv python3.13-doc binfmt-support Recommended packages: curl | wget | lynx libarchive-cpio-perl libltdl-dev libmail-sendmail-perl ca-certificates The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdivsufsort-dev libdivsufsort3 libelf1t64 libexpat1 libfile-stripnondeterminism-perl libmagic-mgc libmagic1t64 libpipeline1 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libtool libuchardet0 libxml2-16 m4 man-db media-types netbase po-debconf python3 python3-minimal python3.13 python3.13-minimal sbuild-build-depends-main-dummy sensible-utils tzdata 0 upgraded, 42 newly installed, 0 to remove and 0 not upgraded. Need to get 17.2 MB of archives. After this operation, 65.0 MB of additional disk space will be used. Get:1 copy:/build/hmmer-Mjf7Ny/resolver-wcdGcW/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [876 B] Get:2 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.8.0-1 [116 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.12-1 [866 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.12-1 [2267 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.13.9-3 [27.6 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 media-types all 14.0.0 [30.8 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 netbase all 6.5 [12.4 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 tzdata all 2026b-1 [260 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.12-1 [1974 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.12-1 [776 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.13.9-3 [10.5 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.13.9-3 [27.6 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5+b2 [337 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5+b2 [109 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5+b2 [42.6 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.2-2 [242 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b1 [68.8 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.24.1-1 [1336 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.42-5 [99.4 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-3 [49.2 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get:23 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.21-1 [332 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-6 [494 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1+nmu1 [60.0 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-4 [877 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.2-2 [770 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.31 [75.7 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-11 [539 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 22 [12.2 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:32 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get:33 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get:34 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.195-1 [58.1 kB] Get:35 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-4 [108 kB] Get:36 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.2+dfsg-0.1 [641 kB] Get:37 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.2-2 [1684 kB] Get:38 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:39 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.22 [216 kB] Get:40 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.31 [932 kB] Get:41 http://deb.debian.org/debian unstable/main amd64 libdivsufsort3 amd64 2.0.1-7+b1 [46.1 kB] Get:42 http://deb.debian.org/debian unstable/main amd64 libdivsufsort-dev amd64 2.0.1-7+b1 [19.1 kB] Preconfiguring packages ... Fetched 17.2 MB in 0s (139 MB/s) Selecting previously unselected package libexpat1:amd64. (Reading database ... 23451 files and directories currently installed.) Preparing to unpack .../libexpat1_2.8.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.8.0-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.12-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.12-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.12-1_amd64.deb ... Unpacking python3.13-minimal (3.13.12-1) ... Setting up libpython3.13-minimal:amd64 (3.13.12-1) ... Setting up libexpat1:amd64 (2.8.0-1) ... Setting up python3.13-minimal (3.13.12-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 23785 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.9-3_amd64.deb ... Unpacking python3-minimal (3.13.9-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_14.0.0_all.deb ... Unpacking media-types (14.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2026b-1_all.deb ... Unpacking tzdata (2026b-1) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../4-libpython3.13-stdlib_3.13.12-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.12-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../5-python3.13_3.13.12-1_amd64.deb ... Unpacking python3.13 (3.13.12-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../6-libpython3-stdlib_3.13.9-3_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.9-3) ... Setting up python3-minimal (3.13.9-3) ... Selecting previously unselected package python3. (Reading database ... 24764 files and directories currently installed.) Preparing to unpack .../00-python3_3.13.9-3_amd64.deb ... Unpacking python3 (3.13.9-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.46-5+b2_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5+b2) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../03-libmagic1t64_1%3a5.46-5+b2_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5+b2) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.46-5+b2_amd64.deb ... Unpacking file (1:5.46-5+b2) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.23.2-2_amd64.deb ... Unpacking gettext-base (0.23.2-2) ... 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Unpacking libxml2-16:amd64 (2.15.2+dfsg-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.2-2_amd64.deb ... Unpacking gettext (0.23.2-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.22_all.deb ... Unpacking po-debconf (1.0.22) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.31_all.deb ... Unpacking debhelper (13.31) ... Selecting previously unselected package libdivsufsort3:amd64. Preparing to unpack .../29-libdivsufsort3_2.0.1-7+b1_amd64.deb ... Unpacking libdivsufsort3:amd64 (2.0.1-7+b1) ... Selecting previously unselected package libdivsufsort-dev:amd64. Preparing to unpack .../30-libdivsufsort-dev_2.0.1-7+b1_amd64.deb ... Unpacking libdivsufsort-dev:amd64 (2.0.1-7+b1) ... Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../31-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up media-types (14.0.0) ... Setting up libpipeline1:amd64 (1.5.8-3) ... Setting up bsdextrautils (2.42-5) ... Setting up libmagic-mgc (1:5.46-5+b2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.15.2+dfsg-0.1) ... Setting up libdebhelper-perl (13.31) ... Setting up libmagic1t64:amd64 (1:5.46-5+b2) ... Setting up gettext-base (0.23.2-2) ... Setting up m4 (1.4.21-1) ... Setting up file (1:5.46-5+b2) ... Setting up libelf1t64:amd64 (0.195-1) ... Setting up tzdata (2026b-1) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Apr 26 23:23:23 UTC 2026. Universal Time is now: Sun Apr 26 23:23:23 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1+nmu1) ... Setting up autopoint (0.23.2-2) ... Setting up autoconf (2.72-6) ... Setting up dwz (0.16-4) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-2+b1) ... Setting up netbase (6.5) ... Configuration file '/etc/protocols' ==> File on system created by you or by a script. ==> File also in package provided by package maintainer. ==> Using current old file as you requested. Configuration file '/etc/services' ==> File on system created by you or by a script. ==> File also in package provided by package maintainer. ==> Using current old file as you requested. Setting up libdivsufsort3:amd64 (2.0.1-7+b1) ... Setting up libpython3.13-stdlib:amd64 (3.13.12-1) ... Setting up libpython3-stdlib:amd64 (3.13.9-3) ... Setting up libdivsufsort-dev:amd64 (2.0.1-7+b1) ... Setting up automake (1:1.18.1-4) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up gettext (0.23.2-2) ... Setting up libtool (2.5.4-11) ... Setting up python3.13 (3.13.12-1) ... Setting up python3 (3.13.9-3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (22) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.24.1-1) ... Setting up po-debconf (1.0.22) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.31) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.42-15) ... +------------------------------------------------------------------------------+ | Check architectures Sun, 26 Apr 2026 23:23:24 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment Sun, 26 Apr 2026 23:23:24 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.18.5+deb14-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.18.5-1 (2026-01-16) amd64 (x86_64) Toolchain package versions: binutils_2.46-3 dpkg-dev_1.23.7 g++-14_14.3.0-14 g++-15_15.2.0-17 gcc-14_14.3.0-14 gcc-15_15.2.0-17 libc6-dev_2.42-15 libstdc++-14-dev_14.3.0-14 libstdc++-15-dev_15.2.0-17 libstdc++6_16-20260425-1 linux-libc-dev_6.19.14-1 Package versions: adduser_3.155 apt_3.2.0 autoconf_2.72-6 automake_1:1.18.1-4 autopoint_0.23.2-2 autotools-dev_20240727.1+nmu1 base-files_14 base-passwd_3.6.8 bash_5.3-2 binutils_2.46-3 binutils-common_2.46-3 binutils-gold_2.44-3 binutils-gold-x86-64-linux-gnu_2.44-3 binutils-x86-64-linux-gnu_2.46-3 bsdextrautils_2.42-5 bsdutils_1:2.42-5 build-essential_12.12 bzip2_1.0.8-6+b2 coreutils_9.10-1 cpp_4:15.2.0-5+b1 cpp-14_14.3.0-14 cpp-14-x86-64-linux-gnu_14.3.0-14 cpp-15_15.2.0-17 cpp-15-x86-64-linux-gnu_15.2.0-17 cpp-x86-64-linux-gnu_4:15.2.0-5+b1 dash_0.5.12-12 debconf_1.5.92 debhelper_13.31 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_22 dh-strip-nondeterminism_1.15.0-1 diffutils_1:3.12-1 dirmngr_2.4.9-4 dpkg_1.23.7 dpkg-dev_1.23.7 dwz_0.16-4 eatmydata_131-2 file_1:5.46-5+b2 findutils_4.10.0-3 g++_4:15.2.0-5+b1 g++-14_14.3.0-14 g++-14-x86-64-linux-gnu_14.3.0-14 g++-15_15.2.0-17 g++-15-x86-64-linux-gnu_15.2.0-17 g++-x86-64-linux-gnu_4:15.2.0-5+b1 gcc_4:15.2.0-5+b1 gcc-14_14.3.0-14 gcc-14-base_14.3.0-14 gcc-14-x86-64-linux-gnu_14.3.0-14 gcc-15_15.2.0-17 gcc-15-base_15.2.0-17 gcc-15-x86-64-linux-gnu_15.2.0-17 gcc-16-base_16-20260425-1 gcc-x86-64-linux-gnu_4:15.2.0-5+b1 gettext_0.23.2-2 gettext-base_0.23.2-2 gnupg_2.4.9-4 gnupg-l10n_2.4.9-4 gpg_2.4.9-4 gpg-agent_2.4.9-4 gpgconf_2.4.9-4 gpgsm_2.4.9-4 grep_3.12-1 groff-base_1.24.1-1 gzip_1.13-1 hostname_3.25 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-3 libapt-pkg7.0_3.2.0 libarchive-zip-perl_1.68-1 libasan8_16-20260425-1 libassuan9_3.0.2-2+b2 libatomic1_16-20260425-1 libattr1_1:2.5.2-4 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b1 