Diff of the two buildlogs: -- --- b1/build.log 2025-03-06 17:00:50.568049504 +0000 +++ b2/build.log 2025-03-06 17:34:29.849126751 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Apr 8 11:12:20 -12 2026 -I: pbuilder-time-stamp: 1775689940 +I: Current time: Fri Mar 7 07:00:53 +14 2025 +I: pbuilder-time-stamp: 1741280453 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -28,52 +28,84 @@ dpkg-source: info: applying cross.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/4093825/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/510979/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-amd64. +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 Mar 6 17:01 /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/510979/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/510979/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='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + 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]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='8ee80429019b4c7d92d18de0e5997a85' - 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='4093825' - PS1='# ' - PS2='> ' + INVOCATION_ID=ecef06d7671b4601ba165db00591d823 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + 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=510979 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.rEnsDLK6/pbuilderrc_j2Gf --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.rEnsDLK6/b1 --logfile b1/build.log exonerate_2.4.0-5.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + 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.rEnsDLK6/pbuilderrc_ZXCG --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.rEnsDLK6/b2 --logfile b2/build.log exonerate_2.4.0-5.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos15-amd64 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/4093825/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/510979/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -186,7 +218,7 @@ Get: 71 http://deb.debian.org/debian trixie/main amd64 libncurses6 amd64 6.5+20250216-1 [105 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libncurses-dev amd64 6.5+20250216-1 [353 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libreadline-dev amd64 8.2-6 [153 kB] -Fetched 36.3 MB in 6s (6134 kB/s) +Fetched 36.3 MB in 2s (14.9 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-minimal:amd64. (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 ... 19800 files and directories currently installed.) @@ -435,8 +467,8 @@ Setting up tzdata (2025a-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Apr 8 23:12:53 UTC 2026. -Universal Time is now: Wed Apr 8 23:12:53 UTC 2026. +Local time is now: Thu Mar 6 17:03:05 UTC 2025. +Universal Time is now: Thu Mar 6 17:03:05 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libsysprof-capture-4-dev:amd64 (48~beta-2) ... @@ -506,7 +538,11 @@ 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/510979/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/510979/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 @@ -667,7 +703,7 @@ config.status: creating test/data/protein/Makefile config.status: executing depfiles commands dh_auto_build - make -j42 + make -j20 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' @@ -709,10 +745,16 @@ 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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o bitarray.o bitarray.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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +bitarray.c: In function 'BitArray_read_int': +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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o noitree.o noitree.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, @@ -723,25 +765,19 @@ /usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here 148 | void g_tree_traverse (GTree *tree, | ^~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -bitarray.c: In function 'BitArray_read_int': -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 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 sparsecache.test sparsecache.test.o sparsecache.o -lglib-2.0 +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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 bitarray.test bitarray.test.o bitarray.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 recyclebin.test recyclebin.test.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 slist.test slist.test.o slist.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 sparsecache.test sparsecache.test.o sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 dejavu.test dejavu.test.o dejavu.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 vfsm.test vfsm.test.o vfsm.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 rangetree.test rangetree.test.o rangetree.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 slist.test slist.test.o slist.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 splaytree.test splaytree.test.o splaytree.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 noitree.test noitree.test.o noitree.o recyclebin.o splaytree.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 vfsm.test vfsm.test.o vfsm.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 rangetree.test rangetree.test.o rangetree.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 pqueue.test pqueue.test.o pqueue.o recyclebin.o -lglib-2.0 make[3]: Leaving directory '/build/reproducible-path/exonerate-2.4.0/src/struct' Making all in general @@ -758,19 +794,6 @@ 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. -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"lu\"" -I../../src/struct -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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="\"lu\"" -I../../src/struct -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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="\"lu\"" -I../../src/struct -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o threadref.o threadref.c -jobqueue.test.c: In function 'main': -jobqueue.test.c:34:13: warning: Deprecated pre-processor symbol - 34 | if(!g_thread_supported()) - | ^~~~~~~~~~~~~~~~~ -jobqueue.test.c:35:9: warning: 'g_thread_init' is deprecated [-Wdeprecated-declarations] - 35 | g_thread_init(NULL); - | ^~~~~~~~~~~~~ -In file included from /usr/include/glib-2.0/glib.h:115, - from jobqueue.h:23, - from jobqueue.test.c:17: -/usr/include/glib-2.0/glib/deprecated/gthread.h:271:10: note: declared here - 271 | void g_thread_init (gpointer vtable); - | ^~~~~~~~~~~~~ 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])) @@ -818,6 +841,19 @@ /usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here 148 | void g_tree_traverse (GTree *tree, | ^~~~~~~~~~~~~~~ +jobqueue.test.c: In function 'main': +jobqueue.test.c:34:13: warning: Deprecated pre-processor symbol + 34 | if(!g_thread_supported()) + | ^~~~~~~~~~~~~~~~~ +jobqueue.test.c:35:9: warning: 'g_thread_init' is deprecated [-Wdeprecated-declarations] + 35 | g_thread_init(NULL); + | ^~~~~~~~~~~~~ +In file included from /usr/include/glib-2.0/glib.h:115, + from jobqueue.h:23, + from jobqueue.test.c:17: +/usr/include/glib-2.0/glib/deprecated/gthread.h:271:10: note: declared here + 271 | void g_thread_init (gpointer vtable); + | ^~~~~~~~~~~~~ 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); @@ -825,6 +861,7 @@ socket.c:169:13: warning: Deprecated pre-processor symbol: replace with "g_string_append_printf" 169 | g_string_sprintfa(full_msg, "%s", msg); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 threadref.test threadref.test.o threadref.o -lpthread -lglib-2.0 In file included from /usr/include/glib-2.0/glib/giochannel.h:36, from /usr/include/glib-2.0/glib.h:56, from socket.h:23, @@ -846,12 +883,11 @@ socket.c:142:9: note: in expansion of macro 'g_string_free' 142 | g_string_free(string, 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 threadref.test threadref.test.o threadref.o -lpthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 lineparse.test lineparse.test.o lineparse.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 jobqueue.test jobqueue.test.o jobqueue.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 socket.test socket.test.o socket.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 compoundfile.test compoundfile.test.o compoundfile.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 compoundfile.test compoundfile.test.o compoundfile.o -lglib-2.0 make[3]: Leaving directory '/build/reproducible-path/exonerate-2.4.0/src/general' Making all in sequence make[3]: Entering directory '/build/reproducible-path/exonerate-2.4.0/src/sequence' @@ -948,6 +984,36 @@ 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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o seeder.o seeder.c +hspset.c: In function 'HSP_Display_insert': +hspset.c:637:9: warning: 'g_strdown' is deprecated [-Wdeprecated-declarations] + 637 | g_strdown(query_str); + | ^~~~~~~~~ +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 hspset.h:26, + from hspset.c:20: +/usr/include/glib-2.0/glib/gstrfuncs.h:275:23: note: declared here + 275 | gchar* g_strdown (gchar *string); + | ^~~~~~~~~ +hspset.c:638:9: warning: 'g_strdown' is deprecated [-Wdeprecated-declarations] + 638 | g_strdown(target_str); + | ^~~~~~~~~ +/usr/include/glib-2.0/glib/gstrfuncs.h:275:23: note: declared here + 275 | gchar* g_strdown (gchar *string); + | ^~~~~~~~~ +hspset.c:640:9: warning: 'g_strup' is deprecated [-Wdeprecated-declarations] + 640 | g_strup(query_str); + | ^~~~~~~ +/usr/include/glib-2.0/glib/gstrfuncs.h:277:23: note: declared here + 277 | gchar* g_strup (gchar *string); + | ^~~~~~~ +hspset.c:641:9: warning: 'g_strup' is deprecated [-Wdeprecated-declarations] + 641 | g_strup(target_str); + | ^~~~~~~ +/usr/include/glib-2.0/glib/gstrfuncs.h:277:23: note: declared here + 277 | gchar* g_strup (gchar *string); + | ^~~~~~~ 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); @@ -987,6 +1053,7 @@ 54 | void g_mem_chunk_free (GMemChunk *mem_chunk, | ^~~~~~~~~~~~~~~~ pcr.c: In function 'PCR_Primer_create': +seeder.c: In function 'Seeder_decide_fsm_type': pcr.c:252:5: warning: 'g_strup' is deprecated [-Wdeprecated-declarations] 252 | g_strup(pcr_primer->forward); | ^~~~~~~ @@ -1002,6 +1069,9 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:277:23: note: declared here 277 | gchar* g_strup (gchar *string); | ^~~~~~~ +seeder.c:268:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] + 268 | if(!g_strcasecmp(force_fsm, "none")) + | ^~ pcr.c: In function 'PCR_create': pcr.c:357:5: warning: 'g_mem_chunk_new' is deprecated [-Wdeprecated-declarations] 357 | pcr->sensor_mem_chunk = g_mem_chunk_new("PCR_Sensor", @@ -1009,48 +1079,38 @@ /usr/include/glib-2.0/glib/deprecated/gallocator.h:43:17: note: declared here 43 | GMemChunk * g_mem_chunk_new (const gchar *name, | ^~~~~~~~~~~~~~~ -hspset.c: In function 'HSP_Display_insert': +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 seeder.h:23, + from seeder.c:16: +/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here + 268 | gint g_strcasecmp (const gchar *s1, + | ^~~~~~~~~~~~ +seeder.c:273:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] + 273 | if(!g_strcasecmp(force_fsm, "normal")) + | ^~ +/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here + 268 | gint g_strcasecmp (const gchar *s1, + | ^~~~~~~~~~~~ pcr.c:363:5: warning: 'g_mem_chunk_new' is deprecated [-Wdeprecated-declarations] 363 | pcr->probe_mem_chunk = g_mem_chunk_new("PCR_Probe", | ^~~ /usr/include/glib-2.0/glib/deprecated/gallocator.h:43:17: note: declared here 43 | GMemChunk * g_mem_chunk_new (const gchar *name, | ^~~~~~~~~~~~~~~ -hspset.c:637:9: warning: 'g_strdown' is deprecated [-Wdeprecated-declarations] - 637 | g_strdown(query_str); - | ^~~~~~~~~ -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 hspset.h:26, - from hspset.c:20: -/usr/include/glib-2.0/glib/gstrfuncs.h:275:23: note: declared here - 275 | gchar* g_strdown (gchar *string); - | ^~~~~~~~~ -hspset.c:638:9: warning: 'g_strdown' is deprecated [-Wdeprecated-declarations] - 638 | g_strdown(target_str); - | ^~~~~~~~~ -/usr/include/glib-2.0/glib/gstrfuncs.h:275:23: note: declared here - 275 | gchar* g_strdown (gchar *string); - | ^~~~~~~~~ -hspset.c:640:9: warning: 'g_strup' is deprecated [-Wdeprecated-declarations] - 640 | g_strup(query_str); - | ^~~~~~~ -/usr/include/glib-2.0/glib/gstrfuncs.h:277:23: note: declared here - 277 | gchar* g_strup (gchar *string); - | ^~~~~~~ -hspset.c:641:9: warning: 'g_strup' is deprecated [-Wdeprecated-declarations] - 641 | g_strup(target_str); - | ^~~~~~~ -/usr/include/glib-2.0/glib/gstrfuncs.h:277:23: note: declared here - 277 | gchar* g_strup (gchar *string); - | ^~~~~~~ +seeder.c:275:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] + 275 | if(!g_strcasecmp(force_fsm, "compact")) + | ^~ pcr.c:366:5: warning: 'g_mem_chunk_new' is deprecated [-Wdeprecated-declarations] 366 | pcr->match_mem_chunk = g_mem_chunk_new("PCR_Match", | ^~~ /usr/include/glib-2.0/glib/deprecated/gallocator.h:43:17: note: declared here 43 | GMemChunk * g_mem_chunk_new (const gchar *name, | ^~~~~~~~~~~~~~~ +/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here + 268 | gint g_strcasecmp (const gchar *s1, + | ^~~~~~~~~~~~ pcr.c: In function 'PCR_destroy': pcr.c:381:5: warning: 'g_mem_chunk_destroy' is deprecated [-Wdeprecated-declarations] 381 | g_mem_chunk_destroy(pcr->sensor_mem_chunk); @@ -1070,30 +1130,6 @@ /usr/include/glib-2.0/glib/deprecated/gallocator.h:48:17: note: declared here 48 | void g_mem_chunk_destroy (GMemChunk *mem_chunk); | ^~~~~~~~~~~~~~~~~~~ -seeder.c: In function 'Seeder_decide_fsm_type': -seeder.c:268:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] - 268 | if(!g_strcasecmp(force_fsm, "none")) - | ^~ -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 seeder.h:23, - from seeder.c:16: -/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here - 268 | gint g_strcasecmp (const gchar *s1, - | ^~~~~~~~~~~~ -seeder.c:273:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] - 273 | if(!g_strcasecmp(force_fsm, "normal")) - | ^~ -/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here - 268 | gint g_strcasecmp (const gchar *s1, - | ^~~~~~~~~~~~ -seeder.c:275:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] - 275 | if(!g_strcasecmp(force_fsm, "compact")) - | ^~ -/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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/exonerate-2.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 @@ -1111,6 +1147,27 @@ 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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o index.test.o index.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="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o index.o index.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, + from fastadb.c:26: +fastadb.c: In function 'FastaDB_Key_get_def': +/usr/include/glib-2.0/glib/gstring.h:76:5: warning: ignoring return value of 'g_string_free_and_steal' declared with attribute 'warn_unused_result' [-Wunused-result] + 72 | (__builtin_constant_p (free_segment) ? \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 73 | ((free_segment) ? \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 74 | (g_string_free) ((str), (free_segment)) : \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 75 | g_string_free_and_steal (str)) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 76 | : \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 77 | (g_string_free) ((str), (free_segment))) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +fastadb.c:560:5: note: in expansion of macro 'g_string_free' + 560 | g_string_free(s, FALSE); + | ^~~~~~~~~~~~~ dataset.c: In function 'Dataset_info': dataset.c:305:13: warning: format '%lld' expects argument of type 'long long int', but argument 6 has type 'guint64' {aka 'long unsigned int'} [-Wformat=] 305 | g_print("Sequence Dataset:\n" @@ -1140,27 +1197,6 @@ | | | long long int | %ld -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, - from fastadb.c:26: -fastadb.c: In function 'FastaDB_Key_get_def': -/usr/include/glib-2.0/glib/gstring.h:76:5: warning: ignoring return value of 'g_string_free_and_steal' declared with attribute 'warn_unused_result' [-Wunused-result] - 72 | (__builtin_constant_p (free_segment) ? \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 73 | ((free_segment) ? \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 74 | (g_string_free) ((str), (free_segment)) : \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 75 | g_string_free_and_steal (str)) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 76 | : \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 77 | (g_string_free) ((str), (free_segment))) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -fastadb.c:560:5: note: in expansion of macro 'g_string_free' - 560 | g_string_free(s, FALSE); - | ^~~~~~~~~~~~~ index.c: In function 'Index_open': index.c:943:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 943 | fread(index->dataset_path, sizeof(gchar), @@ -1194,44 +1230,6 @@ 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/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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread \"" -DHOSTTYPE="\"x86_64-pc-linux-gnu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o opair.o opair.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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread \"" -DHOSTTYPE="\"x86_64-pc-linux-gnu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o subopt.test.o subopt.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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread \"" -DHOSTTYPE="\"x86_64-pc-linux-gnu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o cgutil.test.o cgutil.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, - from codegen.c:23: -codegen.c: In function 'Codegen_clean_path_component': -/usr/include/glib-2.0/glib/gstring.h:76:5: warning: ignoring return value of 'g_string_free_and_steal' declared with attribute 'warn_unused_result' [-Wunused-result] - 72 | (__builtin_constant_p (free_segment) ? \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 73 | ((free_segment) ? \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 74 | (g_string_free) ((str), (free_segment)) : \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 75 | g_string_free_and_steal (str)) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 76 | : \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 77 | (g_string_free) ((str), (free_segment))) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -codegen.c:55:5: note: in expansion of macro 'g_string_free' - 55 | g_string_free(file_name_str, FALSE); - | ^~~~~~~~~~~~~ -codegen.c: In function 'Codegen_expand_format': -/usr/include/glib-2.0/glib/gstring.h:76:5: warning: ignoring return value of 'g_string_free_and_steal' declared with attribute 'warn_unused_result' [-Wunused-result] - 72 | (__builtin_constant_p (free_segment) ? \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 73 | ((free_segment) ? \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 74 | (g_string_free) ((str), (free_segment)) : \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 75 | g_string_free_and_steal (str)) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 76 | : \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 77 | (g_string_free) ((str), (free_segment))) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -codegen.c:154:5: note: in expansion of macro 'g_string_free' - 154 | g_string_free(str, FALSE); - | ^~~~~~~~~~~~~ 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); @@ -1269,17 +1267,17 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:277:23: note: declared here 277 | gchar* g_strup (gchar *string); | ^~~~~~~ -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, - from c4.c:16: -c4.c: In function 'break_string': alignment.c:988:5: warning: 'g_strup' is deprecated [-Wdeprecated-declarations] 988 | g_strup(tg_codon); | ^~~~~~~ /usr/include/glib-2.0/glib/gstrfuncs.h:277:23: note: declared here 277 | gchar* g_strup (gchar *string); | ^~~~~~~ +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, + from c4.c:16: +c4.c: In function 'break_string': /usr/include/glib-2.0/glib/gstring.h:76:5: warning: ignoring return value of 'g_string_free_and_steal' declared with attribute 'warn_unused_result' [-Wunused-result] 72 | (__builtin_constant_p (free_segment) ? \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -1298,6 +1296,44 @@ | ^~~~~~~~~~~~~ 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, + from codegen.c:23: +codegen.c: In function 'Codegen_clean_path_component': +/usr/include/glib-2.0/glib/gstring.h:76:5: warning: ignoring return value of 'g_string_free_and_steal' declared with attribute 'warn_unused_result' [-Wunused-result] + 72 | (__builtin_constant_p (free_segment) ? \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 73 | ((free_segment) ? \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 74 | (g_string_free) ((str), (free_segment)) : \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 75 | g_string_free_and_steal (str)) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 76 | : \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 77 | (g_string_free) ((str), (free_segment))) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +codegen.c:55:5: note: in expansion of macro 'g_string_free' + 55 | g_string_free(file_name_str, FALSE); + | ^~~~~~~~~~~~~ +codegen.c: In function 'Codegen_expand_format': +/usr/include/glib-2.0/glib/gstring.h:76:5: warning: ignoring return value of 'g_string_free_and_steal' declared with attribute 'warn_unused_result' [-Wunused-result] + 72 | (__builtin_constant_p (free_segment) ? \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 73 | ((free_segment) ? \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 74 | (g_string_free) ((str), (free_segment)) : \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 75 | g_string_free_and_steal (str)) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 76 | : \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 77 | (g_string_free) ((str), (free_segment))) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +codegen.c:154:5: note: in expansion of macro 'g_string_free' + 154 | g_string_free(str, FALSE); + | ^~~~~~~~~~~~~ +In file included from /usr/include/glib-2.0/glib/giochannel.h:36, + from /usr/include/glib-2.0/glib.h:56, from viterbi.h:23, from viterbi.c:17: viterbi.c: In function 'Viterbi_expand_macro': @@ -1356,8 +1392,8 @@ 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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread \"" -DHOSTTYPE="\"x86_64-pc-linux-gnu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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' @@ -1410,6 +1446,7 @@ 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/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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread \"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o modeltype.test.o modeltype.