Diff of the two buildlogs: -- --- b1/build.log 2023-04-08 09:49:36.623421663 +0000 +++ b2/build.log 2023-04-08 09:51:18.884031108 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Apr 7 21:48:23 -12 2023 -I: pbuilder-time-stamp: 1680947303 +I: Current time: Sat May 11 06:12:40 +14 2024 +I: pbuilder-time-stamp: 1715357560 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./samtools-legacy_0.1.19+dfsg.orig.tar.xz] I: copying [./samtools-legacy_0.1.19+dfsg-6.debian.tar.xz] I: Extracting source -gpgv: Signature made Wed Jan 11 20:04:45 2023 -12 +gpgv: Signature made Thu Jan 12 22:04:45 2023 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -32,11 +32,20 @@ dpkg-source: info: applying gcc-11.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2111/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/32425/tmp/hooks/D01_modify_environment starting +debug: Running on codethink9-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 +lrwxrwxrwx 1 root root 4 Jan 6 2023 /bin/sh -> dash +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/32425/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/32425/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' + 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=8' @@ -46,38 +55,38 @@ IFS=' ' LANG='C' - LANGUAGE='en_US:en' + LANGUAGE='nl_BE:nl' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' + 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' - PPID='2111' + PPID='32425' PS1='# ' PS2='> ' 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.aJ9Hl6Te/pbuilderrc_9vUL --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.aJ9Hl6Te/b1 --logfile b1/build.log samtools-legacy_0.1.19+dfsg-6.dsc' + 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.aJ9Hl6Te/pbuilderrc_It5F --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.aJ9Hl6Te/b2 --logfile b2/build.log --extrapackages usrmerge samtools-legacy_0.1.19+dfsg-6.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' + TZ='/usr/share/zoneinfo/Etc/GMT-14' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a - Linux codethink10-arm64 4.15.0-208-generic #220-Ubuntu SMP Mon Mar 20 14:28:12 UTC 2023 aarch64 GNU/Linux + Linux i-capture-the-hostname 4.15.0-208-generic #220-Ubuntu SMP Mon Mar 20 14:28:12 UTC 2023 aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Apr 4 22:25 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2111/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 9 06:47 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/32425/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -151,7 +160,7 @@ Get: 32 http://deb.debian.org/debian bookworm/main arm64 libncurses-dev arm64 6.4-2 [335 kB] Get: 33 http://deb.debian.org/debian bookworm/main arm64 libncurses5-dev arm64 6.4-2 [932 B] Get: 34 http://deb.debian.org/debian bookworm/main arm64 zlib1g-dev arm64 1:1.2.13.dfsg-1 [913 kB] -Fetched 19.7 MB in 0s (43.3 MB/s) +Fetched 19.7 MB in 1s (26.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19616 files and directories currently installed.) @@ -301,8 +310,17 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +usrmerge is already the newest version (35). +0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/samtools-legacy-0.1.19+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 > ../samtools-legacy_0.1.19+dfsg-6_source.changes +I: user script /srv/workspace/pbuilder/32425/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +I: user script /srv/workspace/pbuilder/32425/tmp/hooks/A99_set_merged_usr finished +hostname: Temporary failure in name resolution +I: Running cd /build/samtools-legacy-0.1.19+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 > ../samtools-legacy_0.1.19+dfsg-6_source.changes dpkg-buildpackage: info: source package samtools-legacy dpkg-buildpackage: info: source version 0.1.19+dfsg-6 dpkg-buildpackage: info: source distribution unstable @@ -337,37 +355,113 @@ make[2]: Entering directory '/build/samtools-legacy-0.1.19+dfsg' gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_tview.c -o bam_tview.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_plcmd.c -o bam_plcmd.o +make[3]: Entering directory '/build/samtools-legacy-0.1.19+dfsg' gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam_view.c -o sam_view.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -DBGZF_CACHE -I. bgzf.c -o bgzf.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kstring.c -o kstring.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_rmdup.c -o bam_rmdup.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_rmdupse.c -o bam_rmdupse.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_aux.c -o bam_aux.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam.c -o bam.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_mate.c -o bam_mate.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_import.c -o bam_import.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_stat.c -o bam_stat.o -make[3]: Entering directory '/build/samtools-legacy-0.1.19+dfsg' -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -DBGZF_CACHE -I. bgzf.c -o bgzf.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_color.c -o bam_color.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam.c -o sam.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bamtk.c -o bamtk.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kaln.c -o kaln.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2bcf.c -o bam2bcf.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kstring.c -o kstring.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2bcf_indel.c -o bam2bcf_indel.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_index.c -o bam_index.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. errmod.c -o errmod.