libbinutils_2.46-3 libblkid1_2.42-5 libbsd0_0.12.2-2+b2 libbz2-1.0_1.0.8-6+b2 libc-bin_2.42-15 libc-dev-bin_2.42-15 libc-gconv-modules-extra_2.42-15 libc-l10n_2.42-15 libc6_2.42-15 libc6-dev_2.42-15 libcap-ng0_0.9.3-1 libcap2_1:2.78-1 libcc1-0_16-20260425-1 libcrypt-dev_1:4.5.1-1+b1 libcrypt1_1:4.5.1-1+b1 libctf-nobfd0_2.46-3 libctf0_2.46-3 libdb5.3t64_5.3.28+dfsg2-11+b1 libdebconfclient0_0.282+b3 libdebhelper-perl_13.31 libdivsufsort-dev_2.0.1-7+b1 libdivsufsort3_2.0.1-7+b1 libdpkg-perl_1.23.7 libeatmydata1_131-2+b2 libelf1t64_0.195-1 libexpat1_2.8.0-1 libffi8_3.5.2-4 libfile-stripnondeterminism-perl_1.15.0-1 libgcc-14-dev_14.3.0-14 libgcc-15-dev_15.2.0-17 libgcc-s1_16-20260425-1 libgcrypt20_1.12.2-1 libgdbm-compat4t64_1.26-1+b2 libgdbm6t64_1.26-1+b2 libgmp10_2:6.3.0+dfsg-5+b2 libgnutls30t64_3.8.12-3 libgomp1_16-20260425-1 libgpg-error0_1.59-4 libgprofng0_2.46-3 libhogweed6t64_3.10.2-1+b1 libhwasan0_16-20260425-1 libidn2-0_2.3.8-4+b1 libisl23_0.27-2 libitm1_16-20260425-1 libjansson4_2.14-2+b4 libksba8_1.6.8-2 liblastlog2-2_2.42-5 libldap2_2.6.10+dfsg-1+b2 liblsan0_16-20260425-1 liblz4-1_1.10.0-10 liblzma5_5.8.3-1 libmagic-mgc_1:5.46-5+b2 libmagic1t64_1:5.46-5+b2 libmd0_1.1.0-2+b2 libmount1_2.42-5 libmpc3_1.3.1-3 libmpfr6_4.2.2-3 libncursesw6_6.6+20251231-1 libnettle8t64_3.10.2-1+b1 libnpth0t64_1.8-3+b1 libp11-kit0_0.26.2-2 libpam-modules_1.7.0-5+b1 libpam-modules-bin_1.7.0-5+b1 libpam-runtime_1.7.0-5 libpam0g_1.7.0-5+b1 libpcre2-8-0_10.46-1+b1 libperl5.40_5.40.1-7+b2 libperl5.42_5.42.2-1 libpipeline1_1.5.8-3 libpython3-stdlib_3.13.9-3 libpython3.13-minimal_3.13.12-1 libpython3.13-stdlib_3.13.12-1 libquadmath0_16-20260425-1 libreadline8t64_8.3-4 libsasl2-2_2.1.28+dfsg1-11 libsasl2-modules-db_2.1.28+dfsg1-11 libseccomp2_2.6.0-2+b1 libselinux1_3.10-1 libsemanage-common_3.10-1 libsemanage2_3.10-1 libsepol2_3.10-1 libsframe2_2.45.50.20251209-1+b1 libsframe3_2.46-3 libsmartcols1_2.42-5 libsqlite3-0_3.46.1-9+b1 libssl3t64_3.6.2-1 libstdc++-14-dev_14.3.0-14 libstdc++-15-dev_15.2.0-17 libstdc++6_16-20260425-1 libsystemd0_260.1-1 libtasn1-6_4.21.0-2 libtinfo6_6.6+20251231-1 libtool_2.5.4-11 libtsan2_16-20260425-1 libubsan1_16-20260425-1 libuchardet0_0.0.8-2+b1 libudev1_260.1-1 libunistring5_1.4.2-1 libuuid1_2.42-5 libxml2-16_2.15.2+dfsg-0.1 libxxhash0_0.8.3-2+b1 libzstd1_1.5.7+dfsg-3+b1 linux-libc-dev_6.19.14-1 locales-all_2.42-15 login.defs_1:4.19.3-2 m4_1.4.21-1 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20260302-1 media-types_14.0.0 ncurses-base_6.6+20251231-1 ncurses-bin_6.6+20251231-1 netbase_6.5 openssl-provider-legacy_3.6.2-1 passwd_1:4.19.3-2 patch_2.8-2 perl_5.42.2-1 perl-base_5.42.2-1 perl-modules-5.40_5.40.1-7 perl-modules-5.42_5.42.2-1 pinentry-curses_1.3.2-4 po-debconf_1.0.22 python3_3.13.9-3 python3-minimal_3.13.9-3 python3.13_3.13.12-1 python3.13-minimal_3.13.12-1 readline-common_8.3-4 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-3 sensible-utils_0.0.26 sqv_1.3.0-5+b1 sysvinit-utils_3.18-1 tar_1.35+dfsg-4 tzdata_2026b-1 util-linux_2.42-5 xz-utils_5.8.3-1 zlib1g_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Sun, 26 Apr 2026 23:23:25 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: hmmer Binary: hmmer, hmmer-doc, hmmer-examples Architecture: any all Version: 3.4+dfsg-3 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: http://hmmer.org/ Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/hmmer Vcs-Git: https://salsa.debian.org/med-team/hmmer.git Testsuite: autopkgtest Testsuite-Triggers: python3 Build-Depends: debhelper-compat (= 13), libdivsufsort-dev, python3 Package-List: hmmer deb science optional arch=any-amd64,any-i386,arm64,powerpc,ppc64,x32 hmmer-doc deb doc optional arch=all hmmer-examples deb doc optional arch=any Checksums-Sha1: 69590adb499ca8e4eea9d2ed10fb66ae42e82ea8 13297988 hmmer_3.4+dfsg.orig.tar.xz 1996bb01d664abff34eac52b5b57ef7e11d4a714 12996 hmmer_3.4+dfsg-3.debian.tar.xz Checksums-Sha256: 87ada77366ed6ab0159a0c1217f8a55cbe9a708c4a98cf644929eb3703ce3309 13297988 hmmer_3.4+dfsg.orig.tar.xz 3864769123ce5f52fca65a9fad242e1930dc813e28baca4d09075d143379deda 12996 hmmer_3.4+dfsg-3.debian.tar.xz Files: ac66418b48c613d96d43770f971a22d3 13297988 hmmer_3.4+dfsg.orig.tar.xz 1381e0ec563f438fa48b147b0c6b4335 12996 hmmer_3.4+dfsg-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEE1Uw7+v+wQt44LaXXQc5/C58bizIFAmjagNoACgkQQc5/C58b izIqwgf/aS9ZDyRa/dCnDzVTVu9pBa/OLznAAYdanFAIiePSuVO4ACAU6JjWB14d i/1ZByuuPl86dhdeqzR4NHbMJxaJH60KPXVZhKa2I5mrYlwD6upcD3HEwkGr/SyP xBdiTlxGIxoKiO3Ct8Hbz0b9T25uyfU45OOA6kVFpjg1wxiUUzxBjh5RKJFr6ZUR hBv/ctEvkE9D456Tu3o/LcyKmM4rQIhmY+UiBx5Srs/FSNYmPIq5nJCN/lTbUlIh KfWLtCB+dWHD5VERgyuQJN3m99VWW4BPZPvp1KTjBvS4SenF/bEzj83jvamAJqZs kTy9bmptwA1V+g2W8REqTnDzbmw6iQ== =qf5Q -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./hmmer_3.4+dfsg-3.dsc: missing OpenPGP keyrings dpkg-source: info: verifying ./hmmer_3.4+dfsg-3.dsc dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-keyring.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-tag2upload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-nonupload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-maintainers.pgp dpkg-source: info: extracting hmmer in /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg dpkg-source: info: unpacking hmmer_3.4+dfsg.orig.tar.xz dpkg-source: info: unpacking hmmer_3.4+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_manpage_extension.patch dpkg-source: info: applying use_debian_packaged_libdivsufsort.patch dpkg-source: info: applying verbose-easel dpkg-source: info: applying skip_threads_check dpkg-source: info: applying sub_make_parallel dpkg-source: info: applying spelling clean up apt cache ------------------ Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands Sun, 26 Apr 2026 23:23:26 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network hmmer_3.4+dfsg-3 perl-5.42-throwaway amd64 ----------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network hmmer_3.4+dfsg-3 perl-5.42-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANGUAGE=en_GB:en LC_ALL=C.UTF-8 LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so LOGNAME=debomatic PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg SCHROOT_ALIAS_NAME=perl-5.42-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.42-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.42-amd64-debomatic-0d1a6dc3-bfaa-49df-a52f-92f5ecf08846 SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -Zxz dpkg-buildpackage: info: source package hmmer dpkg-buildpackage: info: source version 3.4+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Santiago Vila dpkg-source -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 dpkg-source: info: using options from /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/source/options: --extend-diff-ignore=(^|/)config.(sub|guess)$ debian/rules clean dh clean debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' rm -f testsuite/esltmp* rm -f easel/testsuite/esltmp* rm -f tutorial/MADE1.hmm.h3? rm -f config.log config.status configure find . -name Makefile -delete make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' dh_clean dpkg-source -Zxz -b . dpkg-source: info: using options from /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/source/options: --extend-diff-ignore=(^|/)config.(sub|guess)$ dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building hmmer using existing ../hmmer_3.4+dfsg.orig.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building hmmer in ../hmmer_3.4+dfsg-3.debian.tar.xz dpkg-source: info: building hmmer in ../hmmer_3.4+dfsg-3.dsc debian/rules binary dh binary dh_update_autotools_config debian/rules override_dh_autoreconf make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' AUTOHEADER=true dh_autoreconf autoreconf: export WARNINGS= autoreconf: Entering directory '.' autoreconf: configure.ac: not using Gettext autoreconf: running: aclocal --force autoreconf: configure.ac: tracing autoreconf: configure.ac: not using Libtool autoreconf: configure.ac: not using Intltool autoreconf: configure.ac: not using Gtkdoc autoreconf: running: /usr/bin/autoconf --force autoreconf: running: true --force autoreconf: configure.ac: not using Automake autoreconf: './install-sh' is updated autoreconf: Leaving directory '.' make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' debian/rules override_dh_auto_configure make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' CPPFLAGS="-Wdate-time -D_FORTIFY_SOURCE=2" dh_auto_configure -- --enable-threads --enable-sse ./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/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-threads --enable-sse configure: Configuring HMMER3 for your system. checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking whether to compile using MPI... no checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking for gcc... (cached) gcc checking whether the compiler supports GNU C... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to enable C11 features... (cached) none needed checking how to run the C preprocessor... gcc -E checking for a BSD-compatible install... /usr/bin/install -c checking for strip... strip checking for ranlib... ranlib checking for ar... /usr/bin/ar checking whether ln -s works... yes checking for a sed that does not truncate output... /usr/bin/sed checking for egrep -e... /usr/bin/grep -E checking whether gcc is Clang... no checking whether pthreads work with "-pthread" and "-lpthread"... