Diff of the two buildlogs: -- --- b1/build.log 2024-05-07 18:39:41.725301672 +0000 +++ b2/build.log 2024-05-07 19:35:36.878547012 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue May 7 05:24:30 -12 2024 -I: pbuilder-time-stamp: 1715102670 +I: Current time: Wed May 8 08:41:46 +14 2024 +I: pbuilder-time-stamp: 1715107306 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -32,52 +32,84 @@ dpkg-source: info: applying cross.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/12289/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/29476/tmp/hooks/D01_modify_environment starting +debug: Running on virt32c. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 May 7 18:42 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/29476/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/29476/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='armhf' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='aeaf1394f91146fb810631128cd6c49e' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='12289' - PS1='# ' - PS2='> ' + INVOCATION_ID=5eb0e194bc7845c49e4b99e9ec4984bf + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=29476 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.YWotNCFy/pbuilderrc_i4n5 --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.YWotNCFy/b1 --logfile b1/build.log exonerate_2.4.0-5.dsc' - SUDO_GID='114' - SUDO_UID='108' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.YWotNCFy/pbuilderrc_SthG --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.YWotNCFy/b2 --logfile b2/build.log exonerate_2.4.0-5.dsc' + SUDO_GID=113 + SUDO_UID=107 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux virt64a 6.1.0-21-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-21-armmp-lpae #1 SMP Debian 6.1.90-1 (2024-05-03) armv7l GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 May 5 11:24 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/12289/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 6 11:24 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/29476/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -183,7 +215,7 @@ Get: 64 http://deb.debian.org/debian trixie/main armhf libncurses6 armhf 6.4+20240414-1 [81.8 kB] Get: 65 http://deb.debian.org/debian trixie/main armhf libncurses-dev armhf 6.4+20240414-1 [309 kB] Get: 66 http://deb.debian.org/debian trixie/main armhf libreadline-dev armhf 8.2-4 [137 kB] -Fetched 31.5 MB in 2s (18.8 MB/s) +Fetched 31.5 MB in 1s (38.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:armhf. (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 ... 19444 files and directories currently installed.) @@ -411,8 +443,8 @@ Setting up tzdata (2024a-3) ... Current default time zone: 'Etc/UTC' -Local time is now: Tue May 7 17:31:47 UTC 2024. -Universal Time is now: Tue May 7 17:31:47 UTC 2024. +Local time is now: Tue May 7 18:42:40 UTC 2024. +Universal Time is now: Tue May 7 18:42:40 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -475,7 +507,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/exonerate-2.4.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../exonerate_2.4.0-5_source.changes +I: user script /srv/workspace/pbuilder/29476/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/29476/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/exonerate-2.4.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../exonerate_2.4.0-5_source.changes dpkg-buildpackage: info: source package exonerate dpkg-buildpackage: info: source version 2.4.0-5 dpkg-buildpackage: info: source distribution unstable @@ -635,7 +671,7 @@ config.status: creating test/data/protein/Makefile config.status: executing depfiles commands dh_auto_build - make -j3 + make -j4 make[1]: Entering directory '/build/reproducible-path/exonerate-2.4.0' Making all in doc make[2]: Entering directory '/build/reproducible-path/exonerate-2.4.0/doc' @@ -668,8 +704,6 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o slist.o slist.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o rangetree.test.o rangetree.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o rangetree.o rangetree.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o vfsm.test.o vfsm.test.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o vfsm.o vfsm.c rangetree.c: In function 'RangeTree_insert_recent': rangetree.c:151:5: warning: 'g_tree_traverse' is deprecated [-Wdeprecated-declarations] 151 | g_tree_traverse(rt->recent_data, RangeTree_insert_recent_collect, @@ -680,6 +714,8 @@ /usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here 148 | void g_tree_traverse (GTree *tree, | ^~~~~~~~~~~~~~~ +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o vfsm.test.o vfsm.test.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o vfsm.o vfsm.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o recyclebin.test.o recyclebin.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o sparsecache.test.o sparsecache.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o sparsecache.o sparsecache.c @@ -687,6 +723,9 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o dejavu.o dejavu.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o bitarray.test.o bitarray.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o bitarray.o bitarray.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o splaytree.test.o splaytree.test.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o splaytree.o splaytree.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o noitree.test.o noitree.test.c bitarray.c: In function 'BitArray_read': bitarray.c:83:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 83 | fread(ba->data, sizeof(guchar), size, fp); @@ -695,9 +734,6 @@ bitarray.c:189:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 189 | fread(&num, sizeof(guint64), 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o splaytree.test.o splaytree.test.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o splaytree.o splaytree.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o noitree.test.o noitree.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o noitree.o noitree.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o fsm.test fsm.test.o fsm.o recyclebin.o -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o matrix.test matrix.test.o matrix.o -lglib-2.0 @@ -717,6 +753,8 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o argument.test.o argument.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o argument.o argument.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o lineparse.test.o lineparse.test.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o lineparse.o lineparse.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o compoundfile.test.o compoundfile.test.c argument.c: In function 'ArgumentParse_boolean': argument.c:138:9: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 138 | if(!g_strcasecmp(arg_string, true_string[i])) @@ -764,11 +802,10 @@ /usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here 148 | void g_tree_traverse (GTree *tree, | ^~~~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o lineparse.o lineparse.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o compoundfile.test.o compoundfile.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o compoundfile.o compoundfile.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o socket.test.o socket.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o socket.o socket.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o jobqueue.test.o jobqueue.test.c socket.c: In function 'Socket_send': socket.c:168:13: warning: Deprecated pre-processor symbol: replace with "g_string_append_printf" 168 | g_string_sprintfa(full_msg, "linecount: %d\n", line_count+1); @@ -797,7 +834,7 @@ socket.c:142:9: note: in expansion of macro 'g_string_free' 142 | g_string_free(string, FALSE); | ^~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o jobqueue.test.o jobqueue.test.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o jobqueue.o jobqueue.c jobqueue.test.c: In function 'main': jobqueue.test.c:34:13: warning: Deprecated pre-processor symbol 34 | if(!g_thread_supported()) @@ -811,7 +848,6 @@ /usr/include/glib-2.0/glib/deprecated/gthread.h:267:10: note: declared here 267 | void g_thread_init (gpointer vtable); | ^~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o jobqueue.o jobqueue.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o threadref.test.o threadref.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I../../src/struct -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o threadref.o threadref.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o argument.test argument.test.o argument.o -lglib-2.0 @@ -826,6 +862,18 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o sequence.test.o sequence.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o sequence.o sequence.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o alphabet.o alphabet.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o translate.o translate.c +sequence.c: In function 'Sequence_destroy_annotation_tree': +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o splice.o splice.c +sequence.c:97:5: warning: 'g_tree_traverse' is deprecated [-Wdeprecated-declarations] + 97 | g_tree_traverse(tree, Sequence_destroy_annotation_data, + | ^~~~~~~~~~~~~~~ +In file included from /usr/include/glib-2.0/glib.h:95, + from sequence.h:24, + from sequence.c:21: +/usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here + 148 | void g_tree_traverse (GTree *tree, + | ^~~~~~~~~~~~~~~ alphabet.c: In function 'Alphabet_name_get_type': alphabet.c:317:9: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 317 | if(!g_strcasecmp(name, dna_string[i])) @@ -850,18 +898,7 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ -sequence.c: In function 'Sequence_destroy_annotation_tree': -sequence.c:97:5: warning: 'g_tree_traverse' is deprecated [-Wdeprecated-declarations] - 97 | g_tree_traverse(tree, Sequence_destroy_annotation_data, - | ^~~~~~~~~~~~~~~ -In file included from /usr/include/glib-2.0/glib.h:95, - from sequence.h:24, - from sequence.c:21: -/usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here - 148 | void g_tree_traverse (GTree *tree, - | ^~~~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o translate.o translate.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o splice.o splice.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o submat.test.o submat.test.c splice.c: In function 'SplicePredictor_parse_data': splice.c:146:17: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 146 | if(!g_strcasecmp(word, "splice")) @@ -888,7 +925,6 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o submat.test.o submat.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o submat.o submat.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o translate.test.o translate.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o splice.test.o splice.test.c @@ -908,7 +944,6 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o wordhood.o wordhood.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o hspset.test.o hspset.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o hspset.o hspset.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o match.o match.c hspset.c: In function 'HSP_Display_insert': hspset.c:637:9: warning: 'g_strdown' is deprecated [-Wdeprecated-declarations] 637 | g_strdown(query_str); @@ -939,8 +974,10 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:277:23: note: declared here 277 | gchar* g_strup (gchar *string); | ^~~~~~~ +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o match.o match.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o pcr.test.o pcr.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o pcr.o pcr.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o comparison.test.o comparison.test.c pcr.c: In function 'PCR_Match_allocate': pcr.c:31:9: warning: 'g_mem_chunk_alloc' is deprecated [-Wdeprecated-declarations] 31 | pcr_match = g_chunk_new(PCR_Match, pcr->match_mem_chunk); @@ -1033,13 +1070,11 @@ /usr/include/glib-2.0/glib/deprecated/gallocator.h:48:17: note: declared here 48 | void g_mem_chunk_destroy (GMemChunk *mem_chunk); | ^~~~~~~~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o comparison.test.o comparison.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o comparison.o comparison.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o match.test.o match.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o seeder.test.o seeder.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o seeder.o seeder.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o wordhood.test wordhood.test.o wordhood.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o hspset.test hspset.test.o hspset.o match.o wordhood.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o pcr.test pcr.test.o pcr.o wordhood.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/fsm.o ../../src/struct/slist.o ../../src/struct/recyclebin.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 seeder.c: In function 'Seeder_decide_fsm_type': seeder.c:268:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] @@ -1065,8 +1100,9 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o comparison.test comparison.test.o comparison.o hspset.o match.o wordhood.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/recyclebin.o ../../src/struct/pqueue.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o match.test match.test.o match.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o hspset.test hspset.test.o hspset.o match.o wordhood.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o comparison.test comparison.test.o comparison.o hspset.o match.o wordhood.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/recyclebin.o ../../src/struct/pqueue.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o seeder.test seeder.test.o seeder.o wordhood.o hspset.o match.o comparison.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/recyclebin.o ../../src/struct/fsm.o ../../src/struct/vfsm.o ../../src/struct/pqueue.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 make[3]: Leaving directory '/build/reproducible-path/exonerate-2.4.0/src/comparison' Making all in database @@ -1074,6 +1110,7 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -I../../src/comparison -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastadb.test.o fastadb.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -I../../src/comparison -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastadb.o fastadb.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -I../../src/comparison -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastapipe.test.o fastapipe.test.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -I../../src/comparison -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastapipe.o fastapipe.c In file included from /usr/include/glib-2.0/glib/giochannel.h:36, from /usr/include/glib-2.0/glib.h:56, from fastadb.h:24, @@ -1095,7 +1132,6 @@ fastadb.c:560:5: note: in expansion of macro 'g_string_free' 560 | g_string_free(s, FALSE); | ^~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -I../../src/comparison -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastapipe.o fastapipe.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -I../../src/comparison -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o dataset.test.o dataset.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -I../../src/comparison -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o dataset.o dataset.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/struct -I../../src/general -I../../src/comparison -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o index.test.o index.test.c @@ -1119,6 +1155,7 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o c4.o c4.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o alignment.test.o alignment.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o alignment.o alignment.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o codegen.test.o codegen.test.c In file included from /usr/include/glib-2.0/glib/giochannel.h:36, from /usr/include/glib-2.0/glib.h:56, from c4.h:23, @@ -1140,7 +1177,7 @@ c4.c:1236:5: note: in expansion of macro 'g_string_free' 1236 | g_string_free(s, FALSE); | ^~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o codegen.test.o codegen.test.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o codegen.o codegen.c alignment.c: In function 'AlignmentView_add_SPLICE_SITE': alignment.c:660:9: warning: 'g_strdown' is deprecated [-Wdeprecated-declarations] 660 | g_strdown(qy_seq_string); @@ -1184,7 +1221,7 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:277:23: note: declared here 277 | gchar* g_strup (gchar *string); | ^~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o codegen.o codegen.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o optimal.test.o optimal.test.c In file included from /usr/include/glib-2.0/glib/giochannel.h:36, from /usr/include/glib-2.0/glib.h:56, from codegen.h:23, @@ -1223,7 +1260,6 @@ codegen.c:154:5: note: in expansion of macro 'g_string_free' 154 | g_string_free(str, FALSE); | ^~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o optimal.test.o optimal.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o optimal.o optimal.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o layout.o layout.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o viterbi.o viterbi.c @@ -1258,14 +1294,14 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o cgutil.test.o cgutil.test.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o region.test region.test.o region.o -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o c4.test c4.test.o c4.o region.o ../../src/struct/matrix.o ../../src/general/threadref.o -lglib-2.0 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o alignment.test alignment.test.o alignment.o c4.o region.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o codegen.test codegen.test.o codegen.o ../../src/general/argument.o -lglib-2.0 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o optimal.test optimal.test.o optimal.o c4.o alignment.o codegen.o region.o layout.o viterbi.o subopt.o cgutil.o ../../src/struct/slist.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o layout.test layout.test.o layout.o ../../src/struct/matrix.o -lglib-2.0 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o viterbi.test viterbi.test.o viterbi.o c4.o region.o alignment.o codegen.o layout.o subopt.o cgutil.o ../../src/struct/slist.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o opair.test opair.test.o opair.o optimal.o c4.o alignment.o codegen.o region.o layout.o viterbi.o subopt.o cgutil.o ../../src/struct/slist.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o subopt.test subopt.test.o subopt.o region.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o cgutil.test cgutil.test.o cgutil.o codegen.o c4.o region.o ../../src/general/argument.o ../../src/struct/matrix.o ../../src/general/threadref.o -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o alignment.test alignment.test.o alignment.o c4.o region.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o optimal.test optimal.test.o optimal.o c4.o alignment.o codegen.o region.o layout.o viterbi.o subopt.o cgutil.o ../../src/struct/slist.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o viterbi.test viterbi.test.o viterbi.o c4.o region.o alignment.o codegen.o layout.o subopt.o cgutil.o ../../src/struct/slist.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o opair.test opair.test.o opair.o optimal.o c4.o alignment.o codegen.o region.o layout.o viterbi.o subopt.o cgutil.o ../../src/struct/slist.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/general/threadref.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o -lm -lglib-2.0 make[3]: Leaving directory '/build/reproducible-path/exonerate-2.4.0/src/c4' Making all in bsdp make[3]: Entering directory '/build/reproducible-path/exonerate-2.4.0/src/bsdp' @@ -1279,8 +1315,8 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -I../../src/c4 -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o sar.test.o sar.test.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o heuristic.test heuristic.test.o heuristic.o ../../src/struct/slist.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/c4/c4.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/codegen.o ../../src/c4/region.o ../../src/c4/layout.o ../../src/c4/viterbi.o ../../src/c4/subopt.o ../../src/c4/cgutil.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o bsdp.test bsdp.test.o bsdp.o ../../src/general/argument.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o -lglib-2.0 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o hpair.test hpair.test.o hpair.o heuristic.o bsdp.o sar.o ../../src/struct/slist.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/hspset.o ../../src/comparison/wordhood.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/c4/c4.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/codegen.o ../../src/c4/region.o ../../src/c4/layout.o ../../src/c4/viterbi.o ../../src/c4/subopt.o ../../src/c4/cgutil.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o sar.test sar.test.o sar.o heuristic.o ../../src/struct/slist.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/c4/c4.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/codegen.o ../../src/c4/region.o ../../src/c4/layout.o ../../src/c4/viterbi.o ../../src/c4/subopt.o ../../src/c4/cgutil.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o hpair.test hpair.test.o hpair.o heuristic.o bsdp.o sar.o ../../src/struct/slist.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/comparison/hspset.o ../../src/comparison/wordhood.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/c4/c4.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/codegen.o ../../src/c4/region.o ../../src/c4/layout.o ../../src/c4/viterbi.o ../../src/c4/subopt.o ../../src/c4/cgutil.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 make[3]: Leaving directory '/build/reproducible-path/exonerate-2.4.0/src/bsdp' Making all in sdp make[3]: Entering directory '/build/reproducible-path/exonerate-2.4.0/src/sdp' @@ -1294,11 +1330,11 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -I../../src/c4 -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o boundary.test.o boundary.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -I../../src/c4 -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o scheduler.test.o scheduler.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/struct -I../../src/comparison -I../../src/sequence -I../../src/general -I../../src/c4 -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o straceback.test.o straceback.test.c -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o sdp.test sdp.test.o sdp.o boundary.o scheduler.o lookahead.o straceback.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/comparison/hspset.o ../../src/comparison/comparison.o ../../src/comparison/wordhood.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/c4/c4.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/codegen.o ../../src/c4/region.o ../../src/c4/layout.o ../../src/c4/viterbi.o ../../src/c4/subopt.o ../../src/c4/cgutil.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o lookahead.test lookahead.test.o lookahead.o -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o boundary.test boundary.test.o boundary.o ../../src/general/argument.o ../../src/c4/region.o -lglib-2.0 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o scheduler.test scheduler.test.o scheduler.o lookahead.o boundary.o straceback.o ../../src/struct/recyclebin.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/c4/c4.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/codegen.o ../../src/c4/region.o ../../src/c4/layout.o ../../src/c4/viterbi.o ../../src/c4/subopt.o ../../src/c4/cgutil.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o straceback.test straceback.test.o straceback.o ../../src/struct/recyclebin.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/c4/c4.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/codegen.o ../../src/c4/region.o ../../src/c4/layout.o ../../src/c4/viterbi.o ../../src/c4/subopt.o ../../src/c4/cgutil.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o sdp.test sdp.test.o sdp.o boundary.o scheduler.o lookahead.o straceback.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/comparison/hspset.o ../../src/comparison/comparison.o ../../src/comparison/wordhood.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/c4/c4.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/codegen.o ../../src/c4/region.o ../../src/c4/layout.o ../../src/c4/viterbi.o ../../src/c4/subopt.o ../../src/c4/cgutil.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o scheduler.test scheduler.test.o scheduler.o lookahead.o boundary.o straceback.o ../../src/struct/recyclebin.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/c4/c4.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/codegen.o ../../src/c4/region.o ../../src/c4/layout.o ../../src/c4/viterbi.o ../../src/c4/subopt.o ../../src/c4/cgutil.