I: pbuilder: network access will be disabled during build I: Current time: Fri May 31 20:37:12 -12 2024 I: pbuilder-time-stamp: 1717231032 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [genometester_4.0+git20200511.91cecb5+dfsg-1.dsc] I: copying [./genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz] I: copying [./genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sun May 17 18:12:20 2020 gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1 gpgv: issuer "moeller@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./genometester_4.0+git20200511.91cecb5+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting genometester in genometester-4.0+git20200511.91cecb5+dfsg dpkg-source: info: unpacking genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz dpkg-source: info: unpacking genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add_debug_symbols.patch dpkg-source: info: applying hardening.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/20976/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=11 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='0ef8c76bebdc4c73bded684af93a7274' 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='20976' 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.bFBhpNOS/pbuilderrc_jWSN --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.bFBhpNOS/b1 --logfile b1/build.log genometester_4.0+git20200511.91cecb5+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://46.16.76.132:3128' I: uname -a Linux ionos2-i386 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 28 11:24 /bin -> usr/bin I: user script /srv/workspace/pbuilder/20976/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 12) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19684 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 12); however: Package debhelper-compat is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 19.3 MB of archives. After unpacking 73.8 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.22 [22.4 kB] Get: 2 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian trixie/main i386 libmagic1t64 i386 1:5.45-3 [114 kB] Get: 4 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-3 [42.9 kB] Get: 5 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.21-14+b1 [162 kB] Get: 6 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b1 [69.1 kB] Get: 7 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-4 [1194 kB] Get: 8 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.40.1-2 [98.5 kB] Get: 9 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.7-2 [39.7 kB] Get: 10 http://deb.debian.org/debian trixie/main i386 man-db i386 2.12.1-1 [1421 kB] Get: 11 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB] Get: 12 http://deb.debian.org/debian trixie/main i386 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian trixie/main i386 autopoint all 0.21-14 [496 kB] Get: 16 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 17 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian trixie/main i386 libelf1t64 i386 0.191-1+b1 [194 kB] Get: 23 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 24 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-4+b1 [9549 kB] Get: 25 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.9.14+dfsg-1.3+b3 [727 kB] Get: 26 http://deb.debian.org/debian trixie/main i386 gettext i386 0.21-14+b1 [1311 kB] Get: 27 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian trixie/main i386 debhelper all 13.15.3 [901 kB] Fetched 19.3 MB in 1s (24.0 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 ... 19684 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_i386.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:i386. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_i386.deb ... Unpacking libmagic1t64:i386 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_i386.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-14+b1_i386.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-4_i386.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.1-2_i386.deb ... Unpacking bsdextrautils (2.40.1-2) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../08-libpipeline1_1.5.7-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.1-1_i386.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_i386.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:i386. Preparing to unpack .../21-libelf1t64_0.191-1+b1_i386.deb ... Unpacking libelf1t64:i386 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_i386.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:i386. Preparing to unpack .../23-libicu72_72.1-4+b1_i386.deb ... Unpacking libicu72:i386 (72.1-4+b1) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../24-libxml2_2.9.14+dfsg-1.3+b3_i386.deb ... Unpacking libxml2:i386 (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.21-14+b1_i386.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Setting up libpipeline1:i386 (1.5.7-2) ... Setting up libicu72:i386 (72.1-4+b1) ... Setting up bsdextrautils (2.40.1-2) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libmagic1t64:i386 (1:5.45-3) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:i386 (0.191-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:i386 (0.0.8-1+b1) ... Setting up libxml2:i386 (2.9.14+dfsg-1.3+b3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.15.3) ... Processing triggers for libc-bin (2.38-11) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/genometester-4.0+git20200511.91cecb5+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 > ../genometester_4.0+git20200511.91cecb5+dfsg-1_source.changes dpkg-buildpackage: info: source package genometester dpkg-buildpackage: info: source version 4.0+git20200511.91cecb5+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_clean cd src && make -j11 clean make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' rm -f *.o glistmaker glistquery glistcompare make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' rm -f src/gdistribution src/gmer_caller src/gmer_counter make[1]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_build cd src && make -j11 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc glistmaker.c common.c common.h fasta.c fasta.h wordtable.c wordtable.h wordmap.c wordmap.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h queue.c queue.h utils.c utils.h -o glistmaker -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gcc glistquery.c wordtable.c wordtable.h wordmap.c wordmap.h fasta.c fasta.