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking whether more special flags are required for pthreads... no checking for PTHREAD_PRIO_INHERIT... yes checking whether gcc can compile our SSE code... yes configure: Activating Intel/AMD SSE vector DP implementation checking whether _MM_SET_FLUSH_ZERO_MODE is supported... yes checking compiler support --start-group... yes checking for gzip... /usr/bin/gzip checking for python3... yes checking for library containing clock_gettime... none required checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for endian.h... yes checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/types.h... (cached) yes checking for netinet/in.h... yes checking for sys/param.h... yes checking for sys/sysctl.h... no checking for uint8_t... yes checking for uint16_t... yes checking for uint32_t... yes checking for uint64_t... yes checking for off_t... yes checking whether byte ordering is bigendian... no checking for __attribute__((noreturn))... yes checking for __attribute__((format))... yes checking for mkstemp... yes checking for popen... yes checking for putenv... yes checking for strcasecmp... yes checking for strsep... yes checking for times... yes checking for getpid... yes checking for sysctl... no checking for sysconf... yes checking for getcwd... yes checking for chmod... yes checking for stat... yes checking for fstat... yes checking for erfc... no checking for library containing ntohs... none required checking for library containing ntohl... none required checking for library containing htons... none required checking for library containing htonl... none required checking for library containing socket... none required checking for library containing inet_pton... none required checking for declarations of fseeko and ftello... yes checking for -Wdate-time -D_FORTIFY_SOURCE=2 option for large files... none needed configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating testsuite/Makefile config.status: creating profmark/Makefile config.status: creating src/impl_sse/Makefile config.status: creating documentation/Makefile config.status: creating documentation/man/Makefile config.status: creating documentation/userguide/Makefile config.status: creating documentation/userguide/inclusions/Makefile config.status: creating easel/Makefile config.status: creating easel/miniapps/Makefile config.status: creating easel/testsuite/Makefile config.status: creating easel/documentation/Makefile config.status: creating documentation/userguide/titlepage.tex config.status: creating documentation/userguide/titlepage_daemon.tex config.status: creating documentation/userguide/copyright.tex config.status: creating documentation/man/alimask.man config.status: creating documentation/man/hmmalign.man config.status: creating documentation/man/hmmbuild.man config.status: creating documentation/man/hmmc2.man config.status: creating documentation/man/hmmconvert.man config.status: creating documentation/man/hmmemit.man config.status: creating documentation/man/hmmer.man config.status: creating documentation/man/hmmfetch.man config.status: creating documentation/man/hmmlogo.man config.status: creating documentation/man/hmmpgmd.man config.status: creating documentation/man/hmmpgmd_shard.man config.status: creating documentation/man/hmmpress.man config.status: creating documentation/man/hmmscan.man config.status: creating documentation/man/hmmsearch.man config.status: creating documentation/man/hmmsim.man config.status: creating documentation/man/hmmstat.man config.status: creating documentation/man/jackhmmer.man config.status: creating documentation/man/makehmmerdb.man config.status: creating documentation/man/nhmmer.man config.status: creating documentation/man/nhmmscan.man config.status: creating documentation/man/phmmer.man config.status: creating easel/miniapps/esl-afetch.man config.status: creating easel/miniapps/esl-alimanip.man config.status: creating easel/miniapps/esl-alimap.man config.status: creating easel/miniapps/esl-alimask.man config.status: creating easel/miniapps/esl-alimerge.man config.status: creating easel/miniapps/esl-alipid.man config.status: creating easel/miniapps/esl-alirev.man config.status: creating easel/miniapps/esl-alistat.man config.status: creating easel/miniapps/esl-compalign.man config.status: creating easel/miniapps/esl-compstruct.man config.status: creating easel/miniapps/esl-construct.man config.status: creating easel/miniapps/esl-histplot.man config.status: creating easel/miniapps/esl-mask.man config.status: creating easel/miniapps/esl-mixdchlet.man config.status: creating easel/miniapps/esl-reformat.man config.status: creating easel/miniapps/esl-selectn.man config.status: creating easel/miniapps/esl-seqrange.man config.status: creating easel/miniapps/esl-seqstat.man config.status: creating easel/miniapps/esl-sfetch.man config.status: creating easel/miniapps/esl-shuffle.man config.status: creating easel/miniapps/esl-ssdraw.man config.status: creating easel/miniapps/esl-translate.man config.status: creating easel/miniapps/esl-weight.man config.status: creating easel/decoy_config.h config.status: creating src/p7_config.h config.status: creating easel/esl_config.h config.status: linking src/impl_sse to src/impl HMMER configuration: compiler: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread host: x86_64-pc-linux-gnu linker: -Wl,-z,relro -Wl,-z,now -flto libraries: -lpthread DP implementation: sse Now do 'make' to build HMMER, and optionally: 'make check' to run self tests, 'make install' to install programs and man pages, '(cd easel; make install)' to install Easel tools. make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' dh_auto_build make -j2 make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' make -C easel all make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c easel.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_alloc.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_alphabet.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_arr2.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_arr3.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_bitfield.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_buffer.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_cluster.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_composition.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_cpu.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_dirichlet.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_distance.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_dmatrix.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_dsqdata.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_exponential.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_fileparser.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_gamma.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_gencode.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_getopts.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_gev.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_graph.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_gumbel.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_heap.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_histogram.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_hmm.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_huffman.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_hyperexp.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_iset.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_json.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_keyhash.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_lognormal.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_matrixops.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_mem.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_minimizer.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_mixdchlet.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_mixgev.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_mpi.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msa.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msacluster.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msafile.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msafile2.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msafile_a2m.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msafile_afa.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msafile_clustal.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msafile_phylip.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msafile_psiblast.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msafile_selex.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msafile_stockholm.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msashuffle.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_msaweight.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_normal.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_paml.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_quicksort.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_random.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_rand64.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_randomseq.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_ratematrix.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_recorder.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_red_black.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_regexp.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_rootfinder.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_scorematrix.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_sq.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_sqio.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_sqio_ascii.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_sqio_ncbi.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_ssi.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_stack.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_stats.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_stopwatch.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_stretchexp.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_subcmd.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_threads.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_tree.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_varint.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_vectorops.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_weibull.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_workqueue.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_wuss.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_sse.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_avx.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_avx512.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_neon.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -c esl_vmx.c /usr/bin/ar -r libeasel.a easel.o esl_alloc.o esl_alphabet.o esl_arr2.o esl_arr3.o esl_bitfield.o esl_buffer.o esl_cluster.o esl_composition.o esl_cpu.o esl_dirichlet.o esl_distance.o esl_dmatrix.o esl_dsqdata.o esl_exponential.o esl_fileparser.o esl_gamma.o esl_gencode.o esl_getopts.o esl_gev.o esl_graph.o esl_gumbel.o esl_heap.o esl_histogram.o esl_hmm.o esl_huffman.o esl_hyperexp.o esl_iset.o esl_json.o esl_keyhash.o esl_lognormal.o esl_matrixops.o esl_mem.o esl_minimizer.o esl_mixdchlet.o esl_mixgev.o esl_mpi.o esl_msa.o esl_msacluster.o esl_msafile.o esl_msafile2.o esl_msafile_a2m.o esl_msafile_afa.o esl_msafile_clustal.o esl_msafile_phylip.o esl_msafile_psiblast.o esl_msafile_selex.o esl_msafile_stockholm.o esl_msashuffle.o esl_msaweight.o esl_normal.o esl_paml.o esl_quicksort.o esl_random.o esl_rand64.o esl_randomseq.o esl_ratematrix.o esl_recorder.o esl_red_black.o esl_regexp.o esl_rootfinder.o esl_scorematrix.o esl_sq.o esl_sqio.o esl_sqio_ascii.o esl_sqio_ncbi.o esl_ssi.o esl_stack.o esl_stats.o esl_stopwatch.o esl_stretchexp.o esl_subcmd.o esl_threads.o esl_tree.o esl_varint.o esl_vectorops.o esl_weibull.o esl_workqueue.o esl_wuss.o esl_sse.o esl_avx.o esl_avx512.o esl_neon.o esl_vmx.o > /dev/null 2>&1 make -C miniapps all make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-afetch esl-afetch.