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 make[3]: Leaving directory '/build/reproducible-path/exonerate-2.4.0/src/sdp' Making all in model make[3]: Entering directory '/build/reproducible-path/exonerate-2.4.0/src/model' @@ -1334,6 +1370,23 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/sequence -I../../src/general -I../../src/comparison -I../../src/struct -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o modeltype.o modeltype.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/sequence -I../../src/general -I../../src/comparison -I../../src/struct -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DGLIB_CFLAGS="\"-I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include \"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o bootstrapper.o bootstrapper.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o edit_distance.test edit_distance.test.o edit_distance.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o affine.test affine.test.o affine.o ungapped.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o protein2dna.test protein2dna.test.o protein2dna.o affine.o ungapped.o frameshift.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o ner.test ner.test.o ner.o affine.o ungapped.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o est2genome.test est2genome.test.o est2genome.o affine.o ungapped.o intron.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 +bootstrapper.c: In function 'Argument_main': +bootstrapper.c:421:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] + 421 | if((!models) || (!g_strcasecmp(models, "all"))) + | ^~ +In file included from /usr/include/glib-2.0/glib/gstring.h:37, + from /usr/include/glib-2.0/glib/giochannel.h:36, + from /usr/include/glib-2.0/glib.h:56, + from ../../src/c4/c4.h:23, + from ungapped.h:23, + from bootstrapper.c:20: +/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here + 268 | gint g_strcasecmp (const gchar *s1, + | ^~~~~~~~~~~~ modeltype.c: In function 'Model_Type_from_string': modeltype.c:121:9: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 121 | if(!g_strcasecmp(name[i], str)) @@ -1353,23 +1406,6 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o affine.test affine.test.o affine.o ungapped.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 -bootstrapper.c: In function 'Argument_main': -bootstrapper.c:421:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] - 421 | if((!models) || (!g_strcasecmp(models, "all"))) - | ^~ -In file included from /usr/include/glib-2.0/glib/gstring.h:37, - from /usr/include/glib-2.0/glib/giochannel.h:36, - from /usr/include/glib-2.0/glib.h:56, - from ../../src/c4/c4.h:23, - from ungapped.h:23, - from bootstrapper.c:20: -/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here - 268 | gint g_strcasecmp (const gchar *s1, - | ^~~~~~~~~~~~ -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o protein2dna.test protein2dna.test.o protein2dna.o affine.o ungapped.o frameshift.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o ner.test ner.test.o ner.o affine.o ungapped.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o est2genome.test est2genome.test.o est2genome.o affine.o ungapped.o intron.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o ungapped.test ungapped.test.o ungapped.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o intron.test intron.test.o intron.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o protein2genome.test protein2genome.test.o protein2genome.o protein2dna.o ungapped.o intron.o affine.o frameshift.o phase.o ../../src/struct/slist.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/alignment.o ../../src/c4/region.o ../../src/c4/c4.o ../../src/c4/subopt.o ../../src/comparison/match.o ../../src/sequence/codonsubmat.o ../../src/sequence/submat.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 @@ -1387,6 +1423,7 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o gam.test.o gam.test.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o gam.o gam.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o analysis.test.o analysis.test.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o analysis.o analysis.c gam.c: In function 'GAM_Refinement_from_string': gam.c:68:9: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 68 | if(!g_strcasecmp(name[i], str)) @@ -1421,8 +1458,8 @@ /usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here 148 | void g_tree_traverse (GTree *tree, | ^~~~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o analysis.o analysis.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o bsam.o bsam.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o bsam.test.o bsam.test.c analysis.c: In function 'Analysis_decide_scan_query': analysis.c:329:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 329 | if(!g_strcasecmp(force_scan, "none")){ @@ -1476,7 +1513,6 @@ analysis.c:474:5: note: in expansion of macro 'g_string_free' 474 | g_string_free(str, FALSE); | ^~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o bsam.test.o bsam.test.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o bsam.test bsam.test.o bsam.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/threadref.o ../../src/comparison/hspset.o ../../src/comparison/comparison.o ../../src/comparison/match.o ../../src/comparison/wordhood.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/translate.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/sequence/splice.o ../../src/struct/dejavu.o ../../src/struct/pqueue.o ../../src/struct/sparsecache.o ../../src/struct/recyclebin.o ../../src/struct/matrix.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o gam.test gam.test.o gam.o ../../src/comparison/hspset.o ../../src/comparison/comparison.o ../../src/comparison/wordhood.o ../../src/struct/sparsecache.o ../../src/general/compoundfile.o ../../src/general/threadref.o ../../src/c4/c4.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/opair.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/region.o ../../src/c4/subopt.o ../../src/bsdp/bsdp.o ../../src/bsdp/sar.o ../../src/bsdp/heuristic.o ../../src/bsdp/hpair.o ../../src/sdp/boundary.o ../../src/sdp/sdp.o ../../src/sdp/scheduler.o ../../src/sdp/straceback.o ../../src/sdp/lookahead.o ../../src/struct/matrix.o ../../src/struct/slist.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/translate.o ../../src/sequence/splice.o ../../src/model/affine.o ../../src/model/est2genome.o ../../src/model/ner.o ../../src/model/protein2dna.o ../../src/model/protein2genome.o ../../src/model/coding2coding.o ../../src/model/coding2genome.o ../../src/model/cdna2genome.o ../../src/model/genome2genome.o ../../src/model/ungapped.o ../../src/model/intron.o ../../src/model/frameshift.o ../../src/model/phase.o ../../src/model/modeltype.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/jobqueue.o ../../src/comparison/match.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o analysis.test analysis.test.o analysis.o gam.o bsam.o ../../src/comparison/hspset.o ../../src/comparison/wordhood.o ../../src/comparison/seeder.o ../../src/comparison/comparison.o ../../src/database/fastapipe.o ../../src/database/fastadb.o ../../src/struct/dejavu.o ../../src/struct/fsm.o ../../src/struct/vfsm.o ../../src/struct/sparsecache.o ../../src/general/compoundfile.o ../../src/general/socket.o ../../src/general/threadref.o ../../src/c4/c4.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/opair.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/viterbi.o ../../src/c4/layout.o ../../src/c4/region.o ../../src/c4/subopt.o ../../src/bsdp/bsdp.o ../../src/bsdp/sar.o ../../src/bsdp/heuristic.o ../../src/bsdp/hpair.o ../../src/sdp/boundary.o ../../src/sdp/sdp.o ../../src/sdp/scheduler.o ../../src/sdp/straceback.o ../../src/sdp/lookahead.o ../../src/struct/matrix.o ../../src/struct/slist.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/translate.o ../../src/sequence/splice.o ../../src/model/affine.o ../../src/model/est2genome.o ../../src/model/ner.o ../../src/model/protein2dna.o ../../src/model/protein2genome.o ../../src/model/coding2coding.o ../../src/model/coding2genome.o ../../src/model/cdna2genome.o ../../src/model/genome2genome.o ../../src/model/ungapped.o ../../src/model/intron.o ../../src/model/frameshift.o ../../src/model/phase.o ../../src/model/modeltype.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/jobqueue.o ../../src/comparison/match.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o -lm -lglib-2.0 @@ -1484,1432 +1520,1432 @@ Making all in program make[3]: Entering directory '/build/reproducible-path/exonerate-2.4.0/src/program' ../../src/model/bootstrapper --compiled no -** Message: 05:34:30.576: Starting building bootstrapping components -** Message: 05:34:30.577: Processing model [u] -** Message: 05:34:30.578: Bootstrapper processing model [ungapped:dna2dna] -** Message: 05:34:30.578: Process optimal [optimal:ungapped:dna2dna] +** Message: 08:44:02.656: Starting building bootstrapping components +** Message: 08:44:02.657: Processing model [u] +** Message: 08:44:02.659: Bootstrapper processing model [ungapped:dna2dna] +** Message: 08:44:02.659: Process optimal [optimal:ungapped:dna2dna] -** (process:609): WARNING **: 05:34:30.579: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen] +** (process:2796): WARNING **: 08:44:02.659: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen] -** (process:609): WARNING **: 05:34:30.579: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen] +** (process:2796): WARNING **: 08:44:02.659: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen] -** (process:609): WARNING **: 05:34:30.580: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf] +** (process:2796): WARNING **: 08:44:02.659: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf] -** (process:609): WARNING **: 05:34:30.580: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf] -** Message: 05:34:30.581: Compiling codegen: +** (process:2796): WARNING **: 08:44:02.660: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf] +** Message: 08:44:02.660: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_score.c -** Message: 05:34:31.464: Compiling codegen: +** Message: 08:44:03.303: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path.c -** Message: 05:34:32.465: Compiling codegen: +** Message: 08:44:04.075: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_region.c -** Message: 05:34:34.527: Compiling codegen: +** Message: 08:44:04.920: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.c -** Message: 05:34:35.980: Compiling codegen: +** Message: 08:44:06.043: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 05:34:37.924: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_score.o] -** Message: 05:34:37.925: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_score.o] to archive +** Message: 08:44:07.151: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_score.o] +** Message: 08:44:07.151: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_score.o] to archive ar -cSq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_score.o -** Message: 05:34:37.931: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_score] -** Message: 05:34:37.931: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path.o] -** Message: 05:34:37.932: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path.o] to archive +** Message: 08:44:07.159: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_score] +** Message: 08:44:07.159: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path.o] +** Message: 08:44:07.160: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path.o -** Message: 05:34:37.938: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_path] -** Message: 05:34:37.939: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_region.o] -** Message: 05:34:37.939: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_region.o] to archive +** Message: 08:44:07.168: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_path] +** Message: 08:44:07.168: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_region.o] +** Message: 08:44:07.168: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_region.o -** Message: 05:34:37.972: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_region] -** Message: 05:34:37.972: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o] -** Message: 05:34:37.972: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 08:44:07.176: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_region] +** Message: 08:44:07.177: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o] +** Message: 08:44:07.177: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o -** Message: 05:34:38.040: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint] -** Message: 05:34:38.040: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 05:34:38.041: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 08:44:07.186: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint] +** Message: 08:44:07.186: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 08:44:07.186: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 05:34:38.637: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation] -** Message: 05:34:38.637: Bootstrapper processing model [ungapped:protein2protein] -** Message: 05:34:38.638: Process optimal [optimal:ungapped:protein2protein] -** Message: 05:34:38.639: Compiling codegen: +** Message: 08:44:07.195: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation] +** Message: 08:44:07.196: Bootstrapper processing model [ungapped:protein2protein] +** Message: 08:44:07.196: Process optimal [optimal:ungapped:protein2protein] +** Message: 08:44:07.197: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_score.c -** Message: 05:34:40.852: Compiling codegen: +** Message: 08:44:07.817: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path.c -** Message: 05:34:42.008: Compiling codegen: +** Message: 08:44:08.563: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_region.c -** Message: 05:34:43.154: Compiling codegen: +** Message: 08:44:09.389: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.c -** Message: 05:34:45.557: Compiling codegen: +** Message: 08:44:10.449: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 05:34:47.327: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_score.o] -** Message: 05:34:47.328: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_score.o] to archive +** Message: 08:44:11.599: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_score.o] +** Message: 08:44:11.600: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_score.o -** Message: 05:34:47.347: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_score] -** Message: 05:34:47.348: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path.o] -** Message: 05:34:47.348: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path.o] to archive +** Message: 08:44:11.609: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_score] +** Message: 08:44:11.609: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path.o] +** Message: 08:44:11.610: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path.o -** Message: 05:34:47.403: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_path] -** Message: 05:34:47.404: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_region.o] -** Message: 05:34:47.404: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_region.o] to archive +** Message: 08:44:11.620: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_path] +** Message: 08:44:11.621: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_region.o] +** Message: 08:44:11.621: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_region.o -** Message: 05:34:47.447: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_region] -** Message: 05:34:47.448: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o] -** Message: 05:34:47.448: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 08:44:11.631: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_region] +** Message: 08:44:11.631: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o] +** Message: 08:44:11.631: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o -** Message: 05:34:47.483: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint] -** Message: 05:34:47.484: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 05:34:47.484: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 08:44:11.642: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint] +** Message: 08:44:11.643: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 08:44:11.643: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 05:34:47.520: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation] -** Message: 05:34:47.521: Bootstrapper processing model [ungapped:dna2protein] -** Message: 05:34:47.521: Process optimal [optimal:ungapped:dna2protein] -** Message: 05:34:47.523: Compiling codegen: +** Message: 08:44:11.654: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation] +** Message: 08:44:11.655: Bootstrapper processing model [ungapped:dna2protein] +** Message: 08:44:11.655: Process optimal [optimal:ungapped:dna2protein] +** Message: 08:44:11.656: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_score.c -** Message: 05:34:49.185: Compiling codegen: +** Message: 08:44:12.470: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path.c -** Message: 05:34:50.737: Compiling codegen: +** Message: 08:44:13.476: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_region.c -** Message: 05:34:53.745: Compiling codegen: +** Message: 08:44:14.622: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.c -** Message: 05:34:56.143: Compiling codegen: +** Message: 08:44:15.895: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.c -** Message: 05:34:58.396: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_score.o] -** Message: 05:34:58.397: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_score.o] to archive +** Message: 08:44:17.374: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_score.o] +** Message: 08:44:17.374: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_score.o -** Message: 05:34:58.410: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_score] -** Message: 05:34:58.411: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path.o] -** Message: 05:34:58.412: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path.o] to archive +** Message: 08:44:17.386: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_score] +** Message: 08:44:17.386: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path.o] +** Message: 08:44:17.386: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path.o -** Message: 05:34:58.440: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_path] -** Message: 05:34:58.440: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_region.o] -** Message: 05:34:58.441: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_region.o] to archive +** Message: 08:44:17.397: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_path] +** Message: 08:44:17.398: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_region.o] +** Message: 08:44:17.398: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_region.o -** Message: 05:34:58.468: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_region] -** Message: 05:34:58.468: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o] -** Message: 05:34:58.469: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o] to archive +** Message: 08:44:17.409: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_region] +** Message: 08:44:17.409: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o] +** Message: 08:44:17.410: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o -** Message: 05:34:58.521: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint] -** Message: 05:34:58.521: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o] -** Message: 05:34:58.521: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o] to archive +** Message: 08:44:17.423: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint] +** Message: 08:44:17.423: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o] +** Message: 08:44:17.424: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o -** Message: 05:34:58.560: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation] -** Message: 05:34:58.560: Bootstrapper processing model [ungapped:protein2dna] -** Message: 05:34:58.560: Process optimal [optimal:ungapped:protein2dna] -** Message: 05:34:58.561: Compiling codegen: +** Message: 08:44:17.440: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation] +** Message: 08:44:17.440: Bootstrapper processing model [ungapped:protein2dna] +** Message: 08:44:17.440: Process optimal [optimal:ungapped:protein2dna] +** Message: 08:44:17.441: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_score.c -** Message: 05:34:59.804: Compiling codegen: +** Message: 08:44:18.206: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path.c -** Message: 05:35:01.427: Compiling codegen: +** Message: 08:44:19.118: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_region.c -** Message: 05:35:02.909: Compiling codegen: +** Message: 08:44:20.147: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.c -** Message: 05:35:04.921: Compiling codegen: +** Message: 08:44:21.597: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.c -** Message: 05:35:06.901: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_score.o] -** Message: 05:35:06.902: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_score.o] to archive +** Message: 08:44:22.901: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_score.o] +** Message: 08:44:22.901: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_score.o -** Message: 05:35:06.940: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_score] -** Message: 05:35:06.940: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path.o] -** Message: 05:35:06.940: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path.o] to archive +** Message: 08:44:22.913: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_score] +** Message: 08:44:22.913: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path.o] +** Message: 08:44:22.914: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path.o -** Message: 05:35:06.989: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_path] -** Message: 05:35:06.989: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_region.o] -** Message: 05:35:06.989: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_region.o] to archive +** Message: 08:44:22.925: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_path] +** Message: 08:44:22.925: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_region.o] +** Message: 08:44:22.925: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_region.o -** Message: 05:35:07.032: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_region] -** Message: 05:35:07.032: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o] -** Message: 05:35:07.032: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o] to archive +** Message: 08:44:22.937: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_region] +** Message: 08:44:22.937: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o] +** Message: 08:44:22.938: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o -** Message: 05:35:07.076: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint] -** Message: 05:35:07.076: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o] -** Message: 05:35:07.076: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o] to archive +** Message: 08:44:22.949: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint] +** Message: 08:44:22.950: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o] +** Message: 08:44:22.950: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o -** Message: 05:35:07.099: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation] -** Message: 05:35:07.100: Processing model [u:t] -** Message: 05:35:07.101: Bootstrapper processing model [ungapped:codon] -** Message: 05:35:07.102: Process optimal [optimal:ungapped:codon] -** Message: 05:35:07.103: Compiling codegen: +** Message: 08:44:22.961: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation] +** Message: 08:44:22.962: Processing model [u:t] +** Message: 08:44:22.962: Bootstrapper processing model [ungapped:codon] +** Message: 08:44:22.962: Process optimal [optimal:ungapped:codon] +** Message: 08:44:22.964: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_score.c -** Message: 05:35:08.954: Compiling codegen: +** Message: 08:44:23.958: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path.c -** Message: 05:35:11.451: Compiling codegen: +** Message: 08:44:25.235: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_region.c -** Message: 05:35:16.252: Compiling codegen: +** Message: 08:44:26.936: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_checkpoint.c -** Message: 05:35:20.995: Compiling codegen: +** Message: 08:44:29.178: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.c -** Message: 05:35:24.373: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_score.o] -** Message: 05:35:24.374: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_score.o] to archive +** Message: 08:44:31.365: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_score.o] +** Message: 08:44:31.366: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_score.o -** Message: 05:35:24.395: Adding function [optimal_58_ungapped_58_codon_32_find_32_score] -** Message: 