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h common.c common.h queue.c queue.h utils.c utils.h -o glistquery -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gcc glistcompare.c wordtable.c wordmap.c fasta.c buffer.c sequence.c sequence-file.c sequence-file.h common.c queue.c queue.h utils.c -o glistcompare -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now glistquery.c: In function ‘main’: glistquery.c:277:116: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 277 | fprintf (stderr, "Error: Incompatible wordlengths! Wordlength in list: %u, query length: %lu\n", p.wordlength, strlen (querystring)); | ~~^ ~~~~~~~~~~~~~~~~~~~~ | | | | long unsigned int size_t {aka unsigned int} | %u glistquery.c: In function ‘search_n_query_strings’: glistquery.c:339:124: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 339 | fprintf (stderr, "Error: Incompatible wordlengths! Wordlength in list: %u, query length: %lu\n", p->wordlength, strlen (querystring)); | ~~^ ~~~~~~~~~~~~~~~~~~~~ | | | | long unsigned int size_t {aka unsigned int} | %u glistmaker.c: In function ‘process’: glistmaker.c:380:33: warning: ‘t’ may be used uninitialized [-Wmaybe-uninitialized] 380 | wordtable_build_filename (t[0], c, 1024, outputname); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ glistmaker.c:373:44: note: ‘t’ declared here 373 | wordtable *t[MAX_MERGED_TABLES]; | ^ queue.c: In function ‘scout_map’: queue.c:251:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 251 | return (void *) val; | ^ queue.c: In function ‘scout_map’: queue.c:251:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 251 | return (void *) val; | ^ queue.c: In function ‘scout_map’: queue.c:251:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 251 | return (void *) val; | ^ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_counter cd src && make -j11 "INSTALL=install --strip-program=true" gmer_counter make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gmer_counter.c index.c index.h trie.c trie.h wordmap.c wordmap.h sequence.c sequence.h sequence-file.c sequence-file.h wordtable.c wordtable.h fasta.c fasta.h thread-pool.c thread-pool.h queue.c queue.h utils.c utils.h database.c database.h -o gmer_counter -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall thread-pool.c: In function ‘aosora_thread_pool_delete’: thread-pool.c:88:111: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 88 | fprintf (stderr, "aosora_thread_pool_delete: Thread %d exited with result %llu\n", i, (unsigned long long) res); | ^ queue.c: In function ‘scout_map’: queue.c:251:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 251 | return (void *) val; | ^ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_caller cd src && make -j11 "INSTALL=install --strip-program=true" gmer_caller make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc binomial.c binomial.h genotypes.c genotypes.h simplex.c simplex.h thread-pool.c thread-pool.h utils.c utils.h gmer_caller.c -o gmer_caller -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall thread-pool.c: In function ‘aosora_thread_pool_delete’: thread-pool.c:88:111: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 88 | fprintf (stderr, "aosora_thread_pool_delete: Thread %d exited with result %llu\n", i, (unsigned long long) res); | ^ gmer_caller.c: In function ‘main’: gmer_caller.c:495:16: warning: variable ‘coverage_specified’ set but not used [-Wunused-but-set-variable] 495 | unsigned int coverage_specified = 0; | ^~~~~~~~~~~~~~~~~~ gmer_caller.c: At top level: gmer_caller.c:903:1: warning: ‘logL2’ defined but not used [-Wunused-function] 903 | logL2 (const float arg[], unsigned int count, unsigned int tulem2[], unsigned int katvus2[]) | ^~~~~ gmer_caller.c: In function ‘parse_calls’: gmer_caller.c:167:24: warning: ‘best_a’ may be used uninitialized [-Wmaybe-uninitialized] 167 | calls[i].counts[0] = best_a; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ gmer_caller.c:150:9: note: ‘best_a’ was declared here 150 | int best_a, best_b, best_delta; | ^~~~~~ gmer_caller.c:168:24: warning: ‘best_b’ may be used uninitialized [-Wmaybe-uninitialized] 168 | calls[i].counts[1] = best_b; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ gmer_caller.c:150:17: note: ‘best_b’ was declared here 150 | int best_a, best_b, best_delta; | ^~~~~~ gmer_caller.c: In function ‘main’: gmer_caller.c:785:9: warning: ‘calls_x’ may be used uninitialized [-Wmaybe-uninitialized] 785 | print_genotypes (lines, calls_x, nx, params, pB, (non_canonical) ? 0 : 2, prob_cutoff, alternatives, nthreads); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gmer_caller.c:509:22: note: ‘calls_x’ was declared here 509 | SNPCall *calls_a, *calls_x, *calls_y; | ^~~~~~~ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gdistribution cd src && make -j11 "INSTALL=install --strip-program=true" gdistribution make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gdistribution.c wordtable.c wordmap.c fasta.c buffer.c sequence.c sequence-file.c sequence-file.h common.c queue.c queue.h utils.c -o gdistribution -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gdistribution.c: In function ‘main’: gdistribution.c:55:9: warning: unused variable ‘freqs’ [-Wunused-variable] 55 | Freq *freqs; | ^~~~~ queue.c: In function ‘scout_map’: queue.c:251:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 251 | return (void *) val; | ^ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src dh_auto_install --destdir=debian/genometester/ -O--sourcedirectory=src dh_install -O--sourcedirectory=src dh_installdocs -O--sourcedirectory=src dh_installchangelogs -O--sourcedirectory=src dh_installman -O--sourcedirectory=src dh_installinit -O--sourcedirectory=src dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src dh_fixperms -O--sourcedirectory=src dh_missing -O--sourcedirectory=src dh_dwz -O--sourcedirectory=src dh_strip -O--sourcedirectory=src dh_makeshlibs -O--sourcedirectory=src dh_shlibdeps -O--sourcedirectory=src dh_installdeb -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'genometester' in '../genometester_4.0+git20200511.91cecb5+dfsg-1_i386.deb'. dpkg-deb: building package 'genometester-dbgsym' in '../genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_i386.deb'. dpkg-genbuildinfo --build=binary -O../genometester_4.0+git20200511.91cecb5+dfsg-1_i386.buildinfo dpkg-genchanges --build=binary -O../genometester_4.0+git20200511.91cecb5+dfsg-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration 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/20976 and its subdirectories I: Current time: Fri May 31 20:38:10 -12 2024 I: pbuilder-time-stamp: 1717231090