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alimanip esl-alimanip.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alimap esl-alimap.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alimask esl-alimask.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alimerge esl-alimerge.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alipid esl-alipid.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alirev esl-alirev.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alistat esl-alistat.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-compalign esl-compalign.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-compstruct esl-compstruct.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-construct esl-construct.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-histplot esl-histplot.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-mask esl-mask.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-mixdchlet esl-mixdchlet.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-reformat esl-reformat.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-selectn esl-selectn.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-seqrange esl-seqrange.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-seqstat esl-seqstat.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-sfetch esl-sfetch.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-shuffle esl-shuffle.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-ssdraw esl-ssdraw.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-translate esl-translate.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-weight esl-weight.c -leasel -lpthread -lm gcc -I. -I.. -I. -I./.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -c cmd_alistat.c gcc -I. -I.. -I. -I./.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -c cmd_downsample.c gcc -I. -I.. -I. -I./.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -c cmd_filter.c gcc -I. -I.. -I. -I./.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -c cmd_index.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o easel easel.c cmd_alistat.o cmd_downsample.o cmd_filter.o cmd_index.o -leasel -lpthread -lm make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' make -C src all make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o alimask.o -c alimask.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o build.o -c build.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o cachedb.o -c cachedb.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o cachedb_shard.o -c cachedb_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o emit.o -c emit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o errors.o -c errors.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o evalues.o -c evalues.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o eweight.o -c eweight.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_decoding.o -c generic_decoding.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_fwdback.o -c generic_fwdback.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_fwdback_chk.o -c generic_fwdback_chk.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_fwdback_banded.o -c generic_fwdback_banded.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_null2.o -c generic_null2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_msv.o -c generic_msv.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_optacc.o -c generic_optacc.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_stotrace.o -c generic_stotrace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_viterbi.o -c generic_viterbi.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_vtrace.o -c generic_vtrace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o h2_io.o -c h2_io.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o heatmap.o -c heatmap.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmlogo.o -c hmmlogo.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdmstr.o -c hmmdmstr.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdmstr_shard.o -c hmmdmstr_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmd_search_status.o -c hmmd_search_status.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdwrkr.o -c hmmdwrkr.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdwrkr_shard.o -c hmmdwrkr_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdutils.o -c hmmdutils.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmer.o -c hmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o logsum.o -c logsum.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o modelconfig.o -c modelconfig.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o modelstats.o -c modelstats.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o mpisupport.o -c mpisupport.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o seqmodel.o -c seqmodel.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o tracealign.o -c tracealign.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_alidisplay.o -c p7_alidisplay.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_bg.o -c p7_bg.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_builder.o -c p7_builder.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_domain.o -c p7_domain.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_domaindef.o -c p7_domaindef.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_gbands.o -c p7_gbands.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_gmx.o -c p7_gmx.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_gmxb.o -c p7_gmxb.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_gmxchk.o -c p7_gmxchk.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hit.o -c p7_hit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmm.o -c p7_hmm.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmmcache.o -c p7_hmmcache.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmmd_search_stats.o -c p7_hmmd_search_stats.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmmfile.o -c p7_hmmfile.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmmwindow.o -c p7_hmmwindow.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_pipeline.o -c p7_pipeline.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_prior.o -c p7_prior.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_profile.o -c p7_profile.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_spensemble.o -c p7_spensemble.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_tophits.o -c p7_tophits.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_trace.o -c p7_trace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_scoredata.o -c p7_scoredata.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmpgmd2msa.o -c hmmpgmd2msa.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o fm_alphabet.o -c fm_alphabet.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o fm_general.o -c fm_general.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o fm_sse.o -c fm_sse.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o fm_ssv.o -c fm_ssv.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmalign.o -c hmmalign.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmbuild.o -c hmmbuild.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmconvert.o -c hmmconvert.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmemit.o -c hmmemit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmfetch.o -c hmmfetch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmpgmd.o -c hmmpgmd.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmpgmd_shard.o -c hmmpgmd_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmpress.o -c hmmpress.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmscan.o -c hmmscan.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmsearch.o -c hmmsearch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmsim.o -c hmmsim.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmstat.o -c hmmstat.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o jackhmmer.o -c jackhmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o phmmer.o -c phmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o nhmmer.o -c nhmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o nhmmscan.o -c nhmmscan.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o makehmmerdb.o -c makehmmerdb.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmc2.o -c hmmc2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmerfm-exactmatch.o -c hmmerfm-exactmatch.c /usr/bin/ar -r libhmmer.a build.o cachedb.o cachedb_shard.o emit.o errors.o evalues.o eweight.o generic_decoding.o generic_fwdback.o generic_fwdback_chk.o generic_fwdback_banded.o generic_null2.o generic_msv.o generic_optacc.o generic_stotrace.o generic_viterbi.o generic_vtrace.o h2_io.o heatmap.o hmmlogo.o hmmdmstr.o hmmdmstr_shard.o hmmd_search_status.o hmmdwrkr.o hmmdwrkr_shard.o hmmdutils.o hmmer.o logsum.o modelconfig.o modelstats.o mpisupport.o seqmodel.o tracealign.o p7_alidisplay.o p7_bg.o p7_builder.o p7_domain.o p7_domaindef.o p7_gbands.o p7_gmx.o p7_gmxb.o p7_gmxchk.o p7_hit.o p7_hmm.o p7_hmmcache.o p7_hmmd_search_stats.o p7_hmmfile.o p7_hmmwindow.o p7_pipeline.o p7_prior.o p7_profile.o p7_spensemble.o p7_tophits.o p7_trace.o p7_scoredata.o hmmpgmd2msa.o fm_alphabet.o fm_general.o fm_sse.o fm_ssv.o > /dev/null 2>&1 make -C impl_sse libhmmer-impl.stamp make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o decoding.o -c decoding.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o fwdback.o -c fwdback.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o io.o -c io.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o ssvfilter.o -c ssvfilter.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o msvfilter.o -c msvfilter.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o null2.o -c null2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o optacc.o -c optacc.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o stotrace.o -c stotrace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o vitfilter.o -c vitfilter.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o p7_omx.o -c p7_omx.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o p7_oprofile.o -c p7_oprofile.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o mpi.o -c mpi.c /usr/bin/ar -r ../libhmmer.a decoding.o fwdback.o io.o ssvfilter.o msvfilter.o null2.o optacc.o stotrace.o vitfilter.o p7_omx.o p7_oprofile.o mpi.o > /dev/null 2>&1 make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o alimask alimask.