05:35:24.396: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path.o] -** Message: 05:35:24.398: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path.o] to archive +** Message: 08:44:31.385: Adding function [optimal_58_ungapped_58_codon_32_find_32_score] +** Message: 08:44:31.385: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path.o] +** Message: 08:44:31.385: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path.o -** Message: 05:35:24.413: Adding function [optimal_58_ungapped_58_codon_32_find_32_path] -** Message: 05:35:24.414: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_region.o] -** Message: 05:35:24.414: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_region.o] to archive +** Message: 08:44:31.402: Adding function [optimal_58_ungapped_58_codon_32_find_32_path] +** Message: 08:44:31.402: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_region.o] +** Message: 08:44:31.402: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_region.o -** Message: 05:35:24.440: Adding function [optimal_58_ungapped_58_codon_32_find_32_region] -** Message: 05:35:24.441: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o] -** Message: 05:35:24.441: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o] to archive +** Message: 08:44:31.419: Adding function [optimal_58_ungapped_58_codon_32_find_32_region] +** Message: 08:44:31.419: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o] +** Message: 08:44:31.419: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o -** Message: 05:35:24.494: Adding function [optimal_58_ungapped_58_codon_32_find_32_checkpoint] -** Message: 05:35:24.494: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o] -** Message: 05:35:24.495: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o] to archive +** Message: 08:44:31.436: Adding function [optimal_58_ungapped_58_codon_32_find_32_checkpoint] +** Message: 08:44:31.436: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o] +** Message: 08:44:31.437: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o -** Message: 05:35:24.543: Adding function [optimal_58_ungapped_58_codon_32_find_32_path_32_continuation] -** Message: 05:35:24.544: Processing model [a:g] -** Message: 05:35:24.545: Bootstrapper processing model [affine:global:dna2dna] -** Message: 05:35:24.545: Process optimal [optimal:affine:global:dna2dna] -** Message: 05:35:24.548: Compiling codegen: +** Message: 08:44:31.455: Adding function [optimal_58_ungapped_58_codon_32_find_32_path_32_continuation] +** Message: 08:44:31.455: Processing model [a:g] +** Message: 08:44:31.456: Bootstrapper processing model [affine:global:dna2dna] +** Message: 08:44:31.456: Process optimal [optimal:affine:global:dna2dna] +** Message: 08:44:31.458: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.c -** Message: 05:35:27.622: Compiling codegen: +** Message: 08:44:33.220: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.c -** Message: 05:35:31.050: Compiling codegen: +** Message: 08:44:35.586: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.c -** Message: 05:35:33.955: Compiling codegen: +** Message: 08:44:37.723: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 05:35:42.434: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o] -** Message: 05:35:42.434: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o] to archive +** Message: 08:44:40.367: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o] +** Message: 08:44:40.368: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o -** Message: 05:35:45.589: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_score] -** Message: 05:35:45.589: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o] -** Message: 05:35:45.589: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o] to archive +** Message: 08:44:40.385: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_score] +** Message: 08:44:40.385: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o] +** Message: 08:44:40.385: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o -** Message: 05:35:47.803: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_path] -** Message: 05:35:47.803: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o] -** Message: 05:35:47.804: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 08:44:40.402: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_path] +** Message: 08:44:40.402: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o] +** Message: 08:44:40.403: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o -** Message: 05:35:52.052: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint] -** Message: 05:35:52.053: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 05:35:52.053: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 08:44:40.421: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint] +** Message: 08:44:40.421: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 08:44:40.421: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 05:35:58.917: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation] -** Message: 05:35:58.918: Bootstrapper processing model [affine:global:protein2protein] -** Message: 05:35:58.918: Process optimal [optimal:affine:global:protein2protein] -** Message: 05:35:58.920: Compiling codegen: +** Message: 08:44:40.439: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation] +** Message: 08:44:40.439: Bootstrapper processing model [affine:global:protein2protein] +** Message: 08:44:40.440: Process optimal [optimal:affine:global:protein2protein] +** Message: 08:44:40.441: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.c -** Message: 05:36:11.034: Compiling codegen: +** Message: 08:44:42.087: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.c -** Message: 05:36:15.622: Compiling codegen: +** Message: 08:44:44.450: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.c -** Message: 05:36:21.862: Compiling codegen: +** Message: 08:44:46.648: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 05:36:25.047: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o] -** Message: 05:36:25.047: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o] to archive +** Message: 08:44:49.985: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o] +** Message: 08:44:49.986: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o -** Message: 05:36:25.083: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_score] -** Message: 05:36:25.084: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o] -** Message: 05:36:25.084: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o] to archive +** Message: 08:44:50.003: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_score] +** Message: 08:44:50.004: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o] +** Message: 08:44:50.004: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o -** Message: 05:36:28.469: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_path] -** Message: 05:36:28.470: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o] -** Message: 05:36:28.470: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 08:44:50.109: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_path] +** Message: 08:44:50.110: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o] +** Message: 08:44:50.110: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o -** Message: 05:36:28.487: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint] -** Message: 05:36:28.488: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 05:36:28.488: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 08:44:50.195: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint] +** Message: 08:44:50.195: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 08:44:50.195: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 05:36:28.504: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation] -** Message: 05:36:28.505: Processing model [a:b] -** Message: 05:36:28.505: Bootstrapper processing model [affine:bestfit:dna2dna] -** Message: 05:36:28.505: Process optimal [optimal:affine:bestfit:dna2dna] -** Message: 05:36:28.508: Compiling codegen: +** Message: 08:44:50.293: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation] +** Message: 08:44:50.294: Processing model [a:b] +** Message: 08:44:50.294: Bootstrapper processing model [affine:bestfit:dna2dna] +** Message: 08:44:50.294: Process optimal [optimal:affine:bestfit:dna2dna] +** Message: 08:44:50.297: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.c -** Message: 05:36:31.702: Compiling codegen: +** Message: 08:44:52.564: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.c -** Message: 05:36:36.205: Compiling codegen: +** Message: 08:44:55.798: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.c -** Message: 05:36:39.919: Compiling codegen: +** Message: 08:44:58.839: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.c -** Message: 05:36:42.648: Compiling codegen: +** Message: 08:45:00.816: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 05:36:47.052: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o] -** Message: 05:36:47.052: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o] to archive +** Message: 08:45:03.231: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o] +** Message: 08:45:03.231: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o -** Message: 05:36:47.103: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score] -** Message: 05:36:47.104: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o] -** Message: 05:36:47.104: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o] to archive +** Message: 08:45:03.248: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score] +** Message: 08:45:03.248: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o] +** Message: 08:45:03.249: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o -** Message: 05:36:47.167: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path] -** Message: 05:36:47.168: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o] -** Message: 05:36:47.168: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o] to archive +** Message: 08:45:03.353: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path] +** Message: 08:45:03.353: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o] +** Message: 08:45:03.353: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o -** Message: 05:36:47.243: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region] -** Message: 05:36:47.243: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o] -** Message: 05:36:47.243: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 08:45:03.434: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region] +** Message: 08:45:03.434: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o] +** Message: 08:45:03.435: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o -** Message: 05:36:50.841: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint] -** Message: 05:36:50.842: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 05:36:50.842: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 08:45:03.545: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint] +** Message: 08:45:03.545: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 08:45:03.545: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 05:36:51.388: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation] -** Message: 05:36:51.388: Bootstrapper processing model [affine:bestfit:protein2protein] -** Message: 05:36:51.389: Process optimal [optimal:affine:bestfit:protein2protein] -** Message: 05:36:52.227: Compiling codegen: +** Message: 08:45:03.644: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation] +** Message: 08:45:03.645: Bootstrapper processing model [affine:bestfit:protein2protein] +** Message: 08:45:03.645: Process optimal [optimal:affine:bestfit:protein2protein] +** Message: 08:45:03.647: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.c -** Message: 05:36:56.872: Compiling codegen: +** Message: 08:45:05.801: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.c -** Message: 05:37:03.070: Compiling codegen: +** Message: 08:45:09.109: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.c -** Message: 05:37:07.635: Compiling codegen: +** Message: 08:45:12.558: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.c -** Message: 05:37:11.909: Compiling codegen: +** Message: 08:45:14.612: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 05:37:15.512: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o] -** Message: 05:37:15.513: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o] to archive +** Message: 08:45:17.093: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o] +** Message: 08:45:17.094: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o -** Message: 05:37:15.536: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score] -** Message: 05:37:15.536: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o] -** Message: 05:37:15.537: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o] to archive +** Message: 08:45:17.116: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score] +** Message: 08:45:17.116: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o] +** Message: 08:45:17.117: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o -** Message: 05:37:15.577: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path] -** Message: 05:37:15.578: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o] -** Message: 05:37:15.578: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o] to archive +** Message: 08:45:17.184: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path] +** Message: 08:45:17.185: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o] +** Message: 08:45:17.185: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o -** Message: 05:37:15.620: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region] -** Message: 05:37:15.620: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o] -** Message: 05:37:15.620: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 08:45:17.245: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region] +** Message: 08:45:17.245: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o] +** Message: 08:45:17.245: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o -** Message: 05:37:15.659: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint] -** Message: 05:37:15.659: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 05:37:15.660: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 08:45:17.297: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint] +** Message: 08:45:17.298: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 08:45:17.298: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 05:37:15.698: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation] -** Message: 05:37:15.698: Processing model [a:l] -** Message: 05:37:15.700: Bootstrapper processing model [affine:local:dna2dna] -** Message: 05:37:15.700: Process optimal [optimal:affine:local:dna2dna] -** Message: 05:37:15.702: Compiling codegen: +** Message: 08:45:17.355: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation] +** Message: 08:45:17.355: Processing model [a:l] +** Message: 08:45:17.356: Bootstrapper processing model [affine:local:dna2dna] +** Message: 08:45:17.356: Process optimal [optimal:affine:local:dna2dna] +** Message: 08:45:17.357: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.c -** Message: 05:37:17.292: Compiling codegen: +** Message: 08:45:18.265: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.c -** Message: 05:37:18.773: Compiling codegen: +** Message: 08:45:19.437: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.c -** Message: 05:37:20.575: Compiling codegen: +** Message: 08:45:20.701: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.c -** Message: 05:37:23.492: Compiling codegen: +** Message: 08:45:22.927: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 05:37:27.232: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o] -** Message: 05:37:27.232: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o] to archive +** Message: 08:45:25.414: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o] +** Message: 08:45:25.415: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o -** Message: 05:37:27.258: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_score] -** Message: 05:37:27.258: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o] -** Message: 05:37:27.258: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o] to archive +** Message: 08:45:25.438: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_score] +** Message: 08:45:25.438: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o] +** Message: 08:45:25.439: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o -** Message: 05:37:27.513: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_path] -** Message: 05:37:27.514: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o] -** Message: 05:37:27.514: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o] to archive +** Message: 08:45:25.933: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_path] +** Message: 08:45:25.934: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o] +** Message: 08:45:25.934: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o -** Message: 05:37:27.870: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_region] -** Message: 05:37:27.870: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] -** Message: 05:37:27.870: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 08:45:25.957: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_region] +** Message: 08:45:25.957: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] +** Message: 08:45:25.957: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o -** Message: 05:37:28.149: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint] -** Message: 05:37:28.149: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 05:37:28.149: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 08:45:25.980: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint] +** Message: 08:45:25.980: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 08:45:25.981: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 05:37:28.496: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation] -** Message: 05:37:28.501: Process optimal [Terminal [Segment("START"->"match"):[affine:local:dna2dna]]] -** Message: 05:37:28.503: Compiling codegen: +** Message: 08:45:26.004: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation] +** Message: 08:45:26.009: Process optimal [Terminal [Segment("START"->"match"):[affine:local:dna2dna]]] +** Message: 08:45:26.011: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.c -** Message: 05:37:32.556: Compiling codegen: +** Message: 08:45:27.861: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.c -** Message: 05:37:35.975: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] -** Message: 05:37:35.976: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive +** Message: 08:45:30.470: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] +** Message: 08:45:30.470: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -** Message: 05:37:37.399: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score] -** Message: 05:37:37.400: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] -** Message: 05:37:37.400: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive +** Message: 08:45:30.500: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score] +** Message: 08:45:30.500: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] +** Message: 08:45:30.501: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -** Message: 05:37:37.851: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path] -** Message: 05:37:37.851: Process optimal [Terminal [Segment("match"->"END"):[affine:local:dna2dna]]] -** Message: 05:37:37.853: Compiling codegen: +** Message: 08:45:30.525: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path] +** Message: 08:45:30.526: Process optimal [Terminal [Segment("match"->"END"):[affine:local:dna2dna]]] +** Message: 08:45:30.527: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.c -** Message: 05:37:51.375: Compiling codegen: +** Message: 08:45:32.049: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.c -** Message: 05:37:53.845: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] -** Message: 05:37:53.845: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive +** Message: 08:45:34.160: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] +** Message: 08:45:34.160: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -** Message: 05:37:53.866: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score] -** Message: 05:37:53.866: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] -** Message: 05:37:53.866: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive +** Message: 08:45:34.188: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score] +** Message: 08:45:34.188: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] +** Message: 08:45:34.188: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -** Message: 05:37:54.028: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path] -** Message: 05:37:54.028: Process optimal [HeuristicJoin:[Segment("match"->"match"):[affine:local:dna2dna]]] -** Message: 05:37:54.032: Compiling codegen: +** Message: 08:45:34.215: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path] +** Message: 08:45:34.215: Process optimal [HeuristicJoin:[Segment("match"->"match"):[affine:local:dna2dna]]] +** Message: 08:45:34.219: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.c -** Message: 05:37:58.363: Compiling codegen: +** Message: 08:45:38.335: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.c -** Message: 05:38:05.451: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] -** Message: 05:38:05.451: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive +** Message: 08:45:44.770: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] +** Message: 08:45:44.771: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -** Message: 05:38:05.474: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score] -** Message: 05:38:05.474: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] -** Message: 05:38:05.474: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive +** Message: 08:45:44.798: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_score] +** Message: 08:45:44.799: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] +** Message: 08:45:44.799: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -** Message: 05:38:05.529: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path] -** Message: 05:38:05.531: Compiling codegen: +** Message: 08:45:44.828: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_dna2dna_93__93__32_find_32_path] +** Message: 08:45:44.830: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.c -** Message: 05:38:06.317: Compiling codegen: +** Message: 08:45:45.634: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.c -** Message: 05:38:07.042: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o] -** Message: 05:38:07.042: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o] to archive +** Message: 08:45:46.428: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o] +** Message: 08:45:46.428: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o -** Message: 05:38:07.066: Adding function [Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded] -** Message: 05:38:07.066: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o] -** Message: 05:38:07.066: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o] to archive +** Message: 08:45:46.454: Adding function [Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded] +** Message: 08:45:46.455: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o] +** Message: 08:45:46.455: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o -** Message: 05:38:07.130: Adding function [Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded] -** Message: 05:38:07.130: Bootstrapper processing model [affine:local:protein2protein] -** Message: 05:38:07.130: Process optimal [optimal:affine:local:protein2protein] -** Message: 05:38:07.132: Compiling codegen: +** Message: 08:45:46.482: Adding function [Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded] +** Message: 08:45:46.483: Bootstrapper processing model [affine:local:protein2protein] +** Message: 08:45:46.483: Process optimal [optimal:affine:local:protein2protein] +** Message: 08:45:46.484: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.c -** Message: 05:38:08.734: Compiling codegen: +** Message: 08:45:47.348: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.c -** Message: 05:38:10.532: Compiling codegen: +** Message: 08:45:48.500: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.c -** Message: 05:38:11.877: Compiling codegen: +** Message: 08:45:49.728: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.c -** Message: 05:38:14.257: Compiling codegen: +** Message: 08:45:51.763: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 05:38:17.111: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o] -** Message: 05:38:17.111: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o] to archive +** Message: 08:45:54.185: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o] +** Message: 08:45:54.185: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o -** Message: 