Diff of the two buildlogs: -- --- b1/build.log 2024-03-29 19:03:50.218364768 +0000 +++ b2/build.log 2024-03-29 19:09:19.176344006 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu May 1 13:23:21 -12 2025 -I: pbuilder-time-stamp: 1746149001 +I: Current time: Sat Mar 30 09:03:52 +14 2024 +I: pbuilder-time-stamp: 1711739032 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -34,54 +34,86 @@ dpkg-source: info: applying reenable-simde.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/91328/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/10069/tmp/hooks/D01_modify_environment starting +debug: Running on ionos2-i386. +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 29 19:04 /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/10069/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/10069/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='i386' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='i386' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=i386 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=7 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=i686 + HOST_ARCH=i386 IFS=' ' - INVOCATION_ID='50a9c6af65d14016b96c2e7795c278af' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - LD_LIBRARY_PATH='/usr/lib/libeatmydata' - LD_PRELOAD='libeatmydata.so' - 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='91328' - PS1='# ' - PS2='> ' + INVOCATION_ID=d4df52dfeef4483c8cd4f3fe2b1bde77 + LANG=C + LANGUAGE=de_CH:de + LC_ALL=C + LD_LIBRARY_PATH=/usr/lib/libeatmydata + LD_PRELOAD=libeatmydata.so + MACHTYPE=i686-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=10069 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.keXOitia/pbuilderrc_0I4w --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.keXOitia/b1 --logfile b1/build.log minimap2_2.27+dfsg-1.dsc' - SUDO_GID='112' - SUDO_UID='107' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://85.184.249.68:3128' + 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.keXOitia/pbuilderrc_9dP7 --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.keXOitia/b2 --logfile b2/build.log minimap2_2.27+dfsg-1.dsc' + SUDO_GID=112 + SUDO_UID=107 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://78.137.99.97:3128 I: uname -a - Linux ionos6-i386 6.1.0-18-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.76-1 (2024-02-01) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-18-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.76-1 (2024-02-01) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Apr 28 17:47 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/91328/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Mar 28 11:24 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/10069/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -327,7 +359,7 @@ Get: 183 http://deb.debian.org/debian trixie/main i386 texlive-pictures all 2023.20240207-1 [16.7 MB] Get: 184 http://deb.debian.org/debian trixie/main i386 texlive-latex-extra all 2023.20240207-1 [19.7 MB] Get: 185 http://deb.debian.org/debian trixie/main i386 texlive-science all 2023.20240207-1 [3804 kB] -Fetched 276 MB in 4s (77.7 MB/s) +Fetched 276 MB in 10s (28.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package poppler-data. (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 ... 19876 files and directories currently installed.) @@ -932,8 +964,8 @@ Setting up tzdata (2024a-1) ... Current default time zone: 'Etc/UTC' -Local time is now: Fri May 2 01:24:03 UTC 2025. -Universal Time is now: Fri May 2 01:24:03 UTC 2025. +Local time is now: Fri Mar 29 19:04:48 UTC 2024. +Universal Time is now: Fri Mar 29 19:04:48 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libfontenc1:i386 (1:1.1.8-1) ... @@ -1112,7 +1144,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/minimap2-2.27+dfsg/ && 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 > ../minimap2_2.27+dfsg-1_source.changes +I: user script /srv/workspace/pbuilder/10069/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/10069/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/minimap2-2.27+dfsg/ && 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 > ../minimap2_2.27+dfsg-1_source.changes dpkg-buildpackage: info: source package minimap2 dpkg-buildpackage: info: source version 2.27+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -1124,7 +1160,7 @@ debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_auto_clean - make -j22 clean + make -j7 clean make[2]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' rm -fr gmon.out *.o a.out minimap2 sdust minimap2-lite *~ *.a *.dSYM build dist mappy*.so mappy.c python/mappy.c mappy.egg* make[2]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' @@ -1175,7 +1211,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_auto_build -- - make -j22 "INSTALL=install --strip-program=true" + make -j7 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC main.c -o main.o cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC kthread.c -o kthread.o @@ -1184,21 +1220,6 @@ cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC bseq.c -o bseq.o cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC sketch.c -o sketch.o cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC sdust.c -o sdust.