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/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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread \"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread \"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 bootstrapper.c: In function 'Argument_main': bootstrapper.c:421:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 421 | if((!models) || (!g_strcasecmp(models, "all"))) @@ -1423,6 +1460,10 @@ /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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 frameshift.test frameshift.test.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 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)) @@ -1442,11 +1483,6 @@ /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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 frameshift.test frameshift.test.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 coding2coding.test coding2coding.test.o coding2coding.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 @@ -1479,6 +1515,28 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ +gam.c: In function 'GAM_bestn_tree_destroy': +gam.c:526:5: warning: 'g_tree_traverse' is deprecated [-Wdeprecated-declarations] + 526 | g_tree_traverse(bestn_tree, GAM_tree_collect_values, + | ^~~~~~~~~~~~~~~ +In file included from /usr/include/glib-2.0/glib.h:95: +/usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here + 148 | void g_tree_traverse (GTree *tree, + | ^~~~~~~~~~~~~~~ +gam.c: In function 'GAM_percent_threshold_tree_destroy': +gam.c:539:5: warning: 'g_tree_traverse' is deprecated [-Wdeprecated-declarations] + 539 | g_tree_traverse(percent_threshold_tree, GAM_tree_collect_values, + | ^~~~~~~~~~~~~~~ +/usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here + 148 | void g_tree_traverse (GTree *tree, + | ^~~~~~~~~~~~~~~ +gam.c: In function 'GAM_report': +gam.c:589:9: warning: 'g_tree_traverse' is deprecated [-Wdeprecated-declarations] + 589 | g_tree_traverse(gam->bestn_tree, GAM_bestn_tree_report_traverse, + | ^~~~~~~~~~~~~~~ +/usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here + 148 | void g_tree_traverse (GTree *tree, + | ^~~~~~~~~~~~~~~ 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")){ @@ -1515,28 +1573,6 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ -gam.c: In function 'GAM_bestn_tree_destroy': -gam.c:526:5: warning: 'g_tree_traverse' is deprecated [-Wdeprecated-declarations] - 526 | g_tree_traverse(bestn_tree, GAM_tree_collect_values, - | ^~~~~~~~~~~~~~~ -In file included from /usr/include/glib-2.0/glib.h:95: -/usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here - 148 | void g_tree_traverse (GTree *tree, - | ^~~~~~~~~~~~~~~ -gam.c: In function 'GAM_percent_threshold_tree_destroy': -gam.c:539:5: warning: 'g_tree_traverse' is deprecated [-Wdeprecated-declarations] - 539 | g_tree_traverse(percent_threshold_tree, GAM_tree_collect_values, - | ^~~~~~~~~~~~~~~ -/usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here - 148 | void g_tree_traverse (GTree *tree, - | ^~~~~~~~~~~~~~~ -gam.c: In function 'GAM_report': -gam.c:589:9: warning: 'g_tree_traverse' is deprecated [-Wdeprecated-declarations] - 589 | g_tree_traverse(gam->bestn_tree, GAM_bestn_tree_report_traverse, - | ^~~~~~~~~~~~~~~ -/usr/include/glib-2.0/glib/gtree.h:148:10: note: declared here - 148 | void g_tree_traverse (GTree *tree, - | ^~~~~~~~~~~~~~~ analysis.c: In function 'Analysis_Client_send': /usr/include/glib-2.0/glib/gstring.h:76:5: warning: ignoring return value of 'g_string_free_and_steal' declared with attribute 'warn_unused_result' [-Wunused-result] 72 | (__builtin_constant_p (free_segment) ? \ @@ -1561,1432 +1597,1432 @@ Making all in program make[3]: Entering directory '/build/reproducible-path/exonerate-2.4.0/src/program' ../../src/model/bootstrapper --compiled no -** Message: 11:13:13.725: Starting building bootstrapping components -** Message: 11:13:13.726: Processing model [u] -** Message: 11:13:13.726: Bootstrapper processing model [ungapped:dna2dna] -** Message: 11:13:13.726: Process optimal [optimal:ungapped:dna2dna] +** Message: 07:05:01.578: Starting building bootstrapping components +** Message: 07:05:01.578: Processing model [u] +** Message: 07:05:01.579: Bootstrapper processing model [ungapped:dna2dna] +** Message: 07:05:01.583: Process optimal [optimal:ungapped:dna2dna] -** (process:4100354): WARNING **: 11:13:13.726: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen] +** (process:549347): WARNING **: 07:05:01.584: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen] -** (process:4100354): WARNING **: 11:13:13.726: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen] +** (process:549347): WARNING **: 07:05:01.584: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen] -** (process:4100354): WARNING **: 11:13:13.726: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu] +** (process:549347): WARNING **: 07:05:01.584: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu] -** (process:4100354): WARNING **: 11:13:13.726: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu] -** Message: 11:13:13.727: Compiling codegen: +** (process:549347): WARNING **: 07:05:01.584: Creating codegen directory [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu] +** Message: 07:05:01.584: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_score.c -** Message: 11:13:13.881: Compiling codegen: +** Message: 07:05:02.272: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path.c -** Message: 11:13:14.061: Compiling codegen: +** Message: 07:05:03.056: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_region.c -** Message: 11:13:14.257: Compiling codegen: +** Message: 07:05:03.740: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.c -** Message: 11:13:14.507: Compiling codegen: +** Message: 07:05:04.524: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 11:13:14.769: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_score.o] -** Message: 11:13:14.769: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_score.o] to archive +** Message: 07:05:05.283: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_score.o] +** Message: 07:05:05.284: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_score.o -** Message: 11:13:14.772: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_score] -** Message: 11:13:14.772: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path.o] -** Message: 11:13:14.772: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path.o] to archive +** Message: 07:05:05.291: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_score] +** Message: 07:05:05.291: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path.o] +** Message: 07:05:05.291: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path.o -** Message: 11:13:14.775: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_path] -** Message: 11:13:14.775: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_region.o] -** Message: 11:13:14.775: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_region.o] to archive +** Message: 07:05:05.301: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_path] +** Message: 07:05:05.301: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_region.o] +** Message: 07:05:05.301: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_region.o -** Message: 11:13:14.778: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_region] -** Message: 11:13:14.778: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o] -** Message: 11:13:14.778: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 07:05:05.309: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_region] +** Message: 07:05:05.310: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o] +** Message: 07:05:05.310: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint.o -** Message: 11:13:14.781: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint] -** Message: 11:13:14.781: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 11:13:14.781: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:05.318: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_checkpoint] +** Message: 07:05:05.318: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 07:05:05.319: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 11:13:14.784: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation] -** Message: 11:13:14.784: Bootstrapper processing model [ungapped:protein2protein] -** Message: 11:13:14.784: Process optimal [optimal:ungapped:protein2protein] -** Message: 11:13:14.785: Compiling codegen: +** Message: 07:05:05.328: Adding function [optimal_58_ungapped_58_dna2dna_32_find_32_path_32_continuation] +** Message: 07:05:05.328: Bootstrapper processing model [ungapped:protein2protein] +** Message: 07:05:05.328: Process optimal [optimal:ungapped:protein2protein] +** Message: 07:05:05.329: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_score.c -** Message: 11:13:14.932: Compiling codegen: +** Message: 07:05:05.711: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path.c -** Message: 11:13:15.107: Compiling codegen: +** Message: 07:05:06.188: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_region.c -** Message: 11:13:15.296: Compiling codegen: +** Message: 07:05:06.673: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.c -** Message: 11:13:15.523: Compiling codegen: +** Message: 07:05:07.295: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 11:13:15.770: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_score.o] -** Message: 11:13:15.770: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_score.o] to archive +** Message: 07:05:07.915: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_score.o] +** Message: 07:05:07.916: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_score.o -** Message: 11:13:15.773: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_score] -** Message: 11:13:15.774: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path.o] -** Message: 11:13:15.774: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path.o] to archive +** Message: 07:05:07.925: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_score] +** Message: 07:05:07.925: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path.o] +** Message: 07:05:07.925: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path.o -** Message: 11:13:15.777: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_path] -** Message: 11:13:15.777: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_region.o] -** Message: 11:13:15.777: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_region.o] to archive +** Message: 07:05:07.934: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_path] +** Message: 07:05:07.935: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_region.o] +** Message: 07:05:07.935: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_region.o -** Message: 11:13:15.780: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_region] -** Message: 11:13:15.780: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o] -** Message: 11:13:15.780: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 07:05:07.943: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_region] +** Message: 07:05:07.944: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o] +** Message: 07:05:07.944: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint.o -** Message: 11:13:15.785: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint] -** Message: 11:13:15.785: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 11:13:15.785: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:07.953: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_checkpoint] +** Message: 07:05:07.953: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 07:05:07.953: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 11:13:15.788: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation] -** Message: 11:13:15.788: Bootstrapper processing model [ungapped:dna2protein] -** Message: 11:13:15.788: Process optimal [optimal:ungapped:dna2protein] -** Message: 11:13:15.789: Compiling codegen: +** Message: 07:05:07.962: Adding function [optimal_58_ungapped_58_protein2protein_32_find_32_path_32_continuation] +** Message: 07:05:07.963: Bootstrapper processing model [ungapped:dna2protein] +** Message: 07:05:07.963: Process optimal [optimal:ungapped:dna2protein] +** Message: 07:05:07.964: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_score.c -** Message: 11:13:15.978: Compiling codegen: +** Message: 07:05:08.456: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path.c -** Message: 11:13:16.209: Compiling codegen: +** Message: 07:05:09.173: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_region.c -** Message: 11:13:16.489: Compiling codegen: +** Message: 07:05:10.012: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.c -** Message: 11:13:16.786: Compiling codegen: +** Message: 07:05:11.211: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.c -** Message: 11:13:17.145: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_score.o] -** Message: 11:13:17.145: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_score.o] to archive +** Message: 07:05:12.663: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_score.o] +** Message: 07:05:12.663: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_score.o -** Message: 11:13:17.283: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_score] -** Message: 11:13:17.283: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path.o] -** Message: 11:13:17.283: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path.o] to archive +** Message: 07:05:12.676: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_score] +** Message: 07:05:12.677: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path.o] +** Message: 07:05:12.677: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path.o -** Message: 11:13:17.301: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_path] -** Message: 11:13:17.301: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_region.o] -** Message: 11:13:17.301: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_region.o] to archive +** Message: 07:05:12.700: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_path] +** Message: 07:05:12.700: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_region.o] +** Message: 07:05:12.701: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_region.o -** Message: 11:13:17.321: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_region] -** Message: 11:13:17.321: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o] -** Message: 11:13:17.321: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o] to archive +** Message: 07:05:12.965: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_region] +** Message: 07:05:12.965: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o] +** Message: 07:05:12.965: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint.o -** Message: 11:13:17.326: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint] -** Message: 11:13:17.326: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o] -** Message: 11:13:17.326: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:13.152: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_checkpoint] +** Message: 07:05:13.152: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o] +** Message: 07:05:13.152: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation.o -** Message: 11:13:17.331: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation] -** Message: 11:13:17.331: Bootstrapper processing model [ungapped:protein2dna] -** Message: 11:13:17.331: Process optimal [optimal:ungapped:protein2dna] -** Message: 11:13:17.331: Compiling codegen: +** Message: 07:05:13.408: Adding function [optimal_58_ungapped_58_dna2protein_32_find_32_path_32_continuation] +** Message: 07:05:13.408: Bootstrapper processing model [ungapped:protein2dna] +** Message: 07:05:13.408: Process optimal [optimal:ungapped:protein2dna] +** Message: 07:05:13.492: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_score.c -** Message: 11:13:17.508: Compiling codegen: +** Message: 07:05:14.353: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path.c -** Message: 11:13:17.720: Compiling codegen: +** Message: 07:05:16.013: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_region.c -** Message: 11:13:17.961: Compiling codegen: +** Message: 07:05:17.568: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.c -** Message: 11:13:18.295: Compiling codegen: +** Message: 07:05:18.505: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.c -** Message: 11:13:18.603: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_score.o] -** Message: 11:13:18.603: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_score.o] to archive +** Message: 07:05:19.478: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_score.o] +** Message: 07:05:19.479: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_score.o -** Message: 11:13:18.607: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_score] -** Message: 11:13:18.607: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path.o] -** Message: 11:13:18.607: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path.o] to archive +** Message: 07:05:19.491: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_score] +** Message: 07:05:19.492: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path.o] +** Message: 07:05:19.492: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path.o -** Message: 11:13:18.611: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_path] -** Message: 11:13:18.611: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_region.o] -** Message: 11:13:18.611: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_region.o] to archive +** Message: 07:05:19.504: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_path] +** Message: 07:05:19.505: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_region.o] +** Message: 07:05:19.505: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_region.o -** Message: 11:13:18.615: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_region] -** Message: 11:13:18.615: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o] -** Message: 11:13:18.615: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o] to archive +** Message: 07:05:19.515: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_region] +** Message: 07:05:19.516: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o] +** Message: 07:05:19.516: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint.o -** Message: 11:13:18.619: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint] -** Message: 11:13:18.619: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o] -** Message: 11:13:18.619: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:19.532: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_checkpoint] +** Message: 07:05:19.533: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o] +** Message: 07:05:19.533: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation.o -** Message: 11:13:18.628: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation] -** Message: 11:13:18.628: Processing model [u:t] -** Message: 11:13:18.628: Bootstrapper processing model [ungapped:codon] -** Message: 11:13:18.628: Process optimal [optimal:ungapped:codon] -** Message: 11:13:18.628: Compiling codegen: +** Message: 07:05:19.548: Adding function [optimal_58_ungapped_58_protein2dna_32_find_32_path_32_continuation] +** Message: 07:05:19.548: Processing model [u:t] +** Message: 07:05:19.548: Bootstrapper processing model [ungapped:codon] +** Message: 07:05:19.549: Process optimal [optimal:ungapped:codon] +** Message: 07:05:19.549: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_score.c -** Message: 11:13:18.876: Compiling codegen: +** Message: 07:05:20.106: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path.c -** Message: 11:13:19.181: Compiling codegen: +** Message: 07:05:20.996: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_region.c -** Message: 11:13:19.569: Compiling codegen: +** Message: 07:05:22.072: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_checkpoint.c -** Message: 11:13:20.054: Compiling codegen: +** Message: 07:05:23.484: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.c -** Message: 11:13:20.517: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_score.o] -** Message: 11:13:20.517: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_score.o] to archive +** Message: 07:05:24.498: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_score.o] +** Message: 07:05:24.498: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_score.o -** Message: 11:13:20.522: Adding function [optimal_58_ungapped_58_codon_32_find_32_score] -** Message: 11:13:20.522: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path.o] -** Message: 11:13:20.522: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path.o] to archive +** Message: 07:05:24.652: Adding function [optimal_58_ungapped_58_codon_32_find_32_score] +** Message: 07:05:24.652: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path.o] +** Message: 07:05:24.652: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path.o -** Message: 11:13:20.527: Adding function [optimal_58_ungapped_58_codon_32_find_32_path] -** Message: 11:13:20.527: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_region.o] -** Message: 11:13:20.527: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_region.o] to archive +** Message: 07:05:24.912: Adding function [optimal_58_ungapped_58_codon_32_find_32_path] +** Message: 07:05:24.913: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_region.o] +** Message: 07:05:24.914: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_region.o -** Message: 11:13:20.531: Adding function [optimal_58_ungapped_58_codon_32_find_32_region] -** Message: 11:13:20.531: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o] -** Message: 11:13:20.531: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o] to archive +** Message: 07:05:25.408: Adding function [optimal_58_ungapped_58_codon_32_find_32_region] +** Message: 07:05:25.409: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o] +** Message: 07:05:25.409: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_checkpoint.o -** Message: 11:13:20.536: Adding function [optimal_58_ungapped_58_codon_32_find_32_checkpoint] -** Message: 11:13:20.536: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o] -** Message: 11:13:20.536: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:25.595: Adding function [optimal_58_ungapped_58_codon_32_find_32_checkpoint] +** Message: 07:05:25.596: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o] +** Message: 07:05:25.596: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_ungapped_58_codon_32_find_32_path_32_continuation.o -** Message: 11:13:20.541: Adding function [optimal_58_ungapped_58_codon_32_find_32_path_32_continuation] -** Message: 11:13:20.541: Processing model [a:g] -** Message: 11:13:20.541: Bootstrapper processing model [affine:global:dna2dna] -** Message: 11:13:20.541: Process optimal [optimal:affine:global:dna2dna] -** Message: 11:13:20.541: Compiling codegen: +** Message: 07:05:25.735: Adding function [optimal_58_ungapped_58_codon_32_find_32_path_32_continuation] +** Message: 07:05:25.736: Processing model [a:g] +** Message: 07:05:25.737: Bootstrapper processing model [affine:global:dna2dna] +** Message: 07:05:25.737: Process optimal [optimal:affine:global:dna2dna] +** Message: 