05:38:17.136: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_score] -** Message: 05:38:17.136: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o] -** Message: 05:38:17.136: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o] to archive +** Message: 08:45:54.213: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_score] +** Message: 08:45:54.213: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o] +** Message: 08:45:54.214: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o -** Message: 05:38:17.223: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_path] -** Message: 05:38:17.223: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o] -** Message: 05:38:17.223: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o] to archive +** Message: 08:45:54.241: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_path] +** Message: 08:45:54.242: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o] +** Message: 08:45:54.242: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o -** Message: 05:38:17.343: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_region] -** Message: 05:38:17.343: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] -** Message: 05:38:17.343: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 08:45:54.391: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_region] +** Message: 08:45:54.392: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] +** Message: 08:45:54.392: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o -** Message: 05:38:17.403: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint] -** Message: 05:38:17.403: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 05:38:17.403: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 08:45:54.977: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint] +** Message: 08:45:54.977: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 08:45:54.977: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 05:38:17.480: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation] -** Message: 05:38:17.485: Process optimal [Terminal [Segment("START"->"match"):[affine:local:protein2protein]]] -** Message: 05:38:17.487: Compiling codegen: +** Message: 08:45:55.297: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation] +** Message: 08:45:55.301: Process optimal [Terminal [Segment("START"->"match"):[affine:local:protein2protein]]] +** Message: 08:45:55.304: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.c -** Message: 05:38:19.655: Compiling codegen: +** Message: 08:45:57.094: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.c -** Message: 05:38:23.020: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] -** Message: 05:38:23.021: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive +** Message: 08:45:59.635: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] +** Message: 08:45:59.636: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -** Message: 05:38:23.081: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score] -** Message: 05:38:23.081: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] -** Message: 05:38:23.081: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive +** Message: 08:45:59.663: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score] +** Message: 08:45:59.664: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] +** Message: 08:45:59.664: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -** Message: 05:38:23.145: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path] -** Message: 05:38:23.145: Process optimal [Terminal [Segment("match"->"END"):[affine:local:protein2protein]]] -** Message: 05:38:23.147: Compiling codegen: +** Message: 08:45:59.693: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path] +** Message: 08:45:59.693: Process optimal [Terminal [Segment("match"->"END"):[affine:local:protein2protein]]] +** Message: 08:45:59.695: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.c -** Message: 05:38:24.934: Compiling codegen: +** Message: 08:46:01.142: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.c -** Message: 05:38:27.447: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] -** Message: 05:38:27.447: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive +** Message: 08:46:03.157: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] +** Message: 08:46:03.158: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -** Message: 05:38:27.478: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score] -** Message: 05:38:27.478: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] -** Message: 05:38:27.478: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive +** Message: 08:46:03.187: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score] +** Message: 08:46:03.187: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] +** Message: 08:46:03.188: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -** Message: 05:38:27.542: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path] -** Message: 05:38:27.542: Process optimal [HeuristicJoin:[Segment("match"->"match"):[affine:local:protein2protein]]] -** Message: 05:38:27.546: Compiling codegen: +** Message: 08:46:03.219: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path] +** Message: 08:46:03.219: Process optimal [HeuristicJoin:[Segment("match"->"match"):[affine:local:protein2protein]]] +** Message: 08:46:03.223: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.c -** Message: 05:38:32.100: Compiling codegen: +** Message: 08:46:07.285: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.c -** Message: 05:38:39.512: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] -** Message: 05:38:39.512: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive +** Message: 08:46:12.817: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] +** Message: 08:46:12.818: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -** Message: 05:38:39.543: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score] -** Message: 05:38:39.543: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] -** Message: 05:38:39.543: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive +** Message: 08:46:12.848: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_score] +** Message: 08:46:12.848: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] +** Message: 08:46:12.848: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -** Message: 05:38:39.619: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path] -** Message: 05:38:39.621: Compiling codegen: +** Message: 08:46:12.916: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_affine_58_local_58_protein2protein_93__93__32_find_32_path] +** Message: 08:46:12.917: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.c -** Message: 05:38:40.424: Compiling codegen: +** Message: 08:46:13.576: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.c -** Message: 05:38:41.251: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o] -** Message: 05:38:41.251: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o] to archive +** Message: 08:46:14.239: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o] +** Message: 08:46:14.239: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o -** Message: 05:38:41.285: Adding function [Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded] -** Message: 05:38:41.285: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o] -** Message: 05:38:41.285: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o] to archive +** Message: 08:46:14.270: Adding function [Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded] +** Message: 08:46:14.270: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o] +** Message: 08:46:14.270: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o -** Message: 05:38:41.362: Adding function [Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded] -** Message: 05:38:41.363: Processing model [a:o] -** Message: 05:38:41.364: Bootstrapper processing model [affine:overlap:dna2dna] -** Message: 05:38:41.364: Process optimal [optimal:affine:overlap:dna2dna] -** Message: 05:38:41.366: Compiling codegen: +** Message: 08:46:14.360: Adding function [Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded] +** Message: 08:46:14.361: Processing model [a:o] +** Message: 08:46:14.361: Bootstrapper processing model [affine:overlap:dna2dna] +** Message: 08:46:14.362: Process optimal [optimal:affine:overlap:dna2dna] +** Message: 08:46:14.444: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.c -** Message: 05:38:43.661: Compiling codegen: +** Message: 08:46:16.287: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.c -** Message: 05:38:47.135: Compiling codegen: +** Message: 08:46:18.954: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.c -** Message: 05:38:52.411: Compiling codegen: +** Message: 08:46:21.893: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.c -** Message: 05:38:55.109: Compiling codegen: +** Message: 08:46:23.832: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 05:39:01.421: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o] -** Message: 05:39:01.421: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o] to archive +** Message: 08:46:26.202: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o] +** Message: 08:46:26.202: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o -** Message: 05:39:09.609: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score] -** Message: 05:39:09.610: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o] -** Message: 05:39:09.611: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o] to archive +** Message: 08:46:26.234: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score] +** Message: 08:46:26.235: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o] +** Message: 08:46:26.235: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o -** Message: 05:39:15.201: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path] -** Message: 05:39:15.201: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o] -** Message: 05:39:15.201: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o] to archive +** Message: 08:46:26.342: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path] +** Message: 08:46:26.342: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o] +** Message: 08:46:26.343: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o -** Message: 05:39:39.078: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region] -** Message: 05:39:39.078: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o] -** Message: 05:39:39.078: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 08:46:26.453: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region] +** Message: 08:46:26.453: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o] +** Message: 08:46:26.454: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o -** Message: 05:39:52.433: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint] -** Message: 05:39:52.433: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 05:39:52.433: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 08:46:26.543: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint] +** Message: 08:46:26.543: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 08:46:26.543: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 05:39:53.018: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation] -** Message: 05:39:53.018: Processing model [e2g] -** Message: 05:39:53.019: Bootstrapper processing model [est2genome] -** Message: 05:39:53.019: Process optimal [optimal:est2genome] -** Message: 05:39:53.022: Compiling codegen: +** Message: 08:46:26.630: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation] +** Message: 08:46:26.631: Processing model [e2g] +** Message: 08:46:26.632: Bootstrapper processing model [est2genome] +** Message: 08:46:26.632: Process optimal [optimal:est2genome] +** Message: 08:46:26.635: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_score.c -** Message: 05:39:59.521: Compiling codegen: +** Message: 08:46:30.809: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path.c -** Message: 05:40:07.212: Compiling codegen: +** Message: 08:46:36.944: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_region.c -** Message: 05:40:15.138: Compiling codegen: +** Message: 08:46:42.776: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_checkpoint.c -** Message: 05:40:32.588: Compiling codegen: +** Message: 08:46:56.241: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path_32_continuation.c -** Message: 05:40:57.848: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_score.o] -** Message: 05:40:57.848: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_score.o] to archive +** Message: 08:47:16.482: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_score.o] +** Message: 08:47:16.483: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_score.o -** Message: 05:40:57.885: Adding function [optimal_58_est2genome_32_find_32_score] -** Message: 05:40:57.886: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path.o] -** Message: 05:40:57.886: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path.o] to archive +** Message: 08:47:16.520: Adding function [optimal_58_est2genome_32_find_32_score] +** Message: 08:47:16.520: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path.o] +** Message: 08:47:16.520: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path.o -** Message: 05:40:57.983: Adding function [optimal_58_est2genome_32_find_32_path] -** Message: 05:40:57.983: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_region.o] -** Message: 05:40:57.983: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_region.o] to archive +** Message: 08:47:16.559: Adding function [optimal_58_est2genome_32_find_32_path] +** Message: 08:47:16.559: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_region.o] +** Message: 08:47:16.559: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_region.o -** Message: 05:40:58.060: Adding function [optimal_58_est2genome_32_find_32_region] -** Message: 05:40:58.060: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_checkpoint.o] -** Message: 05:40:58.060: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_checkpoint.o] to archive +** Message: 08:47:16.604: Adding function [optimal_58_est2genome_32_find_32_region] +** Message: 08:47:16.604: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_checkpoint.o] +** Message: 08:47:16.604: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_checkpoint.o -** Message: 05:40:58.165: Adding function [optimal_58_est2genome_32_find_32_checkpoint] -** Message: 05:40:58.165: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path_32_continuation.o] -** Message: 05:40:58.165: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path_32_continuation.o] to archive +** Message: 08:47:16.663: Adding function [optimal_58_est2genome_32_find_32_checkpoint] +** Message: 08:47:16.663: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path_32_continuation.o] +** Message: 08:47:16.663: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_est2genome_32_find_32_path_32_continuation.o -** Message: 05:40:58.369: Adding function [optimal_58_est2genome_32_find_32_path_32_continuation] -** Message: 05:40:58.388: Process optimal [Terminal [Segment("START"->"match reverse"):[est2genome]]] -** Message: 05:40:58.392: Compiling codegen: +** Message: 08:47:16.715: Adding function [optimal_58_est2genome_32_find_32_path_32_continuation] +** Message: 08:47:16.735: Process optimal [Terminal [Segment("START"->"match reverse"):[est2genome]]] +** Message: 08:47:16.740: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:41:11.384: Compiling codegen: +** Message: 08:47:22.541: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:41:33.126: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:41:33.126: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:47:32.553: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:47:32.553: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:41:33.567: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:41:33.567: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:41:33.567: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:47:32.641: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:47:32.641: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:47:32.641: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:41:41.739: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:41:41.739: Process optimal [Terminal [Segment("match reverse"->"END"):[est2genome]]] -** Message: 05:41:41.742: Compiling codegen: +** Message: 08:47:32.705: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:47:32.705: Process optimal [Terminal [Segment("match reverse"->"END"):[est2genome]]] +** Message: 08:47:32.710: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:41:52.109: Compiling codegen: +** Message: 08:47:36.208: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:41:57.638: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:41:57.638: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:47:40.827: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:47:40.828: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:41:58.913: Adding function [Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:41:58.913: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:41:58.913: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:47:40.869: Adding function [Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:47:40.870: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:47:40.870: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:42:00.035: Adding function [Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:42:00.035: Process optimal [Terminal [Segment("START"->"match forward"):[est2genome]]] -** Message: 05:42:00.039: Compiling codegen: +** Message: 08:47:40.913: Adding function [Terminal_32__91_Segment_40__34_match_32_reverse_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:47:40.913: Process optimal [Terminal [Segment("START"->"match forward"):[est2genome]]] +** Message: 08:47:40.918: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:42:06.494: Compiling codegen: +** Message: 08:47:46.263: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:42:15.650: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:42:15.650: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:47:54.526: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:47:54.526: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:42:16.217: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:42:16.222: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:42:16.244: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:47:54.568: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:47:54.569: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:47:54.569: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:42:18.163: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:42:18.163: Process optimal [Terminal [Segment("match forward"->"END"):[est2genome]]] -** Message: 05:42:18.166: Compiling codegen: +** Message: 08:47:54.618: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:47:54.618: Process optimal [Terminal [Segment("match forward"->"END"):[est2genome]]] +** Message: 08:47:54.621: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:42:22.281: Compiling codegen: +** Message: 08:47:57.809: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:42:28.449: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:42:28.449: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:48:02.328: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:48:02.328: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:42:29.988: Adding function [Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:42:29.988: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:42:29.988: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:48:02.393: Adding function [Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:48:02.394: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:48:02.394: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:42:32.167: Adding function [Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:42:32.167: Process optimal [HeuristicJoin:[Segment("match reverse"->"match reverse"):[est2genome]]] -** Message: 05:42:32.175: Compiling codegen: +** Message: 08:48:02.438: Adding function [Terminal_32__91_Segment_40__34_match_32_forward_34__45__62__34_END_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:48:02.439: Process optimal [HeuristicJoin:[Segment("match reverse"->"match reverse"):[est2genome]]] +** Message: 08:48:02.448: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:42:45.872: Compiling codegen: +** Message: 08:48:12.709: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:43:06.400: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:43:06.401: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:48:30.343: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:48:30.343: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:43:06.452: Adding function [HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:43:06.452: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:43:06.452: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:48:30.393: Adding function [HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:48:30.393: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:48:30.394: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:43:07.039: Adding function [HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:43:07.039: Process optimal [Src span [Segment("match reverse"->"intron reverse"):[est2genome]]] -** Message: 05:43:07.042: Compiling codegen: +** Message: 08:48:30.448: Adding function [HeuristicJoin_58__91_Segment_40__34_match_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:48:30.448: Process optimal [Src span [Segment("match reverse"->"intron reverse"):[est2genome]]] +** Message: 08:48:30.451: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:43:11.005: Compiling codegen: +** Message: 08:48:34.055: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:43:16.727: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:43:16.727: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:48:39.133: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:48:39.134: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:43:16.768: Adding function [Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:43:16.769: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:43:16.769: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:48:39.180: Adding function [Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:48:39.181: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:48:39.181: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:43:17.862: Adding function [Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:43:17.862: Process optimal [Src span traceback [Segment("match reverse"->"intron reverse"):[est2genome]]] -** Message: 05:43:17.869: Compiling codegen: +** Message: 08:48:39.231: Adding function [Src_32_span_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:48:39.231: Process optimal [Src span traceback [Segment("match reverse"->"intron reverse"):[est2genome]]] +** Message: 08:48:39.238: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:43:33.773: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:43:33.773: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:48:53.939: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:48:53.939: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:43:33.818: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:43:33.818: Process optimal [Dst span [Segment("intron reverse"->"match reverse"):[est2genome]]] -** Message: 05:43:33.823: Compiling codegen: +** Message: 08:48:53.996: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_32_reverse_34__45__62__34_intron_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:48:53.997: Process optimal [Dst span [Segment("intron reverse"->"match reverse"):[est2genome]]] +** Message: 08:48:54.002: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:43:40.854: Compiling codegen: +** Message: 08:49:00.623: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:43:52.165: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:43:52.165: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:49:10.846: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:49:10.847: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:43:52.213: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:43:52.213: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:43:52.213: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:49:10.898: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:49:10.898: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:49:10.899: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:43:52.330: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:43:52.330: Process optimal [HeuristicJoin:[Segment("match forward"->"match forward"):[est2genome]]] -** Message: 05:43:52.337: Compiling codegen: +** Message: 08:49:11.267: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_reverse_34__45__62__34_match_32_reverse_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:49:11.267: Process optimal [HeuristicJoin:[Segment("match forward"->"match forward"):[est2genome]]] +** Message: 