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmalign hmmalign.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmbuild hmmbuild.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmconvert hmmconvert.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function ‘esl_scorematrix_Create’: ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function ‘malloc’ declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmemit hmmemit.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmfetch hmmfetch.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmlogo hmmlogo.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmpgmd hmmpgmd.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function ‘esl_scorematrix_Create’: ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function ‘malloc’ declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmpgmd_shard hmmpgmd_shard.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function ‘esl_scorematrix_Create’: ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function ‘malloc’ declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmpress hmmpress.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmscan hmmscan.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmsearch hmmsearch.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmsim hmmsim.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmstat hmmstat.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o jackhmmer jackhmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o phmmer phmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function ‘esl_scorematrix_Create’: ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function ‘malloc’ declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o nhmmer nhmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function ‘esl_scorematrix_Create’: ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function ‘malloc’ declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o nhmmscan nhmmscan.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function ‘esl_scorematrix_Create’: ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function ‘malloc’ declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o makehmmerdb makehmmerdb.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmc2 hmmc2.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o hmmerfm-exactmatch hmmerfm-exactmatch.o -lhmmer -leasel -ldivsufsort -lpthread -lm make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' make -C profmark all make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/profmark' gcc -I../easel -I../easel -I../src -I../src -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -o create-profmark.o -c create-profmark.c gcc -I../easel -I../easel -I../src -I../src -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -o rocplot.o -c rocplot.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L../easel -L../src -o rocplot rocplot.o -lhmmer -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L../easel -L../src -o create-profmark create-profmark.o -lhmmer -leasel -lpthread -lm make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/profmark' make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' debian/rules execute_after_dh_auto_build make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' /usr/bin/make tests -j 2 make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' /usr/bin/make -C easel tests make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_alloc_utest -I. -I. -L. -DeslALLOC_TESTDRIVE ./esl_alloc.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o easel_utest -I. -I. -L. -DeslEASEL_TESTDRIVE ./easel.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_alphabet_utest -I. -I. -L. -DeslALPHABET_TESTDRIVE ./esl_alphabet.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_bitfield_utest -I. -I. -L. -DeslBITFIELD_TESTDRIVE ./esl_bitfield.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_buffer_utest -I. -I. -L. -DeslBUFFER_TESTDRIVE ./esl_buffer.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_cluster_utest -I. -I. -L. -DeslCLUSTER_TESTDRIVE ./esl_cluster.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_cpu_utest -I. -I. -L. -DeslCPU_TESTDRIVE ./esl_cpu.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dirichlet_utest -I. -I. -L. -DeslDIRICHLET_TESTDRIVE ./esl_dirichlet.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_distance_utest -I. -I. -L. -DeslDISTANCE_TESTDRIVE ./esl_distance.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dmatrix_utest -I. -I. -L. -DeslDMATRIX_TESTDRIVE ./esl_dmatrix.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dsqdata_utest -I. -I. -L. -DeslDSQDATA_TESTDRIVE ./esl_dsqdata.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_exponential_utest -I. -I. -L. -DeslEXPONENTIAL_TESTDRIVE ./esl_exponential.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_fileparser_utest -I. -I. -L. -DeslFILEPARSER_TESTDRIVE ./esl_fileparser.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_gamma_utest -I. -I. -L. -DeslGAMMA_TESTDRIVE ./esl_gamma.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_gencode_utest -I. -I. -L. -DeslGENCODE_TESTDRIVE ./esl_gencode.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_getopts_utest -I. -I. -L. -DeslGETOPTS_TESTDRIVE ./esl_getopts.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_graph_utest -I. -I. -L. -DeslGRAPH_TESTDRIVE ./esl_graph.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_gumbel_utest -I. -I. -L. -DeslGUMBEL_TESTDRIVE ./esl_gumbel.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_heap_utest -I. -I. -L. -DeslHEAP_TESTDRIVE ./esl_heap.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_histogram_utest -I. -I. -L. -DeslHISTOGRAM_TESTDRIVE ./esl_histogram.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_hmm_utest -I. -I. -L. -DeslHMM_TESTDRIVE ./esl_hmm.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_huffman_utest -I. -I. -L. -DeslHUFFMAN_TESTDRIVE ./esl_huffman.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_hyperexp_utest -I. -I. -L. -DeslHYPEREXP_TESTDRIVE ./esl_hyperexp.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_iset_utest -I. -I. -L. -DeslISET_TESTDRIVE ./esl_iset.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_json_utest -I. -I. -L. -DeslJSON_TESTDRIVE ./esl_json.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_keyhash_utest -I. -I. -L. -DeslKEYHASH_TESTDRIVE ./esl_keyhash.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_lognormal_utest -I. -I. -L. -DeslLOGNORMAL_TESTDRIVE ./esl_lognormal.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_matrixops_utest -I. -I. -L. -DeslMATRIXOPS_TESTDRIVE ./esl_matrixops.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_mem_utest -I. -I. -L. -DeslMEM_TESTDRIVE ./esl_mem.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_minimizer_utest -I. -I. -L. -DeslMINIMIZER_TESTDRIVE ./esl_minimizer.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_mixdchlet_utest -I. -I. -L. -DeslMIXDCHLET_TESTDRIVE ./esl_mixdchlet.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msa_utest -I. -I. -L. -DeslMSA_TESTDRIVE ./esl_msa.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msacluster_utest -I. -I. -L. -DeslMSACLUSTER_TESTDRIVE ./esl_msacluster.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_utest -I. -I. -L. -DeslMSAFILE_TESTDRIVE ./esl_msafile.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile2_utest -I. -I. -L. -DeslMSAFILE2_TESTDRIVE ./esl_msafile2.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_a2m_utest -I. -I. -L. -DeslMSAFILE_A2M_TESTDRIVE ./esl_msafile_a2m.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_afa_utest -I. -I. -L. -DeslMSAFILE_AFA_TESTDRIVE ./esl_msafile_afa.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_clustal_utest -I. -I. -L. -DeslMSAFILE_CLUSTAL_TESTDRIVE ./esl_msafile_clustal.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_phylip_utest -I. -I. -L. -DeslMSAFILE_PHYLIP_TESTDRIVE ./esl_msafile_phylip.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_psiblast_utest -I. -I. -L. -DeslMSAFILE_PSIBLAST_TESTDRIVE ./esl_msafile_psiblast.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_selex_utest -I. -I. -L. -DeslMSAFILE_SELEX_TESTDRIVE ./esl_msafile_selex.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_stockholm_utest -I. -I. -L. -DeslMSAFILE_STOCKHOLM_TESTDRIVE ./esl_msafile_stockholm.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msaweight_utest -I. -I. -L. -DeslMSAWEIGHT_TESTDRIVE ./esl_msaweight.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_normal_utest -I. -I. -L. -DeslNORMAL_TESTDRIVE ./esl_normal.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_quicksort_utest -I. -I. -L. -DeslQUICKSORT_TESTDRIVE ./esl_quicksort.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_random_utest -I. -I. -L. -DeslRANDOM_TESTDRIVE ./esl_random.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_rand64_utest -I. -I. -L. -DeslRAND64_TESTDRIVE ./esl_rand64.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_randomseq_utest -I. -I. -L. -DeslRANDOMSEQ_TESTDRIVE ./esl_randomseq.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_ratematrix_utest -I. -I. -L. -DeslRATEMATRIX_TESTDRIVE ./esl_ratematrix.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_red_black_utest -I. -I. -L. -DeslRED_BLACK_TESTDRIVE ./esl_red_black.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_recorder_utest -I. -I. -L. -DeslRECORDER_TESTDRIVE ./esl_recorder.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_regexp_utest -I. -I. -L. -DeslREGEXP_TESTDRIVE ./esl_regexp.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_rootfinder_utest -I. -I. -L. -DeslROOTFINDER_TESTDRIVE ./esl_rootfinder.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_scorematrix_utest -I. -I. -L. -DeslSCOREMATRIX_TESTDRIVE ./esl_scorematrix.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_sq_utest -I. -I. -L. -DeslSQ_TESTDRIVE ./esl_sq.c -leasel -lm -lpthread ./esl_scorematrix.c: In function ‘esl_scorematrix_Create’: ./esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function ‘malloc’ declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_sqio_utest -I. -I. -L. -DeslSQIO_TESTDRIVE ./esl_sqio.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_ssi_utest -I. -I. -L. -DeslSSI_TESTDRIVE ./esl_ssi.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stack_utest -I. -I. -L. -DeslSTACK_TESTDRIVE ./esl_stack.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stats_utest -I. -I. -L. -DeslSTATS_TESTDRIVE ./esl_stats.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stretchexp_utest -I. -I. -L. -DeslSTRETCHEXP_TESTDRIVE ./esl_stretchexp.