07:05:25.738: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.c -** Message: 11:13:20.918: Compiling codegen: +** Message: 07:05:26.976: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.c -** Message: 11:13:21.432: Compiling codegen: +** Message: 07:05:28.293: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.c -** Message: 11:13:21.896: Compiling codegen: +** Message: 07:05:29.421: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 11:13:22.472: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o] -** Message: 11:13:22.472: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o] to archive +** Message: 07:05:30.889: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o] +** Message: 07:05:30.889: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_score.o -** Message: 11:13:22.589: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_score] -** Message: 11:13:22.589: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o] -** Message: 11:13:22.589: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o] to archive +** Message: 07:05:31.102: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_score] +** Message: 07:05:31.102: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o] +** Message: 07:05:31.102: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path.o -** Message: 11:13:22.603: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_path] -** Message: 11:13:22.603: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o] -** Message: 11:13:22.603: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 07:05:31.317: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_path] +** Message: 07:05:31.317: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o] +** Message: 07:05:31.318: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint.o -** Message: 11:13:22.614: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint] -** Message: 11:13:22.614: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 11:13:22.614: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:31.493: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_checkpoint] +** Message: 07:05:31.493: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 07:05:31.493: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 11:13:22.634: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation] -** Message: 11:13:22.634: Bootstrapper processing model [affine:global:protein2protein] -** Message: 11:13:22.634: Process optimal [optimal:affine:global:protein2protein] -** Message: 11:13:22.634: Compiling codegen: +** Message: 07:05:31.704: Adding function [optimal_58_affine_58_global_58_dna2dna_32_find_32_path_32_continuation] +** Message: 07:05:31.705: Bootstrapper processing model [affine:global:protein2protein] +** Message: 07:05:31.705: Process optimal [optimal:affine:global:protein2protein] +** Message: 07:05:31.714: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.c -** Message: 11:13:23.003: Compiling codegen: +** Message: 07:05:32.638: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.c -** Message: 11:13:23.508: Compiling codegen: +** Message: 07:05:34.310: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.c -** Message: 11:13:23.962: Compiling codegen: +** Message: 07:05:35.475: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 11:13:24.517: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o] -** Message: 11:13:24.518: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o] to archive +** Message: 07:05:37.075: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o] +** Message: 07:05:37.075: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_score.o -** Message: 11:13:24.523: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_score] -** Message: 11:13:24.523: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o] -** Message: 11:13:24.523: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o] to archive +** Message: 07:05:37.258: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_score] +** Message: 07:05:37.258: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o] +** Message: 07:05:37.259: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path.o -** Message: 11:13:24.529: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_path] -** Message: 11:13:24.529: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o] -** Message: 11:13:24.529: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 07:05:37.543: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_path] +** Message: 07:05:37.544: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o] +** Message: 07:05:37.544: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint.o -** Message: 11:13:24.534: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint] -** Message: 11:13:24.534: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 11:13:24.534: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:37.846: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_checkpoint] +** Message: 07:05:37.847: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 07:05:37.847: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 11:13:24.540: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation] -** Message: 11:13:24.540: Processing model [a:b] -** Message: 11:13:24.540: Bootstrapper processing model [affine:bestfit:dna2dna] -** Message: 11:13:24.540: Process optimal [optimal:affine:bestfit:dna2dna] -** Message: 11:13:24.540: Compiling codegen: +** Message: 07:05:37.919: Adding function [optimal_58_affine_58_global_58_protein2protein_32_find_32_path_32_continuation] +** Message: 07:05:37.919: Processing model [a:b] +** Message: 07:05:37.920: Bootstrapper processing model [affine:bestfit:dna2dna] +** Message: 07:05:37.920: Process optimal [optimal:affine:bestfit:dna2dna] +** Message: 07:05:38.099: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.c -** Message: 11:13:25.043: Compiling codegen: +** Message: 07:05:39.780: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.c -** Message: 11:13:25.785: Compiling codegen: +** Message: 07:05:41.702: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.c -** Message: 11:13:26.460: Compiling codegen: +** Message: 07:05:43.071: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.c -** Message: 11:13:26.926: Compiling codegen: +** Message: 07:05:44.095: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 11:13:27.492: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o] -** Message: 11:13:27.492: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o] to archive +** Message: 07:05:45.580: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o] +** Message: 07:05:45.580: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score.o -** Message: 11:13:27.498: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score] -** Message: 11:13:27.498: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o] -** Message: 11:13:27.498: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o] to archive +** Message: 07:05:45.604: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_score] +** Message: 07:05:45.604: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o] +** Message: 07:05:45.604: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path.o -** Message: 11:13:27.505: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path] -** Message: 11:13:27.505: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o] -** Message: 11:13:27.505: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o] to archive +** Message: 07:05:45.622: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path] +** Message: 07:05:45.622: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o] +** Message: 07:05:45.623: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region.o -** Message: 11:13:27.511: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region] -** Message: 11:13:27.511: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o] -** Message: 11:13:27.511: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 07:05:45.642: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_region] +** Message: 07:05:45.643: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o] +** Message: 07:05:45.643: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint.o -** Message: 11:13:27.517: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint] -** Message: 11:13:27.518: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 11:13:27.518: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:45.661: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_checkpoint] +** Message: 07:05:45.662: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 07:05:45.662: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 11:13:27.523: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation] -** Message: 11:13:27.523: Bootstrapper processing model [affine:bestfit:protein2protein] -** Message: 11:13:27.523: Process optimal [optimal:affine:bestfit:protein2protein] -** Message: 11:13:27.524: Compiling codegen: +** Message: 07:05:45.682: Adding function [optimal_58_affine_58_bestfit_58_dna2dna_32_find_32_path_32_continuation] +** Message: 07:05:45.683: Bootstrapper processing model [affine:bestfit:protein2protein] +** Message: 07:05:45.683: Process optimal [optimal:affine:bestfit:protein2protein] +** Message: 07:05:45.684: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.c -** Message: 11:13:28.000: Compiling codegen: +** Message: 07:05:46.996: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.c -** Message: 11:13:28.719: Compiling codegen: +** Message: 07:05:48.695: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.c -** Message: 11:13:29.378: Compiling codegen: +** Message: 07:05:50.172: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.c -** Message: 11:13:29.827: Compiling codegen: +** Message: 07:05:51.641: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 11:13:30.380: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o] -** Message: 11:13:30.380: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o] to archive +** Message: 07:05:52.751: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o] +** Message: 07:05:52.752: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score.o -** Message: 11:13:30.387: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score] -** Message: 11:13:30.387: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o] -** Message: 11:13:30.387: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o] to archive +** Message: 07:05:52.769: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_score] +** Message: 07:05:52.770: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o] +** Message: 07:05:52.770: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path.o -** Message: 11:13:30.400: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path] -** Message: 11:13:30.400: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o] -** Message: 11:13:30.400: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o] to archive +** Message: 07:05:52.792: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path] +** Message: 07:05:52.792: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o] +** Message: 07:05:52.792: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region.o -** Message: 11:13:30.407: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region] -** Message: 11:13:30.407: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o] -** Message: 11:13:30.407: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 07:05:52.813: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_region] +** Message: 07:05:52.814: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o] +** Message: 07:05:52.814: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint.o -** Message: 11:13:30.414: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint] -** Message: 11:13:30.414: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 11:13:30.414: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:52.836: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_checkpoint] +** Message: 07:05:52.836: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 07:05:52.836: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 11:13:30.420: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation] -** Message: 11:13:30.420: Processing model [a:l] -** Message: 11:13:30.421: Bootstrapper processing model [affine:local:dna2dna] -** Message: 11:13:30.421: Process optimal [optimal:affine:local:dna2dna] -** Message: 11:13:30.421: Compiling codegen: +** Message: 07:05:52.855: Adding function [optimal_58_affine_58_bestfit_58_protein2protein_32_find_32_path_32_continuation] +** Message: 07:05:52.856: Processing model [a:l] +** Message: 07:05:52.856: Bootstrapper processing model [affine:local:dna2dna] +** Message: 07:05:52.856: Process optimal [optimal:affine:local:dna2dna] +** Message: 07:05:52.857: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.c -** Message: 11:13:30.648: Compiling codegen: +** Message: 07:05:53.435: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.c -** Message: 11:13:30.989: Compiling codegen: +** Message: 07:05:54.220: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.c -** Message: 11:13:31.296: Compiling codegen: +** Message: 07:05:54.945: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.c -** Message: 11:13:31.762: Compiling codegen: +** Message: 07:05:56.553: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 11:13:32.339: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o] -** Message: 11:13:32.339: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o] to archive +** Message: 07:05:57.876: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o] +** Message: 07:05:57.877: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_score.o -** Message: 11:13:32.347: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_score] -** Message: 11:13:32.347: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o] -** Message: 11:13:32.347: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o] to archive +** Message: 07:05:57.906: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_score] +** Message: 07:05:57.906: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o] +** Message: 07:05:57.907: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path.o -** Message: 11:13:32.354: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_path] -** Message: 11:13:32.354: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o] -** Message: 11:13:32.354: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o] to archive +** Message: 07:05:57.937: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_path] +** Message: 07:05:57.937: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o] +** Message: 07:05:57.937: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_region.o -** Message: 11:13:32.361: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_region] -** Message: 11:13:32.361: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] -** Message: 11:13:32.361: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 07:05:57.960: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_region] +** Message: 07:05:57.961: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] +** Message: 07:05:57.961: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o -** Message: 11:13:32.372: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint] -** Message: 11:13:32.372: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 11:13:32.372: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 07:05:57.987: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_checkpoint] +** Message: 07:05:57.988: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 07:05:57.988: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 11:13:32.380: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation] -** Message: 11:13:32.381: Process optimal [Terminal [Segment("START"->"match"):[affine:local:dna2dna]]] -** Message: 11:13:32.382: Compiling codegen: +** Message: 07:05:58.013: Adding function [optimal_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation] +** Message: 07:05:58.016: Process optimal [Terminal [Segment("START"->"match"):[affine:local:dna2dna]]] +** Message: 07:05:58.018: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:32.806: Compiling codegen: +** Message: 07:05:59.091: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:33.410: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:33.410: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:00.419: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:00.420: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:33.418: 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: 11:13:33.418: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:33.418: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:00.528: 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: 07:06:00.528: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:00.528: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:33.427: 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: 11:13:33.427: Process optimal [Terminal [Segment("match"->"END"):[affine:local:dna2dna]]] -** Message: 11:13:33.428: Compiling codegen: +** Message: 07:06:00.937: 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: 07:06:00.938: Process optimal [Terminal [Segment("match"->"END"):[affine:local:dna2dna]]] +** Message: 07:06:00.939: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:33.809: Compiling codegen: +** Message: 07:06:01.906: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:34.301: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:34.301: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:03.442: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:03.443: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:34.310: 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: 11:13:34.310: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:34.310: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:03.563: 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: 07:06:03.564: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:03.564: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:34.322: 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: 11:13:34.322: Process optimal [HeuristicJoin:[Segment("match"->"match"):[affine:local:dna2dna]]] -** Message: 11:13:34.323: Compiling codegen: +** Message: 07:06:03.729: 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: 07:06:03.730: Process optimal [HeuristicJoin:[Segment("match"->"match"):[affine:local:dna2dna]]] +** Message: 07:06:03.731: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:35.185: Compiling codegen: +** Message: 07:06:06.072: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:36.490: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:36.490: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:09.505: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:09.506: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:36.499: 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: 11:13:36.499: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:36.499: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:10.038: 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: 07:06:10.039: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:10.039: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:36.507: 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: 11:13:36.508: Compiling codegen: +** Message: 07:06:10.208: 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: 07:06:10.209: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.c -** Message: 11:13:36.689: Compiling codegen: +** Message: 07:06:10.766: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.c -** Message: 11:13:36.875: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o] -** Message: 11:13:36.875: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o] to archive +** Message: 07:06:11.405: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o] +** Message: 07:06:11.405: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded.o -** Message: 11:13:36.884: Adding function [Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded] -** Message: 11:13:36.884: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o] -** Message: 11:13:36.884: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o] to archive +** Message: 07:06:11.429: Adding function [Scheduler_Cell_process_affine_58_local_58_dna2dna_58_reverse_58_traceback_58_seeded] +** Message: 07:06:11.429: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o] +** Message: 07:06:11.429: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded.o -** Message: 11:13:36.893: Adding function [Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded] -** Message: 11:13:36.893: Bootstrapper processing model [affine:local:protein2protein] -** Message: 11:13:36.893: Process optimal [optimal:affine:local:protein2protein] -** Message: 11:13:36.893: Compiling codegen: +** Message: 07:06:11.553: Adding function [Scheduler_Cell_process_affine_58_local_58_dna2dna_58_forward_58_traceback_58_seeded] +** Message: 07:06:11.553: Bootstrapper processing model [affine:local:protein2protein] +** Message: 07:06:11.553: Process optimal [optimal:affine:local:protein2protein] +** Message: 07:06:11.554: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.c -** Message: 11:13:37.117: Compiling codegen: +** Message: 07:06:12.034: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.c -** Message: 11:13:37.403: Compiling codegen: +** Message: 07:06:12.714: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.c -** Message: 11:13:37.703: Compiling codegen: +** Message: 07:06:13.350: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.c -** Message: 11:13:38.160: Compiling codegen: +** Message: 07:06:14.603: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 11:13:38.713: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o] -** Message: 11:13:38.713: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o] to archive +** Message: 07:06:15.802: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o] +** Message: 07:06:15.802: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_score.o -** Message: 11:13:38.722: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_score] -** Message: 11:13:38.722: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o] -** Message: 11:13:38.722: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o] to archive +** Message: 07:06:15.827: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_score] +** Message: 07:06:15.828: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o] +** Message: 07:06:15.828: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path.o -** Message: 11:13:38.731: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_path] -** Message: 11:13:38.731: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o] -** Message: 11:13:38.731: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o] to archive +** Message: 07:06:15.855: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_path] +** Message: 07:06:15.855: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o] +** Message: 07:06:15.855: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_region.o -** Message: 11:13:38.740: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_region] -** Message: 11:13:38.740: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] -** Message: 