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC options.c -o options.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC index.c -o index.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC lchain.c -o lchain.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC align.c -o align.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC hit.c -o hit.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC seed.c -o seed.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC map.c -o map.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC format.c -o format.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC pe.c -o pe.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC esterr.c -o esterr.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC splitidx.c -o splitidx.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse2 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC ksw2_ll_sse.c -o ksw2_ll_sse.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_extz2_sse.c -o ksw2_extz2_sse41.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_extd2_sse.c -o ksw2_extd2_sse41.o -cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_exts2_sse.c -o ksw2_exts2_sse41.o kalloc.c: In function 'km_stat_print': kalloc.c:222:42: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", @@ -1250,25 +1271,8 @@ | ~~~~~~~~~~ | | | size_t {aka unsigned int} -map.c: In function 'mm_map_frag': -map.c:365:60: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] - 365 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); - | ~~^ ~~~~~~~~~~~~~ - | | | - | long int size_t {aka unsigned int} - | %d -map.c:365:70: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=] - 365 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); - | ~~^ ~~~~~~~~~~~~ - | | | - | long int size_t {aka unsigned int} - | %d -map.c:365:82: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=] - 365 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); - | ~~^ ~~~~~~~~~~~~ - | | | - | long int size_t {aka unsigned int} - | %d +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC options.c -o options.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC index.c -o index.o index.c: In function 'mm_idx_load': index.c:520:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 520 | fread(&l, 1, 1, fp); @@ -1294,6 +1298,38 @@ index.c:554:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(mi->S, 4, (sum_len + 7) / 8, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC lchain.c -o lchain.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC align.c -o align.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC hit.c -o hit.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC seed.c -o seed.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC map.c -o map.o +map.c: In function 'mm_map_frag': +map.c:365:60: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] + 365 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); + | ~~^ ~~~~~~~~~~~~~ + | | | + | long int size_t {aka unsigned int} + | %d +map.c:365:70: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=] + 365 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); + | ~~^ ~~~~~~~~~~~~ + | | | + | long int size_t {aka unsigned int} + | %d +map.c:365:82: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=] + 365 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); + | ~~^ ~~~~~~~~~~~~ + | | | + | long int size_t {aka unsigned int} + | %d +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC format.c -o format.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC pe.c -o pe.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC esterr.c -o esterr.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC splitidx.c -o splitidx.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse2 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC ksw2_ll_sse.c -o ksw2_ll_sse.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_extz2_sse.c -o ksw2_extz2_sse41.