08:49:11.274: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:44:04.784: Compiling codegen: +** Message: 08:49:22.378: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:44:24.525: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:44:24.525: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:49:39.103: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:49:39.104: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:44:24.587: Adding function [HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:44:24.588: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:44:24.588: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:49:39.161: Adding function [HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:49:39.161: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:49:39.161: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:44:24.726: Adding function [HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:44:24.726: Process optimal [Src span [Segment("match forward"->"intron forward"):[est2genome]]] -** Message: 05:44:24.729: Compiling codegen: +** Message: 08:49:39.310: Adding function [HeuristicJoin_58__91_Segment_40__34_match_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:49:39.311: Process optimal [Src span [Segment("match forward"->"intron forward"):[est2genome]]] +** Message: 08:49:39.315: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:44:28.916: Compiling codegen: +** Message: 08:49:42.759: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:44:35.018: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:44:35.018: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:49:47.630: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:49:47.631: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:44:35.076: Adding function [Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:44:35.077: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:44:35.077: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:49:47.693: Adding function [Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:49:47.693: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:49:47.694: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:44:35.860: Adding function [Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:44:35.860: Process optimal [Src span traceback [Segment("match forward"->"intron forward"):[est2genome]]] -** Message: 05:44:35.869: Compiling codegen: +** Message: 08:49:47.773: Adding function [Src_32_span_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:49:47.774: Process optimal [Src span traceback [Segment("match forward"->"intron forward"):[est2genome]]] +** Message: 08:49:47.781: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:44:55.594: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:44:55.594: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:50:01.717: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:50:01.717: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:44:55.644: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:44:55.644: Process optimal [Dst span [Segment("intron forward"->"match forward"):[est2genome]]] -** Message: 05:44:55.649: Compiling codegen: +** Message: 08:50:01.771: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_32_forward_34__45__62__34_intron_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:50:01.771: Process optimal [Dst span [Segment("intron forward"->"match forward"):[est2genome]]] +** Message: 08:50:01.776: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.c -** Message: 05:45:08.645: Compiling codegen: +** Message: 08:50:08.110: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.c -** Message: 05:45:21.221: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] -** Message: 05:45:21.221: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive +** Message: 08:50:18.033: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] +** Message: 08:50:18.034: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score.o -** Message: 05:45:25.113: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score] -** Message: 05:45:25.113: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] -** Message: 05:45:25.113: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive +** Message: 08:50:18.100: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_score] +** Message: 08:50:18.101: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] +** Message: 08:50:18.101: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path.o -** Message: 05:45:26.696: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] -** Message: 05:45:26.699: Compiling codegen: +** Message: 08:50:18.198: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_forward_34__45__62__34_match_32_forward_34__41__58__91_est2genome_93__93__32_find_32_path] +** Message: 08:50:18.201: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.c -** Message: 05:45:28.297: Compiling codegen: +** Message: 08:50:19.655: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.c -** Message: 05:45:30.291: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o] -** Message: 05:45:30.291: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 08:50:21.295: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o] +** Message: 08:50:21.296: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o -** Message: 05:45:30.994: Adding function [Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary] -** Message: 05:45:30.994: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o] -** Message: 05:45:30.994: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o] to archive +** Message: 08:50:21.361: Adding function [Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary] +** Message: 08:50:21.361: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o] +** Message: 08:50:21.362: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o -** Message: 05:45:31.681: Adding function [Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary] -** Message: 05:45:31.682: Processing model [ner] -** Message: 05:45:31.682: Bootstrapper processing model [NER:affine:local:dna2dna] -** Message: 05:45:31.682: Process optimal [optimal:NER:affine:local:dna2dna] -** Message: 05:45:31.684: Compiling codegen: +** Message: 08:50:21.451: Adding function [Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary] +** Message: 08:50:21.452: Processing model [ner] +** Message: 08:50:21.453: Bootstrapper processing model [NER:affine:local:dna2dna] +** Message: 08:50:21.453: Process optimal [optimal:NER:affine:local:dna2dna] +** Message: 08:50:21.454: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.c -** Message: 05:45:33.262: Compiling codegen: +** Message: 08:50:22.508: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.c -** Message: 05:45:34.941: Compiling codegen: +** Message: 08:50:24.008: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.c -** Message: 05:45:36.866: Compiling codegen: +** Message: 08:50:25.637: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.c -** Message: 05:45:40.259: Compiling codegen: +** Message: 08:50:28.319: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 05:45:44.377: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o] -** Message: 05:45:44.377: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o] to archive +** Message: 08:50:31.686: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o] +** Message: 08:50:31.686: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o -** Message: 05:45:44.452: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score] -** Message: 05:45:44.452: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o] -** Message: 05:45:44.453: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o] to archive +** Message: 08:50:31.746: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score] +** Message: 08:50:31.746: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o] +** Message: 08:50:31.747: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o -** Message: 05:45:44.584: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path] -** Message: 05:45:44.585: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o] -** Message: 05:45:44.585: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o] to archive +** Message: 08:50:31.907: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path] +** Message: 08:50:31.908: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o] +** Message: 08:50:31.908: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o -** Message: 05:45:44.794: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region] -** Message: 05:45:44.794: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] -** Message: 05:45:44.795: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 08:50:32.030: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region] +** Message: 08:50:32.030: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] +** Message: 08:50:32.031: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o -** Message: 05:45:44.973: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint] -** Message: 05:45:44.973: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 05:45:44.973: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 08:50:32.093: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint] +** Message: 08:50:32.094: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 08:50:32.094: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 05:45:45.314: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation] -** Message: 05:45:45.323: Process optimal [Terminal [Segment("START"->"match"):[NER:affine:local:dna2dna]]] -** Message: 05:45:45.326: Compiling codegen: +** Message: 08:50:32.164: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation] +** Message: 08:50:32.174: Process optimal [Terminal [Segment("START"->"match"):[NER:affine:local:dna2dna]]] +** Message: 08:50:32.178: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.c -** Message: 05:45:50.315: Compiling codegen: +** Message: 08:50:34.952: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.c -** Message: 05:45:54.788: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] -** Message: 05:45:54.788: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive +** Message: 08:50:39.622: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] +** Message: 08:50:39.622: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -** Message: 05:45:54.845: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] -** Message: 05:45:54.846: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] -** Message: 05:45:54.846: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive +** Message: 08:50:39.690: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] +** Message: 08:50:39.690: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] +** Message: 08:50:39.691: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -** Message: 05:45:55.073: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] -** Message: 05:45:55.073: Process optimal [Terminal [Segment("match"->"END"):[NER:affine:local:dna2dna]]] -** Message: 05:45:55.075: Compiling codegen: +** Message: 08:50:39.763: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] +** Message: 08:50:39.763: Process optimal [Terminal [Segment("match"->"END"):[NER:affine:local:dna2dna]]] +** Message: 08:50:39.765: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.c -** Message: 05:45:57.536: Compiling codegen: +** Message: 08:50:41.965: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.c -** Message: 05:46:01.076: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] -** Message: 05:46:01.077: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive +** Message: 08:50:44.873: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] +** Message: 08:50:44.873: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -** Message: 05:46:01.143: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] -** Message: 05:46:01.144: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] -** Message: 05:46:01.145: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive +** Message: 08:50:44.946: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] +** Message: 08:50:44.947: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] +** Message: 08:50:44.947: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -** Message: 05:46:01.327: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] -** Message: 05:46:01.328: Process optimal [HeuristicJoin:[Segment("match"->"match"):[NER:affine:local:dna2dna]]] -** Message: 05:46:01.337: Compiling codegen: +** Message: 08:50:45.017: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] +** Message: 08:50:45.017: Process optimal [HeuristicJoin:[Segment("match"->"match"):[NER:affine:local:dna2dna]]] +** Message: 08:50:45.022: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.c -** Message: 05:46:09.163: Compiling codegen: +** Message: 08:50:51.156: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.c -** Message: 05:46:20.853: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] -** Message: 05:46:20.854: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive +** Message: 08:51:01.261: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] +** Message: 08:51:01.262: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -** Message: 05:46:20.947: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] -** Message: 05:46:20.947: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] -** Message: 05:46:20.947: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive +** Message: 08:51:01.333: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] +** Message: 08:51:01.334: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] +** Message: 08:51:01.335: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -** Message: 05:46:21.105: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] -** Message: 05:46:21.106: Process optimal [Src span [Segment("match"->"ner"):[NER:affine:local:dna2dna]]] -** Message: 05:46:21.108: Compiling codegen: +** Message: 08:51:01.411: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] +** Message: 08:51:01.411: Process optimal [Src span [Segment("match"->"ner"):[NER:affine:local:dna2dna]]] +** Message: 08:51:01.413: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.c -** Message: 05:46:23.936: Compiling codegen: +** Message: 08:51:03.734: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.c -** Message: 05:46:28.052: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] -** Message: 05:46:28.052: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive +** Message: 08:51:07.082: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] +** Message: 08:51:07.083: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -** Message: 05:46:28.110: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] -** Message: 05:46:28.111: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] -** Message: 05:46:28.111: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive +** Message: 08:51:07.177: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] +** Message: 08:51:07.177: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] +** Message: 08:51:07.178: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -** Message: 05:46:29.452: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] -** Message: 05:46:29.456: Process optimal [Src span traceback [Segment("match"->"ner"):[NER:affine:local:dna2dna]]] -** Message: 05:46:29.463: Compiling codegen: +** Message: 08:51:07.253: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] +** Message: 08:51:07.253: Process optimal [Src span traceback [Segment("match"->"ner"):[NER:affine:local:dna2dna]]] +** Message: 08:51:07.263: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.c -** Message: 05:46:40.501: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] -** Message: 05:46:40.502: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive +** Message: 08:51:16.362: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] +** Message: 08:51:16.363: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -** Message: 05:46:40.578: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] -** Message: 05:46:40.578: Process optimal [Dst span [Segment("ner"->"match"):[NER:affine:local:dna2dna]]] -** Message: 05:46:40.581: Compiling codegen: +** Message: 08:51:16.445: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] +** Message: 08:51:16.445: Process optimal [Dst span [Segment("ner"->"match"):[NER:affine:local:dna2dna]]] +** Message: 08:51:16.448: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.c -** Message: 05:46:44.363: Compiling codegen: +** Message: 08:51:19.668: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.c -** Message: 05:46:50.236: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] -** Message: 05:46:50.236: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive +** Message: 08:51:24.603: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] +** Message: 08:51:24.604: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score.o -** Message: 05:46:50.315: Adding function [Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] -** Message: 05:46:50.315: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] -** Message: 05:46:50.316: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive +** Message: 08:51:24.675: Adding function [Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_score] +** Message: 08:51:24.676: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] +** Message: 08:51:24.676: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path.o -** Message: 05:46:50.522: Adding function [Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] -** Message: 05:46:50.524: Compiling codegen: +** Message: 08:51:24.753: Adding function [Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_dna2dna_93__93__32_find_32_path] +** Message: 08:51:24.755: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.c -** Message: 05:46:51.553: Compiling codegen: +** Message: 08:51:25.589: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.c -** Message: 05:46:52.702: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o] -** Message: 05:46:52.703: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 08:51:26.471: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o] +** Message: 08:51:26.471: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o -** Message: 05:46:52.781: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary] -** Message: 05:46:52.782: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o] -** Message: 05:46:52.782: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o] to archive +** Message: 08:51:26.550: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary] +** Message: 08:51:26.550: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o] +** Message: 08:51:26.550: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o -** Message: 05:46:52.979: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary] -** Message: 05:46:52.980: Bootstrapper processing model [NER:affine:local:protein2protein] -** Message: 05:46:52.980: Process optimal [optimal:NER:affine:local:protein2protein] -** Message: 05:46:52.982: Compiling codegen: +** Message: 08:51:26.619: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary] +** Message: 08:51:26.620: Bootstrapper processing model [NER:affine:local:protein2protein] +** Message: 08:51:26.621: Process optimal [optimal:NER:affine:local:protein2protein] +** Message: 08:51:26.622: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.c -** Message: 05:46:54.506: Compiling codegen: +** Message: 08:51:27.833: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.c -** Message: 05:46:56.625: Compiling codegen: +** Message: 08:51:29.389: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.c -** Message: 05:46:58.944: Compiling codegen: +** Message: 08:51:31.105: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.c -** Message: 05:47:04.359: Compiling codegen: +** Message: 08:51:34.113: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 05:47:09.746: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o] -** Message: 05:47:09.747: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o] to archive +** Message: 08:51:38.068: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o] +** Message: 08:51:38.068: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o -** Message: 05:47:09.813: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score] -** Message: 05:47:09.814: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o] -** Message: 05:47:09.815: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o] to archive +** Message: 08:51:38.152: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score] +** Message: 08:51:38.153: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o] +** Message: 08:51:38.153: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o -** Message: 05:47:10.079: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path] -** Message: 05:47:10.080: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o] -** Message: 05:47:10.080: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o] to archive +** Message: 08:51:38.230: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path] +** Message: 08:51:38.231: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o] +** Message: 08:51:38.231: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o -** Message: 05:47:10.421: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region] -** Message: 05:47:10.421: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] -** Message: 05:47:10.422: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 08:51:38.305: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region] +** Message: 08:51:38.305: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] +** Message: 08:51:38.306: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o -** Message: 05:47:10.522: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint] -** Message: 05:47:10.523: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 05:47:10.524: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 08:51:38.388: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint] +** Message: 08:51:38.389: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 08:51:38.389: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 05:47:10.762: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation] -** Message: 05:47:10.773: Process optimal [Terminal [Segment("START"->"match"):[NER:affine:local:protein2protein]]] -** Message: 05:47:10.777: Compiling codegen: +** Message: 08:51:38.469: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation] +** Message: 08:51:38.480: Process optimal [Terminal [Segment("START"->"match"):[NER:affine:local:protein2protein]]] +** Message: 08:51:38.487: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.c -** Message: 05:47:13.935: Compiling codegen: +** Message: 08:51:41.079: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.c -** Message: 05:47:19.394: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] -** Message: 05:47:19.395: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive +** Message: 08:51:45.218: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] +** Message: 08:51:45.219: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -** Message: 05:47:19.502: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] -** Message: 05:47:19.503: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] -** Message: 05:47:19.504: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive +** Message: 08:51:45.305: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] +** Message: 08:51:45.305: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] +** Message: 08:51:45.305: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -** Message: 05:47:20.083: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] -** Message: 05:47:20.085: Process optimal [Terminal [Segment("match"->"END"):[NER:affine:local:protein2protein]]] -** Message: 05:47:20.087: Compiling codegen: +** Message: 08:51:45.397: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] +** Message: 08:51:45.397: Process optimal [Terminal [Segment("match"->"END"):[NER:affine:local:protein2protein]]] +** Message: 08:51:45.399: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.c -** Message: 05:47:22.630: Compiling codegen: +** Message: 08:51:47.697: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.c -** Message: 05:47:26.334: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] -** Message: 05:47:26.334: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive +** Message: 08:51:50.994: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] +** Message: 08:51:50.994: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -** Message: 05:47:26.408: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] -** Message: 05:47:26.408: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] -** Message: 05:47:26.408: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive +** Message: 08:51:51.080: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] +** Message: 08:51:51.081: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] +** Message: 08:51:51.081: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -** Message: 05:47:26.687: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] -** Message: 05:47:26.688: Process optimal [HeuristicJoin:[Segment("match"->"match"):[NER:affine:local:protein2protein]]] -** Message: 