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sample.c -o sample.o +bam_index.c: In function 'bam_index_core': +bam_index.c:178:42: warning: overflow in conversion from 'uint32_t' {aka 'unsigned int'} to 'int32_t' {aka 'int'} changes value from 'last_bin = 4294967295' to '-1' [-Woverflow] + 178 | save_bin = save_tid = last_tid = last_bin = 0xffffffffu; + | ^~~~~~~~ +bam_index.c: In function 'bam_index_load_core': +bam_index.c:335:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] + 335 | fread(magic, 1, 4, fp); + | ^~~~~~~~~~~~~~~~~~~~~~ +bam_index.c:342:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] + 342 | fread(&idx->n, 4, 1, fp); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +bam_index.c:355:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] + 355 | fread(&size, 4, 1, fp); + | ^~~~~~~~~~~~~~~~~~~~~~ +bam_index.c:358:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] + 358 | fread(&key, 4, 1, fp); + | ^~~~~~~~~~~~~~~~~~~~~ +bam_index.c:362:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] + 362 | fread(&p->n, 4, 1, fp); + | ^~~~~~~~~~~~~~~~~~~~~~ +bam_index.c:366:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] + 366 | fread(p->list, 16, p->n, fp); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +bam_index.c:376:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] + 376 | fread(&index2->n, 4, 1, fp); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ +bam_index.c:380:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] + 380 | fread(index2->offset, index2->n, 8, fp); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_pileup.c -o bam_pileup.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. cut_target.c -o cut_target.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_aux.c -o bam_aux.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. phase.c -o phase.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_lpileup.c -o bam_lpileup.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2depth.c -o bam2depth.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. padding.c -o padding.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bedcov.c -o bedcov.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_md.c -o bam_md.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bamshuf.c -o bamshuf.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_tview_curses.c -o bam_tview_curses.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam.c -o bam.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. razf.c -o razf.o +razf.c: In function 'razf_flush': +razf.c:221:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 221 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:234:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 234 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c: In function '_razf_write': +razf.c:201:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 201 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c: In function 'razf_close': +razf.c:804:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 804 | write(rz->x.fpw, &rz->in, sizeof(int64_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:805:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 805 | write(rz->x.fpw, &rz->out, sizeof(int64_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:808:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 808 | write(rz->x.fpw, &v64, sizeof(int64_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:810:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 810 | write(rz->x.fpw, &v64, sizeof(int64_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c: In function 'razf_end_flush': +razf.c:258:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 258 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c: In function 'save_zindex': +razf.c:96:19: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 96 | if(is_be) write(fd, &rz->index->size, sizeof(int)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:99:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 99 | write(fd, &v32, sizeof(uint32_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:106:9: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 106 | write(fd, rz->index->bin_offsets, sizeof(int64_t) * v32); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:107:9: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 107 | write(fd, rz->index->cell_offsets, sizeof(int32_t) * rz->index->size); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. faidx.c -o faidx.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_tview_html.c -o bam_tview_html.o make[3]: Entering directory '/build/samtools-legacy-0.1.19+dfsg' make[4]: Entering directory '/build/samtools-legacy-0.1.19+dfsg' -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam.c -o bam.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_md.c -o bam_md.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. razip.c -o razip.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. razf.c -o razf.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. knetfile.c -o knetfile.o razip.c: In function 'main': razip.c:131:33: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 131 | write(f_dst, buffer, c); @@ -376,6 +470,8 @@ razip.c:32:25: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] 32 | scanf("%c", &c); | ^~~~~~~~~~~~~~~ +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. razf.c -o razf.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. knetfile.c -o knetfile.o razf.c: In function 'razf_flush': razf.c:221:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 221 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); @@ -417,7 +513,7 @@ razf.c:107:9: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 107 | write(fd, rz->index->cell_offsets, sizeof(int32_t) * rz->index->size); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam.c -o bam.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bedidx.c -o bedidx.o In file included from knetfile.c:46: knetfile.c: In function 'kftp_send_cmd': knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -433,117 +529,82 @@ knetfile.c:415:9: note: in expansion of macro 'netwrite' 415 | netwrite(fp->fd, buf, l); | ^~~~~~~~ -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_import.c -o bam_import.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam.c -o sam.