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_tree_utest -I. -I. -L. -DeslTREE_TESTDRIVE ./esl_tree.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_varint_utest -I. -I. -L. -DeslVARINT_TESTDRIVE ./esl_varint.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_vectorops_utest -I. -I. -L. -DeslVECTOROPS_TESTDRIVE ./esl_vectorops.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_weibull_utest -I. -I. -L. -DeslWEIBULL_TESTDRIVE ./esl_weibull.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_wuss_utest -I. -I. -L. -DeslWUSS_TESTDRIVE ./esl_wuss.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_sse_utest -I. -I. -L. -DeslSSE_TESTDRIVE ./esl_sse.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_avx_utest -I. -I. -L. -DeslAVX_TESTDRIVE ./esl_avx.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_avx512_utest -I. -I. -L. -DeslAVX512_TESTDRIVE ./esl_avx512.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_neon_utest -I. -I. -L. -DeslNEON_TESTDRIVE ./esl_neon.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_vmx_utest -I. -I. -L. -DeslVMX_TESTDRIVE ./esl_vmx.c -leasel -lm -lpthread /usr/bin/make -C miniapps tests make[4]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' make[4]: Nothing to be done for 'tests'. make[4]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' /usr/bin/make -C src tests make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' /usr/bin/make -C impl_sse libhmmer-impl.stamp make[4]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' make[4]: 'libhmmer-impl.stamp' is up to date. make[4]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o itest_brute.o -c itest_brute.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7BUILD_TESTDRIVE -o build_utest ./build.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_FWDBACK_TESTDRIVE -o generic_fwdback_utest ./generic_fwdback.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_FWDBACK_CHK_TESTDRIVE -o generic_fwdback_chk_utest ./generic_fwdback_chk.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_MSV_TESTDRIVE -o generic_msv_utest ./generic_msv.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_STOTRACE_TESTDRIVE -o generic_stotrace_utest ./generic_stotrace.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_VITERBI_TESTDRIVE -o generic_viterbi_utest ./generic_viterbi.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7HMMER_TESTDRIVE -o hmmer_utest ./hmmer.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7LOGSUM_TESTDRIVE -o logsum_utest ./logsum.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7MODELCONFIG_TESTDRIVE -o modelconfig_utest ./modelconfig.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7SEQMODEL_TESTDRIVE -o seqmodel_utest ./seqmodel.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7ALIDISPLAY_TESTDRIVE -o p7_alidisplay_utest ./p7_alidisplay.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7BG_TESTDRIVE -o p7_bg_utest ./p7_bg.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7DOMAIN_TESTDRIVE -o p7_domain_utest ./p7_domain.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7GMX_TESTDRIVE -o p7_gmx_utest ./p7_gmx.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7GMXCHK_TESTDRIVE -o p7_gmxchk_utest ./p7_gmxchk.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7HIT_TESTDRIVE -o p7_hit_utest ./p7_hit.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7HMMD_SEARCH_STATS_TESTDRIVE -o p7_hmmd_search_stats_utest ./p7_hmmd_search_stats.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7HMM_TESTDRIVE -o p7_hmm_utest ./p7_hmm.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7HMMFILE_TESTDRIVE -o p7_hmmfile_utest ./p7_hmmfile.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7PROFILE_TESTDRIVE -o p7_profile_utest ./p7_profile.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7TOPHITS_TESTDRIVE -o p7_tophits_utest ./p7_tophits.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7TRACE_TESTDRIVE -o p7_trace_utest ./p7_trace.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7SCOREDATA_TESTDRIVE -o p7_scoredata_utest ./p7_scoredata.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7HMMPGMD2MSA_TESTDRIVE -o hmmpgmd2msa_utest ./hmmpgmd2msa.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_sse -L. -I../easel -I../easel -I. -I. -Dp7HMMD_SEARCH_STATUS_TESTDRIVE -o hmmd_search_status_utest ./hmmd_search_status.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_sse -L. -o itest_brute itest_brute.o -lhmmer -leasel -ldivsufsort -lpthread -lm /usr/bin/make -C impl_sse tests make[4]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7DECODING_TESTDRIVE -o decoding_utest ./decoding.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7FWDBACK_TESTDRIVE -o fwdback_utest ./fwdback.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7IO_TESTDRIVE -o io_utest ./io.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7MSVFILTER_TESTDRIVE -o msvfilter_utest ./msvfilter.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7NULL2_TESTDRIVE -o null2_utest ./null2.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7OPTACC_TESTDRIVE -o optacc_utest ./optacc.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7STOTRACE_TESTDRIVE -o stotrace_utest ./stotrace.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -flto -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7VITFILTER_TESTDRIVE -o vitfilter_utest ./vitfilter.c -lhmmer -leasel -lm make[4]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' /usr/bin/make check -j 2 | tee debian/test_log make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' /usr/bin/make -C easel tests make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' /usr/bin/make -C miniapps tests make[4]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' make[4]: Nothing to be done for 'tests'. make[4]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' /usr/bin/make -C src tests make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' /usr/bin/make -C impl_sse libhmmer-impl.stamp make[4]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' make[4]: 'libhmmer-impl.stamp' is up to date. make[4]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' /usr/bin/make -C impl_sse tests make[4]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' make[4]: Nothing to be done for 'tests'. make[4]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' /usr/bin/make -C easel check make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' /usr/bin/make -C miniapps check make[4]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' make[4]: Nothing to be done for 'check'. make[4]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' /usr/bin/make -C testsuite check make[4]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/testsuite' Running Easel test suite... exercise 1 [ easel-utest] ... ok. exercise 2 [ alloc-utest] ... ok. exercise 3 [ alphabet-utest] ... ok. exercise 4 [ avx-utest] ... ok. exercise 5 [ avx512-utest] ... ok. exercise 6 [ bitfield-utest] ... ok. exercise 7 [ buffer-utest] ... ok. exercise 8 [ cluster-utest] ... ok. exercise 9 [ cpu-utest] ... ok. exercise 10 [ dirichlet-utest] ... ok. exercise 11 [ distance-utest] ... ok. exercise 12 [ dmatrix-utest] ... ok. exercise 13 [ dsqdata-utest] ... ok. exercise 14 [ exponential-utest] ... ok. exercise 15 [ fileparser-utest] ... ok. exercise 16 [ gamma-utest] ... ok. exercise 17 [ gencode-utest] ... ok. exercise 18 [ getopts-utest] ... ok. exercise 19 [ graph-utest] ... ok. exercise 20 [ gumbel-utest] ... ok. exercise 21 [ heap-utest] ... ok. exercise 22 [ histogram-utest] ... ok. exercise 23 [ huffman-utest] ... ok. exercise 24 [ hyperexp-utest] ... ok. exercise 25 [ iset-utest] ... FAILED [command failed] exercise 26 [ json-utest] ... ok. exercise 27 [ keyhash-utest] ... ok. exercise 28 [ lognormal-utest] ... ok. exercise 29 [ matrixops-utest] ... ok. exercise 30 [ mem-utest] ... ok. exercise 31 [ minimizer-utest] ... ok. exercise 32 [ mixdchlet-utest] ... ok. exercise 33 [ msa-utest] ... ok. exercise 34 [ msacluster-utest] ... ok. exercise 35 [ msafile] ... ok. exercise 36 [ msafile2] ... ok. exercise 37 [ msafile-a2m] ... ok. exercise 38 [ msafile-afa] ... ok. exercise 39 [ msafile-clustal] ... ok. exercise 40 [ msafile-phylip] ... ok. exercise 41 [ msafile-psiblast] ... ok. exercise 42 [ msafile-selex] ... ok. exercise 43 [ msafile-stockholm] ... ok. exercise 44 [ msaweight-utest] ... ok. exercise 45 [ neon-utest] ... ok. exercise 46 [ normal-utest] ... ok. exercise 47 [ quicksort-utest] ... ok. exercise 48 [ random-utest] ... ok. exercise 49 [ rand64-utest] ... ok. exercise 50 [ randomseq-utest] ... ok. exercise 51 [ ratematrix-utest] ... ok. exercise 52 [ recorder-utest] ... ok. exercise 53 [ red_black-utest] ... ok. exercise 54 [ regexp-utest] ... ok. exercise 55 [ rootfinder-utest] ... ok. exercise 56 [ scorematrix-utest] ... ok. exercise 57 [ sq-utest] ... ok. exercise 58 [ sqio-utest] ... ok. exercise 59 [ sse-utest] ... ok. exercise 60 [ ssi-utest] ... ok. exercise 61 [ stack-utest] ... ok. exercise 62 [ stats-utest] ... ok. exercise 63 [ stretchexp-utest] ... ok. exercise 64 [ tree-utest] ... ok. exercise 65 [ varint-utest] ... ok. exercise 66 [ vectorops-utest] ... ok. exercise 67 [ vmx-utest] ... ok. exercise 68 [ weibull-utest] ... ok. exercise 69 [ wuss-utest] ... ok. exercise 70 [ e2] ... ok. exercise 71 [ degen-residues] ... ok. exercise 72 [ ncbi-indices] ... ok. exercise 73 [ blank-gf] ... ok. exercise 74 [ sindi] ... ok. exercise 75 [ esl-translate] ... ok. exercise 76 [ esl-afetch] ... ok. exercise 77 [ esl-alimanip] ... ok. exercise 78 [ esl-alimap] ... ok. exercise 79 [ esl-alimask] ... ok. exercise 80 [ esl-alimerge] ... ok. exercise 81 [ esl-alistat] ... ok. exercise 82 [ esl-compalign] ... ok. exercise 83 [ esl-construct] ... ok. exercise 84 [ esl-mask] ... ok. exercise 85 [ esl-seqrange] ... ok. exercise 86 [ esl-shuffle] ... ok. exercise 87 [ esl-ssdraw] ... ok. 1 of 87 exercises at level <= 2 FAILED. System information: Sun Apr 26 23:30:59 UTC 2026 Linux carme 6.18.5+deb14-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.18.5-1 (2026-01-16) x86_64 GNU/Linux make[4]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/testsuite' make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' /usr/bin/make -C testsuite check make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/testsuite' Running HMMER test suite... exercise 1 [ hmmer] ... ok. exercise 2 [ build] ... ok. exercise 3 [ generic_fwdback] ... ok. exercise 4 [ generic_msv] ... ok. exercise 5 [ generic_stotrace] ... ok. exercise 6 [ generic_viterbi] ... ok. exercise 7 [ hmmd_search_status] ... ok. exercise 8 [ logsum] ... ok. exercise 9 [ modelconfig] ... ok. exercise 