11:13:38.740: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 07:06:15.881: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_region] +** Message: 07:06:15.882: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] +** Message: 07:06:15.882: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o -** Message: 11:13:38.748: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint] -** Message: 11:13:38.748: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 11:13:38.748: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 07:06:15.910: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_checkpoint] +** Message: 07:06:15.910: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 07:06:15.910: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 11:13:38.757: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation] -** Message: 11:13:38.758: Process optimal [Terminal [Segment("START"->"match"):[affine:local:protein2protein]]] -** Message: 11:13:38.759: Compiling codegen: +** Message: 07:06:15.937: Adding function [optimal_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation] +** Message: 07:06:15.939: Process optimal [Terminal [Segment("START"->"match"):[affine:local:protein2protein]]] +** Message: 07:06:15.940: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:39.170: Compiling codegen: +** Message: 07:06:17.202: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:39.752: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:39.752: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:18.696: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:18.697: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:39.760: 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: 11:13:39.760: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:39.761: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:18.847: 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: 07:06:18.848: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:18.848: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:39.771: 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: 11:13:39.771: Process optimal [Terminal [Segment("match"->"END"):[affine:local:protein2protein]]] -** Message: 11:13:39.772: Compiling codegen: +** Message: 07:06:19.260: 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: 07:06:19.260: Process optimal [Terminal [Segment("match"->"END"):[affine:local:protein2protein]]] +** Message: 07:06:19.261: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:40.128: Compiling codegen: +** Message: 07:06:20.123: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:40.602: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:40.602: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:21.170: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:21.171: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:40.612: 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: 11:13:40.612: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:40.612: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:21.299: 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: 07:06:21.300: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:21.300: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:40.625: 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: 11:13:40.625: Process optimal [HeuristicJoin:[Segment("match"->"match"):[affine:local:protein2protein]]] -** Message: 11:13:40.626: Compiling codegen: +** Message: 07:06:21.611: 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: 07:06:21.612: Process optimal [HeuristicJoin:[Segment("match"->"match"):[affine:local:protein2protein]]] +** Message: 07:06:21.614: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:41.431: Compiling codegen: +** Message: 07:06:23.550: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:42.667: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:42.667: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:26.553: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:26.554: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:42.684: 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: 11:13:42.684: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:42.684: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:26.588: 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: 07:06:26.588: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:06:26.588: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:42.699: 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: 11:13:42.699: Compiling codegen: +** Message: 07:06:26.623: 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: 07:06:26.624: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.c -** Message: 11:13:42.881: Compiling codegen: +** Message: 07:06:27.095: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.c -** Message: 11:13:43.065: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o] -** Message: 11:13:43.065: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o] to archive +** Message: 07:06:27.516: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o] +** Message: 07:06:27.516: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded.o -** Message: 11:13:43.075: Adding function [Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded] -** Message: 11:13:43.075: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o] -** Message: 11:13:43.075: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o] to archive +** Message: 07:06:27.547: Adding function [Scheduler_Cell_process_affine_58_local_58_protein2protein_58_reverse_58_traceback_58_seeded] +** Message: 07:06:27.548: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o] +** Message: 07:06:27.548: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded.o -** Message: 11:13:43.085: Adding function [Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded] -** Message: 11:13:43.085: Processing model [a:o] -** Message: 11:13:43.085: Bootstrapper processing model [affine:overlap:dna2dna] -** Message: 11:13:43.085: Process optimal [optimal:affine:overlap:dna2dna] -** Message: 11:13:43.086: Compiling codegen: +** Message: 07:06:27.580: Adding function [Scheduler_Cell_process_affine_58_local_58_protein2protein_58_forward_58_traceback_58_seeded] +** Message: 07:06:27.580: Processing model [a:o] +** Message: 07:06:27.580: Bootstrapper processing model [affine:overlap:dna2dna] +** Message: 07:06:27.580: Process optimal [optimal:affine:overlap:dna2dna] +** Message: 07:06:27.582: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.c -** Message: 11:13:43.534: Compiling codegen: +** Message: 07:06:28.694: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.c -** Message: 11:13:44.173: Compiling codegen: +** Message: 07:06:30.423: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.c -** Message: 11:13:44.849: Compiling codegen: +** Message: 07:06:31.931: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.c -** Message: 11:13:45.310: Compiling codegen: +** Message: 07:06:33.100: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 11:13:45.876: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o] -** Message: 11:13:45.876: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o] to archive +** Message: 07:06:34.729: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o] +** Message: 07:06:34.729: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score.o -** Message: 11:13:45.887: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score] -** Message: 11:13:45.887: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o] -** Message: 11:13:45.887: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o] to archive +** Message: 07:06:34.982: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_score] +** Message: 07:06:34.983: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o] +** Message: 07:06:34.983: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path.o -** Message: 11:13:45.903: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path] -** Message: 11:13:45.903: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o] -** Message: 11:13:45.903: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o] to archive +** Message: 07:06:35.214: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path] +** Message: 07:06:35.214: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o] +** Message: 07:06:35.214: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region.o -** Message: 11:13:45.921: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region] -** Message: 11:13:45.921: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o] -** Message: 11:13:45.921: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 07:06:35.341: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_region] +** Message: 07:06:35.342: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o] +** Message: 07:06:35.342: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint.o -** Message: 11:13:45.939: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint] -** Message: 11:13:45.939: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 11:13:45.939: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 07:06:35.767: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_checkpoint] +** Message: 07:06:35.768: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 07:06:35.768: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 11:13:45.957: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation] -** Message: 11:13:45.957: Processing model [e2g] -** Message: 11:13:45.957: Bootstrapper processing model [est2genome] -** Message: 11:13:45.957: Process optimal [optimal:est2genome] -** Message: 11:13:45.958: Compiling codegen: +** Message: 07:06:35.915: Adding function [optimal_58_affine_58_overlap_58_dna2dna_32_find_32_path_32_continuation] +** Message: 07:06:35.916: Processing model [e2g] +** Message: 07:06:35.917: Bootstrapper processing model [est2genome] +** Message: 07:06:35.917: Process optimal [optimal:est2genome] +** Message: 07:06:35.918: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_score.c -** Message: 11:13:46.926: Compiling codegen: +** Message: 07:06:38.480: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path.c -** Message: 11:13:48.374: Compiling codegen: +** Message: 07:06:42.402: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_region.c -** Message: 11:13:49.696: Compiling codegen: +** Message: 07:06:45.502: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_checkpoint.c -** Message: 11:13:52.278: Compiling codegen: +** Message: 07:06:51.663: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path_32_continuation.c -** Message: 11:13:56.258: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_score.o] -** Message: 11:13:56.258: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_score.o] to archive +** Message: 07:07:02.999: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_score.o] +** Message: 07:07:02.999: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_score.o -** Message: 11:13:56.275: Adding function [optimal_58_est2genome_32_find_32_score] -** Message: 11:13:56.275: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path.o] -** Message: 11:13:56.275: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path.o] to archive +** Message: 07:07:03.272: Adding function [optimal_58_est2genome_32_find_32_score] +** Message: 07:07:03.272: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path.o] +** Message: 07:07:03.272: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path.o -** Message: 11:13:56.292: Adding function [optimal_58_est2genome_32_find_32_path] -** Message: 11:13:56.292: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_region.o] -** Message: 11:13:56.292: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_region.o] to archive +** Message: 07:07:03.439: Adding function [optimal_58_est2genome_32_find_32_path] +** Message: 07:07:03.440: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_region.o] +** Message: 07:07:03.440: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_region.o -** Message: 11:13:56.303: Adding function [optimal_58_est2genome_32_find_32_region] -** Message: 11:13:56.303: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_checkpoint.o] -** Message: 11:13:56.303: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_checkpoint.o] to archive +** Message: 07:07:03.868: Adding function [optimal_58_est2genome_32_find_32_region] +** Message: 07:07:03.868: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_checkpoint.o] +** Message: 07:07:03.868: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_checkpoint.o -** Message: 11:13:56.319: Adding function [optimal_58_est2genome_32_find_32_checkpoint] -** Message: 11:13:56.319: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path_32_continuation.o] -** Message: 11:13:56.319: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path_32_continuation.o] to archive +** Message: 07:07:04.242: Adding function [optimal_58_est2genome_32_find_32_checkpoint] +** Message: 07:07:04.242: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path_32_continuation.o] +** Message: 07:07:04.242: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_est2genome_32_find_32_path_32_continuation.o -** Message: 11:13:56.344: Adding function [optimal_58_est2genome_32_find_32_path_32_continuation] -** Message: 11:13:56.349: Process optimal [Terminal [Segment("START"->"match reverse"):[est2genome]]] -** Message: 11:13:56.350: Compiling codegen: +** Message: 07:07:04.530: Adding function [optimal_58_est2genome_32_find_32_path_32_continuation] +** Message: 07:07:04.541: Process optimal [Terminal [Segment("START"->"match reverse"):[est2genome]]] +** Message: 07:07:04.542: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:57.488: Compiling codegen: +** Message: 07:07:07.300: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:59.305: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:59.305: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:11.535: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:11.535: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:59.329: 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: 11:13:59.329: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:13:59.329: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:11.701: 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: 07:07:11.701: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:11.702: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:13:59.347: 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: 11:13:59.347: Process optimal [Terminal [Segment("match reverse"->"END"):[est2genome]]] -** Message: 11:13:59.348: Compiling codegen: +** Message: 07:07:12.589: 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: 07:07:12.589: Process optimal [Terminal [Segment("match reverse"->"END"):[est2genome]]] +** Message: 07:07:12.590: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:00.113: Compiling codegen: +** Message: 07:07:14.602: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:01.189: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:01.189: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:16.954: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:16.954: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:01.209: 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: 11:14:01.209: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:01.209: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:17.001: 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: 07:07:17.001: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:17.001: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:01.227: 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: 11:14:01.227: Process optimal [Terminal [Segment("START"->"match forward"):[est2genome]]] -** Message: 11:14:01.228: Compiling codegen: +** Message: 07:07:17.146: 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: 07:07:17.147: Process optimal [Terminal [Segment("START"->"match forward"):[est2genome]]] +** Message: 07:07:17.149: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:02.404: Compiling codegen: +** Message: 07:07:19.822: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:04.202: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:04.202: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:24.014: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:24.014: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:04.222: 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: 11:14:04.223: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:04.223: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:24.121: 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: 07:07:24.121: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:24.121: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:04.245: 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: 11:14:04.245: Process optimal [Terminal [Segment("match forward"->"END"):[est2genome]]] -** Message: 11:14:04.246: Compiling codegen: +** Message: 07:07:24.430: 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: 07:07:24.431: Process optimal [Terminal [Segment("match forward"->"END"):[est2genome]]] +** Message: 07:07:24.432: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:05.013: Compiling codegen: +** Message: 07:07:26.006: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:06.114: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:06.114: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:28.422: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:28.422: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:06.134: 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: 11:14:06.134: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:06.134: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:28.499: 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: 07:07:28.499: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:28.499: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:06.152: 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: 11:14:06.152: Process optimal [HeuristicJoin:[Segment("match reverse"->"match reverse"):[est2genome]]] -** Message: 11:14:06.153: Compiling codegen: +** Message: 07:07:28.660: 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: 07:07:28.660: Process optimal [HeuristicJoin:[Segment("match reverse"->"match reverse"):[est2genome]]] +** Message: 07:07:28.663: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:08.282: Compiling codegen: +** Message: 07:07:33.247: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:11.785: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:11.785: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:41.365: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:41.366: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:11.798: 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: 11:14:11.798: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:11.798: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:42.824: 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: 07:07:42.824: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:42.825: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:11.814: 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: 11:14:11.814: Process optimal [Src span [Segment("match reverse"->"intron reverse"):[est2genome]]] -** Message: 11:14:11.815: Compiling codegen: +** Message: 07:07:43.362: 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: 07:07:43.362: Process optimal [Src span [Segment("match reverse"->"intron reverse"):[est2genome]]] +** Message: 07:07:43.364: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:12.621: Compiling codegen: +** Message: 07:07:44.988: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:13.798: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:13.799: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:47.836: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:47.837: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:13.813: 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: 11:14:13.813: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:13.813: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:48.092: 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: 07:07:48.092: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:48.092: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:13.827: 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: 11:14:13.827: Process optimal [Src span traceback [Segment("match reverse"->"intron reverse"):[est2genome]]] -** Message: 11:14:13.829: Compiling codegen: +** Message: 07:07:48.547: 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: 07:07:48.548: Process optimal [Src span traceback [Segment("match reverse"->"intron reverse"):[est2genome]]] +** Message: 07:07:48.550: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:16.895: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:16.895: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:55.186: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:07:55.187: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:16.913: 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: 11:14:16.913: Process optimal [Dst span [Segment("intron reverse"->"match reverse"):[est2genome]]] -** Message: 11:14:16.914: Compiling codegen: +** Message: 07:07:55.573: 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: 07:07:55.573: Process optimal [Dst span [Segment("intron reverse"->"match reverse"):[est2genome]]] +** Message: 07:07:55.575: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:18.251: Compiling codegen: +** Message: 07:07:58.471: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:20.638: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:20.638: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:02.746: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:02.746: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:20.887: 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: 11:14:20.887: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:20.887: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:02.975: 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: 07:08:02.975: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:02.976: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:21.083: 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: 11:14:21.083: Process optimal [HeuristicJoin:[Segment("match forward"->"match forward"):[est2genome]]] -** Message: 11:14:21.084: Compiling codegen: +** Message: 07:08:03.393: 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: 07:08:03.393: Process optimal [HeuristicJoin:[Segment("match forward"->"match forward"):[est2genome]]] +** Message: 07:08:03.397: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:23.503: Compiling codegen: +** Message: 07:08:08.435: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:27.247: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:27.247: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:16.806: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:16.806: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:27.458: 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: 11:14:27.458: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:27.458: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:16.858: 