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_extd2_sse.c -o ksw2_extd2_sse41.o +cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_exts2_sse.c -o ksw2_exts2_sse41.o cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse2 -mno-sse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY ksw2_extz2_sse.c -o ksw2_extz2_sse2.o cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse2 -mno-sse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY ksw2_extd2_sse.c -o ksw2_extd2_sse2.o cc -c -g -O2 -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -O2 -Wc++-compat -msse2 -mno-sse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY ksw2_exts2_sse.c -o ksw2_exts2_sse2.o @@ -2996,32 +3032,32 @@ debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' debian/test_script -[M::mm_idx_gen::0.003*1.38] collected minimizers -[M::mm_idx_gen::0.004*1.75] sorted minimizers -[M::main::0.004*1.74] loaded/built the index for 1 target sequence(s) -[M::mm_mapopt_update::0.004*1.70] mid_occ = 10 +[M::mm_idx_gen::0.004*1.54] collected minimizers +[M::mm_idx_gen::0.007*1.97] sorted minimizers +[M::main::0.007*1.95] loaded/built the index for 1 target sequence(s) +[M::mm_mapopt_update::0.007*1.89] mid_occ = 10 [M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1 -[M::mm_idx_stat::0.004*1.67] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569 -[M::worker_pipeline::0.013*1.22] mapped 1 sequences +[M::mm_idx_stat::0.007*1.86] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569 +[M::worker_pipeline::0.020*1.29] mapped 1 sequences [M::main] Version: 2.27-r1193 [M::main] CMD: minimap2 -a test/MT-human.fa test/MT-orang.fa -[M::main] Real time: 0.013 sec; CPU: 0.016 sec; Peak RSS: 0.004 GB -[M::mm_idx_gen::0.002*1.53] collected minimizers -[M::mm_idx_gen::0.003*1.93] sorted minimizers -[M::main::0.005*1.54] loaded/built the index for 1 target sequence(s) +[M::main] Real time: 0.021 sec; CPU: 0.027 sec; Peak RSS: 0.004 GB +[M::mm_idx_gen::0.004*1.46] collected minimizers +[M::mm_idx_gen::0.007*1.95] sorted minimizers +[M::main::0.009*1.68] loaded/built the index for 1 target sequence(s) [M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1 -[M::mm_idx_stat::0.005*1.52] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569 +[M::mm_idx_stat::0.010*1.62] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569 [M::main] Version: 2.27-r1193 [M::main] CMD: minimap2 -d MT-human.mmi test/MT-human.fa -[M::main] Real time: 0.006 sec; CPU: 0.009 sec; Peak RSS: 0.004 GB -[M::main::0.003*1.21] loaded/built the index for 1 target sequence(s) -[M::mm_mapopt_update::0.003*1.19] mid_occ = 10 +[M::main] Real time: 0.011 sec; CPU: 0.017 sec; Peak RSS: 0.005 GB +[M::main::0.005*1.26] loaded/built the index for 1 target sequence(s) +[M::mm_mapopt_update::0.005*1.25] mid_occ = 10 [M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1 -[M::mm_idx_stat::0.003*1.18] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569 -[M::worker_pipeline::0.011*1.10] mapped 1 sequences +[M::mm_idx_stat::0.006*1.24] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569 +[M::worker_pipeline::0.020*1.12] mapped 1 sequences [M::main] Version: 2.27-r1193 [M::main] CMD: minimap2 -a MT-human.mmi test/MT-orang.fa -[M::main] Real time: 0.012 sec; CPU: 0.014 sec; Peak RSS: 0.006 GB +[M::main] Real time: 0.023 sec; CPU: 0.025 sec; Peak RSS: 0.009 GB rm test.sam make[1]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' create-stamp debian/debhelper-build-stamp @@ -3166,9 +3202,9 @@ dh_builddeb dpkg-deb: building package 'minimap2-dbgsym' in '../minimap2-dbgsym_2.27+dfsg-1_i386.deb'. dpkg-deb: building package 'minimap2' in '../minimap2_2.27+dfsg-1_i386.deb'. -dpkg-deb: building package 'libminimap2-dev' in '../libminimap2-dev_2.27+dfsg-1_i386.deb'. -dpkg-deb: building package 'python3-mappy' in '../python3-mappy_2.27+dfsg-1_i386.deb'. dpkg-deb: building package 'python3-mappy-dbgsym' in '../python3-mappy-dbgsym_2.27+dfsg-1_i386.deb'. +dpkg-deb: building package 'python3-mappy' in '../python3-mappy_2.27+dfsg-1_i386.deb'. +dpkg-deb: building package 'libminimap2-dev' in '../libminimap2-dev_2.27+dfsg-1_i386.deb'. dpkg-genbuildinfo --build=binary -O../minimap2_2.27+dfsg-1_i386.buildinfo dpkg-genchanges --build=binary -O../minimap2_2.27+dfsg-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -3176,12 +3212,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/10069/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/10069/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/91328 and its subdirectories -I: Current time: Thu May 1 13:26:49 -12 2025 -I: pbuilder-time-stamp: 1746149209 +I: removing directory /srv/workspace/pbuilder/10069 and its subdirectories +I: Current time: Sat Mar 30 09:09:18 +14 2024 +I: pbuilder-time-stamp: 1711739358