Diff of the two buildlogs: -- --- b1/build.log 2025-03-05 18:50:33.067592749 +0000 +++ b2/build.log 2025-03-05 18:51:28.013110164 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Apr 7 13:12:46 -12 2026 -I: pbuilder-time-stamp: 1775610766 +I: Current time: Thu Mar 6 08:50:36 +14 2025 +I: pbuilder-time-stamp: 1741200636 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 gcc-15.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3852573/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1283172/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +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 5 18:50 /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/1283172/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1283172/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='arm64' - DEBIAN_FRONTEND='noninteractive' + 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]="aarch64-unknown-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=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='9b88c58a00734649b9b887307fc44e31' - 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='3852573' - PS1='# ' - PS2='> ' + INVOCATION_ID=4684875bc40d4e2899c0b77e7c7b9a42 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-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=1283172 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.xrV0YRjc/pbuilderrc_IwpY --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.xrV0YRjc/b1 --logfile b1/build.log poa_2.0+20060928-10.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + 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.xrV0YRjc/pbuilderrc_hGlf --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.xrV0YRjc/b2 --logfile b2/build.log poa_2.0+20060928-10.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink03-arm64 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3852573/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1283172/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -139,7 +171,7 @@ Get: 28 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.1 [920 kB] -Fetched 20.1 MB in 0s (98.7 MB/s) +Fetched 20.1 MB in 0s (95.8 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (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 ... 19914 files and directories currently installed.) @@ -274,7 +306,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/poa-2.0+20060928/ && 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 > ../poa_2.0+20060928-10_source.changes +I: user script /srv/workspace/pbuilder/1283172/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/1283172/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/poa-2.0+20060928/ && 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 > ../poa_2.0+20060928-10_source.changes dpkg-buildpackage: info: source package poa dpkg-buildpackage: info: source version 2.0+20060928-10 dpkg-buildpackage: info: source distribution unstable @@ -308,8 +344,24 @@ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o align_lpo2.o align_lpo2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o align_lpo_po2.o align_lpo_po2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o buildup_lpo.o buildup_lpo.c +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lpo.o lpo.c +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o heaviest_bundle.o heaviest_bundle.c In file included from black_flag.c:4: black_flag.c: In function 'black_flag_init_args': +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +black_flag.c:109:3: note: in expansion of macro 'CALLOC' + 109 | CALLOC(Program_name,len,char); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld In file included from lpo.h:6, from main.c:3: main.c: In function 'main': @@ -327,13 +379,37 @@ | | | int | %ld +./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +main.c:221:9: note: in expansion of macro 'REALLOC' + 221 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); + | ^~~~~~~ +In file included from seq_util.c:2: +seq_util.c: In function 'read_score_matrix': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -black_flag.c:109:3: note: in expansion of macro 'CALLOC' - 109 | CALLOC(Program_name,len,char); +seq_util.c:170:3: note: in expansion of macro 'CALLOC' + 170 | CALLOC (m->gap_penalty_x, m->max_gap_length+2, LPOScore_T); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +seq_util.c:171:3: note: in expansion of macro 'CALLOC' + 171 | CALLOC (m->gap_penalty_y, m->max_gap_length+2, LPOScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -341,14 +417,6 @@ | | | int | %ld -./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -main.c:221:9: note: in expansion of macro 'REALLOC' - 221 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); - | ^~~~~~~ ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ @@ -385,38 +453,6 @@ | | | int | %ld -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lpo.o lpo.c -In file included from seq_util.c:2: -seq_util.c: In function 'read_score_matrix': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -seq_util.c:170:3: note: in expansion of macro 'CALLOC' - 170 | CALLOC (m->gap_penalty_x, m->max_gap_length+2, LPOScore_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -seq_util.c:171:3: note: in expansion of macro 'CALLOC' - 171 | CALLOC (m->gap_penalty_y, m->max_gap_length+2, LPOScore_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o heaviest_bundle.o heaviest_bundle.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lpo_format.o lpo_format.c In file included from msa_format.h:17, from msa_format.c:17: @@ -596,51 +632,6 @@ msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ -In file included from align_lpo2.c:2: -align_lpo2.c: In function 'get_seq_left_and_final': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo2.c:60:3: note: in expansion of macro 'CALLOC' - 60 | CALLOC (is_final_node_x, len_x, int); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo2.c:66:3: note: in expansion of macro 'CALLOC' - 66 | CALLOC (x_left, len_x, LPOLetterLink_T *); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo2.c:70:7: note: in expansion of macro 'CALLOC' - 70 | CALLOC (x_left[i], 1, LPOLetterLink_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -align_lpo2.c: In function 'trace_back_lpo_alignment': default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ @@ -661,21 +652,6 @@ | | | int | %ld -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o create_seq.o create_seq.c -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo2.c:96:3: note: in expansion of macro 'CALLOC' - 96 | CALLOC (x_al, len_x, LPOLetterRef_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld msa_format.c: In function 'lpo_from_aln_mat': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -705,13 +681,15 @@ | | | int | %ld +In file included from align_lpo2.c:2: +align_lpo2.c: In function 'get_seq_left_and_final': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:97:3: note: in expansion of macro 'CALLOC' - 97 | CALLOC (y_al, len_y, LPOLetterRef_T); +align_lpo2.c:60:3: note: in expansion of macro 'CALLOC' + 60 | CALLOC (is_final_node_x, len_x, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -761,7 +739,6 @@ | | | int | %ld -align_lpo2.c: In function 'align_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ @@ -781,20 +758,6 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:185:3: note: in expansion of macro 'CALLOC' - 185 | CALLOC (next_gap_array, max_gap_length + 2, int); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int msa_format.c:351:3: note: in expansion of macro 'CALLOC' 351 | CALLOC (lposeq->sequence, max_aln_length+1, char); | ^~~~~~ @@ -804,20 +767,6 @@ | | | int | %ld -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo2.c:186:3: note: in expansion of macro 'CALLOC' - 186 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ @@ -851,8 +800,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:199:3: note: in expansion of macro 'CALLOC' - 199 | CALLOC (move, len_y, DPMove_T *); +align_lpo2.c:66:3: note: in expansion of macro 'CALLOC' + 66 | CALLOC (x_left, len_x, LPOLetterLink_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -865,6 +814,20 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int +align_lpo2.c:70:7: note: in expansion of macro 'CALLOC' + 70 | CALLOC (x_left[i], 1, LPOLetterLink_T); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int msa_format.c:380:5: note: in expansion of macro 'CALLOC' 380 | CALLOC (curr_seq->sequence, aln_lengths[i]+1, char); | ^~~~~~ @@ -874,14 +837,29 @@ | | | int | %ld +align_lpo2.c: In function 'trace_back_lpo_alignment': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:201:5: note: in expansion of macro 'CALLOC' - 201 | CALLOC (move[i], len_x, DPMove_T); - | ^~~~~~ +align_lpo2.c:96:3: note: in expansion of macro 'CALLOC' + 96 | CALLOC (x_al, len_x, LPOLetterRef_T); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +align_lpo2.c:97:3: note: in expansion of macro 'CALLOC' + 97 | CALLOC (y_al, len_y, LPOLetterRef_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -902,14 +880,21 @@ | | | int | %ld +align_lpo2.c: In function 'align_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:204:3: note: in expansion of macro 'CALLOC' - 204 | CALLOC (init_col_score, len_y+1, DPScore_T); +align_lpo2.c:185:3: note: in expansion of macro 'CALLOC' + 185 | CALLOC (next_gap_array, max_gap_length + 2, int); | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ @@ -924,6 +909,14 @@ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +align_lpo2.c:186:3: note: in expansion of macro 'CALLOC' + 186 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -935,23 +928,37 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:207:3: note: in expansion of macro 'CALLOC' - 207 | CALLOC (curr_score, len_x+1, DPScore_T); - | ^~~~~~ +msa_format.c:407:5: note: in expansion of macro 'CALLOC' + 407 | CALLOC (al_y, lposeq->length, int); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:407:5: note: in expansion of macro 'CALLOC' - 407 | CALLOC (al_y, lposeq->length, int); - | ^~~~~~ +align_lpo2.c:199:3: note: in expansion of macro 'CALLOC' + 199 | CALLOC (move, len_y, DPMove_T *); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +align_lpo2.c:201:5: note: in expansion of macro 'CALLOC' + 201 | CALLOC (move[i], len_x, DPMove_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -963,8 +970,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:209:3: note: in expansion of macro 'CALLOC' - 209 | CALLOC (prev_score, len_x+1, DPScore_T); +align_lpo2.c:204:3: note: in expansion of macro 'CALLOC' + 204 | CALLOC (init_col_score, len_y+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -987,6 +994,34 @@ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +align_lpo2.c:207:3: note: in expansion of macro 'CALLOC' + 207 | CALLOC (curr_score, len_x+1, DPScore_T); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +align_lpo2.c:209:3: note: in expansion of macro 'CALLOC' + 209 | CALLOC (prev_score, len_x+1, DPScore_T); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld In file included from align_lpo_po2.c:2: align_lpo_po2.c: In function 'get_lpo_stats': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] @@ -1159,13 +1194,15 @@ | | | int | %ld +In file included from lpo.c:3: +lpo.c: In function 'lpo_init': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:262:3: note: in expansion of macro 'CALLOC' - 262 | CALLOC (score_rows, len_y+1, DPScore_T *); +lpo.c:15:3: note: in expansion of macro 'CALLOC' + 15 | CALLOC(seq->letter,seq->length,LPOLetter_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1178,11 +1215,9 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:264:3: note: in expansion of macro 'CALLOC' - 264 | CALLOC (score_rows[-1], len_x+1, DPScore_T); +align_lpo_po2.c:262:3: note: in expansion of macro 'CALLOC' + 262 | CALLOC (score_rows, len_y+1, DPScore_T *); | ^~~~~~ -In file included from heaviest_bundle.c:3: -heaviest_bundle.c: In function 'heaviest_bundle': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1194,8 +1229,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -heaviest_bundle.c:27:3: note: in expansion of macro 'CALLOC' - 27 | CALLOC(path,len,LPOLetterRef_T); /* GET MEMORY FOR DYNAMIC PROGRAMMING */ +align_lpo_po2.c:264:3: note: in expansion of macro 'CALLOC' + 264 | CALLOC (score_rows[-1], len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1203,21 +1238,14 @@ | | | int | %ld +lpo.c: In function 'build_seq_to_po_index': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -heaviest_bundle.c:28:3: note: in expansion of macro 'CALLOC' - 28 | CALLOC(score,len,LPOScore_T); - | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo_po2.c:312:5: note: in expansion of macro 'CALLOC' - 312 | CALLOC (score_rows[i], len_x+1, DPScore_T); +lpo.c:157:5: note: in expansion of macro 'CALLOC' + 157 | CALLOC(seq->source_seq[i].seq_to_po,seq->source_seq[i].length,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1225,18 +1253,14 @@ | | | int | %ld -align_lpo_po2.c:438:44: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int' [-Wformat=] - 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); - | ~~^ ~~~~~~~~~ - | | | - | long int int - | %d -align_lpo_po2.c:438:69: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'int' [-Wformat=] - 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); - | ~~^ ~~~~~~~~~ - | | | - | long int int - | %d +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +lpo.c:158:5: note: in expansion of macro 'CALLOC' + 158 | CALLOC(seq->source_seq[i].po_to_seq,seq->length,int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1248,9 +1272,9 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -heaviest_bundle.c:29:3: note: in expansion of macro 'CALLOC' - 29 | CALLOC(contains_pos,nsource_seq,int); - | ^~~~~~ +align_lpo_po2.c:312:5: note: in expansion of macro 'CALLOC' + 312 | CALLOC (score_rows[i], len_x+1, DPScore_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1262,23 +1286,26 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -heaviest_bundle.c:67:3: note: in expansion of macro 'CALLOC' - 67 | CALLOC(best_path,len,LPOLetterRef_T); /* MEMORY FOR STORING BEST PATH */ - | ^~~~~~ +lpo.c:159:5: note: in expansion of macro 'CALLOC' + 159 | CALLOC(seq->source_seq[i].sequence,seq->source_seq[i].length+1,char); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -heaviest_bundle.c: In function 'assign_sequence_bundle_id': +lpo.c: In function 'save_lpo_source': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -heaviest_bundle.c:90:3: note: in expansion of macro 'CALLOC' - 90 | CALLOC(bundle_count,seq->nsource_seq,int); +default.h:213:5: note: in expansion of macro 'CALLOC' + 213 | CALLOC(memptr,BUF,ATYPE) } \ + | ^~~~~~ +lpo.c:189:3: note: in expansion of macro 'REBUFF' + 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1286,16 +1313,37 @@ | | | int | %ld -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o remove_bundle.o remove_bundle.c -In file included from buildup_lpo.c:3: -buildup_lpo.c: In function 'clip_unaligned_ends': +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +default.h:216:5: note: in expansion of macro 'REALLOC' + 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ + | ^~~~~~~ +lpo.c:189:3: note: in expansion of macro 'REBUFF' + 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, + | ^~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +lpo.c: In function 'save_lpo_source_list': +align_lpo_po2.c:438:44: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int' [-Wformat=] + 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); + | ~~^ ~~~~~~~~~ + | | | + | long int int + | %d default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:146:3: note: in expansion of macro 'CALLOC' - 146 | CALLOC(temp,seq->length,LPOLetter_T); /* ALLOCATE NEW letter[] COPY */ +lpo.c:213:3: note: in expansion of macro 'CALLOC' + 213 | CALLOC(list,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1303,14 +1351,20 @@ | | | int | %ld -buildup_lpo.c: In function 'read_seqpair_scorefile': +align_lpo_po2.c:438:69: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'int' [-Wformat=] + 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); + | ~~^ ~~~~~~~~~ + | | | + | long int int + | %d +lpo.c: In function 'add_lpo_link': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:327:3: note: in expansion of macro 'CALLOC' - 327 | CALLOC (adj_score, nseq, int); +lpo.c:238:3: note: in expansion of macro 'CALLOC' + 238 | CALLOC(list->more,1,LPOLetterLink_T); /* ADD ENTRY TO LINKED LIST */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1318,72 +1372,29 @@ | | | int | %ld +lpo.c: In function 'add_lpo_sources': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:330:3: note: in expansion of macro 'CALLOC' - 330 | CALLOC (score_list, max_nscore, SeqPairScore_T); - | ^~~~~~ +lpo.c:252:7: note: in expansion of macro 'CALLOC' + 252 | CALLOC(new_s->more,1,LPOLetterSource_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -buildup_lpo.c:353:9: note: in expansion of macro 'REALLOC' - 353 | REALLOC (score_list, max_nscore, SeqPairScore_T); - | ^~~~~~~ -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -buildup_lpo.c:374:9: note: in expansion of macro 'REALLOC' - 374 | REALLOC (score_list, max_nscore, SeqPairScore_T); - | ^~~~~~~ -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -buildup_lpo.c:394:9: note: in expansion of macro 'REALLOC' - 394 | REALLOC (score_list, max_nscore, SeqPairScore_T); - | ^~~~~~~ -In file included from lpo.c:3: -lpo.c: In function 'lpo_init': -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -buildup_lpo.c: In function 'buildup_progressive_lpo': +lpo.c: In function 'reindex_lpo_source_seqs': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:445:3: note: in expansion of macro 'CALLOC' - 445 | CALLOC(seq_cluster,nseq,int); /* MAPS SEQS (or CLUSTERS) TO CLUSTER THEY'RE IN */ +lpo.c:270:3: note: in expansion of macro 'CALLOC' + 270 | CALLOC (map, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1396,8 +1407,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:446:3: note: in expansion of macro 'CALLOC' - 446 | CALLOC(seq_id_in_cluster,nseq,int); /* INDEXES SEQS (or CLUSTERS) WITHIN EACH CLUSTER */ +lpo.c:271:3: note: in expansion of macro 'CALLOC' + 271 | CALLOC (invmap, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1405,13 +1416,14 @@ | | | int | %ld +lpo.c: In function 'reindex_lpo_fusion': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:447:3: note: in expansion of macro 'CALLOC' - 447 | CALLOC(cluster_size,nseq,int); /* COUNTS SEQS IN SAME CLUSTER (updated w/ merges) */ +lpo.c:427:3: note: in expansion of macro 'CALLOC' + 427 | CALLOC(do_fuse,len_y,char); /* MARK POSITIONS TO FUSE seq_y TO seq_x */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1419,13 +1431,14 @@ | | | int | %ld +lpo.c: In function 'copy_fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:448:3: note: in expansion of macro 'CALLOC' - 448 | CALLOC(initial_nseq,nseq,int); /* COUNTS SEQS INITIALLY IN EACH CLUSTER (not updated w/ merges) */ +lpo.c:500:3: note: in expansion of macro 'CALLOC' + 500 | CALLOC(new_seq,1,LPOSequence_T); /* CREATE A NEW HOLDER */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1438,9 +1451,9 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:538:5: note: in expansion of macro 'CALLOC' - 538 | CALLOC (perm, nseq_tot, int); - | ^~~~~~ +lpo.c:501:3: note: in expansion of macro 'CALLOC' + 501 | CALLOC(new_x,len_x,LPOLetterRef_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1452,8 +1465,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:15:3: note: in expansion of macro 'CALLOC' - 15 | CALLOC(seq->letter,seq->length,LPOLetter_T); +lpo.c:502:3: note: in expansion of macro 'CALLOC' + 502 | CALLOC(new_y,len_y,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1461,60 +1474,57 @@ | | | int | %ld -lpo.c: In function 'build_seq_to_po_index': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:157:5: note: in expansion of macro 'CALLOC' - 157 | CALLOC(seq->source_seq[i].seq_to_po,seq->source_seq[i].length,int); - | ^~~~~~ +lpo.c:505:3: note: in expansion of macro 'CALLOC' + 505 | CALLOC(new_lpo,new_len,LPOLetter_T); /* ALLOCATE NEW LINEARIZED PO */ + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +lpo.c: In function 'copy_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:158:5: note: in expansion of macro 'CALLOC' - 158 | CALLOC(seq->source_seq[i].po_to_seq,seq->length,int); - | ^~~~~~ +lpo.c:564:3: note: in expansion of macro 'CALLOC' + 564 | CALLOC(x_to_y,holder_x->length,LPOLetterRef_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +lpo.c: In function 'fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:159:5: note: in expansion of macro 'CALLOC' - 159 | CALLOC(seq->source_seq[i].sequence,seq->source_seq[i].length+1,char); - | ^~~~~~ +lpo.c:618:3: note: in expansion of macro 'CALLOC' + 618 | CALLOC(new_x,len_x,LPOLetterRef_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -lpo.c: In function 'save_lpo_source': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:213:5: note: in expansion of macro 'CALLOC' - 213 | CALLOC(memptr,BUF,ATYPE) } \ - | ^~~~~~ -lpo.c:189:3: note: in expansion of macro 'REBUFF' - 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, +lpo.c:619:3: note: in expansion of macro 'CALLOC' + 619 | CALLOC(new_y,len_y,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1527,26 +1537,24 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:216:5: note: in expansion of macro 'REALLOC' - 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ - | ^~~~~~~ -lpo.c:189:3: note: in expansion of macro 'REBUFF' - 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, - | ^~~~~~ +lpo.c:622:3: note: in expansion of macro 'REALLOC' + 622 | REALLOC(seq_x,new_len,LPOLetter_T); /* EXPAND seq_x TO HOLD FUSED LPO */ + | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld -lpo.c: In function 'save_lpo_source_list': +In file included from buildup_lpo.c:3: +buildup_lpo.c: In function 'clip_unaligned_ends': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:213:3: note: in expansion of macro 'CALLOC' - 213 | CALLOC(list,nsource_seq,int); +buildup_lpo.c:146:3: note: in expansion of macro 'CALLOC' + 146 | CALLOC(temp,seq->length,LPOLetter_T); /* ALLOCATE NEW letter[] COPY */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1554,14 +1562,14 @@ | | | int | %ld -lpo.c: In function 'add_lpo_link': +buildup_lpo.c: In function 'read_seqpair_scorefile': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:238:3: note: in expansion of macro 'CALLOC' - 238 | CALLOC(list->more,1,LPOLetterLink_T); /* ADD ENTRY TO LINKED LIST */ +buildup_lpo.c:327:3: note: in expansion of macro 'CALLOC' + 327 | CALLOC (adj_score, nseq, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1569,32 +1577,72 @@ | | | int | %ld -lpo.c: In function 'add_lpo_sources': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:252:7: note: in expansion of macro 'CALLOC' - 252 | CALLOC(new_s->more,1,LPOLetterSource_T); - | ^~~~~~ -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o numeric_data.o numeric_data.c +buildup_lpo.c:330:3: note: in expansion of macro 'CALLOC' + 330 | CALLOC (score_list, max_nscore, SeqPairScore_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -lpo.c: In function 'reindex_lpo_source_seqs': -In file included from lpo_format.c:3: -lpo_format.c: In function 'read_lpo': +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:353:9: note: in expansion of macro 'REALLOC' + 353 | REALLOC (score_list, max_nscore, SeqPairScore_T); + | ^~~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:374:9: note: in expansion of macro 'REALLOC' + 374 | REALLOC (score_list, max_nscore, SeqPairScore_T); + | ^~~~~~~ +In file included from heaviest_bundle.c:3: +heaviest_bundle.c: In function 'heaviest_bundle': +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o create_seq.o create_seq.c +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:394:9: note: in expansion of macro 'REALLOC' + 394 | REALLOC (score_list, max_nscore, SeqPairScore_T); + | ^~~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:60:3: note: in expansion of macro 'CALLOC' - 60 | CALLOC(seq,1,LPOSequence_T); +heaviest_bundle.c:27:3: note: in expansion of macro 'CALLOC' + 27 | CALLOC(path,len,LPOLetterRef_T); /* GET MEMORY FOR DYNAMIC PROGRAMMING */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1602,13 +1650,22 @@ | | | int | %ld +buildup_lpo.c: In function 'buildup_progressive_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:71:3: note: in expansion of macro 'CALLOC' - 71 | CALLOC(seq->letter,length,LPOLetter_T); +heaviest_bundle.c:28:3: note: in expansion of macro 'CALLOC' + 28 | CALLOC(score,len,LPOScore_T); + | ^~~~~~ +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:445:3: note: in expansion of macro 'CALLOC' + 445 | CALLOC(seq_cluster,nseq,int); /* MAPS SEQS (or CLUSTERS) TO CLUSTER THEY'RE IN */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1616,16 +1673,19 @@ | | | int | %ld +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:242:5: note: in expansion of macro 'CALLOC' - 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~ -lpo_format.c:72:3: note: in expansion of macro 'GETMEM' - 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); +buildup_lpo.c:446:3: note: in expansion of macro 'CALLOC' + 446 | CALLOC(seq_id_in_cluster,nseq,int); /* INDEXES SEQS (or CLUSTERS) WITHIN EACH CLUSTER */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1633,30 +1693,13 @@ | | | int | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -default.h:246:5: note: in expansion of macro 'REALLOC' - 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~~ -lpo_format.c:72:3: note: in expansion of macro 'GETMEM' - 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); - | ^~~~~~ -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:73:3: note: in expansion of macro 'CALLOC' - 73 | CALLOC(pos_count,nsource_seq,int); +buildup_lpo.c:447:3: note: in expansion of macro 'CALLOC' + 447 | CALLOC(cluster_size,nseq,int); /* COUNTS SEQS IN SAME CLUSTER (updated w/ merges) */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1664,15 +1707,28 @@ | | | int | %ld -lpo_format.c: In function 'read_lpo_select': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:270:3: note: in expansion of macro 'CALLOC' - 270 | CALLOC (map, len, int); +heaviest_bundle.c:29:3: note: in expansion of macro 'CALLOC' + 29 | CALLOC(contains_pos,nsource_seq,int); | ^~~~~~ +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:448:3: note: in expansion of macro 'CALLOC' + 448 | CALLOC(initial_nseq,nseq,int); /* COUNTS SEQS INITIALLY IN EACH CLUSTER (not updated w/ merges) */ + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1684,23 +1740,37 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:271:3: note: in expansion of macro 'CALLOC' - 271 | CALLOC (invmap, len, int); +heaviest_bundle.c:67:3: note: in expansion of macro 'CALLOC' + 67 | CALLOC(best_path,len,LPOLetterRef_T); /* MEMORY FOR STORING BEST PATH */ | ^~~~~~ +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:538:5: note: in expansion of macro 'CALLOC' + 538 | CALLOC (perm, nseq_tot, int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -lpo.c: In function 'reindex_lpo_fusion': +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +heaviest_bundle.c: In function 'assign_sequence_bundle_id': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:427:3: note: in expansion of macro 'CALLOC' - 427 | CALLOC(do_fuse,len_y,char); /* MARK POSITIONS TO FUSE seq_y TO seq_x */ +heaviest_bundle.c:90:3: note: in expansion of macro 'CALLOC' + 90 | CALLOC(bundle_count,seq->nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1708,14 +1778,16 @@ | | | int | %ld -lpo.c: In function 'copy_fuse_lpo_remap': +In file included from lpo_format.c:3: +lpo_format.c: In function 'read_lpo': +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o remove_bundle.o remove_bundle.c default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:500:3: note: in expansion of macro 'CALLOC' - 500 | CALLOC(new_seq,1,LPOSequence_T); /* CREATE A NEW HOLDER */ +lpo_format.c:60:3: note: in expansion of macro 'CALLOC' + 60 | CALLOC(seq,1,LPOSequence_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1728,8 +1800,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:501:3: note: in expansion of macro 'CALLOC' - 501 | CALLOC(new_x,len_x,LPOLetterRef_T); +lpo_format.c:71:3: note: in expansion of macro 'CALLOC' + 71 | CALLOC(seq->letter,length,LPOLetter_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1742,8 +1814,11 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:502:3: note: in expansion of macro 'CALLOC' - 502 | CALLOC(new_y,len_y,LPOLetterRef_T); +default.h:242:5: note: in expansion of macro 'CALLOC' + 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~ +lpo_format.c:72:3: note: in expansion of macro 'GETMEM' + 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1751,14 +1826,38 @@ | | | int | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +default.h:246:5: note: in expansion of macro 'REALLOC' + 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~~ +lpo_format.c:72:3: note: in expansion of macro 'GETMEM' + 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); + | ^~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:505:3: note: in expansion of macro 'CALLOC' - 505 | CALLOC(new_lpo,new_len,LPOLetter_T); /* ALLOCATE NEW LINEARIZED PO */ +lpo_format.c:73:3: note: in expansion of macro 'CALLOC' + 73 | CALLOC(pos_count,nsource_seq,int); | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +lpo_format.c: In function 'read_lpo_select': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ @@ -1920,12 +2019,6 @@ | int | %ld lpo_format.c: In function 'xlate_lpo_to_al': -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ @@ -1954,7 +2047,6 @@ | | | int | %ld -lpo.c: In function 'copy_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ @@ -1963,79 +2055,13 @@ lpo_format.c:374:5: note: in expansion of macro 'CALLOC' 374 | CALLOC(include_in_save,nring,char); /* BLANK FLAGS: WHAT RINGS TO SHOW*/ | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -lpo.c:564:3: note: in expansion of macro 'CALLOC' - 564 | CALLOC(x_to_y,holder_x->length,LPOLetterRef_T); - | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -lpo.c: In function 'fuse_lpo_remap': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -lpo.c:618:3: note: in expansion of macro 'CALLOC' - 618 | CALLOC(new_x,len_x,LPOLetterRef_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -lpo.c:619:3: note: in expansion of macro 'CALLOC' - 619 | CALLOC(new_y,len_y,LPOLetterRef_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -lpo.c:622:3: note: in expansion of macro 'REALLOC' - 622 | REALLOC(seq_x,new_len,LPOLetter_T); /* EXPAND seq_x TO HOLD FUSED LPO */ - | ^~~~~~~ -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld lpo_format.c: In function 'read_lpo': -main.c:225:30: warning: '%s' directive argument is null [-Wformat-overflow=] - 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' - 212 | (sprintf MESSAGE,\ - | ^~~~~~~ -main.c:225:58: note: format string is defined here - 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", - | ^~ lpo_format.c:61:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 61 | fscanf(ifile,"VERSION=%s",version); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -2061,6 +2087,16 @@ lpo_format.c:185:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 185 | fscanf(ifile,"%*[ \t]"); | ^~~~~~~~~~~~~~~~~~~~~~~ +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o numeric_data.o numeric_data.c +main.c:225:30: warning: '%s' directive argument is null [-Wformat-overflow=] + 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' + 212 | (sprintf MESSAGE,\ + | ^~~~~~~ +main.c:225:58: note: format string is defined here + 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", + | ^~ In file included from create_seq.c:3: create_seq.c: In function 'create_seq': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] @@ -2097,6 +2133,52 @@ | | | int | %ld +In file included from remove_bundle.c:4: +remove_bundle.c: In function 'compact_links': +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +remove_bundle.c:16:3: note: in expansion of macro 'CALLOC' + 16 | CALLOC(link,1,LPOLetterLink_T); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +remove_bundle.c: In function 'compact_sources': +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +remove_bundle.c:59:3: note: in expansion of macro 'CALLOC' + 59 | CALLOC(source,1,LPOLetterSource_T); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +remove_bundle.c: In function 'remove_bundle': +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +remove_bundle.c:128:3: note: in expansion of macro 'CALLOC' + 128 | CALLOC(old_to_new,seq->length,int); /* CREATE MAPPING ARRAY */ + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld In file included from ./lpo.h:6, from numeric_data.c:3: numeric_data.c: In function 'new_numeric_data': @@ -2152,52 +2234,6 @@ numeric_data.c:139:11: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 139 | fscanf(ifile," %lf",data->data+j); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from remove_bundle.c:4: -remove_bundle.c: In function 'compact_links': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -remove_bundle.c:16:3: note: in expansion of macro 'CALLOC' - 16 | CALLOC(link,1,LPOLetterLink_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -remove_bundle.c: In function 'compact_sources': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -remove_bundle.c:59:3: note: in expansion of macro 'CALLOC' - 59 | CALLOC(source,1,LPOLetterSource_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -remove_bundle.c: In function 'remove_bundle': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -remove_bundle.c:128:3: note: in expansion of macro 'CALLOC' - 128 | CALLOC(old_to_new,seq->length,int); /* CREATE MAPPING ARRAY */ - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o stringptr.o stringptr.c In file included from stringptr.c:2: stringptr.c: In function 'stringptr_cat_pos': @@ -2389,7 +2425,7 @@ aligned (1394 nodes, 1413 edges) to (217 nodes, 216 edges): best local score = 437 @ (1274 215) Fusing cluster 3 (MATK_HUMAN, nseq=1) --> 0 (ABL1_HUMAN, nseq=3)... score -1.00 aligned (1532 nodes, 1601 edges) to (507 nodes, 506 edges): best local score = 1212 @ (654 470) -...Wrote 4 sequences to CLUSTAL file /tmp/tmp.girUDRzpIy... +...Wrote 4 sequences to CLUSTAL file /tmp/tmp.CqcqEr84Zb... X-Gap Penalties (Open, Aff1, Aff2; LTrunc, LDecay): 12 6 6 16 0 X-Gap Penalties (0, 1, 2, ...): 12 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 ... Y-Gap Penalties (Open, Aff1, Aff2; LTrunc, LDecay): 12 6 6 16 0 @@ -2434,12 +2470,14 @@ 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/1283172/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1283172/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/3852573 and its subdirectories -I: Current time: Tue Apr 7 13:13:31 -12 2026 -I: pbuilder-time-stamp: 1775610811 +I: removing directory /srv/workspace/pbuilder/1283172 and its subdirectories +I: Current time: Thu Mar 6 08:51:26 +14 2025 +I: pbuilder-time-stamp: 1741200686