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: 07:08:16.858: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:16.858: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:27.632: 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: 11:14:27.632: Process optimal [Src span [Segment("match forward"->"intron forward"):[est2genome]]] -** Message: 11:14:27.633: Compiling codegen: +** Message: 07:08:16.915: 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: 07:08:16.916: Process optimal [Src span [Segment("match forward"->"intron forward"):[est2genome]]] +** Message: 07:08:16.918: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:28.891: Compiling codegen: +** Message: 07:08:18.884: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:30.434: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:30.434: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:21.640: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:21.640: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:30.596: 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: 11:14:30.596: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:30.596: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:21.697: 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: 07:08:21.697: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:21.697: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:30.922: 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: 11:14:30.922: Process optimal [Src span traceback [Segment("match forward"->"intron forward"):[est2genome]]] -** Message: 11:14:30.924: Compiling codegen: +** Message: 07:08:21.789: 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: 07:08:21.789: Process optimal [Src span traceback [Segment("match forward"->"intron forward"):[est2genome]]] +** Message: 07:08:21.793: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:33.888: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:33.888: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:28.223: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:28.224: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:33.910: 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: 11:14:33.910: Process optimal [Dst span [Segment("intron forward"->"match forward"):[est2genome]]] -** Message: 11:14:33.911: Compiling codegen: +** Message: 07:08:28.876: 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: 07:08:28.876: Process optimal [Dst span [Segment("intron forward"->"match forward"):[est2genome]]] +** Message: 07:08:29.055: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:35.252: Compiling codegen: +** Message: 07:08:32.555: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:37.304: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:37.304: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:36.946: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:36.946: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:37.322: 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: 11:14:37.322: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:37.322: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:37.296: 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: 07:08:37.296: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:37.296: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:37.367: 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: 11:14:37.368: Compiling codegen: +** Message: 07:08:37.759: 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: 07:08:37.760: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.c -** Message: 11:14:37.699: Compiling codegen: +** Message: 07:08:38.703: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.c -** Message: 11:14:38.066: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o] -** Message: 11:14:38.066: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 07:08:39.668: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o] +** Message: 07:08:39.669: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary.o -** Message: 11:14:38.207: Adding function [Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary] -** Message: 11:14:38.207: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o] -** Message: 11:14:38.207: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o] to archive +** Message: 07:08:39.935: Adding function [Scheduler_Cell_process_est2genome_58_reverse_58_notraceback_58_boundary] +** Message: 07:08:39.935: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o] +** Message: 07:08:39.935: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary.o -** Message: 11:14:38.525: Adding function [Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary] -** Message: 11:14:38.525: Processing model [ner] -** Message: 11:14:38.525: Bootstrapper processing model [NER:affine:local:dna2dna] -** Message: 11:14:38.525: Process optimal [optimal:NER:affine:local:dna2dna] -** Message: 11:14:38.525: Compiling codegen: +** Message: 07:08:40.488: Adding function [Scheduler_Cell_process_est2genome_58_forward_58_traceback_58_boundary] +** Message: 07:08:40.488: Processing model [ner] +** Message: 07:08:40.489: Bootstrapper processing model [NER:affine:local:dna2dna] +** Message: 07:08:40.489: Process optimal [optimal:NER:affine:local:dna2dna] +** Message: 07:08:40.490: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.c -** Message: 11:14:38.966: Compiling codegen: +** Message: 07:08:41.069: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.c -** Message: 11:14:39.346: Compiling codegen: +** Message: 07:08:42.366: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.c -** Message: 11:14:40.156: Compiling codegen: +** Message: 07:08:43.431: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.c -** Message: 11:14:41.013: Compiling codegen: +** Message: 07:08:44.686: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.c -** Message: 11:14:41.803: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o] -** Message: 11:14:41.803: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o] to archive +** Message: 07:08:46.397: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o] +** Message: 07:08:46.397: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score.o -** Message: 11:14:41.823: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score] -** Message: 11:14:41.823: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o] -** Message: 11:14:41.823: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o] to archive +** Message: 07:08:46.524: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_score] +** Message: 07:08:46.524: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o] +** Message: 07:08:46.524: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path.o -** Message: 11:14:41.845: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path] -** Message: 11:14:41.845: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o] -** Message: 11:14:41.845: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o] to archive +** Message: 07:08:46.606: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path] +** Message: 07:08:46.606: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o] +** Message: 07:08:46.606: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region.o -** Message: 11:14:41.870: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region] -** Message: 11:14:41.870: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] -** Message: 11:14:41.870: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] to archive +** Message: 07:08:46.738: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_region] +** Message: 07:08:46.739: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o] +** Message: 07:08:46.739: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint.o -** Message: 11:14:41.944: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint] -** Message: 11:14:41.944: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] -** Message: 11:14:41.944: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] to archive +** Message: 07:08:46.795: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_checkpoint] +** Message: 07:08:46.796: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o] +** Message: 07:08:46.796: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation.o -** Message: 11:14:42.020: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation] -** Message: 11:14:42.022: Process optimal [Terminal [Segment("START"->"match"):[NER:affine:local:dna2dna]]] -** Message: 11:14:42.023: Compiling codegen: +** Message: 07:08:46.920: Adding function [optimal_58_NER_58_affine_58_local_58_dna2dna_32_find_32_path_32_continuation] +** Message: 07:08:46.925: Process optimal [Terminal [Segment("START"->"match"):[NER:affine:local:dna2dna]]] +** Message: 07:08:46.927: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:42.578: Compiling codegen: +** Message: 07:08:48.254: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:43.422: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:43.422: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:50.152: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:50.153: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:43.454: 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: 11:14:43.454: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:43.454: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:50.209: 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: 07:08:50.210: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:50.210: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:43.492: 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: 11:14:43.492: Process optimal [Terminal [Segment("match"->"END"):[NER:affine:local:dna2dna]]] -** Message: 11:14:43.493: Compiling codegen: +** Message: 07:08:50.431: 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: 07:08:50.432: Process optimal [Terminal [Segment("match"->"END"):[NER:affine:local:dna2dna]]] +** Message: 07:08:50.433: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:44.070: Compiling codegen: +** Message: 07:08:51.525: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:44.971: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:44.971: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:53.222: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:53.222: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:45.410: 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: 11:14:45.410: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:45.410: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:53.284: 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: 07:08:53.285: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:08:53.286: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:45.876: 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: 11:14:45.876: Process optimal [HeuristicJoin:[Segment("match"->"match"):[NER:affine:local:dna2dna]]] -** Message: 11:14:45.877: Compiling codegen: +** Message: 07:08:53.546: 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: 07:08:53.546: Process optimal [HeuristicJoin:[Segment("match"->"match"):[NER:affine:local:dna2dna]]] +** Message: 07:08:53.548: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:47.198: Compiling codegen: +** Message: 07:08:56.499: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:49.188: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:49.188: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:01.065: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:01.065: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:49.207: 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: 11:14:49.207: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:49.207: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:01.491: 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: 07:09:01.494: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:01.494: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:49.239: 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: 11:14:49.239: Process optimal [Src span [Segment("match"->"ner"):[NER:affine:local:dna2dna]]] -** Message: 11:14:49.240: Compiling codegen: +** Message: 07:09:01.869: 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: 07:09:01.870: Process optimal [Src span [Segment("match"->"ner"):[NER:affine:local:dna2dna]]] +** Message: 07:09:01.871: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:50.035: Compiling codegen: +** Message: 07:09:02.977: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:50.794: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:50.794: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:04.887: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:04.887: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:50.819: 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: 11:14:50.819: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:50.819: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:04.953: 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: 07:09:04.954: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:04.954: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:50.839: 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: 11:14:50.839: Process optimal [Src span traceback [Segment("match"->"ner"):[NER:affine:local:dna2dna]]] -** Message: 11:14:50.840: Compiling codegen: +** Message: 07:09:05.110: 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_path] +** Message: 07:09:05.110: Process optimal [Src span traceback [Segment("match"->"ner"):[NER:affine:local:dna2dna]]] +** Message: 07:09:05.113: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:52.640: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:52.640: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:09.696: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:09.696: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:52.660: 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: 11:14:52.660: Process optimal [Dst span [Segment("ner"->"match"):[NER:affine:local:dna2dna]]] -** Message: 11:14:52.661: Compiling codegen: +** Message: 07:09:09.923: 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: 07:09:09.924: Process optimal [Dst span [Segment("ner"->"match"):[NER:affine:local:dna2dna]]] +** Message: 07:09:09.925: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:53.292: Compiling codegen: +** Message: 07:09:11.650: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:54.425: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:54.425: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:14.083: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:14.083: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:54.810: 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: 11:14:54.810: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:14:54.810: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:14.185: 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: 07:09:14.185: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:14.185: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:55.196: 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: 11:14:55.196: Compiling codegen: +** Message: 07:09:14.324: 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: 07:09:14.326: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.c -** Message: 11:14:55.521: Compiling codegen: +** Message: 07:09:14.885: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.c -** Message: 11:14:56.202: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o] -** Message: 11:14:56.202: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 07:09:15.493: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o] +** Message: 07:09:15.493: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary.o -** Message: 11:14:56.293: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary] -** Message: 11:14:56.293: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o] -** Message: 11:14:56.293: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o] to archive +** Message: 07:09:15.649: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_reverse_58_notraceback_58_boundary] +** Message: 07:09:15.649: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o] +** Message: 07:09:15.649: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary.o -** Message: 11:14:56.453: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary] -** Message: 11:14:56.454: Bootstrapper processing model [NER:affine:local:protein2protein] -** Message: 11:14:56.454: Process optimal [optimal:NER:affine:local:protein2protein] -** Message: 11:14:56.454: Compiling codegen: +** Message: 07:09:15.756: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_dna2dna_58_forward_58_traceback_58_boundary] +** Message: 07:09:15.756: Bootstrapper processing model [NER:affine:local:protein2protein] +** Message: 07:09:15.756: Process optimal [optimal:NER:affine:local:protein2protein] +** Message: 07:09:15.760: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.c -** Message: 11:14:57.056: Compiling codegen: +** Message: 07:09:16.545: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.c -** Message: 11:14:57.431: Compiling codegen: +** Message: 07:09:17.536: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.c -** Message: 11:14:57.806: Compiling codegen: +** Message: 07:09:18.521: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.c -** Message: 11:14:58.417: Compiling codegen: +** Message: 07:09:19.897: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.c -** Message: 11:14:59.178: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o] -** Message: 11:14:59.178: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o] to archive +** Message: 07:09:21.614: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o] +** Message: 07:09:21.614: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score.o -** Message: 11:14:59.199: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score] -** Message: 11:14:59.199: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o] -** Message: 11:14:59.199: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o] to archive +** Message: 07:09:21.695: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_score] +** Message: 07:09:21.696: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o] +** Message: 07:09:21.696: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path.o -** Message: 11:14:59.226: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path] -** Message: 11:14:59.226: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o] -** Message: 11:14:59.226: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o] to archive +** Message: 07:09:21.875: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path] +** Message: 07:09:21.876: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o] +** Message: 07:09:21.876: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region.o -** Message: 11:14:59.266: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region] -** Message: 11:14:59.266: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] -** Message: 11:14:59.266: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] to archive +** Message: 07:09:22.183: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_region] +** Message: 07:09:22.183: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o] +** Message: 07:09:22.183: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint.o -** Message: 11:14:59.351: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint] -** Message: 11:14:59.351: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] -** Message: 11:14:59.351: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] to archive +** Message: 07:09:22.435: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_checkpoint] +** Message: 07:09:22.435: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o] +** Message: 07:09:22.436: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation.o -** Message: 11:14:59.449: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation] -** Message: 11:14:59.451: Process optimal [Terminal [Segment("START"->"match"):[NER:affine:local:protein2protein]]] -** Message: 11:14:59.452: Compiling codegen: +** Message: 07:09:22.591: Adding function [optimal_58_NER_58_affine_58_local_58_protein2protein_32_find_32_path_32_continuation] +** Message: 07:09:22.596: Process optimal [Terminal [Segment("START"->"match"):[NER:affine:local:protein2protein]]] +** Message: 07:09:22.597: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:14:59.986: Compiling codegen: +** Message: 07:09:24.057: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:01.031: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:01.031: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:26.100: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:26.100: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:01.055: 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: 11:15:01.055: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:01.055: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:26.308: 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: 07:09:26.308: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:26.309: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:01.080: 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: 11:15:01.080: Process optimal [Terminal [Segment("match"->"END"):[NER:affine:local:protein2protein]]] -** Message: 11:15:01.081: Compiling codegen: +** Message: 07:09:26.956: 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: 07:09:26.956: Process optimal [Terminal [Segment("match"->"END"):[NER:affine:local:protein2protein]]] +** Message: 07:09:27.238: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:01.564: Compiling codegen: +** Message: 07:09:28.656: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:02.302: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:02.302: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:30.866: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:30.866: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:02.637: 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: 11:15:02.637: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:02.637: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:31.352: 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: 07:09:31.352: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:31.352: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:02.811: 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: 11:15:02.811: Process optimal [HeuristicJoin:[Segment("match"->"match"):[NER:affine:local:protein2protein]]] -** Message: 11:15:02.812: Compiling codegen: +** Message: 07:09:31.448: 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: 07:09:31.448: Process optimal [HeuristicJoin:[Segment("match"->"match"):[NER:affine:local:protein2protein]]] +** Message: 07:09:31.468: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:04.058: Compiling codegen: +** Message: 07:09:33.995: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:05.980: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:05.980: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:37.911: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:37.911: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:06.039: 