05:47:26.694: Compiling codegen: +** Message: 08:51:51.180: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] +** Message: 08:51:51.181: Process optimal [HeuristicJoin:[Segment("match"->"match"):[NER:affine:local:protein2protein]]] +** Message: 08:51:51.187: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.c -** Message: 05:47:33.336: Compiling codegen: +** Message: 08:51:57.178: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.c -** Message: 05:47:43.685: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] -** Message: 05:47:43.686: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive +** Message: 08:52:06.105: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] +** Message: 08:52:06.106: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -** Message: 05:47:43.763: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] -** Message: 05:47:43.764: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] -** Message: 05:47:43.764: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive +** Message: 08:52:06.190: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] +** Message: 08:52:06.191: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] +** Message: 08:52:06.191: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -** Message: 05:47:44.168: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] -** Message: 05:47:44.168: Process optimal [Src span [Segment("match"->"ner"):[NER:affine:local:protein2protein]]] -** Message: 05:47:44.172: Compiling codegen: +** Message: 08:52:06.277: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] +** Message: 08:52:06.278: Process optimal [Src span [Segment("match"->"ner"):[NER:affine:local:protein2protein]]] +** Message: 08:52:06.280: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.c -** Message: 05:47:46.773: Compiling codegen: +** Message: 08:52:08.751: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.c -** Message: 05:47:50.476: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] -** Message: 05:47:50.477: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive +** Message: 08:52:12.175: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] +** Message: 08:52:12.175: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -** Message: 05:47:50.556: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] -** Message: 05:47:50.557: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] -** Message: 05:47:50.557: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive +** Message: 08:52:12.252: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] +** Message: 08:52:12.252: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] +** Message: 08:52:12.252: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -** Message: 05:47:50.755: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] -** Message: 05:47:50.756: Process optimal [Src span traceback [Segment("match"->"ner"):[NER:affine:local:protein2protein]]] -** Message: 05:47:50.762: Compiling codegen: +** Message: 08:52:12.328: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] +** Message: 08:52:12.329: Process optimal [Src span traceback [Segment("match"->"ner"):[NER:affine:local:protein2protein]]] +** Message: 08:52:12.335: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.c -** Message: 05:48:00.476: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] -** Message: 05:48:00.476: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive +** Message: 08:52:20.784: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] +** Message: 08:52:20.785: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -** Message: 05:48:00.555: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] -** Message: 05:48:00.555: Process optimal [Dst span [Segment("ner"->"match"):[NER:affine:local:protein2protein]]] -** Message: 05:48:00.558: Compiling codegen: +** Message: 08:52:20.856: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_ner_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] +** Message: 08:52:20.856: Process optimal [Dst span [Segment("ner"->"match"):[NER:affine:local:protein2protein]]] +** Message: 08:52:20.859: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.c -** Message: 05:48:04.383: Compiling codegen: +** Message: 08:52:23.754: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.c -** Message: 05:48:09.646: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] -** Message: 05:48:09.646: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive +** Message: 08:52:28.257: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] +** Message: 08:52:28.258: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score.o -** Message: 05:48:09.714: Adding function [Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] -** Message: 05:48:09.714: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] -** Message: 05:48:09.714: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive +** Message: 08:52:28.340: Adding function [Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_score] +** Message: 08:52:28.341: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] +** Message: 08:52:28.341: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path.o -** Message: 05:48:12.510: Adding function [Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] -** Message: 05:48:12.525: Compiling codegen: +** Message: 08:52:28.413: Adding function [Dst_32_span_32__91_Segment_40__34_ner_34__45__62__34_match_34__41__58__91_NER_58_affine_58_local_58_protein2protein_93__93__32_find_32_path] +** Message: 08:52:28.415: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.c -** Message: 05:48:13.626: Compiling codegen: +** Message: 08:52:29.152: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.c -** Message: 05:48:14.619: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o] -** Message: 05:48:14.619: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 08:52:29.985: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o] +** Message: 08:52:29.986: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o -** Message: 05:48:14.686: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary] -** Message: 05:48:14.687: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o] -** Message: 05:48:14.687: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o] to archive +** Message: 08:52:30.072: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary] +** Message: 08:52:30.072: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o] +** Message: 08:52:30.073: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o -** Message: 05:48:15.843: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary] -** Message: 05:48:15.843: Processing model [p2d] -** Message: 05:48:15.844: Bootstrapper processing model [protein2dna:local] -** Message: 05:48:15.844: Process optimal [optimal:protein2dna:local] -** Message: 05:48:15.846: Compiling codegen: +** Message: 08:52:30.159: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary] +** Message: 08:52:30.160: Processing model [p2d] +** Message: 08:52:30.161: Bootstrapper processing model [protein2dna:local] +** Message: 08:52:30.161: Process optimal [optimal:protein2dna:local] +** Message: 08:52:30.163: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_score.c -** Message: 05:48:17.860: Compiling codegen: +** Message: 08:52:31.968: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path.c -** Message: 05:48:22.996: Compiling codegen: +** Message: 08:52:34.448: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_region.c -** Message: 05:48:25.741: Compiling codegen: +** Message: 08:52:36.931: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_checkpoint.c -** Message: 05:48:31.776: Compiling codegen: +** Message: 08:52:42.189: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.c -** Message: 05:48:37.763: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_score.o] -** Message: 05:48:37.763: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_score.o] to archive +** Message: 08:52:48.315: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_score.o] +** Message: 08:52:48.315: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_score.o -** Message: 05:48:37.831: Adding function [optimal_58_protein2dna_58_local_32_find_32_score] -** Message: 05:48:37.831: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path.o] -** Message: 05:48:37.831: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path.o] to archive +** Message: 08:52:48.393: Adding function [optimal_58_protein2dna_58_local_32_find_32_score] +** Message: 08:52:48.393: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path.o] +** Message: 08:52:48.393: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path.o -** Message: 05:48:39.771: Adding function [optimal_58_protein2dna_58_local_32_find_32_path] -** Message: 05:48:39.771: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_region.o] -** Message: 05:48:39.771: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_region.o] to archive +** Message: 08:52:48.479: Adding function [optimal_58_protein2dna_58_local_32_find_32_path] +** Message: 08:52:48.480: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_region.o] +** Message: 08:52:48.480: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_region.o -** Message: 05:48:42.361: Adding function [optimal_58_protein2dna_58_local_32_find_32_region] -** Message: 05:48:42.361: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o] -** Message: 05:48:42.361: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o] to archive +** Message: 08:52:48.556: Adding function [optimal_58_protein2dna_58_local_32_find_32_region] +** Message: 08:52:48.556: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o] +** Message: 08:52:48.557: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o -** Message: 05:48:44.707: Adding function [optimal_58_protein2dna_58_local_32_find_32_checkpoint] -** Message: 05:48:44.707: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o] -** Message: 05:48:44.707: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o] to archive +** Message: 08:52:48.646: Adding function [optimal_58_protein2dna_58_local_32_find_32_checkpoint] +** Message: 08:52:48.646: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o] +** Message: 08:52:48.646: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o -** Message: 05:48:47.113: Adding function [optimal_58_protein2dna_58_local_32_find_32_path_32_continuation] -** Message: 05:48:47.131: Process optimal [Terminal [Segment("START"->"match"):[protein2dna:local]]] -** Message: 05:48:47.136: Compiling codegen: +** Message: 08:52:48.730: Adding function [optimal_58_protein2dna_58_local_32_find_32_path_32_continuation] +** Message: 08:52:48.749: Process optimal [Terminal [Segment("START"->"match"):[protein2dna:local]]] +** Message: 08:52:48.754: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.c -** Message: 05:48:51.298: Compiling codegen: +** Message: 08:52:52.930: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.c -** Message: 05:48:58.314: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] -** Message: 05:48:58.314: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] to archive +** Message: 08:52:59.407: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] +** Message: 08:52:59.408: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o -** Message: 05:48:58.384: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score] -** Message: 05:48:58.384: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] -** Message: 05:48:58.384: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] to archive +** Message: 08:52:59.498: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score] +** Message: 08:52:59.499: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] +** Message: 08:52:59.499: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o -** Message: 05:48:59.602: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path] -** Message: 05:48:59.602: Process optimal [Terminal [Segment("match"->"END"):[protein2dna:local]]] -** Message: 05:48:59.606: Compiling codegen: +** Message: 08:52:59.587: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path] +** Message: 08:52:59.588: Process optimal [Terminal [Segment("match"->"END"):[protein2dna:local]]] +** Message: 08:52:59.591: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.c -** Message: 05:49:05.154: Compiling codegen: +** Message: 08:53:02.272: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.c -** Message: 05:49:09.763: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] -** Message: 05:49:09.763: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] to archive +** Message: 08:53:06.593: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] +** Message: 08:53:06.593: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o -** Message: 05:49:09.843: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score] -** Message: 05:49:09.843: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] -** Message: 05:49:09.843: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] to archive +** Message: 08:53:06.671: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score] +** Message: 08:53:06.672: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] +** Message: 08:53:06.672: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o -** Message: 05:49:09.954: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path] -** Message: 05:49:09.955: Process optimal [HeuristicJoin:[Segment("match"->"match"):[protein2dna:local]]] -** Message: 05:49:09.962: Compiling codegen: +** Message: 08:53:06.758: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path] +** Message: 08:53:06.759: Process optimal [HeuristicJoin:[Segment("match"->"match"):[protein2dna:local]]] +** Message: 08:53:06.766: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.c -** Message: 05:49:19.636: Compiling codegen: +** Message: 08:53:15.705: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.c -** Message: 05:49:35.073: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] -** Message: 05:49:35.073: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] to archive +** Message: 08:53:30.181: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] +** Message: 08:53:30.181: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score.o -** Message: 05:49:35.159: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score] -** Message: 05:49:35.159: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] -** Message: 05:49:35.160: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] to archive +** Message: 08:53:30.276: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_score] +** Message: 08:53:30.276: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] +** Message: 08:53:30.276: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path.o -** Message: 05:49:35.272: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path] -** Message: 05:49:35.273: Compiling codegen: +** Message: 08:53:30.375: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2dna_58_local_93__93__32_find_32_path] +** Message: 08:53:30.377: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.c -** Message: 05:49:36.154: Compiling codegen: +** Message: 08:53:31.250: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.c -** Message: 05:49:37.170: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o] -** Message: 05:49:37.170: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o] to archive +** Message: 08:53:32.168: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o] +** Message: 08:53:32.169: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o -** Message: 05:49:37.255: Adding function [Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded] -** Message: 05:49:37.255: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o] -** Message: 05:49:37.255: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o] to archive +** Message: 08:53:32.253: Adding function [Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded] +** Message: 08:53:32.254: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o] +** Message: 08:53:32.254: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o -** Message: 05:49:37.334: Adding function [Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded] -** Message: 05:49:37.334: Processing model [p2d:b] -** Message: 05:49:37.335: Bootstrapper processing model [protein2dna:bestfit] -** Message: 05:49:37.335: Process optimal [optimal:protein2dna:bestfit] -** Message: 05:49:37.340: Compiling codegen: +** Message: 08:53:32.387: Adding function [Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded] +** Message: 08:53:32.388: Processing model [p2d:b] +** Message: 08:53:32.389: Bootstrapper processing model [protein2dna:bestfit] +** Message: 08:53:32.389: Process optimal [optimal:protein2dna:bestfit] +** Message: 08:53:32.394: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_score.c -** Message: 05:49:43.676: Compiling codegen: +** Message: 08:53:38.235: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path.c -** Message: 05:49:53.052: Compiling codegen: +** Message: 08:53:47.160: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_region.c -** Message: 05:50:01.626: Compiling codegen: +** Message: 08:53:54.989: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.c -** Message: 05:50:07.754: Compiling codegen: +** Message: 08:53:59.948: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.c -** Message: 05:50:14.758: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_score.o] -** Message: 05:50:14.758: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_score.o] to archive +** Message: 08:54:05.499: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_score.o] +** Message: 08:54:05.499: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_score.o -** Message: 05:50:14.901: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_score] -** Message: 05:50:14.901: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path.o] -** Message: 05:50:14.901: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path.o] to archive +** Message: 08:54:05.580: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_score] +** Message: 08:54:05.580: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path.o] +** Message: 08:54:05.580: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path.o -** Message: 05:50:15.079: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_path] -** Message: 05:50:15.079: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_region.o] -** Message: 05:50:15.079: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_region.o] to archive +** Message: 08:54:05.661: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_path] +** Message: 08:54:05.661: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_region.o] +** Message: 08:54:05.661: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_region.o -** Message: 05:50:15.325: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_region] -** Message: 05:50:15.325: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o] -** Message: 05:50:15.325: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o] to archive +** Message: 08:54:05.744: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_region] +** Message: 08:54:05.745: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o] +** Message: 08:54:05.745: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o -** Message: 05:50:15.566: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint] -** Message: 05:50:15.566: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o] -** Message: 05:50:15.567: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o] to archive +** Message: 08:54:05.825: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint] +** Message: 08:54:05.825: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o] +** Message: 08:54:05.825: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o -** Message: 05:50:15.800: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation] -** Message: 05:50:15.801: Processing model [p2g] -** Message: 05:50:15.802: Bootstrapper processing model [protein2genome:local] -** Message: 05:50:15.802: Process optimal [optimal:protein2genome:local] -** Message: 05:50:15.806: Compiling codegen: +** Message: 08:54:05.906: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation] +** Message: 08:54:05.906: Processing model [p2g] +** Message: 08:54:05.908: Bootstrapper processing model [protein2genome:local] +** Message: 08:54:05.908: Process optimal [optimal:protein2genome:local] +** Message: 08:54:05.912: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_score.c -** Message: 05:50:22.242: Compiling codegen: +** Message: 08:54:10.825: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path.c -** Message: 05:50:32.075: Compiling codegen: +** Message: 08:54:18.715: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_region.c -** Message: 05:50:39.806: Compiling codegen: +** Message: 08:54:26.068: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_checkpoint.c -** Message: 05:51:03.095: Compiling codegen: +** Message: 08:54:47.034: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.c -** Message: 05:51:36.960: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_score.o] -** Message: 05:51:36.960: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_score.o] to archive +** Message: 08:55:14.516: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_score.o] +** Message: 08:55:14.516: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_score.o -** Message: 05:51:37.095: Adding function [optimal_58_protein2genome_58_local_32_find_32_score] -** Message: 05:51:37.096: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path.o] -** Message: 05:51:37.096: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path.o] to archive +** Message: 08:55:14.602: Adding function [optimal_58_protein2genome_58_local_32_find_32_score] +** Message: 08:55:14.602: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path.o] +** Message: 08:55:14.602: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path.o -** Message: 05:51:51.279: Adding function [optimal_58_protein2genome_58_local_32_find_32_path] -** Message: 05:51:51.280: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_region.o] -** Message: 05:51:51.280: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_region.o] to archive +** Message: 08:55:15.037: Adding function [optimal_58_protein2genome_58_local_32_find_32_path] +** Message: 08:55:15.037: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_region.o] +** Message: 08:55:15.037: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_region.o -** Message: 05:52:21.068: Adding function [optimal_58_protein2genome_58_local_32_find_32_region] -** Message: 05:52:21.068: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o] -** Message: 05:52:21.068: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o] to archive +** Message: 08:55:15.481: Adding function [optimal_58_protein2genome_58_local_32_find_32_region] +** Message: 08:55:15.481: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o] +** Message: 08:55:15.481: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o -** Message: 05:52:26.167: Adding function [optimal_58_protein2genome_58_local_32_find_32_checkpoint] -** Message: 05:52:26.168: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o] -** Message: 05:52:26.168: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o] to archive +** Message: 08:55:15.994: Adding function [optimal_58_protein2genome_58_local_32_find_32_checkpoint] +** Message: 08:55:15.995: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o] +** Message: 08:55:15.995: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o -** Message: 05:52:28.023: Adding function [optimal_58_protein2genome_58_local_32_find_32_path_32_continuation] -** Message: 05:52:28.096: Process optimal [Terminal [Segment("START"->"match"):[protein2genome:local]]] -** Message: 05:52:28.108: Compiling codegen: +** Message: 08:55:16.468: Adding function [optimal_58_protein2genome_58_local_32_find_32_path_32_continuation] +** Message: 08:55:16.544: Process optimal [Terminal [Segment("START"->"match"):[protein2genome:local]]] +** Message: 08:55:16.556: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.c -** Message: 05:52:51.464: Compiling codegen: +** Message: 08:55:36.311: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 05:53:38.855: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] -** Message: 05:53:38.855: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive +** Message: 08:56:10.978: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] +** Message: 08:56:10.979: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -** Message: 05:53:48.369: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] -** Message: 05:53:48.369: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 05:53:48.369: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 08:56:11.069: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] +** Message: 08:56:11.070: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 08:56:11.070: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 05:53:48.643: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 05:53:48.643: Process optimal [Terminal [Segment("match"->"END"):[protein2genome:local]]] -** Message: 05:53:48.650: Compiling codegen: +** Message: 08:56:11.161: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 