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_index.c -o bam_index.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_import.c -o bam_import.o -bam_index.c: In function 'bam_index_core': -bam_index.c:178:42: warning: overflow in conversion from 'uint32_t' {aka 'unsigned int'} to 'int32_t' {aka 'int'} changes value from 'last_bin = 4294967295' to '-1' [-Woverflow] - 178 | save_bin = save_tid = last_tid = last_bin = 0xffffffffu; - | ^~~~~~~~ -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_pileup.c -o bam_pileup.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_lpileup.c -o bam_lpileup.o -bam_index.c: In function 'bam_index_load_core': -bam_index.c:335:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 335 | fread(magic, 1, 4, fp); - | ^~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:342:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 342 | fread(&idx->n, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:355:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 355 | fread(&size, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:358:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 358 | fread(&key, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~ -bam_index.c:362:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 362 | fread(&p->n, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:366:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 366 | fread(p->list, 16, p->n, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:376:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 376 | fread(&index2->n, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:380:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 380 | fread(index2->offset, index2->n, 8, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_md.c -o bam_md.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_import.c -o bam_import.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. knetfile.c -o knetfile.o +In file included from knetfile.c:46: +knetfile.c: In function 'kftp_send_cmd': +knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) + | ^~~~~~~~~~~~~~~~~~~ +knetfile.c:236:9: note: in expansion of macro 'netwrite' + 236 | netwrite(ftp->ctrl_fd, cmd, strlen(cmd)); + | ^~~~~~~~ +knetfile.c: In function 'khttp_connect_file': +knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) + | ^~~~~~~~~~~~~~~~~~~ +knetfile.c:415:9: note: in expansion of macro 'netwrite' + 415 | netwrite(fp->fd, buf, l); + | ^~~~~~~~ +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. razf.c -o razf.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. faidx.c -o faidx.o +razf.c: In function 'razf_flush': +razf.c:221:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 221 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:234:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 234 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c: In function '_razf_write': +razf.c:201:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 201 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c: In function 'razf_close': +razf.c:804:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 804 | write(rz->x.fpw, &rz->in, sizeof(int64_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:805:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 805 | write(rz->x.fpw, &rz->out, sizeof(int64_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:808:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 808 | write(rz->x.fpw, &v64, sizeof(int64_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:810:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 810 | write(rz->x.fpw, &v64, sizeof(int64_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c: In function 'razf_end_flush': +razf.c:258:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 258 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c: In function 'save_zindex': +razf.c:96:19: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 96 | if(is_be) write(fd, &rz->index->size, sizeof(int)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:99:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 99 | write(fd, &v32, sizeof(uint32_t)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:106:9: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 106 | write(fd, rz->index->bin_offsets, sizeof(int64_t) * v32); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +razf.c:107:9: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] + 107 | write(fd, rz->index->cell_offsets, sizeof(int32_t) * rz->index->size); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bedidx.c -o bedidx.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bedidx.c -o bedidx.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_sort.c -o bam_sort.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_sort.c -o bam_sort.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam_header.c -o sam_header.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam.c -o sam.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam_header.c -o sam_header.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_sort.c -o bam_sort.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_reheader.c -o bam_reheader.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kprobaln.c -o kprobaln.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_cat.c -o bam_cat.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_index.c -o bam_index.