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: 11:15:06.039: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:06.039: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:38.263: 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: 07:09:38.264: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:38.264: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:06.172: 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: 11:15:06.172: Process optimal [Src span [Segment("match"->"ner"):[NER:affine:local:protein2protein]]] -** Message: 11:15:06.173: Compiling codegen: +** Message: 07:09:38.629: 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: 07:09:38.629: Process optimal [Src span [Segment("match"->"ner"):[NER:affine:local:protein2protein]]] +** Message: 07:09:38.692: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:06.769: Compiling codegen: +** Message: 07:09:39.880: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:07.485: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:07.486: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:41.627: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:41.627: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:07.510: 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: 11:15:07.510: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:07.510: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:41.720: 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: 07:09:41.720: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:41.720: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:07.532: 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: 11:15:07.532: Process optimal [Src span traceback [Segment("match"->"ner"):[NER:affine:local:protein2protein]]] -** Message: 11:15:07.533: Compiling codegen: +** Message: 07:09:42.132: 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: 07:09:42.132: Process optimal [Src span traceback [Segment("match"->"ner"):[NER:affine:local:protein2protein]]] +** Message: 07:09:42.223: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:09.243: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:09.243: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:46.054: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:46.055: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:09.266: 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: 11:15:09.266: Process optimal [Dst span [Segment("ner"->"match"):[NER:affine:local:protein2protein]]] -** Message: 11:15:09.267: Compiling codegen: +** Message: 07:09:46.377: 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: 07:09:46.377: Process optimal [Dst span [Segment("ner"->"match"):[NER:affine:local:protein2protein]]] +** Message: 07:09:46.379: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:09.872: Compiling codegen: +** Message: 07:09:47.712: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:10.851: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:10.851: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:50.078: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:50.078: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:10.874: 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: 11:15:10.874: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:10.874: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:50.475: 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: 07:09:50.475: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:09:50.476: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:10.901: 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: 11:15:10.901: Compiling codegen: +** Message: 07:09:50.814: 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: 07:09:50.815: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.c -** Message: 11:15:11.106: Compiling codegen: +** Message: 07:09:51.616: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.c -** Message: 11:15:11.324: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o] -** Message: 11:15:11.324: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 07:09:52.260: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o] +** Message: 07:09:52.261: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary.o -** Message: 11:15:11.346: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary] -** Message: 11:15:11.346: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o] -** Message: 11:15:11.346: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o] to archive +** Message: 07:09:52.682: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_reverse_58_notraceback_58_boundary] +** Message: 07:09:52.683: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o] +** Message: 07:09:52.683: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary.o -** Message: 11:15:11.374: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary] -** Message: 11:15:11.374: Processing model [p2d] -** Message: 11:15:11.375: Bootstrapper processing model [protein2dna:local] -** Message: 11:15:11.375: Process optimal [optimal:protein2dna:local] -** Message: 11:15:11.375: Compiling codegen: +** Message: 07:09:53.200: Adding function [Scheduler_Cell_process_NER_58_affine_58_local_58_protein2protein_58_forward_58_traceback_58_boundary] +** Message: 07:09:53.200: Processing model [p2d] +** Message: 07:09:53.201: Bootstrapper processing model [protein2dna:local] +** Message: 07:09:53.201: Process optimal [optimal:protein2dna:local] +** Message: 07:09:53.202: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_score.c -** Message: 11:15:11.778: Compiling codegen: +** Message: 07:09:54.038: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path.c -** Message: 11:15:12.370: Compiling codegen: +** Message: 07:09:55.566: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_region.c -** Message: 11:15:12.967: Compiling codegen: +** Message: 07:09:57.350: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_checkpoint.c -** Message: 11:15:14.104: Compiling codegen: +** Message: 07:09:59.930: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.c -** Message: 11:15:15.411: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_score.o] -** Message: 11:15:15.411: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_score.o] to archive +** Message: 07:10:02.694: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_score.o] +** Message: 07:10:02.695: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_score.o -** Message: 11:15:15.434: Adding function [optimal_58_protein2dna_58_local_32_find_32_score] -** Message: 11:15:15.434: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path.o] -** Message: 11:15:15.435: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path.o] to archive +** Message: 07:10:03.103: Adding function [optimal_58_protein2dna_58_local_32_find_32_score] +** Message: 07:10:03.104: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path.o] +** Message: 07:10:03.104: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path.o -** Message: 11:15:15.462: Adding function [optimal_58_protein2dna_58_local_32_find_32_path] -** Message: 11:15:15.462: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_region.o] -** Message: 11:15:15.462: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_region.o] to archive +** Message: 07:10:03.500: Adding function [optimal_58_protein2dna_58_local_32_find_32_path] +** Message: 07:10:03.501: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_region.o] +** Message: 07:10:03.501: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_region.o -** Message: 11:15:15.529: Adding function [optimal_58_protein2dna_58_local_32_find_32_region] -** Message: 11:15:15.529: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o] -** Message: 11:15:15.529: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o] to archive +** Message: 07:10:03.961: Adding function [optimal_58_protein2dna_58_local_32_find_32_region] +** Message: 07:10:03.961: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o] +** Message: 07:10:03.961: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_checkpoint.o -** Message: 11:15:15.631: Adding function [optimal_58_protein2dna_58_local_32_find_32_checkpoint] -** Message: 11:15:15.631: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o] -** Message: 11:15:15.631: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o] to archive +** Message: 07:10:04.383: Adding function [optimal_58_protein2dna_58_local_32_find_32_checkpoint] +** Message: 07:10:04.383: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o] +** Message: 07:10:04.383: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_local_32_find_32_path_32_continuation.o -** Message: 11:15:15.730: Adding function [optimal_58_protein2dna_58_local_32_find_32_path_32_continuation] -** Message: 11:15:15.735: Process optimal [Terminal [Segment("START"->"match"):[protein2dna:local]]] -** Message: 11:15:15.736: Compiling codegen: +** Message: 07:10:04.680: Adding function [optimal_58_protein2dna_58_local_32_find_32_path_32_continuation] +** Message: 07:10:04.688: Process optimal [Terminal [Segment("START"->"match"):[protein2dna:local]]] +** Message: 07:10:04.690: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:16.837: Compiling codegen: +** Message: 07:10:07.063: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:18.439: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:18.439: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:10.290: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:10.290: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:18.469: 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: 11:15:18.469: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:18.469: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:10.385: 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: 07:10:10.385: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:10.385: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:18.498: 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_path] -** Message: 11:15:18.498: Process optimal [Terminal [Segment("match"->"END"):[protein2dna:local]]] -** Message: 11:15:18.499: Compiling codegen: +** Message: 07:10:10.541: 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: 07:10:10.541: Process optimal [Terminal [Segment("match"->"END"):[protein2dna:local]]] +** Message: 07:10:10.542: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:19.193: Compiling codegen: +** Message: 07:10:12.314: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:20.129: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:20.129: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:14.595: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:14.595: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:20.157: 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: 11:15:20.157: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:20.157: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:14.833: 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: 07:10:14.833: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:14.833: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:20.205: 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: 11:15:20.205: Process optimal [HeuristicJoin:[Segment("match"->"match"):[protein2dna:local]]] -** Message: 11:15:20.207: Compiling codegen: +** Message: 07:10:15.342: 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: 07:10:15.342: Process optimal [HeuristicJoin:[Segment("match"->"match"):[protein2dna:local]]] +** Message: 07:10:15.345: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:22.092: Compiling codegen: +** Message: 07:10:19.122: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:24.881: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:24.881: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:25.095: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:25.095: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:24.907: 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: 11:15:24.907: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:24.907: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:25.255: 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: 07:10:25.256: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:10:25.256: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:24.951: 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: 11:15:24.952: Compiling codegen: +** Message: 07:10:25.425: 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: 07:10:25.426: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.c -** Message: 11:15:25.180: Compiling codegen: +** Message: 07:10:25.995: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.c -** Message: 11:15:25.427: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o] -** Message: 11:15:25.428: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o] to archive +** Message: 07:10:26.652: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o] +** Message: 07:10:26.652: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded.o -** Message: 11:15:25.454: Adding function [Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded] -** Message: 11:15:25.454: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o] -** Message: 11:15:25.454: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o] to archive +** Message: 07:10:26.857: Adding function [Scheduler_Cell_process_protein2dna_58_local_58_reverse_58_traceback_58_seeded] +** Message: 07:10:26.857: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o] +** Message: 07:10:26.857: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded.o -** Message: 11:15:25.498: Adding function [Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded] -** Message: 11:15:25.498: Processing model [p2d:b] -** Message: 11:15:25.498: Bootstrapper processing model [protein2dna:bestfit] -** Message: 11:15:25.498: Process optimal [optimal:protein2dna:bestfit] -** Message: 11:15:25.500: Compiling codegen: +** Message: 07:10:26.951: Adding function [Scheduler_Cell_process_protein2dna_58_local_58_forward_58_traceback_58_seeded] +** Message: 07:10:26.951: Processing model [p2d:b] +** Message: 07:10:26.952: Bootstrapper processing model [protein2dna:bestfit] +** Message: 07:10:26.952: Process optimal [optimal:protein2dna:bestfit] +** Message: 07:10:26.954: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_score.c -** Message: 11:15:26.677: Compiling codegen: +** Message: 07:10:29.529: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path.c -** Message: 11:15:28.591: Compiling codegen: +** Message: 07:10:33.636: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_region.c -** Message: 11:15:30.317: Compiling codegen: +** Message: 07:10:37.256: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.c -** Message: 11:15:31.509: Compiling codegen: +** Message: 07:10:40.372: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.c -** Message: 11:15:32.905: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_score.o] -** Message: 11:15:32.905: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_score.o] to archive +** Message: 07:10:44.016: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_score.o] +** Message: 07:10:44.016: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_score.o -** Message: 11:15:32.944: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_score] -** Message: 11:15:32.944: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path.o] -** Message: 11:15:32.944: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path.o] to archive +** Message: 07:10:44.290: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_score] +** Message: 07:10:44.291: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path.o] +** Message: 07:10:44.291: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path.o -** Message: 11:15:33.004: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_path] -** Message: 11:15:33.004: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_region.o] -** Message: 11:15:33.004: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_region.o] to archive +** Message: 07:10:44.517: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_path] +** Message: 07:10:44.517: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_region.o] +** Message: 07:10:44.517: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_region.o -** Message: 11:15:33.095: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_region] -** Message: 11:15:33.095: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o] -** Message: 11:15:33.095: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o] to archive +** Message: 07:10:44.932: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_region] +** Message: 07:10:44.932: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o] +** Message: 07:10:44.932: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint.o -** Message: 11:15:33.220: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint] -** Message: 11:15:33.220: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o] -** Message: 11:15:33.220: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o] to archive +** Message: 07:10:45.180: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_checkpoint] +** Message: 07:10:45.181: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o] +** Message: 07:10:45.181: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation.o -** Message: 11:15:33.321: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation] -** Message: 11:15:33.322: Processing model [p2g] -** Message: 11:15:33.322: Bootstrapper processing model [protein2genome:local] -** Message: 11:15:33.322: Process optimal [optimal:protein2genome:local] -** Message: 11:15:33.323: Compiling codegen: +** Message: 07:10:45.696: Adding function [optimal_58_protein2dna_58_bestfit_32_find_32_path_32_continuation] +** Message: 07:10:45.697: Processing model [p2g] +** Message: 07:10:45.698: Bootstrapper processing model [protein2genome:local] +** Message: 07:10:45.698: Process optimal [optimal:protein2genome:local] +** Message: 07:10:45.700: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_score.c -** Message: 11:15:34.533: Compiling codegen: +** Message: 07:10:48.756: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path.c -** Message: 11:15:36.288: Compiling codegen: +** Message: 07:10:53.033: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_region.c -** Message: 11:15:37.826: Compiling codegen: +** Message: 07:10:56.556: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_checkpoint.c -** Message: 11:15:41.820: Compiling codegen: +** Message: 07:11:06.413: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.c -** Message: 11:15:47.520: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_score.o] -** Message: 11:15:47.520: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_score.o] to archive +** Message: 07:11:20.990: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_score.o] +** Message: 07:11:20.990: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_score.o -** Message: 11:15:47.547: Adding function [optimal_58_protein2genome_58_local_32_find_32_score] -** Message: 11:15:47.547: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path.o] -** Message: 11:15:47.547: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path.o] to archive +** Message: 07:11:21.155: Adding function [optimal_58_protein2genome_58_local_32_find_32_score] +** Message: 07:11:21.155: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path.o] +** Message: 07:11:21.155: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path.o -** Message: 11:15:47.578: Adding function [optimal_58_protein2genome_58_local_32_find_32_path] -** Message: 11:15:47.578: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_region.o] -** Message: 11:15:47.578: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_region.o] to archive +** Message: 07:11:21.303: Adding function [optimal_58_protein2genome_58_local_32_find_32_path] +** Message: 07:11:21.303: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_region.o] +** Message: 07:11:21.303: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_region.o -** Message: 11:15:47.662: Adding function [optimal_58_protein2genome_58_local_32_find_32_region] -** Message: 11:15:47.662: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o] -** Message: 11:15:47.662: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o] to archive +** Message: 07:11:21.471: Adding function [optimal_58_protein2genome_58_local_32_find_32_region] +** Message: 07:11:21.472: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o] +** Message: 07:11:21.472: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_checkpoint.o -** Message: 11:15:47.787: Adding function [optimal_58_protein2genome_58_local_32_find_32_checkpoint] -** Message: 11:15:47.787: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o] -** Message: 11:15:47.787: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o] to archive +** Message: 07:11:21.635: Adding function [optimal_58_protein2genome_58_local_32_find_32_checkpoint] +** Message: 07:11:21.635: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o] +** Message: 07:11:21.635: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_local_32_find_32_path_32_continuation.o -** Message: 11:15:47.908: Adding function [optimal_58_protein2genome_58_local_32_find_32_path_32_continuation] -** Message: 11:15:47.927: Process optimal [Terminal [Segment("START"->"match"):[protein2genome:local]]] -** Message: 11:15:47.929: Compiling codegen: +** Message: 07:11:21.791: Adding function [optimal_58_protein2genome_58_local_32_find_32_path_32_continuation] +** Message: 07:11:21.837: Process optimal [Terminal [Segment("START"->"match"):[protein2genome:local]]] +** Message: 07:11:21.845: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:51.603: Compiling codegen: +** Message: 07:11:30.610: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:58.362: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:58.362: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:11:47.715: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:11:47.715: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:58.424: 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: 11:15:58.424: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:15:58.424: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:11:47.793: 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: 07:11:47.793: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:11:47.793: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:15:58.518: 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: 11:15:58.518: Process optimal [Terminal [Segment("match"->"END"):[protein2genome:local]]] -** Message: 11:15:58.519: Compiling codegen: +** Message: 07:11:47.891: 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: 07:11:47.892: Process optimal [Terminal [Segment("match"->"END"):[protein2genome:local]]] +** Message: 07:11:47.896: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:00.849: Compiling codegen: +** Message: 07:11:52.844: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:04.492: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:16:04.493: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:12:00.918: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:12:00.919: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:04.526: 