10 [ seqmodel] ... ok. exercise 11 [ p7_alidisplay] ... ok. exercise 12 [ p7_bg] ... ok. exercise 13 [ p7_domain] ... ok. exercise 14 [ p7_gmx] ... ok. exercise 15 [ p7_hit] ... ok. exercise 16 [ p7_hmm] ... ok. exercise 17 [ p7_hmmfile] ... ok. exercise 18 [ p7_hmmd_search_stats] ... ok. exercise 19 [ p7_profile] ... ok. exercise 20 [ p7_tophits] ... ok. exercise 21 [ p7_trace] ... ok. exercise 22 [ p7_scoredata] ... ok. exercise 23 [ decoding] ... ok. exercise 24 [ fwdback] ... ok. exercise 25 [ io] ... ok. exercise 26 [ msvfilter] ... ok. exercise 27 [ null2] ... ok. exercise 28 [ optacc] ... ok. exercise 29 [ stotrace] ... ok. exercise 30 [ vitfilter] ... ok. exercise 31 [ hmmpgmd2msa] ... ok. exercise 32 [ hmmalign] ... ok. exercise 33 [ hmmalign/-h] ... ok. exercise 34 [ hmmalign/-o] ... ok. exercise 35 [ hmmalign/--mapali] ... ok. exercise 36 [ hmmalign/--trim] ... ok. exercise 37 [ hmmalign/--amino] ... ok. exercise 38 [ hmmalign/--informat] ... ok. exercise 39 [ hmmalign/--outformat] ... ok. exercise 40 [ hmmbuild] ... ok. exercise 41 [ build/-h] ... ok. exercise 42 [ build/-n] ... ok. exercise 43 [ build/-o] ... ok. exercise 44 [ build/-O] ... ok. exercise 45 [ build/--amino] ... ok. exercise 46 [ build/--dna] ... ok. exercise 47 [ build/--rna] ... ok. exercise 48 [ build/--fast] ... ok. exercise 49 [ build/--hand] ... ok. exercise 50 [ build/--symfrac] ... ok. exercise 51 [ build/--fragthresh] ... ok. exercise 52 [ build/--wpb] ... ok. exercise 53 [ build/--wgsc] ... ok. exercise 54 [ build/--wblosum] ... ok. exercise 55 [ build/--wnone] ... ok. exercise 56 [ build/--wid] ... ok. exercise 57 [ build/--eent] ... ok. exercise 58 [ build/--eclust] ... ok. exercise 59 [ build/--enone] ... ok. exercise 60 [ build/--eset] ... ok. exercise 61 [ build/--ere] ... ok. exercise 62 [ build/--esigma] ... ok. exercise 63 [ build/--eid] ... ok. exercise 64 [ build/--pnone] ... ok. exercise 65 [ build/--plaplace] ... ok. exercise 66 [ build/--EmL] ... ok. exercise 67 [ build/--EmN] ... ok. exercise 68 [ build/--EvL] ... ok. exercise 69 [ build/--EvN] ... ok. exercise 70 [ build/--EfL] ... ok. exercise 71 [ build/--EfN] ... ok. exercise 72 [ build/--Eft] ... ok. exercise 73 [ build/--informat] ... ok. exercise 74 [ build/--seed] ... ok. exercise 75 [ search] ... ok. exercise 76 [ search/-h] ... ok. exercise 77 [ search/-o] ... ok. exercise 78 [ search/-A] ... ok. exercise 79 [ search/--tblout] ... ok. exercise 80 [ search/--domtblout] ... ok. exercise 81 [ search/--pfamtblout] ... ok. exercise 82 [ search/--acc] ... ok. exercise 83 [ search/--noali] ... ok. exercise 84 [ search/--notextw] ... ok. exercise 85 [ search/--textw] ... ok. exercise 86 [ search/-E] ... ok. exercise 87 [ search/-T] ... ok. exercise 88 [ search/--domE] ... ok. exercise 89 [ search/--domT] ... ok. exercise 90 [ search/--incE] ... ok. exercise 91 [ search/--incT] ... ok. exercise 92 [ search/--incdomE] ... ok. exercise 93 [ search/--incdomT] ... ok. exercise 94 [ search/--cut_ga] ... ok. exercise 95 [ search/--cut_nc] ... ok. exercise 96 [ search/--cut_tc] ... ok. exercise 97 [ search/--max] ... ok. exercise 98 [ search/--F1] ... ok. exercise 99 [ search/--F2] ... ok. exercise 100 [ search/--F3] ... ok. exercise 101 [ search/--nobias] ... ok. exercise 102 [ search/--nonull2] ... ok. exercise 103 [ search/-Z] ... ok. exercise 104 [ search/--domZ] ... ok. exercise 105 [ search/--seed] ... ok. exercise 106 [ search/--tformat] ... ok. exercise 107 [ hmmscan] ... ok. exercise 108 [ scan/-h] ... ok. exercise 109 [ scan/-o] ... ok. exercise 110 [ scan/--tblout] ... ok. exercise 111 [ scan/--domtblout] ... ok. exercise 112 [ scan/--pfamtblout] ... ok. exercise 113 [ scan/--acc] ... ok. exercise 114 [ scan/--noali] ... ok. exercise 115 [ scan/--notextw] ... ok. exercise 116 [ scan/--textw] ... ok. exercise 117 [ scan/-E] ... ok. exercise 118 [ scan/-T] ... ok. exercise 119 [ scan/--domE] ... ok. exercise 120 [ scan/--domT] ... ok. exercise 121 [ scan/--incE] ... ok. exercise 122 [ scan/--incT] ... ok. exercise 123 [ scan/--incdomE] ... ok. exercise 124 [ scan/--incdomT] ... ok. exercise 125 [ scan/--incdomT] ... ok. exercise 126 [ scan/--cut_ga] ... ok. exercise 127 [ scan/--cut_nc] ... ok. exercise 128 [ scan/--cut_tc] ... ok. exercise 129 [ scan/--max] ... ok. exercise 130 [ scan/--F1] ... ok. exercise 131 [ scan/--F2] ... ok. exercise 132 [ scan/--F3] ... ok. exercise 133 [ scan/--nobias] ... ok. exercise 134 [ scan/--nonull2] ... ok. exercise 135 [ scan/-Z] ... ok. exercise 136 [ scan/--domZ] ... ok. exercise 137 [ scan/--seed] ... ok. exercise 138 [ scan/--qformat] ... ok. exercise 139 [ scan/--cpu] ... ok. exercise 140 [ jackhmmer] ... ok. exercise 141 [ j/-h] ... ok. exercise 142 [ j/-N] ... ok. exercise 143 [ j/-o] ... ok. exercise 144 [ j/-A] ... ok. exercise 145 [ j/--tblout] ... ok. exercise 146 [ j/--domtblout] ... ok. exercise 147 [ j/--chkhmm] ... ok. exercise 148 [ j/--chkali] ... ok. exercise 149 [ j/--acc] ... ok. exercise 150 [ j/--noali] ... ok. exercise 151 [ j/--notextw] ... ok. exercise 152 [ j/--textw] ... ok. exercise 153 [ j/--popen] ... ok. exercise 154 [ j/--pextend] ... ok. exercise 155 [ j/--mxfile] ... ok. exercise 156 [ j/-E] ... ok. exercise 157 [ j/-T] ... ok. exercise 158 [ j/--domE] ... ok. exercise 159 [ j/--domT] ... ok. exercise 160 [ j/--incE] ... ok. exercise 161 [ j/--incT] ... ok. exercise 162 [ j/--incdomE] ... ok. exercise 163 [ j/--incdomT] ... ok. exercise 164 [ j/--max] ... ok. exercise 165 [ j/--F1] ... ok. exercise 166 [ j/--F2] ... ok. exercise 167 [ j/--F3] ... ok. exercise 168 [ j/--nobias] ... ok. exercise 169 [ j/--EmL] ... ok. exercise 170 [ j/--EmN] ... ok. exercise 171 [ j/--EvL] ... ok. exercise 172 [ j/--EvN] ... ok. exercise 173 [ j/--EfL] ... ok. exercise 174 [ j/--EfN] ... ok. exercise 175 [ j/--Eft] ... ok. exercise 176 [ j/--nonull2] ... ok. exercise 177 [ j/-Z] ... ok. exercise 178 [ j/--domZ] ... ok. exercise 179 [ j/--seed] ... ok. exercise 180 [ j/--qformat] ... ok. exercise 181 [ j/--tformat] ... ok. exercise 182 [ phmmer] ... ok. exercise 183 [ phmmer/-h] ... ok. exercise 184 [ phmmer/-o] ... ok. exercise 185 [ phmmer/-A] ... ok. exercise 186 [ phmmer/--tblout] ... ok. exercise 187 [ phmmer/--domtblout] ... ok. exercise 188 [ phmmer/--pfamtblout] ... ok. exercise 189 [ phmmer/--acc] ... ok. exercise 190 [ phmmer/--noali] ... ok. exercise 191 [ phmmer/--notextw] ... ok. exercise 192 [ phmmer/--textw] ... ok. exercise 193 [ phmmer/--popen] ... ok. exercise 194 [ phmmer/--pextend] ... ok. exercise 195 [ phmmer/--mxfile] ... ok. exercise 196 [ phmmer/-E] ... ok. exercise 197 [ phmmer/-T] ... ok. exercise 198 [ phmmer/--domE] ... ok. exercise 199 [ phmmer/--domT] ... ok. exercise 200 [ phmmer/--incE] ... ok. exercise 201 [ phmmer/--incT] ... ok. exercise 202 [ phmmer/--incdomE] ... ok. exercise 203 [ phmmer/--incdomT] ... ok. exercise 204 [ phmmer/--max] ... ok. exercise 205 [ phmmer/--F1] ... ok. exercise 206 [ phmmer/--F2] ... ok. exercise 207 [ phmmer/--F3] ... ok. exercise 208 [ phmmer/--nobias] ... ok. exercise 209 [ phmmer/--EmL] ... ok. exercise 210 [ phmmer/--EmN] ... ok. exercise 211 [ phmmer/--EvL] ... ok. exercise 212 [ phmmer/--EvN] ... ok. exercise 213 [ phmmer/--EfL] ... ok. exercise 214 [ phmmer/--EfN] ... ok. exercise 215 [ phmmer/--Eft] ... ok. exercise 216 [ phmmer/--nonull2] ... ok. exercise 217 [ phmmer/-Z] ... ok. exercise 218 [ phmmer/--domZ] ... ok. exercise 219 [ phmmer/--seed] ... ok. exercise 220 [ phmmer/--qformat] ... ok. exercise 221 [ phmmer/--tformat] ... ok. exercise 222 [ nhmmer] ... ok. exercise 223 [ nhmmer/-h] ... ok. exercise 224 [ nhmmer/-o] ... ok. exercise 225 [ nhmmer/-A] ... ok. exercise 226 [ nhmmer/--tblout] ... ok. exercise 227 [ nhmmer/--dfamtblout] ... ok. exercise 228 [ nhmmer/--acc] ... ok. exercise 229 [ nhmmer/--noali] ... ok. exercise 230 [ nhmmer/--notextw] ... ok. exercise 231 [ nhmmer/--textw] ... ok. exercise 232 [ nhmmer/-E] ... ok. exercise 233 [ nhmmer/-T] ... ok. exercise 234 [ nhmmer/--incE] ... ok. exercise 235 [ nhmmer/--incT] ... ok. exercise 236 [ nhmmer/--max] ... ok. exercise 237 [ nhmmer/--F1] ... ok. exercise 238 [ nhmmer/--F2] ... ok. exercise 239 [ nhmmer/--F3] ... ok. exercise 240 [ nhmmer/--nobias] ... ok. exercise 241 [ nhmmer/--nonull2] ... ok. exercise 242 [ nhmmer/-Z] ... ok. exercise 243 [ nhmmer/--seed] ... ok. exercise 244 [ nhmmscan] ... ok. exercise 245 [ nhmmscan/-h] ... ok. exercise 246 [ nhmmscan/-o] ... ok. exercise 247 [ nhmmscan/--tblout] ... ok. exercise 248 [nhmmscan/--dfamtblout] ... ok. exercise 249 [ nhmmscan/--acc] ... ok. exercise 250 [ nhmmscan/--noali] ... ok. exercise 251 [ nhmmscan/--notextw] ... ok. exercise 252 [ nhmmscan/--textw] ... ok. exercise 253 [ nhmmscan/-E] ... ok. exercise 254 [ nhmmscan/-T] ... ok. exercise 255 [ nhmmscan/--incE] ... ok. exercise 256 [ nhmmscan/--incT] ... ok. exercise 257 [ nhmmscan/--max] ... ok. exercise 258 [ nhmmscan/--F1] ... ok. exercise 259 [ nhmmscan/--F2] ... ok. exercise 260 [ nhmmscan/--F3] ... ok. exercise 261 [ nhmmscan/--nobias] ... ok. exercise 262 [ nhmmscan/--nonull2] ... ok. exercise 263 [ nhmmscan/-Z] ... ok. exercise 264 [ nhmmscan/--seed] ... ok. exercise 265 [ hmmemit] ... ok. exercise 266 [ hmmemit/-h] ... ok. exercise 267 [ hmmemit/-c] ... ok. exercise 268 [ hmmemit/-o] ... ok. exercise 269 [ hmmemit/-p] ... ok. exercise 270 [ hmmemit/-N] ... ok. exercise 271 [ hmmemit/-L] ... ok. exercise 272 [ hmmemit/--local] ... ok. exercise 273 [ hmmemit/--unilocal] ... ok. exercise 274 [ hmmemit/--glocal] ... ok. exercise 275 [ hmmemit/--uniglocal] ... ok. exercise 276 [ hmmfetch] ... ok. exercise 277 [ hmmstat] ... ok. exercise 278 [ hmmlogo] ... ok. exercise 279 [ hmmconvert] ... ok. exercise 280 [ hmmsim] ... ok. exercise 281 [ hmmbuild_variation] ... ok. exercise 282 [ hmmscan_variation] ... ok. exercise 283 [ hmmsearch_variation] ... ok. exercise 284 [ phmmer_variation] ... ok. exercise 285 [ mapali] ... ok. exercise 286 [ fragments] ... ok. exercise 287 [ nonresidues] ... ok. exercise 288 [ opt-annotation] ... ok. exercise 289 [ dup-names] ... ok. exercise 290 [ mapali-again] ... ok. exercise 291 [ delete-corruption] ... ok. exercise 292 [ msa-integrity] ... ok. exercise 293 [ hmmemit-consensus] ... ok. exercise 294 [ hmmconvert] ... ok. exercise 295 [ stdin_pipes] ... ok. exercise 296 [ nhmmer_generic] ... ok. exercise 297 [ hmmpgmd_ga] ... ok. exercise 298 [ rewind] ... ok. exercise 299 [ hmmpgmd_shard_ga] ... ok. exercise 300 [ bad-fasta] ... ok. exercise 301 [ brute-itest] ... ok. exercise 302 [ hmmpress-itest] ... ok. exercise 303 [ h39] ... ok. exercise 304 [ h45] ... ok. exercise 305 [ h50] ... ok. exercise 306 [ h82] ... ok. exercise 307 [ iss159] ... ok. All 307 exercises at level <= 2 passed. System information: Sun Apr 26 23:31:13 UTC 2026 Linux carme 6.18.5+deb14-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.18.5-1 (2026-01-16) x86_64 GNU/Linux make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/testsuite' make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' if tail -n 6 debian/test_log | head -n 1 | grep -q FAILED ; then false ; fi make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j2 install DESTDIR=/build/hmmer-Mjf7Ny/hmmer-3.4\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' make -C easel all make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' make -C miniapps all make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel/miniapps' make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/easel' make -C src all make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' make -C impl_sse libhmmer-impl.stamp make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' make[3]: 'libhmmer-impl.stamp' is up to date. make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src/impl_sse' make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' make -C profmark all make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/profmark' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/profmark' if [ ! -d /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/tmp/usr/bin ]; then /usr/bin/install -c -d /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/tmp/usr/bin; fi if [ ! -d /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/tmp/usr/share/man/man1 ]; then /usr/bin/install -c -d /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/tmp/usr/share/man/man1; fi make -C src install make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' for file in alimask hmmalign hmmbuild hmmconvert hmmemit hmmfetch hmmlogo hmmpgmd hmmpgmd_shard hmmpress hmmscan hmmsearch hmmsim hmmstat jackhmmer phmmer nhmmer nhmmscan makehmmerdb; do \ /usr/bin/install -c -m 0755 $file /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/tmp/usr/bin/ ;\ done make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/src' make -C documentation install make[2]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/documentation' make -C man install make[3]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/documentation/man' for file in hmmer hmmalign hmmbuild hmmconvert hmmemit hmmfetch hmmlogo hmmpgmd hmmpgmd_shard hmmpress hmmscan hmmsearch hmmsim hmmstat jackhmmer makehmmerdb phmmer nhmmer nhmmscan alimask; do \ /usr/bin/install -c -m 0664 $file.man /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/tmp/usr/share/man/man1/${file}.1 ;\ done make[3]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/documentation/man' make[2]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/documentation' make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' debian/rules execute_after_dh_auto_install make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' mkdir -p /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer/usr/lib/x86_64-linux-gnu/hmmer/ cp src/hmmc2 /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer/usr/lib/x86_64-linux-gnu/hmmer/ make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' dh_install dh_installdocs dh_installchangelogs debian/rules execute_after_dh_installexamples make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' mkdir -p /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src/impl find src/ -maxdepth 1 -name "*_utest" -exec cp \{\} /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src/ \; find src/impl_sse -name "*_utest" -exec cp \{\} /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src/impl \; cp src/itest_brute /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src cp src/hmmpress.itest.pl /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src cp -aR testsuite /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples find easel -name "*.o" -delete cp -aR easel /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples cp -aR tutorial /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples find /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples -name 'Makefile' | xargs sed -i "s^/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg^.^g" find /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples -name "esltmp*" -delete make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' dh_installman dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' dh_compress -Xtutorial/ make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' dh_fixperms debian/rules execute_after_dh_fixperms make[1]: Entering directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' find debian -name .dropbox.attr -delete find debian -name "*.fa" -executable -exec chmod -x \{\} \; find /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples -name "*.man" -exec chmod -x \{\} \; make[1]: Leaving directory '/build/hmmer-Mjf7Ny/hmmer-3.4+dfsg' dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'hmmer' in '../hmmer_3.4+dfsg-3_amd64.deb'. dpkg-deb: building package 'hmmer-doc' in '../hmmer-doc_3.4+dfsg-3_all.deb'. dpkg-deb: building package 'hmmer-examples' in '../hmmer-examples_3.4+dfsg-3_amd64.deb'. dpkg-deb: building package 'hmmer-dbgsym' in '../hmmer-dbgsym_3.4+dfsg-3_amd64.deb'. dpkg-genbuildinfo -O../hmmer_3.4+dfsg-3_amd64.buildinfo dpkg-genchanges -O../hmmer_3.4+dfsg-3_amd64.changes dpkg-genchanges: info: not including original source code in upload dpkg-source -Zxz --after-build . dpkg-source: info: using options from /build/hmmer-Mjf7Ny/hmmer-3.4+dfsg/debian/source/options: --extend-diff-ignore=(^|/)config.(sub|guess)$ dpkg-buildpackage: info: binary and diff upload (original source NOT included) -------------------------------------------------------------------------------- Build finished at 2026-04-26T23:31:55Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Sun, 26 Apr 2026 23:31:55 +0000 | +------------------------------------------------------------------------------+ hmmer_3.4+dfsg-3_amd64.changes: ------------------------------- Format: 1.8 Date: Mon, 29 Sep 2025 14:45:00 +0200 Source: hmmer Binary: hmmer hmmer-dbgsym hmmer-doc hmmer-examples Architecture: source amd64 all Version: 3.4+dfsg-3 Distribution: perl-5.42-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Santiago Vila Description: hmmer - profile hidden Markov models for protein sequence analysis hmmer-doc - profile hidden Markov models for protein sequence analysis (docs) hmmer-examples - profile hidden Markov models for protein sequence analysis (examp Closes: 1103312 Changes: hmmer (3.4+dfsg-3) unstable; urgency=medium . * Team upload. . [ Michael R. Crusoe ] * d/rules: use DEB_BUILD_OPTION_PARALLEL instead of nproc to respect Debian Policy 4.9.1. . [ Santiago Vila ] * d/rules: Put V=VERBOSE at the beginning to be used in all targets. * d/rules: Do not filter nocheck in override_dh_auto_test, dh already does that. * d/rules: make tests after dh_auto_build, required by dh_installexamples. Fixes FTBFS when built with nocheck build profile. Closes: #1103312. * d/rules: Use execute_after_* where possible. * d/salsa-ci.yml: Use the simplified form. * d/salsa-ci.yml: Disable reprotest job, it does not work. * d/salsa-ci.yml: Enable nocheck build profile job. * d/control: Drop "Rules-Required-Root: no", no longer needed. * d/control: Update standards-version. 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libsmartcols1 (= 2.42-5), libsqlite3-0 (= 3.46.1-9+b1), libssl3t64 (= 3.6.2-1), libstdc++-15-dev (= 15.2.0-17), libstdc++6 (= 16-20260425-1), libsystemd0 (= 260.1-1), libtinfo6 (= 6.6+20251231-1), libtool (= 2.5.4-11), libtsan2 (= 16-20260425-1), libubsan1 (= 16-20260425-1), libuchardet0 (= 0.0.8-2+b1), libudev1 (= 260.1-1), libunistring5 (= 1.4.2-1), libuuid1 (= 2.42-5), libxml2-16 (= 2.15.2+dfsg-0.1), libzstd1 (= 1.5.7+dfsg-3+b1), linux-libc-dev (= 6.19.14-1), m4 (= 1.4.21-1), make (= 4.4.1-3), man-db (= 2.13.1-1), mawk (= 1.3.4.20260302-1), media-types (= 14.0.0), ncurses-base (= 6.6+20251231-1), ncurses-bin (= 6.6+20251231-1), netbase (= 6.5), openssl-provider-legacy (= 3.6.2-1), patch (= 2.8-2), perl (= 5.42.2-1), perl-base (= 5.42.2-1), perl-modules-5.42 (= 5.42.2-1), po-debconf (= 1.0.22), python3 (= 3.13.9-3), python3-minimal (= 3.13.9-3), python3.13 (= 3.13.12-1), python3.13-minimal (= 3.13.12-1), readline-common (= 8.3-4), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-3), 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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. . 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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. . 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md5sums Package: hmmer Version: 3.4+dfsg-3 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 6489 Depends: libc6 (>= 2.38), libdivsufsort3 (>= 2.0.1) Suggests: hmmer-doc (>= 3.4+dfsg-3) Section: science Priority: optional Homepage: http://hmmer.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 2025-09-29 12:45 ./ drwxr-xr-x root/root 0 2025-09-29 12:45 ./usr/ drwxr-xr-x root/root 0 2025-09-29 12:45 ./usr/bin/ -rwxr-xr-x root/root 172280 2025-09-29 12:45 ./usr/bin/alimask -rwxr-xr-x root/root 384200 2025-09-29 12:45 ./usr/bin/hmmalign -rwxr-xr-x root/root 372392 2025-09-29 12:45 ./usr/bin/hmmbuild -rwxr-xr-x root/root 183208 2025-09-29 12:45 ./usr/bin/hmmconvert -rwxr-xr-x root/root 208552 2025-09-29 12:45 ./usr/bin/hmmemit -rwxr-xr-x root/root 191560 2025-09-29 12:45 ./usr/bin/hmmfetch -rwxr-xr-x root/root 170888 2025-09-29 12:45 ./usr/bin/hmmlogo -rwxr-xr-x root/root 500072 2025-09-29 12:45 ./usr/bin/hmmpgmd -rwxr-xr-x root/root 504264 2025-09-29 12:45 ./usr/bin/hmmpgmd_shard -rwxr-xr-x root/root 187064 2025-09-29 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+------------------------------------------------------------------------------+ | Post Build Sun, 26 Apr 2026 23:31:57 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Sun, 26 Apr 2026 23:31:57 +0000 | +------------------------------------------------------------------------------+ Purging /build/hmmer-Mjf7Ny Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Sun, 26 Apr 2026 23:31:57 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 292876 Build-Time: 509 Distribution: perl-5.42-throwaway Host Architecture: amd64 Install-Time: 10 Job: /srv/debomatic/incoming/hmmer_3.4+dfsg-3.dsc Machine Architecture: amd64 Package: hmmer Package-Time: 532 Source-Version: 3.4+dfsg-3 Space: 292876 Status: successful Version: 3.4+dfsg-3 -------------------------------------------------------------------------------- Finished at 2026-04-26T23:31:55Z Build needed 00:08:52, 292876k disk space