08:56:11.162: Process optimal [Terminal [Segment("match"->"END"):[protein2genome:local]]] +** Message: 08:56:11.169: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.c -** Message: 05:54:01.758: Compiling codegen: +** Message: 08:56:21.268: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 05:54:21.883: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] -** Message: 05:54:21.883: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive +** Message: 08:56:37.821: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] +** Message: 08:56:37.822: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -** Message: 05:54:21.987: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] -** Message: 05:54:21.987: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 05:54:21.987: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 08:56:37.930: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] +** Message: 08:56:37.930: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 08:56:37.931: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 05:54:22.094: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 05:54:22.094: Process optimal [HeuristicJoin:[Segment("match"->"match"):[protein2genome:local]]] -** Message: 05:54:22.114: Compiling codegen: +** Message: 08:56:38.028: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 08:56:38.029: Process optimal [HeuristicJoin:[Segment("match"->"match"):[protein2genome:local]]] +** Message: 08:56:38.045: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.c -** Message: 05:55:24.952: Compiling codegen: +** Message: 08:57:27.757: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 05:57:02.600: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] -** Message: 05:57:02.601: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive +** Message: 08:58:53.210: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] +** Message: 08:58:53.210: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -** Message: 05:57:02.830: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] -** Message: 05:57:02.831: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 05:57:02.831: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 08:58:53.314: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] +** Message: 08:58:53.314: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 08:58:53.314: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 05:57:03.053: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 05:57:03.054: Process optimal [Src span [Segment("match"->"intron 0:0 phase-T"):[protein2genome:local]]] -** Message: 05:57:03.061: Compiling codegen: +** Message: 08:58:53.553: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 08:58:53.554: Process optimal [Src span [Segment("match"->"intron 0:0 phase-T"):[protein2genome:local]]] +** Message: 08:58:53.560: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.c -** Message: 05:57:18.694: Compiling codegen: +** Message: 08:59:04.593: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 05:57:41.065: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] -** Message: 05:57:41.066: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive +** Message: 08:59:21.761: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] +** Message: 08:59:21.761: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -** Message: 05:57:41.188: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] -** Message: 05:57:41.189: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 05:57:41.189: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 08:59:21.867: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] +** Message: 08:59:21.868: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 08:59:21.868: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 05:57:41.299: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 05:57:41.299: Process optimal [Src span traceback [Segment("match"->"intron 0:0 phase-T"):[protein2genome:local]]] -** Message: 05:57:41.320: Compiling codegen: +** Message: 08:59:21.984: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 08:59:21.985: Process optimal [Src span traceback [Segment("match"->"intron 0:0 phase-T"):[protein2genome:local]]] +** Message: 08:59:22.003: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 05:59:25.081: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 05:59:25.081: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 09:00:36.551: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 09:00:36.552: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 05:59:35.403: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 05:59:35.403: Process optimal [Dst span [Segment("intron 0:0 phase-T"->"match"):[protein2genome:local]]] -** Message: 05:59:35.415: Compiling codegen: +** Message: 09:00:36.872: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_0_58_0_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 09:00:36.873: Process optimal [Dst span [Segment("intron 0:0 phase-T"->"match"):[protein2genome:local]]] +** Message: 09:00:36.883: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.c -** Message: 06:00:10.602: Compiling codegen: +** Message: 09:01:00.114: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 06:00:55.098: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] -** Message: 06:00:55.099: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive +** Message: 09:01:41.913: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] +** Message: 09:01:41.913: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -** Message: 06:00:55.296: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] -** Message: 06:00:55.297: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 06:00:55.298: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 09:01:42.073: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] +** Message: 09:01:42.073: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 09:01:42.074: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 06:00:55.543: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 06:00:55.544: Process optimal [Src span [Segment("match"->"intron 1:2 phase-T"):[protein2genome:local]]] -** Message: 06:00:55.551: Compiling codegen: +** Message: 09:01:42.221: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_0_58_0_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 09:01:42.221: Process optimal [Src span [Segment("match"->"intron 1:2 phase-T"):[protein2genome:local]]] +** Message: 09:01:42.229: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.c -** Message: 06:01:09.178: Compiling codegen: +** Message: 09:01:53.545: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 06:01:32.297: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] -** Message: 06:01:32.297: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive +** Message: 09:02:11.058: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] +** Message: 09:02:11.059: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -** Message: 06:01:32.424: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] -** Message: 06:01:32.424: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 06:01:32.424: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 09:02:11.168: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] +** Message: 09:02:11.169: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 09:02:11.169: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 06:01:33.281: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 06:01:33.281: Process optimal [Src span traceback [Segment("match"->"intron 1:2 phase-T"):[protein2genome:local]]] -** Message: 06:01:33.303: Compiling codegen: +** Message: 09:02:11.555: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 09:02:11.555: Process optimal [Src span traceback [Segment("match"->"intron 1:2 phase-T"):[protein2genome:local]]] +** Message: 09:02:11.576: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 06:03:05.816: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 06:03:05.816: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 09:03:24.239: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 09:03:24.239: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 06:03:05.983: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 06:03:05.984: Process optimal [Dst span [Segment("intron 1:2 phase-T"->"match"):[protein2genome:local]]] -** Message: 06:03:05.995: Compiling codegen: +** Message: 09:03:24.407: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_1_58_2_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 09:03:24.407: Process optimal [Dst span [Segment("intron 1:2 phase-T"->"match"):[protein2genome:local]]] +** Message: 09:03:24.418: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.c -** Message: 06:03:31.042: Compiling codegen: +** Message: 09:03:45.505: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 06:04:15.828: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] -** Message: 06:04:15.828: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive +** Message: 09:04:28.071: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] +** Message: 09:04:28.071: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -** Message: 06:04:15.939: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] -** Message: 06:04:15.939: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 06:04:15.939: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 09:04:28.583: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] +** Message: 09:04:28.583: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 09:04:28.583: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 06:04:19.454: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 06:04:19.454: Process optimal [Src span [Segment("match"->"intron 2:1 phase-T"):[protein2genome:local]]] -** Message: 06:04:19.462: Compiling codegen: +** Message: 09:04:28.750: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_1_58_2_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 09:04:28.750: Process optimal [Src span [Segment("match"->"intron 2:1 phase-T"):[protein2genome:local]]] +** Message: 09:04:28.757: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.c -** Message: 06:04:32.222: Compiling codegen: +** Message: 09:04:41.827: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 06:04:50.947: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] -** Message: 06:04:50.947: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive +** Message: 09:05:01.691: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] +** Message: 09:05:01.692: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -** Message: 06:04:51.077: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] -** Message: 06:04:51.077: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 06:04:51.077: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 09:05:01.837: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] +** Message: 09:05:01.837: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 09:05:01.837: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 06:04:51.386: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 06:04:51.386: Process optimal [Src span traceback [Segment("match"->"intron 2:1 phase-T"):[protein2genome:local]]] -** Message: 06:04:51.407: Compiling codegen: +** Message: 09:05:02.061: Adding function [Src_32_span_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 09:05:02.062: Process optimal [Src span traceback [Segment("match"->"intron 2:1 phase-T"):[protein2genome:local]]] +** Message: 09:05:02.080: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 06:06:12.921: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 06:06:12.921: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 09:06:23.529: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 09:06:23.529: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 06:06:13.067: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 06:06:13.067: Process optimal [Dst span [Segment("intron 2:1 phase-T"->"match"):[protein2genome:local]]] -** Message: 06:06:13.079: Compiling codegen: +** Message: 09:06:23.650: Adding function [Src_32_span_32_traceback_32__91_Segment_40__34_match_34__45__62__34_intron_32_2_58_1_32_phase_45_T_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 09:06:23.650: Process optimal [Dst span [Segment("intron 2:1 phase-T"->"match"):[protein2genome:local]]] +** Message: 09:06:23.661: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.c -** Message: 06:06:38.679: Compiling codegen: +** Message: 09:06:49.735: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.c -** Message: 06:07:25.484: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] -** Message: 06:07:25.486: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive +** Message: 09:07:38.906: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] +** Message: 09:07:38.907: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score.o -** Message: 06:07:25.746: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] -** Message: 06:07:25.747: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] -** Message: 06:07:25.747: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive +** Message: 09:07:39.087: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_score] +** Message: 09:07:39.088: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] +** Message: 09:07:39.088: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path.o -** Message: 06:07:25.931: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] -** Message: 06:07:25.935: Compiling codegen: +** Message: 09:07:39.307: Adding function [Dst_32_span_32__91_Segment_40__34_intron_32_2_58_1_32_phase_45_T_34__45__62__34_match_34__41__58__91_protein2genome_58_local_93__93__32_find_32_path] +** Message: 09:07:39.312: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.c -** Message: 06:07:27.530: Compiling codegen: +** Message: 09:07:40.829: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.c -** Message: 06:07:29.511: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o] -** Message: 06:07:29.512: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 09:07:42.656: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o] +** Message: 09:07:42.656: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o -** Message: 06:07:29.656: Adding function [Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary] -** Message: 06:07:29.656: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o] -** Message: 06:07:29.656: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o] to archive +** Message: 09:07:42.798: Adding function [Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary] +** Message: 09:07:42.798: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o] +** Message: 09:07:42.799: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o -** Message: 06:07:29.795: Adding function [Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary] -** Message: 06:07:29.795: Processing model [p2g:b] -** Message: 06:07:29.797: Bootstrapper processing model [protein2genome:bestfit] -** Message: 06:07:29.797: Process optimal [optimal:protein2genome:bestfit] -** Message: 06:07:29.810: Compiling codegen: +** Message: 09:07:44.772: Adding function [Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary] +** Message: 09:07:44.772: Processing model [p2g:b] +** Message: 09:07:44.774: Bootstrapper processing model [protein2genome:bestfit] +** Message: 09:07:44.774: Process optimal [optimal:protein2genome:bestfit] +** Message: 09:07:44.788: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_score.c -** Message: 06:08:02.456: Compiling codegen: +** Message: 09:08:15.771: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path.c -** Message: 06:09:05.336: Compiling codegen: +** Message: 09:09:08.078: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_region.c -** Message: 06:09:42.673: Compiling codegen: +** Message: 09:09:43.983: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.c -** Message: 06:10:06.638: Compiling codegen: +** Message: 09:10:04.546: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.c -** Message: 06:10:38.868: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_score.o] -** Message: 06:10:38.868: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_score.o] to archive +** Message: 09:10:32.745: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_score.o] +** Message: 09:10:32.745: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_score.o -** Message: 06:10:39.003: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_score] -** Message: 06:10:39.003: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path.o] -** Message: 06:10:39.003: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path.o] to archive +** Message: 09:10:32.868: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_score] +** Message: 09:10:32.868: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path.o] +** Message: 09:10:32.868: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path.o -** Message: 06:10:43.395: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_path] -** Message: 06:10:43.395: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_region.o] -** Message: 06:10:43.395: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_region.o] to archive +** Message: 09:10:32.995: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_path] +** Message: 09:10:32.996: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_region.o] +** Message: 09:10:32.996: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_region.o -** Message: 06:10:52.335: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_region] -** Message: 06:10:52.335: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o] -** Message: 06:10:52.335: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o] to archive +** Message: 09:10:33.137: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_region] +** Message: 09:10:33.137: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o] +** Message: 09:10:33.137: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o -** Message: 06:10:52.708: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint] -** Message: 06:10:52.708: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o] -** Message: 06:10:52.708: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o] to archive +** Message: 09:10:33.276: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint] +** Message: 09:10:33.276: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o] +** Message: 09:10:33.276: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o -** Message: 06:10:53.177: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation] -** Message: 06:10:53.177: Processing model [c2c] -** Message: 06:10:53.179: Bootstrapper processing model [coding2coding] -** Message: 06:10:53.179: Process optimal [optimal:coding2coding] -** Message: 06:10:53.183: Compiling codegen: +** Message: 09:10:33.413: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation] +** Message: 09:10:33.414: Processing model [c2c] +** Message: 09:10:33.415: Bootstrapper processing model [coding2coding] +** Message: 09:10:33.415: Process optimal [optimal:coding2coding] +** Message: 09:10:33.419: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_score.c -** Message: 06:10:57.835: Compiling codegen: +** Message: 09:10:37.568: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path.c -** Message: 06:11:14.055: Compiling codegen: +** Message: 09:10:44.106: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_region.c -** Message: 06:11:38.725: Compiling codegen: +** Message: 09:10:51.698: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_checkpoint.c -** Message: 06:11:56.020: Compiling codegen: +** Message: 09:11:05.733: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path_32_continuation.c -** Message: 06:12:19.994: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_score.o] -** Message: 06:12:19.994: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_score.o] to archive +** Message: 09:11:23.305: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_score.o] +** Message: 09:11:23.305: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_score.o -** Message: 06:12:20.657: Adding function [optimal_58_coding2coding_32_find_32_score] -** Message: 06:12:20.658: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path.o] -** Message: 06:12:20.658: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path.o] to archive +** Message: 09:11:23.463: Adding function [optimal_58_coding2coding_32_find_32_score] +** Message: 09:11:23.463: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path.o] +** Message: 09:11:23.463: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path.o -** Message: 06:12:22.840: Adding function [optimal_58_coding2coding_32_find_32_path] -** Message: 06:12:22.840: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_region.o] -** Message: 06:12:22.840: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_region.o] to archive +** Message: 09:11:23.612: Adding function [optimal_58_coding2coding_32_find_32_path] +** Message: 09:11:23.612: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_region.o] +** Message: 09:11:23.613: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_region.o -** Message: 06:12:24.566: Adding function [optimal_58_coding2coding_32_find_32_region] -** Message: 06:12:24.567: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_checkpoint.o] -** Message: 06:12:24.567: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_checkpoint.o] to archive +** Message: 09:11:23.759: Adding function [optimal_58_coding2coding_32_find_32_region] +** Message: 09:11:23.760: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_checkpoint.o] +** Message: 09:11:23.760: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_checkpoint.o -** Message: 06:12:27.164: Adding function [optimal_58_coding2coding_32_find_32_checkpoint] -** Message: 06:12:27.164: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path_32_continuation.o] -** Message: 06:12:27.165: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path_32_continuation.o] to archive +** Message: 09:11:23.900: Adding function [optimal_58_coding2coding_32_find_32_checkpoint] +** Message: 09:11:23.900: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path_32_continuation.o] +** Message: 09:11:23.900: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2coding_32_find_32_path_32_continuation.o -** Message: 06:12:27.941: Adding function [optimal_58_coding2coding_32_find_32_path_32_continuation] -** Message: 06:12:28.010: Process optimal [Terminal [Segment("START"->"match"):[coding2coding]]] -** Message: 06:12:28.022: Compiling codegen: +** Message: 09:11:24.061: Adding function [optimal_58_coding2coding_32_find_32_path_32_continuation] +** Message: 09:11:24.133: Process optimal [Terminal [Segment("START"->"match"):[coding2coding]]] +** Message: 09:11:24.145: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.c -** Message: 06:12:42.467: Compiling codegen: +** Message: 09:11:37.107: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.c -** Message: 06:13:22.442: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o] -** Message: 06:13:22.442: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o] to archive +** Message: 09:11:59.510: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o] +** Message: 09:11:59.511: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o -** Message: 06:13:31.959: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score] -** Message: 06:13:31.959: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o] -** Message: 06:13:31.959: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o] to archive +** Message: 09:11:59.670: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score] +** Message: 09:11:59.670: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o] +** Message: 09:11:59.670: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o -** Message: 06:13:42.389: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path] -** Message: 06:13:42.390: Process optimal [Terminal [Segment("match"->"END"):[coding2coding]]] -** Message: 06:13:42.396: Compiling codegen: +** Message: 09:11:59.821: Adding function [Terminal_32__91_Segment_40__34_START_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path] +** Message: 09:11:59.821: Process optimal [Terminal [Segment("match"->"END"):[coding2coding]]] +** Message: 09:11:59.827: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_score.c -** Message: 06:13:49.927: Compiling codegen: +** Message: 09:12:06.666: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_path.c -** Message: 06:14:01.851: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_score.o] -** Message: 06:14:01.852: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_score.o] to archive +** Message: 09:12:16.666: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_score.o] +** Message: 09:12:16.666: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_score.o -** Message: 06:14:02.549: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_score] -** Message: 06:14:02.550: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_path.o] -** Message: 06:14:02.550: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_path.o] to archive +** Message: 09:12:16.866: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_score] +** Message: 09:12:16.866: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_path.o] +** Message: 