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: 11:16:04.526: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:16:04.526: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:12:01.190: 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: 07:12:01.191: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:12:01.191: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:04.562: 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: 11:16:04.562: Process optimal [HeuristicJoin:[Segment("match"->"match"):[protein2genome:local]]] -** Message: 11:16:04.565: Compiling codegen: +** Message: 07:12:01.439: 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: 07:12:01.439: Process optimal [HeuristicJoin:[Segment("match"->"match"):[protein2genome:local]]] +** Message: 07:12:01.446: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:13.346: Compiling codegen: +** Message: 07:12:22.872: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:29.904: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:16:29.904: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:13:10.367: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:13:10.368: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:29.937: 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: 11:16:29.937: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:16:29.937: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:13:10.683: 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: 07:13:10.683: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:13:10.683: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:29.990: 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: 11:16:29.990: Process optimal [Src span [Segment("match"->"intron 0:0 phase-T"):[protein2genome:local]]] -** Message: 11:16:29.991: Compiling codegen: +** Message: 07:13:11.182: 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: 07:13:11.182: Process optimal [Src span [Segment("match"->"intron 0:0 phase-T"):[protein2genome:local]]] +** Message: 07:13:11.271: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:32.375: Compiling codegen: +** Message: 07:13:16.769: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:36.040: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:16:36.040: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:13:30.871: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:13:30.872: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:36.073: 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: 11:16:36.073: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:16:36.073: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:13:31.780: 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: 07:13:31.781: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:13:31.781: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:36.110: 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: 11:16:36.110: Process optimal [Src span traceback [Segment("match"->"intron 0:0 phase-T"):[protein2genome:local]]] -** Message: 11:16:36.114: Compiling codegen: +** Message: 07:13:33.099: 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: 07:13:33.100: Process optimal [Src span traceback [Segment("match"->"intron 0:0 phase-T"):[protein2genome:local]]] +** Message: 07:13:33.118: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:50.069: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:16:50.069: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:14:36.787: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:14:36.788: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:50.289: 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: 11:16:50.289: Process optimal [Dst span [Segment("intron 0:0 phase-T"->"match"):[protein2genome:local]]] -** Message: 11:16:50.291: Compiling codegen: +** Message: 07:14:37.070: 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: 07:14:37.071: Process optimal [Dst span [Segment("intron 0:0 phase-T"->"match"):[protein2genome:local]]] +** Message: 07:14:37.098: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:16:54.570: Compiling codegen: +** Message: 07:14:55.483: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:02.203: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:02.203: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:15:21.783: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:15:21.784: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:02.497: 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: 11:17:02.497: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:02.497: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:15:22.147: 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: 07:15:22.148: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:15:22.148: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:02.821: 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: 11:17:02.821: Process optimal [Src span [Segment("match"->"intron 1:2 phase-T"):[protein2genome:local]]] -** Message: 11:17:02.822: Compiling codegen: +** Message: 07:15:22.484: 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: 07:15:22.484: Process optimal [Src span [Segment("match"->"intron 1:2 phase-T"):[protein2genome:local]]] +** Message: 07:15:22.488: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:05.226: Compiling codegen: +** Message: 07:15:31.760: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:09.013: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:09.013: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:15:46.299: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:15:46.300: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:09.049: 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: 11:17:09.049: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:09.049: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:15:46.544: 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: 07:15:46.544: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:15:46.544: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:09.170: 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: 11:17:09.171: Process optimal [Src span traceback [Segment("match"->"intron 1:2 phase-T"):[protein2genome:local]]] -** Message: 11:17:09.174: Compiling codegen: +** Message: 07:15:46.848: 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: 07:15:46.848: Process optimal [Src span traceback [Segment("match"->"intron 1:2 phase-T"):[protein2genome:local]]] +** Message: 07:15:46.889: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:22.736: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:22.736: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:16:41.484: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:16:41.485: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:22.774: 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: 11:17:22.774: Process optimal [Dst span [Segment("intron 1:2 phase-T"->"match"):[protein2genome:local]]] -** Message: 11:17:22.776: Compiling codegen: +** Message: 07:16:42.679: 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: 07:16:42.680: Process optimal [Dst span [Segment("intron 1:2 phase-T"->"match"):[protein2genome:local]]] +** Message: 07:16:42.686: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:26.913: Compiling codegen: +** Message: 07:16:58.257: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:34.517: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:34.517: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:17:29.317: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:17:29.318: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:34.562: 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: 11:17:34.562: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:34.562: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:17:31.200: 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: 07:17:31.201: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:17:31.201: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:34.817: 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: 11:17:34.817: Process optimal [Src span [Segment("match"->"intron 2:1 phase-T"):[protein2genome:local]]] -** Message: 11:17:34.818: Compiling codegen: +** Message: 07:17:32.143: 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: 07:17:32.144: Process optimal [Src span [Segment("match"->"intron 2:1 phase-T"):[protein2genome:local]]] +** Message: 07:17:32.147: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:37.261: Compiling codegen: +** Message: 07:17:38.952: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:41.068: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:41.068: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:17:51.876: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:17:51.876: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:41.134: 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: 11:17:41.201: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:41.201: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:17:52.420: 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: 07:17:52.421: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:17:52.421: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:41.247: 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: 11:17:41.247: Process optimal [Src span traceback [Segment("match"->"intron 2:1 phase-T"):[protein2genome:local]]] -** Message: 11:17:41.251: Compiling codegen: +** Message: 07:17:52.900: 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: 07:17:52.900: Process optimal [Src span traceback [Segment("match"->"intron 2:1 phase-T"):[protein2genome:local]]] +** Message: 07:17:52.909: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:54.733: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:17:54.734: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:18:26.636: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:18:26.636: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:54.773: 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: 11:17:54.773: Process optimal [Dst span [Segment("intron 2:1 phase-T"->"match"):[protein2genome:local]]] -** Message: 11:17:54.775: Compiling codegen: +** Message: 07:18:27.405: 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: 07:18:27.406: Process optimal [Dst span [Segment("intron 2:1 phase-T"->"match"):[protein2genome:local]]] +** Message: 07:18:27.411: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:17:58.910: Compiling codegen: +** Message: 07:18:36.001: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:18:07.316: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:18:07.317: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:18:53.964: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:18:53.965: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:18:07.361: 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: 11:18:07.362: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:18:07.362: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:18:54.203: 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: 07:18:54.203: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:18:54.203: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:18:07.457: 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: 11:18:07.458: Compiling codegen: +** Message: 07:18:54.896: 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: 07:18:54.897: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.c -** Message: 11:18:07.824: Compiling codegen: +** Message: 07:18:55.727: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.c -** Message: 11:18:08.230: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o] -** Message: 11:18:08.230: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 07:18:56.700: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o] +** Message: 07:18:56.701: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary.o -** Message: 11:18:08.287: Adding function [Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary] -** Message: 11:18:08.287: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o] -** Message: 11:18:08.287: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o] to archive +** Message: 07:18:57.191: Adding function [Scheduler_Cell_process_protein2genome_58_local_58_reverse_58_notraceback_58_boundary] +** Message: 07:18:57.192: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o] +** Message: 07:18:57.192: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary.o -** Message: 11:18:08.503: Adding function [Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary] -** Message: 11:18:08.503: Processing model [p2g:b] -** Message: 11:18:08.504: Bootstrapper processing model [protein2genome:bestfit] -** Message: 11:18:08.504: Process optimal [optimal:protein2genome:bestfit] -** Message: 11:18:08.506: Compiling codegen: +** Message: 07:18:57.644: Adding function [Scheduler_Cell_process_protein2genome_58_local_58_forward_58_traceback_58_boundary] +** Message: 07:18:57.644: Processing model [p2g:b] +** Message: 07:18:57.646: Bootstrapper processing model [protein2genome:bestfit] +** Message: 07:18:57.646: Process optimal [optimal:protein2genome:bestfit] +** Message: 07:18:57.652: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_score.c -** Message: 11:18:14.960: Compiling codegen: +** Message: 07:19:08.972: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path.c -** Message: 11:18:24.663: Compiling codegen: +** Message: 07:19:37.420: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_region.c -** Message: 11:18:31.811: Compiling codegen: +** Message: 07:19:57.427: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.c -** Message: 11:18:35.717: Compiling codegen: +** Message: 07:20:10.925: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.c -** Message: 11:18:41.297: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_score.o] -** Message: 11:18:41.297: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_score.o] to archive +** Message: 07:20:31.857: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_score.o] +** Message: 07:20:31.857: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_score.o -** Message: 11:18:41.339: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_score] -** Message: 11:18:41.339: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path.o] -** Message: 11:18:41.339: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path.o] to archive +** Message: 07:20:32.143: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_score] +** Message: 07:20:32.144: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path.o] +** Message: 07:20:32.144: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path.o -** Message: 11:18:41.577: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_path] -** Message: 11:18:41.577: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_region.o] -** Message: 11:18:41.577: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_region.o] to archive +** Message: 07:20:32.309: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_path] +** Message: 07:20:32.309: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_region.o] +** Message: 07:20:32.309: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_region.o -** Message: 11:18:41.660: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_region] -** Message: 11:18:41.660: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o] -** Message: 11:18:41.660: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o] to archive +** Message: 07:20:32.559: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_region] +** Message: 07:20:32.560: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o] +** Message: 07:20:32.560: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint.o -** Message: 11:18:41.836: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint] -** Message: 11:18:41.836: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o] -** Message: 11:18:41.836: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o] to archive +** Message: 07:20:32.799: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_checkpoint] +** Message: 07:20:32.800: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o] +** Message: 07:20:32.800: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation.o -** Message: 11:18:42.160: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation] -** Message: 11:18:42.161: Processing model [c2c] -** Message: 11:18:42.161: Bootstrapper processing model [coding2coding] -** Message: 11:18:42.161: Process optimal [optimal:coding2coding] -** Message: 11:18:42.162: Compiling codegen: +** Message: 07:20:33.048: Adding function [optimal_58_protein2genome_58_bestfit_32_find_32_path_32_continuation] +** Message: 07:20:33.048: Processing model [c2c] +** Message: 07:20:33.049: Bootstrapper processing model [coding2coding] +** Message: 07:20:33.050: Process optimal [optimal:coding2coding] +** Message: 07:20:33.052: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_score.c -** Message: 11:18:43.110: Compiling codegen: +** Message: 07:20:37.139: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path.c -** Message: 11:18:44.534: Compiling codegen: +** Message: 07:20:41.390: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_region.c -** Message: 11:18:46.181: Compiling codegen: +** Message: 07:20:45.921: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_checkpoint.c -** Message: 11:18:49.198: Compiling codegen: +** Message: 07:20:52.751: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path_32_continuation.c -** Message: 11:18:53.143: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_score.o] -** Message: 11:18:53.143: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_score.o] to archive +** Message: 07:21:05.701: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_score.o] +** Message: 07:21:05.701: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_score.o -** Message: 11:18:53.235: Adding function [optimal_58_coding2coding_32_find_32_score] -** Message: 11:18:53.235: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path.o] -** Message: 11:18:53.235: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path.o] to archive +** Message: 07:21:05.957: Adding function [optimal_58_coding2coding_32_find_32_score] +** Message: 07:21:05.957: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path.o] +** Message: 07:21:05.957: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path.o -** Message: 11:18:53.372: Adding function [optimal_58_coding2coding_32_find_32_path] -** Message: 11:18:53.372: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_region.o] -** Message: 11:18:53.372: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_region.o] to archive +** Message: 07:21:06.190: Adding function [optimal_58_coding2coding_32_find_32_path] +** Message: 07:21:06.190: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_region.o] +** Message: 07:21:06.190: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_region.o -** Message: 11:18:53.622: Adding function [optimal_58_coding2coding_32_find_32_region] -** Message: 11:18:53.622: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_checkpoint.o] -** Message: 11:18:53.622: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_checkpoint.o] to archive +** Message: 07:21:06.504: Adding function [optimal_58_coding2coding_32_find_32_region] +** Message: 07:21:06.504: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_checkpoint.o] +** Message: 07:21:06.504: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_checkpoint.o -** Message: 11:18:53.796: Adding function [optimal_58_coding2coding_32_find_32_checkpoint] -** Message: 11:18:53.796: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path_32_continuation.o] -** Message: 11:18:53.796: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path_32_continuation.o] to archive +** Message: 07:21:06.835: Adding function [optimal_58_coding2coding_32_find_32_checkpoint] +** Message: 07:21:06.836: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path_32_continuation.o] +** Message: 07:21:06.836: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2coding_32_find_32_path_32_continuation.o -** Message: 11:18:53.978: Adding function [optimal_58_coding2coding_32_find_32_path_32_continuation] -** Message: 11:18:53.994: Process optimal [Terminal [Segment("START"->"match"):[coding2coding]]] -** Message: 11:18:53.996: Compiling codegen: +** Message: 07:21:07.268: Adding function [optimal_58_coding2coding_32_find_32_path_32_continuation] +** Message: 07:21:07.343: Process optimal [Terminal [Segment("START"->"match"):[coding2coding]]] +** Message: 07:21:07.357: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:18:56.460: Compiling codegen: +** Message: 07:21:24.889: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:00.930: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:19:00.930: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:21:48.707: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:21:48.708: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:01.041: 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: 11:19:01.041: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:19:01.041: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:21:49.823: 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: 07:21:49.824: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:21:49.824: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:01.158: 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: 11:19:01.158: Process optimal [Terminal [Segment("match"->"END"):[coding2coding]]] -** Message: 11:19:01.159: Compiling codegen: +** Message: 07:21:51.298: 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: 07:21:51.299: Process optimal [Terminal [Segment("match"->"END"):[coding2coding]]] +** Message: 07:21:51.302: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:02.601: Compiling codegen: +** Message: 07:21:56.309: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:04.802: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:19:04.802: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:22:01.687: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:22:01.688: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:04.919: 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: 11:19:04.920: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:19:04.920: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:22:02.035: 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: 07:22:02.036: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:22:02.036: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:05.051: 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: 11:19:05.051: Process optimal [HeuristicJoin:[Segment("match"->"match"):[coding2coding]]] -** Message: 11:19:05.054: Compiling codegen: +** Message: 07:22:02.564: 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: 07:22:02.564: Process optimal [HeuristicJoin:[Segment("match"->"match"):[coding2coding]]] +** Message: 07:22:02.588: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:09.832: Compiling codegen: +** Message: 07:22:32.339: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:20.042: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:19:20.042: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:22:53.051: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:22:53.052: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:20.153: 