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam_header.c -o sam_header.o gcc -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -o razip razip.o razf.o knetfile.o -lz -bam_index.c: In function 'bam_index_core': -bam_index.c:178:42: warning: overflow in conversion from 'uint32_t' {aka 'unsigned int'} to 'int32_t' {aka 'int'} changes value from 'last_bin = 4294967295' to '-1' [-Woverflow] - 178 | save_bin = save_tid = last_tid = last_bin = 0xffffffffu; - | ^~~~~~~~ -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. faidx.c -o faidx.o -bam_index.c: In function 'bam_index_load_core': -bam_index.c:335:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 335 | fread(magic, 1, 4, fp); - | ^~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:342:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 342 | fread(&idx->n, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:355:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 355 | fread(&size, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:358:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 358 | fread(&key, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~ -bam_index.c:362:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 362 | fread(&p->n, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:366:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 366 | fread(p->list, 16, p->n, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:376:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 376 | fread(&index2->n, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:380:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 380 | fread(index2->offset, index2->n, 8, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_sort.c -o bam_sort.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_index.c -o bam_index.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2bcf.c -o bam2bcf.o -bam_index.c: In function 'bam_index_core': -bam_index.c:178:42: warning: overflow in conversion from 'uint32_t' {aka 'unsigned int'} to 'int32_t' {aka 'int'} changes value from 'last_bin = 4294967295' to '-1' [-Woverflow] - 178 | save_bin = save_tid = last_tid = last_bin = 0xffffffffu; - | ^~~~~~~~ -bam_index.c: In function 'bam_index_load_core': -bam_index.c:335:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 335 | fread(magic, 1, 4, fp); - | ^~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:342:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 342 | fread(&idx->n, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:355:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 355 | fread(&size, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:358:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 358 | fread(&key, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~ -bam_index.c:362:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 362 | fread(&p->n, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:366:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 366 | fread(p->list, 16, p->n, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:376:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 376 | fread(&index2->n, 4, 1, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ -bam_index.c:380:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] - 380 | fread(index2->offset, index2->n, 8, fp); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. faidx.c -o faidx.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_sort.c -o bam_sort.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kprobaln.c -o kprobaln.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_reheader.c -o bam_reheader.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kprobaln.c -o kprobaln.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2bcf_indel.c -o bam2bcf_indel.o ar -csru libbam.a bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o bam_pileup.o bam_lpileup.o bam_md.o razf.o faidx.o bedidx.o knetfile.o bam_sort.o sam_header.o bam_reheader.o kprobaln.o bam_cat.o ar: `u' modifier ignored since `D' is the default (see `U') ar -csru libbam.a bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o bam_pileup.o bam_lpileup.o bam_md.o razf.o faidx.o bedidx.o knetfile.o bam_sort.o sam_header.o bam_reheader.o kprobaln.o bam_cat.o @@ -556,16 +617,18 @@ gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. prob1.c -o prob1.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. em.c -o em.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. kfunc.c -o kfunc.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. kmin.c -o kmin.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. index.c -o index.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. fet.c -o fet.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. mut.c -o mut.o -gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcf2qcall.c -o bcf2qcall.o ar -csru libbam.a bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o bam_pileup.o bam_lpileup.o bam_md.o razf.o faidx.o bedidx.o knetfile.o bam_sort.o sam_header.o bam_reheader.o kprobaln.o bam_cat.o ar: `u' modifier ignored since `D' is the default (see `U') make[4]: Leaving directory '/build/samtools-legacy-0.1.19+dfsg' make[4]: Entering directory '/build/samtools-legacy-0.1.19+dfsg/bcftools' gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcf.c -o bcf.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. kmin.c -o kmin.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. index.c -o index.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. fet.c -o fet.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. mut.c -o mut.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcf2qcall.c -o bcf2qcall.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. vcf.c -o vcf.o +gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcfutils.c -o bcfutils.o gcc -c -g -O2 -ffile-prefix-map=/build/samtools-legacy-0.1.19+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wl,-z,relro -Wdate-time -D_FORTIFY_SOURCE=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. prob1.c -o prob1.o ar -csru libbcf.a bcf.o vcf.o bcfutils.o prob1.o em.o kfunc.o kmin.o index.o fet.o mut.o bcf2qcall.o ar: `u' modifier ignored since `D' is the default (see `U') @@ -667,12 +730,14 @@ 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/32425/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/32425/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/2111 and its subdirectories -I: Current time: Fri Apr 7 21:49:35 -12 2023 -I: pbuilder-time-stamp: 1680947375 +I: removing directory /srv/workspace/pbuilder/32425 and its subdirectories +I: Current time: Sat May 11 06:14:17 +14 2024 +I: pbuilder-time-stamp: 1715357657