09:12:16.867: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_path.o -** Message: 06:14:02.858: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_path] -** Message: 06:14:02.858: Process optimal [HeuristicJoin:[Segment("match"->"match"):[coding2coding]]] -** Message: 06:14:02.874: Compiling codegen: +** Message: 09:12:17.031: Adding function [Terminal_32__91_Segment_40__34_match_34__45__62__34_END_34__41__58__91_coding2coding_93__93__32_find_32_path] +** Message: 09:12:17.032: Process optimal [HeuristicJoin:[Segment("match"->"match"):[coding2coding]]] +** Message: 09:12:17.047: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.c -** Message: 06:14:34.886: Compiling codegen: +** Message: 09:12:44.497: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.c -** Message: 06:15:43.322: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o] -** Message: 06:15:43.323: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o] to archive +** Message: 09:13:36.477: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o] +** Message: 09:13:36.477: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score.o -** Message: 06:15:49.413: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score] -** Message: 06:15:49.413: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o] -** Message: 06:15:49.413: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o] to archive +** Message: 09:13:36.747: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_score] +** Message: 09:13:36.747: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o] +** Message: 09:13:36.748: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path.o -** Message: 06:15:50.183: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path] -** Message: 06:15:50.186: Compiling codegen: +** Message: 09:13:36.948: Adding function [HeuristicJoin_58__91_Segment_40__34_match_34__45__62__34_match_34__41__58__91_coding2coding_93__93__32_find_32_path] +** Message: 09:13:36.950: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.c -** Message: 06:15:51.562: Compiling codegen: +** Message: 09:13:38.060: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.c -** Message: 06:15:53.264: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o] -** Message: 06:15:53.265: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o] to archive +** Message: 09:13:39.157: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o] +** Message: 09:13:39.157: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o -** Message: 06:15:53.602: Adding function [Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded] -** Message: 06:15:53.603: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o] -** Message: 06:15:53.604: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o] to archive +** Message: 09:13:39.319: Adding function [Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded] +** Message: 09:13:39.319: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o] +** Message: 09:13:39.320: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o -** Message: 06:15:53.991: Adding function [Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded] -** Message: 06:15:53.992: Processing model [c2g] -** Message: 06:15:53.995: Bootstrapper processing model [coding2genome] -** Message: 06:15:53.995: Process optimal [optimal:coding2genome] -** Message: 06:15:54.004: Compiling codegen: +** Message: 09:13:39.631: Adding function [Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded] +** Message: 09:13:39.632: Processing model [c2g] +** Message: 09:13:39.634: Bootstrapper processing model [coding2genome] +** Message: 09:13:39.634: Process optimal [optimal:coding2genome] +** Message: 09:13:39.642: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_score.c -** Message: 06:16:17.433: Compiling codegen: +** Message: 09:13:54.927: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path.c -** Message: 06:16:55.293: Compiling codegen: +** Message: 09:14:23.848: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_region.c -** Message: 06:17:32.235: Compiling codegen: +** Message: 09:14:46.148: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_checkpoint.c -** Message: 06:18:43.306: Compiling codegen: +** Message: 09:16:24.245: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path_32_continuation.c -** Message: 06:21:20.996: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_score.o] -** Message: 06:21:20.997: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_score.o] to archive +** Message: 09:18:32.954: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_score.o] +** Message: 09:18:32.954: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_score.o -** Message: 06:21:21.164: Adding function [optimal_58_coding2genome_32_find_32_score] -** Message: 06:21:21.164: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path.o] -** Message: 06:21:21.164: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path.o] to archive +** Message: 09:18:33.192: Adding function [optimal_58_coding2genome_32_find_32_score] +** Message: 09:18:33.192: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path.o] +** Message: 09:18:33.192: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path.o -** Message: 06:21:34.582: Adding function [optimal_58_coding2genome_32_find_32_path] -** Message: 06:21:34.582: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_region.o] -** Message: 06:21:34.582: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_region.o] to archive +** Message: 09:18:33.674: Adding function [optimal_58_coding2genome_32_find_32_path] +** Message: 09:18:33.675: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_region.o] +** Message: 09:18:33.675: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_region.o -** Message: 06:21:37.539: Adding function [optimal_58_coding2genome_32_find_32_region] -** Message: 06:21:37.540: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_checkpoint.o] -** Message: 06:21:37.540: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_checkpoint.o] to archive +** Message: 09:18:33.833: Adding function [optimal_58_coding2genome_32_find_32_region] +** Message: 09:18:33.833: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_checkpoint.o] +** Message: 09:18:33.833: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_checkpoint.o -** Message: 06:21:40.990: Adding function [optimal_58_coding2genome_32_find_32_checkpoint] -** Message: 06:21:40.990: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path_32_continuation.o] -** Message: 06:21:40.990: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path_32_continuation.o] to archive +** Message: 09:18:34.007: Adding function [optimal_58_coding2genome_32_find_32_checkpoint] +** Message: 09:18:34.007: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path_32_continuation.o] +** Message: 09:18:34.008: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_coding2genome_32_find_32_path_32_continuation.o -** Message: 06:21:44.412: Adding function [optimal_58_coding2genome_32_find_32_path_32_continuation] -** Message: 06:21:44.415: Compiling codegen: +** Message: 09:18:34.244: Adding function [optimal_58_coding2genome_32_find_32_path_32_continuation] +** Message: 09:18:34.246: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.c -** Message: 06:21:48.696: Compiling codegen: +** Message: 09:18:35.926: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.c -** Message: 06:21:51.034: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o] -** Message: 06:21:51.034: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 09:18:37.646: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o] +** Message: 09:18:37.646: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o -** Message: 06:21:51.335: Adding function [Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary] -** Message: 06:21:51.335: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o] -** Message: 06:21:51.335: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o] to archive +** Message: 09:18:38.110: Adding function [Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary] +** Message: 09:18:38.110: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o] +** Message: 09:18:38.110: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o -** Message: 06:21:54.807: Adding function [Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary] -** Message: 06:21:54.808: Processing model [cd2g] -** Message: 06:21:54.811: Bootstrapper processing model [cdna2genome] -** Message: 06:21:54.811: Process optimal [optimal:cdna2genome] -** Message: 06:21:54.826: Compiling codegen: +** Message: 09:18:38.629: Adding function [Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary] +** Message: 09:18:38.629: Processing model [cd2g] +** Message: 09:18:38.633: Bootstrapper processing model [cdna2genome] +** Message: 09:18:38.633: Process optimal [optimal:cdna2genome] +** Message: 09:18:38.647: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_score.c -** Message: 06:23:33.765: Compiling codegen: +** Message: 09:19:34.266: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path.c -** Message: 06:25:58.690: Compiling codegen: +** Message: 09:21:15.148: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_region.c -** Message: 06:27:24.548: Compiling codegen: +** Message: 09:22:40.404: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_checkpoint.c -** Message: 06:32:26.084: Compiling codegen: +** Message: 09:27:59.595: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path_32_continuation.c -** Message: 06:38:45.514: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_score.o] -** Message: 06:38:45.514: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_score.o] to archive +** Message: 09:34:27.169: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_score.o] +** Message: 09:34:27.169: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_score.o -** Message: 06:38:45.672: Adding function [optimal_58_cdna2genome_32_find_32_score] -** Message: 06:38:45.672: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path.o] -** Message: 06:38:45.673: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path.o] to archive +** Message: 09:34:27.450: Adding function [optimal_58_cdna2genome_32_find_32_score] +** Message: 09:34:27.450: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path.o] +** Message: 09:34:27.450: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path.o -** Message: 06:38:45.838: Adding function [optimal_58_cdna2genome_32_find_32_path] -** Message: 06:38:45.838: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_region.o] -** Message: 06:38:45.838: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_region.o] to archive +** Message: 09:34:27.743: Adding function [optimal_58_cdna2genome_32_find_32_path] +** Message: 09:34:27.743: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_region.o] +** Message: 09:34:27.743: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_region.o -** Message: 06:38:46.020: Adding function [optimal_58_cdna2genome_32_find_32_region] -** Message: 06:38:46.020: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_checkpoint.o] -** Message: 06:38:46.020: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_checkpoint.o] to archive +** Message: 09:34:28.039: Adding function [optimal_58_cdna2genome_32_find_32_region] +** Message: 09:34:28.039: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_checkpoint.o] +** Message: 09:34:28.040: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_checkpoint.o -** Message: 06:38:46.208: Adding function [optimal_58_cdna2genome_32_find_32_checkpoint] -** Message: 06:38:46.208: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path_32_continuation.o] -** Message: 06:38:46.208: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path_32_continuation.o] to archive +** Message: 09:34:28.339: Adding function [optimal_58_cdna2genome_32_find_32_checkpoint] +** Message: 09:34:28.339: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path_32_continuation.o] +** Message: 09:34:28.339: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path_32_continuation.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/optimal_58_cdna2genome_32_find_32_path_32_continuation.o -** Message: 06:38:46.409: Adding function [optimal_58_cdna2genome_32_find_32_path_32_continuation] -** Message: 06:38:46.414: Compiling codegen: +** Message: 09:34:28.786: Adding function [optimal_58_cdna2genome_32_find_32_path_32_continuation] +** Message: 09:34:28.790: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.c -** Message: 06:38:49.486: Compiling codegen: +** Message: 09:34:31.948: Compiling codegen: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/build/reproducible-path/exonerate-2.4.0/src/model -I/build/reproducible-path/exonerate-2.4.0/src/comparison -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/bsdp -I/build/reproducible-path/exonerate-2.4.0/src/sdp -o /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.c -** Message: 06:38:53.335: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o] -** Message: 06:38:53.335: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 09:34:35.791: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o] +** Message: 09:34:35.792: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o -** Message: 06:38:53.521: Adding function [Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary] -** Message: 06:38:53.522: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o] -** Message: 06:38:53.522: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o] to archive +** Message: 09:34:36.055: Adding function [Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary] +** Message: 09:34:36.055: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o] +** Message: 09:34:36.055: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/arm_45_unknown_45_linux_45_gnueabihf/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o -** Message: 06:38:53.705: Adding function [Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary] -** Message: 06:38:53.706: Compiling with: [gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -o c4_model_lookup.o -c c4_model_lookup.c] -** Message: 06:38:54.694: Adding: [c4_model_lookup.o] -** Message: 06:38:54.694: Adding object file [c4_model_lookup.o] to archive +** Message: 09:34:36.407: Adding function [Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary] +** Message: 09:34:36.407: Compiling with: [gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I/build/reproducible-path/exonerate-2.4.0/src/c4 -I/build/reproducible-path/exonerate-2.4.0/src/sequence -I/build/reproducible-path/exonerate-2.4.0/src/general -I/build/reproducible-path/exonerate-2.4.0/src/struct -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -o c4_model_lookup.o -c c4_model_lookup.c] +** Message: 09:34:37.458: Adding: [c4_model_lookup.o] +** Message: 09:34:37.459: Adding object file [c4_model_lookup.o] to archive ar -Sq c4_model_archive.a c4_model_lookup.o -** Message: 06:38:54.869: Indexing archive [c4_model_archive.a] +** Message: 09:34:37.806: Indexing archive [c4_model_archive.a] ranlib c4_model_archive.a -** Message: 06:38:55.172: Done -** Message: 06:38:55.173: Finished building bootstrapping components +** Message: 09:34:38.380: Done +** Message: 09:34:38.381: Finished building bootstrapping components make all-am make[4]: Entering directory '/build/reproducible-path/exonerate-2.4.0/src/program' gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/hub -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o exonerate.o exonerate.c @@ -2919,6 +2955,7 @@ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/hub -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -I. \ -DUSE_COMPILED_MODELS \ -c ../../src/sdp/scheduler.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/hub -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o ipcress.o ipcress.c In file included from /usr/include/glib-2.0/glib/giochannel.h:36, from /usr/include/glib-2.0/glib.h:56, from ../../src/c4/viterbi.h:23, @@ -2940,7 +2977,6 @@ ../../src/c4/viterbi.c:965:5: note: in expansion of macro 'g_string_free' 965 | g_string_free(str, FALSE); | ^~~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/hub -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o ipcress.o ipcress.c ipcress.c: In function 'Ipcress_prepare_PCR': ipcress.c:264:9: warning: 'g_strup' is deprecated [-Wdeprecated-declarations] 264 | g_strup(primer_a); @@ -2959,6 +2995,7 @@ 277 | gchar* g_strup (gchar *string); | ^~~~~~~ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/comparison -I../../src/struct -I../../src/c4 -I../../src/bsdp -I../../src/sdp -I../../src/model -I../../src/hub -I../../src/general -DHOSTTYPE="\"arm-unknown-linux-gnueabihf\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"llu\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o exonerate-server.o exonerate-server.c +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o ipcress ipcress.o ../../src/comparison/pcr.o ../../src/comparison/wordhood.o ../../src/database/fastadb.o ../../src/sequence/alphabet.o ../../src/sequence/sequence.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/fsm.o ../../src/struct/slist.o ../../src/struct/matrix.o ../../src/struct/recyclebin.o ../../src/struct/sparsecache.o ../../src/general/lineparse.o ../../src/general/argument.o ../../src/general/compoundfile.o -lm -lglib-2.0 exonerate-server.c: In function 'Exonerate_Server_get_hsps': exonerate-server.c:349:13: warning: Deprecated pre-processor symbol: replace with "g_string_append_printf" 349 | g_string_sprintfa(str, "hspset: %d", index_hsp_set->target_id); @@ -2988,7 +3025,6 @@ exonerate-server.c:366:9: note: in expansion of macro 'g_string_free' 366 | g_string_free(str, FALSE); | ^~~~~~~~~~~~~ -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o ipcress ipcress.o ../../src/comparison/pcr.o ../../src/comparison/wordhood.o ../../src/database/fastadb.o ../../src/sequence/alphabet.o ../../src/sequence/sequence.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/struct/fsm.o ../../src/struct/slist.o ../../src/struct/matrix.o ../../src/struct/recyclebin.o ../../src/struct/sparsecache.o ../../src/general/lineparse.o ../../src/general/argument.o ../../src/general/compoundfile.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o exonerate-server exonerate-server.o ../../src/general/socket.o ../../src/general/argument.o ../../src/comparison/hspset.o ../../src/comparison/match.o ../../src/comparison/wordhood.o ../../src/database/dataset.o ../../src/database/index.o ../../src/database/fastadb.o ../../src/struct/bitarray.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o ../../src/struct/splaytree.o ../../src/struct/noitree.o ../../src/struct/vfsm.o ../../src/struct/pqueue.o ../../src/struct/rangetree.o ../../src/struct/recyclebin.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/translate.o ../../src/sequence/splice.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/general/threadref.o -lm -lglib-2.0 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -Wl,-z,relro -Wl,-z,now -lgthread-2.0 -pthread -lglib-2.0 -lpthread -o exonerate exonerate.o viterbi.o scheduler.o c4_model_archive.a ../../src/comparison/wordhood.o ../../src/comparison/hspset.o ../../src/comparison/seeder.o ../../src/comparison/comparison.o ../../src/database/fastapipe.o ../../src/database/fastadb.o ../../src/struct/dejavu.o ../../src/struct/fsm.o ../../src/struct/vfsm.o ../../src/struct/sparsecache.o ../../src/hub/gam.o ../../src/hub/bsam.o ../../src/hub/analysis.o ../../src/general/compoundfile.o ../../src/general/threadref.o ../../src/c4/c4.o ../../src/c4/codegen.o ../../src/c4/cgutil.o ../../src/c4/opair.o ../../src/c4/alignment.o ../../src/c4/optimal.o ../../src/c4/layout.o ../../src/c4/region.o ../../src/c4/subopt.o ../../src/bsdp/bsdp.o ../../src/bsdp/sar.o ../../src/bsdp/heuristic.o ../../src/bsdp/hpair.o ../../src/sdp/boundary.o ../../src/sdp/sdp.o ../../src/sdp/lookahead.o ../../src/sdp/straceback.o ../../src/struct/matrix.o ../../src/struct/slist.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/translate.o ../../src/sequence/splice.o ../../src/model/affine.o ../../src/model/est2genome.o ../../src/model/ner.o ../../src/model/protein2dna.o ../../src/model/protein2genome.o ../../src/model/coding2coding.o ../../src/model/coding2genome.o ../../src/model/cdna2genome.o ../../src/model/genome2genome.o ../../src/model/ungapped.o ../../src/model/intron.o ../../src/model/frameshift.o ../../src/model/phase.o ../../src/model/modeltype.o ../../src/general/argument.o ../../src/general/lineparse.o ../../src/general/socket.o ../../src/general/jobqueue.o ../../src/comparison/match.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o -lm -lglib-2.0 make[4]: Leaving directory '/build/reproducible-path/exonerate-2.4.0/src/program' @@ -3001,6 +3037,8 @@ gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastacomposition.o fastacomposition.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastadiff.o fastadiff.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastaexplode.o fastaexplode.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastafetch.o fastafetch.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastahardmask.o fastahardmask.c fastadiff.c: In function 'fasta_diff': fastadiff.c:70:13: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 70 | comp = g_strcasecmp; @@ -3013,9 +3051,6 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastafetch.o fastafetch.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastahardmask.o fastahardmask.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastaindex.o fastaindex.c fastafetch.c: In function 'get_query_list': fastafetch.c:121:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 121 | if(!g_strcasecmp(query, "stdin")){ @@ -3028,13 +3063,13 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastaindex.o fastaindex.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastalength.o fastalength.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastanrdb.o fastanrdb.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastaoverlap.o fastaoverlap.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastareformat.o fastareformat.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastaremove.o fastaremove.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastarevcomp.o fastarevcomp.c -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastasoftmask.o fastasoftmask.c fastaremove.c: In function 'Argument_main': fastaremove.c:73:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 73 | if(!g_strcasecmp(remove_path, "stdin")){ @@ -3047,8 +3082,10 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastasoftmask.o fastasoftmask.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastasort.o fastasort.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastasplit.o fastasplit.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastasubseq.o fastasubseq.c fastasort.c: In function 'SortKey_Mask_create': fastasort.c:130:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 130 | if(!g_strcasecmp(sort_key, "id")) @@ -3073,7 +3110,7 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastasubseq.o fastasubseq.c +gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastatranslate.o fastatranslate.c fastasplit.c: In function 'Argument_main': fastasplit.c:92:13: warning: 'g_basename' is deprecated: Use 'g_path_get_basename' instead [-Wdeprecated-declarations] 92 | output_dir, G_DIR_SEPARATOR, g_basename(query_path)); @@ -3084,7 +3121,6 @@ /usr/include/glib-2.0/glib/gfileutils.h:207:14: note: declared here 207 | const gchar *g_basename (const gchar *file_name); | ^~~~~~~~~~ -gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastatranslate.o fastatranslate.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastavalidcds.o fastavalidcds.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fasta2esd.o fasta2esd.c gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"exonerate\" -DVERSION=\"2.4.0\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_LIMITS_H=1 -DHAVE_ERRNO_H=1 -DHAVE_MATH_H=1 -DHAVE_STRINGS_H=1 -DHAVE_CTYPE_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_TIME_H=1 -DHAVE_UNISTD_H=1 -I. -I../../src/sequence -I../../src/database -I../../src/struct -I../../src/comparison -I../../src/general -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastaannotatecdna.o fastaannotatecdna.c @@ -3257,7 +3293,7 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/exonerate/ - make -j3 install DESTDIR=/build/reproducible-path/exonerate-2.4.0/debian/exonerate AM_UPDATE_INFO_DIR=no + make -j4 install DESTDIR=/build/reproducible-path/exonerate-2.4.0/debian/exonerate AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/exonerate-2.4.0' Making install in doc make[2]: Entering directory '/build/reproducible-path/exonerate-2.4.0/doc' @@ -3485,12 +3521,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/29476/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/29476/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/12289 and its subdirectories -I: Current time: Tue May 7 06:39:32 -12 2024 -I: pbuilder-time-stamp: 1715107172 +I: removing directory /srv/workspace/pbuilder/29476 and its subdirectories +I: Current time: Wed May 8 09:35:22 +14 2024 +I: pbuilder-time-stamp: 1715110522