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: 11:19:20.153: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 11:19:20.153: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:22:54.220: 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: 07:22:54.221: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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: 07:22:54.221: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/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: 11:19:20.454: 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: 11:19:20.454: Compiling codegen: +** Message: 07:22:55.130: 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: 07:22:55.131: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.c -** Message: 11:19:20.726: Compiling codegen: +** Message: 07:22:55.721: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.c -** Message: 11:19:21.004: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o] -** Message: 11:19:21.004: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o] to archive +** Message: 07:22:56.420: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o] +** Message: 07:22:56.420: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded.o -** Message: 11:19:21.114: Adding function [Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded] -** Message: 11:19:21.114: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o] -** Message: 11:19:21.114: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o] to archive +** Message: 07:22:56.903: Adding function [Scheduler_Cell_process_coding2coding_58_reverse_58_traceback_58_seeded] +** Message: 07:22:56.903: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o] +** Message: 07:22:56.903: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded.o -** Message: 11:19:21.324: Adding function [Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded] -** Message: 11:19:21.324: Processing model [c2g] -** Message: 11:19:21.325: Bootstrapper processing model [coding2genome] -** Message: 11:19:21.325: Process optimal [optimal:coding2genome] -** Message: 11:19:21.326: Compiling codegen: +** Message: 07:22:57.795: Adding function [Scheduler_Cell_process_coding2coding_58_forward_58_traceback_58_seeded] +** Message: 07:22:57.796: Processing model [c2g] +** Message: 07:22:57.797: Bootstrapper processing model [coding2genome] +** Message: 07:22:57.797: Process optimal [optimal:coding2genome] +** Message: 07:22:57.800: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_score.c -** Message: 11:19:24.443: Compiling codegen: +** Message: 07:23:04.419: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path.c -** Message: 11:19:29.617: Compiling codegen: +** Message: 07:23:16.461: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_region.c -** Message: 11:19:34.129: Compiling codegen: +** Message: 07:23:26.486: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_checkpoint.c -** Message: 11:19:46.297: Compiling codegen: +** Message: 07:23:57.339: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path_32_continuation.c -** Message: 11:20:08.797: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_score.o] -** Message: 11:20:08.797: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_score.o] to archive +** Message: 07:25:01.668: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_score.o] +** Message: 07:25:01.668: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_score.o -** Message: 11:20:08.896: Adding function [optimal_58_coding2genome_32_find_32_score] -** Message: 11:20:08.896: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path.o] -** Message: 11:20:08.896: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path.o] to archive +** Message: 07:25:02.084: Adding function [optimal_58_coding2genome_32_find_32_score] +** Message: 07:25:02.084: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path.o] +** Message: 07:25:02.084: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path.o -** Message: 11:20:09.160: Adding function [optimal_58_coding2genome_32_find_32_path] -** Message: 11:20:09.160: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_region.o] -** Message: 11:20:09.160: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_region.o] to archive +** Message: 07:25:02.551: Adding function [optimal_58_coding2genome_32_find_32_path] +** Message: 07:25:02.552: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_region.o] +** Message: 07:25:02.552: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_region.o -** Message: 11:20:09.401: Adding function [optimal_58_coding2genome_32_find_32_region] -** Message: 11:20:09.401: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_checkpoint.o] -** Message: 11:20:09.401: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_checkpoint.o] to archive +** Message: 07:25:03.439: Adding function [optimal_58_coding2genome_32_find_32_region] +** Message: 07:25:03.440: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_checkpoint.o] +** Message: 07:25:03.440: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_checkpoint.o -** Message: 11:20:09.609: Adding function [optimal_58_coding2genome_32_find_32_checkpoint] -** Message: 11:20:09.609: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path_32_continuation.o] -** Message: 11:20:09.609: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path_32_continuation.o] to archive +** Message: 07:25:03.951: Adding function [optimal_58_coding2genome_32_find_32_checkpoint] +** Message: 07:25:03.952: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path_32_continuation.o] +** Message: 07:25:03.952: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_coding2genome_32_find_32_path_32_continuation.o -** Message: 11:20:09.810: Adding function [optimal_58_coding2genome_32_find_32_path_32_continuation] -** Message: 11:20:09.811: Compiling codegen: +** Message: 07:25:04.638: Adding function [optimal_58_coding2genome_32_find_32_path_32_continuation] +** Message: 07:25:04.640: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.c -** Message: 11:20:10.229: Compiling codegen: +** Message: 07:25:06.020: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.c -** Message: 11:20:10.660: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o] -** Message: 11:20:10.660: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 07:25:07.363: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o] +** Message: 07:25:07.364: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary.o -** Message: 11:20:10.771: Adding function [Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary] -** Message: 11:20:10.771: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o] -** Message: 11:20:10.771: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o] to archive +** Message: 07:25:07.676: Adding function [Scheduler_Cell_process_coding2genome_58_reverse_58_notraceback_58_boundary] +** Message: 07:25:07.676: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o] +** Message: 07:25:07.676: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary.o -** Message: 11:20:10.987: Adding function [Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary] -** Message: 11:20:10.987: Processing model [cd2g] -** Message: 11:20:10.988: Bootstrapper processing model [cdna2genome] -** Message: 11:20:10.988: Process optimal [optimal:cdna2genome] -** Message: 11:20:10.991: Compiling codegen: +** Message: 07:25:07.957: Adding function [Scheduler_Cell_process_coding2genome_58_forward_58_traceback_58_boundary] +** Message: 07:25:07.958: Processing model [cd2g] +** Message: 07:25:07.960: Bootstrapper processing model [cdna2genome] +** Message: 07:25:07.961: Process optimal [optimal:cdna2genome] +** Message: 07:25:07.969: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_score.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_score.c -** Message: 11:20:22.555: Compiling codegen: +** Message: 07:25:42.078: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path.c -** Message: 11:20:43.640: Compiling codegen: +** Message: 07:27:03.394: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_region.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_region.c -** Message: 11:21:09.795: Compiling codegen: +** Message: 07:27:41.453: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_checkpoint.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_checkpoint.c -** Message: 11:22:27.829: Compiling codegen: +** Message: 07:30:27.239: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path_32_continuation.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path_32_continuation.c -** Message: 11:23:33.893: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_score.o] -** Message: 11:23:33.893: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_score.o] to archive +** Message: 07:33:38.194: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_score.o] +** Message: 07:33:38.195: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_score.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_score.o -** Message: 11:23:33.991: Adding function [optimal_58_cdna2genome_32_find_32_score] -** Message: 11:23:33.991: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path.o] -** Message: 11:23:33.991: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path.o] to archive +** Message: 07:33:38.931: Adding function [optimal_58_cdna2genome_32_find_32_score] +** Message: 07:33:38.932: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path.o] +** Message: 07:33:38.932: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path.o -** Message: 11:23:34.229: Adding function [optimal_58_cdna2genome_32_find_32_path] -** Message: 11:23:34.229: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_region.o] -** Message: 11:23:34.229: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_region.o] to archive +** Message: 07:33:39.500: Adding function [optimal_58_cdna2genome_32_find_32_path] +** Message: 07:33:39.500: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_region.o] +** Message: 07:33:39.500: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_region.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_region.o -** Message: 11:23:34.445: Adding function [optimal_58_cdna2genome_32_find_32_region] -** Message: 11:23:34.445: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_checkpoint.o] -** Message: 11:23:34.445: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_checkpoint.o] to archive +** Message: 07:33:40.041: Adding function [optimal_58_cdna2genome_32_find_32_region] +** Message: 07:33:40.042: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_checkpoint.o] +** Message: 07:33:40.042: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_checkpoint.o] to archive ar -Sq c4_model_archive.a /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_checkpoint.o -** Message: 11:23:34.665: Adding function [optimal_58_cdna2genome_32_find_32_checkpoint] -** Message: 11:23:34.665: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path_32_continuation.o] -** Message: 11:23:34.665: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path_32_continuation.o] to archive +** Message: 07:33:40.755: Adding function [optimal_58_cdna2genome_32_find_32_checkpoint] +** Message: 07:33:40.755: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path_32_continuation.o] +** Message: 07:33:40.755: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/optimal_58_cdna2genome_32_find_32_path_32_continuation.o -** Message: 11:23:34.892: Adding function [optimal_58_cdna2genome_32_find_32_path_32_continuation] -** Message: 11:23:34.893: Compiling codegen: +** Message: 07:33:42.419: Adding function [optimal_58_cdna2genome_32_find_32_path_32_continuation] +** Message: 07:33:42.596: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.c -** Message: 11:23:35.561: Compiling codegen: +** Message: 07:33:44.220: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o -c /build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.c -** Message: 11:23:36.304: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o] -** Message: 11:23:36.304: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o] to archive +** Message: 07:33:46.167: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o] +** Message: 07:33:46.167: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary.o -** Message: 11:23:36.429: Adding function [Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary] -** Message: 11:23:36.429: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o] -** Message: 11:23:36.429: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o] to archive +** Message: 07:33:47.024: Adding function [Scheduler_Cell_process_cdna2genome_58_reverse_58_notraceback_58_boundary] +** Message: 07:33:47.024: Adding: [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o] +** Message: 07:33:47.024: Adding object file [/build/reproducible-path/exonerate-2.4.0/codegen/x86_64_45_pc_45_linux_45_gnu/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/x86_64_45_pc_45_linux_45_gnu/Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary.o -** Message: 11:23:36.665: Adding function [Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary] -** Message: 11:23:36.666: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -o c4_model_lookup.o -c c4_model_lookup.c] -** Message: 11:23:36.870: Adding: [c4_model_lookup.o] -** Message: 11:23:36.870: Adding object file [c4_model_lookup.o] to archive +** Message: 07:33:47.604: Adding function [Scheduler_Cell_process_cdna2genome_58_forward_58_traceback_58_boundary] +** Message: 07:33:47.604: 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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -o c4_model_lookup.o -c c4_model_lookup.c] +** Message: 07:33:48.536: Adding: [c4_model_lookup.o] +** Message: 07:33:48.536: Adding object file [c4_model_lookup.o] to archive ar -Sq c4_model_archive.a c4_model_lookup.o -** Message: 11:23:37.066: Indexing archive [c4_model_archive.a] +** Message: 07:33:49.433: Indexing archive [c4_model_archive.a] ranlib c4_model_archive.a -** Message: 11:23:37.243: Done -** Message: 11:23:37.243: Finished building bootstrapping components +** Message: 07:33:50.890: Done +** Message: 07:33:51.062: 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="\"x86_64-pc-linux-gnu\"" -DSOURCE_ROOT_DIR="\"/build/reproducible-path/exonerate-2.4.0\"" -DCUSTOM_GUINT64_FORMAT="\"lu\"" -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o exonerate.o exonerate.c @@ -3092,31 +3128,15 @@ 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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastaannotatecdna.o fastaannotatecdna.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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o esd2esi.o esd2esi.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")) +fastafetch.c: In function 'get_query_list': +fastafetch.c:121:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] + 121 | if(!g_strcasecmp(query, "stdin")){ | ^~ 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/general/argument.h:26, - from fastasort.c:20: -/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here - 268 | gint g_strcasecmp (const gchar *s1, - | ^~~~~~~~~~~~ -fastasort.c:132:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] - 132 | else if(!g_strcasecmp(sort_key, "len")) - | ^~~~ -/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here - 268 | gint g_strcasecmp (const gchar *s1, - | ^~~~~~~~~~~~ -fastasort.c:134:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] - 134 | else if(!g_strcasecmp(sort_key, "seq")) - | ^~~~ + from fastafetch.c:21: /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ @@ -3136,10 +3156,6 @@ fastaremove.c:73:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] 73 | if(!g_strcasecmp(remove_path, "stdin")){ | ^~ -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)); - | ^~~~~~~~~~ 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, @@ -3148,48 +3164,68 @@ /usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here 268 | gint g_strcasecmp (const gchar *s1, | ^~~~~~~~~~~~ -In file included from /usr/include/glib-2.0/glib.h:50, - from ../../src/general/argument.h:26, - from fastasplit.c:20: -/usr/include/glib-2.0/glib/gfileutils.h:207:14: note: declared here - 207 | const gchar *g_basename (const gchar *file_name); - | ^~~~~~~~~~ -fastafetch.c: In function 'get_query_list': -fastafetch.c:121:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] - 121 | if(!g_strcasecmp(query, "stdin")){ +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")) | ^~ 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/general/argument.h:26, - from fastafetch.c:21: + from fastasort.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastarevcomp fastarevcomp.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastahardmask fastahardmask.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o -lm -lglib-2.0 +fastasort.c:132:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] + 132 | else if(!g_strcasecmp(sort_key, "len")) + | ^~~~ +/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here + 268 | gint g_strcasecmp (const gchar *s1, + | ^~~~~~~~~~~~ +fastasort.c:134:5: warning: 'g_strcasecmp' is deprecated [-Wdeprecated-declarations] + 134 | else if(!g_strcasecmp(sort_key, "seq")) + | ^~~~ +/usr/include/glib-2.0/glib/gstrfuncs.h:268:23: note: declared here + 268 | gint g_strcasecmp (const gchar *s1, + | ^~~~~~~~~~~~ +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)); + | ^~~~~~~~~~ +In file included from /usr/include/glib-2.0/glib.h:50, + from ../../src/general/argument.h:26, + from fastasplit.c:20: +/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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o fastaannotatecdna.o fastaannotatecdna.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 -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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DG_DISABLE_ASSERT -O3 -finline-functions -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_PTHREADS -c -o esd2esi.o esd2esi.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastaclean fastaclean.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastareformat fastareformat.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastachecksum fastachecksum.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastaexplode fastaexplode.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastalength fastalength.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastasubseq fastasubseq.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastahardmask fastahardmask.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastaindex fastaindex.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastalength fastalength.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastaoverlap fastaoverlap.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastatranslate fastatranslate.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastareformat fastareformat.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastarevcomp fastarevcomp.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastasoftmask fastasoftmask.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastaremove fastaremove.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastasplit fastasplit.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastaclip fastaclip.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastacomposition fastacomposition.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastadiff fastadiff.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastavalidcds fastavalidcds.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastachecksum fastachecksum.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastafetch fastafetch.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastaclip fastaclip.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastaremove fastaremove.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastasplit fastasplit.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastasubseq fastasubseq.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastatranslate fastatranslate.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastasort fastasort.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fasta2esd fasta2esd.o ../../src/database/dataset.o ../../src/struct/bitarray.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastanrdb fastanrdb.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 esd2esi esd2esi.o ../../src/database/dataset.o ../../src/database/index.o ../../src/general/threadref.o ../../src/struct/bitarray.o ../../src/struct/vfsm.o ../../src/struct/pqueue.o ../../src/struct/recyclebin.o ../../src/struct/rangetree.o ../../src/struct/noitree.o ../../src/struct/splaytree.o ../../src/sequence/submat.o ../../src/sequence/codonsubmat.o ../../src/comparison/wordhood.o ../../src/comparison/hspset.o ../../src/comparison/match.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastasort fastasort.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastacomposition fastacomposition.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastaannotatecdna fastaannotatecdna.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastanrdb fastanrdb.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.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 -fcf-protection -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -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 fastavalidcds fastavalidcds.o ../../src/sequence/sequence.o ../../src/sequence/alphabet.o ../../src/sequence/splice.o ../../src/sequence/translate.o ../../src/database/fastadb.o ../../src/general/argument.o ../../src/general/compoundfile.o ../../src/general/lineparse.o ../../src/struct/sparsecache.o ../../src/struct/matrix.o -lm -lglib-2.0 make[3]: Leaving directory '/build/reproducible-path/exonerate-2.4.0/src/util' make[3]: Entering directory '/build/reproducible-path/exonerate-2.4.0/src' make[3]: Nothing to be done for 'all-am'. @@ -3334,7 +3370,7 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/exonerate/ - make -j42 install DESTDIR=/build/reproducible-path/exonerate-2.4.0/debian/exonerate AM_UPDATE_INFO_DIR=no + make -j20 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' @@ -3553,8 +3589,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'exonerate' in '../exonerate_2.4.0-5_amd64.deb'. dpkg-deb: building package 'exonerate-dbgsym' in '../exonerate-dbgsym_2.4.0-5_amd64.deb'. +dpkg-deb: building package 'exonerate' in '../exonerate_2.4.0-5_amd64.deb'. dpkg-genbuildinfo --build=binary -O../exonerate_2.4.0-5_amd64.buildinfo dpkg-genchanges --build=binary -O../exonerate_2.4.0-5_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -3562,12 +3598,14 @@ 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/510979/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/510979/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/4093825 and its subdirectories -I: Current time: Wed Apr 8 11:23:49 -12 2026 -I: pbuilder-time-stamp: 1775690629 +I: removing directory /srv/workspace/pbuilder/510979 and its subdirectories +I: Current time: Fri Mar 7 07:34:29 +14 2025 +I: pbuilder-time-stamp: 1741282469