Diff of the two buildlogs: -- --- b1/build.log 2019-06-21 19:28:49.839060376 +0000 +++ b2/build.log 2019-06-21 19:29:48.336333837 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Jun 21 07:14:46 -12 2019 -I: pbuilder-time-stamp: 1561144486 +I: Current time: Fri Jul 24 15:51:51 +14 2020 +I: pbuilder-time-stamp: 1595555511 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration @@ -18,7 +18,7 @@ I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error -gpgv: Signature made Sat Oct 27 03:02:01 2018 -12 +gpgv: Signature made Sun Oct 28 05:02:01 2018 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -31,6 +31,18 @@ dpkg-source: info: applying 0002-prefix-files-in-unit-tests.patch I: using fakeroot in build. I: Installing the build-deps +I: user script /srv/workspace/pbuilder/52428/tmp/hooks/D01_modify_environment starting +disorder-fs debug: Running on profitbricks-build6-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 +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by 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/52428/tmp/hooks/D01_modify_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -143,7 +155,7 @@ Get: 67 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgslcblas0 i386 2.5+dfsg-6 [99.2 kB] Get: 68 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgsl23 i386 2.5+dfsg-6 [855 kB] Get: 69 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgsl-dev i386 2.5+dfsg-6 [1076 kB] -Fetched 34.1 MB in 32s (1061 kB/s) +Fetched 34.1 MB in 8s (4108 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (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 ... 19231 files and directories currently installed.) @@ -446,9 +458,41 @@ Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). -0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +The following additional packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl +The following NEW packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge +0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. +Need to get 59.5 kB of archives. +After this operation, 182 kB of additional disk space will be used. +Get:1 http://cdn-fastly.deb.debian.org/debian buster/main i386 libnumber-compare-perl all 0.03-1 [7642 B] +Get:2 http://cdn-fastly.deb.debian.org/debian buster/main i386 libtext-glob-perl all 0.10-1 [8362 B] +Get:3 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfile-find-rule-perl all 0.34-1 [30.6 kB] +Get:4 http://cdn-fastly.deb.debian.org/debian buster/main i386 usrmerge all 21 [12.8 kB] +debconf: delaying package configuration, since apt-utils is not installed +Fetched 59.5 kB in 1s (99.6 kB/s) +Selecting previously unselected package libnumber-compare-perl. +(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 ... 23543 files and directories currently installed.) +Preparing to unpack .../libnumber-compare-perl_0.03-1_all.deb ... +Unpacking libnumber-compare-perl (0.03-1) ... +Selecting previously unselected package libtext-glob-perl. +Preparing to unpack .../libtext-glob-perl_0.10-1_all.deb ... +Unpacking libtext-glob-perl (0.10-1) ... +Selecting previously unselected package libfile-find-rule-perl. +Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... +Unpacking libfile-find-rule-perl (0.34-1) ... +Selecting previously unselected package usrmerge. +Preparing to unpack .../archives/usrmerge_21_all.deb ... +Unpacking usrmerge (21) ... +Setting up libtext-glob-perl (0.10-1) ... +Setting up libnumber-compare-perl (0.03-1) ... +Setting up libfile-find-rule-perl (0.34-1) ... +Setting up usrmerge (21) ... +The system has been successfully converted. +Processing triggers for man-db (2.8.5-2) ... +Not building database; man-db/auto-update is not 'true'. I: Building the package -I: Running cd /build/andi-0.12/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b +I: Running cd /build/andi-0.12/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package andi dpkg-buildpackage: info: source version 0.12-4 dpkg-buildpackage: info: source distribution unstable @@ -500,7 +544,7 @@ configure: WARNING: unrecognized options: --disable-maintainer-mode checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes -checking for a thread-safe mkdir -p... /bin/mkdir -p +checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes @@ -531,8 +575,8 @@ checking for cos in -lm... yes checking for cblas_dgemm in -lgslcblas... yes checking for gsl_ran_binomial in -lgsl... yes -checking for grep that handles long lines and -e... /bin/grep -checking for egrep... /bin/grep -E +checking for grep that handles long lines and -e... /usr/bin/grep +checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes @@ -603,7 +647,7 @@ configure: WARNING: unrecognized options: --disable-maintainer-mode make[1]: Leaving directory '/build/andi-0.12' dh_auto_build - make -j10 + make -j18 make[1]: Entering directory '/build/andi-0.12' Making all in . make[2]: Entering directory '/build/andi-0.12' @@ -660,10 +704,16 @@ gcc -DHAVE_CONFIG_H -I. -I../src -fopenmp -I../src -I../opt -I../libs -DDEBUG -std=gnu99 -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -Wall -Wextra -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -Wno-missing-field-initializers -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -c -o test_process-esa.o `test -f '../src/esa.c' || echo './'`../src/esa.c gcc -DHAVE_CONFIG_H -I. -I../src -fopenmp -I../src -I../opt -I../libs -DDEBUG -std=gnu99 -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -Wall -Wextra -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -Wno-missing-field-initializers -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -c -o test_process-io.o `test -f '../src/io.c' || echo './'`../src/io.c gcc -DHAVE_CONFIG_H -I. -I../src -fopenmp -I../src -I../opt -I../libs -DDEBUG -std=gnu99 -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -Wall -Wextra -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -Wno-missing-field-initializers -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -c -o test_process-model.o `test -f '../src/model.c' || echo './'`../src/model.c +gcc -DHAVE_CONFIG_H -I. -I../src -fopenmp -I../src -I../opt -I../libs -DDEBUG -std=gnu99 -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -Wall -Wextra -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -Wno-missing-field-initializers -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -c -o test_process-process.o `test -f '../src/process.c' || echo './'`../src/process.c +gcc -DHAVE_CONFIG_H -I. -I../src -fopenmp -I../src -I../opt -I../libs -DDEBUG -std=gnu99 -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -Wall -Wextra -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -Wno-missing-field-initializers -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -c -o test_process-sequence.o `test -f '../src/sequence.c' || echo './'`../src/sequence.c ../src/sequence.c: In function 'normalize': ../src/sequence.c:277: warning: ignoring #pragma omp atomic [-Wunknown-pragmas] #pragma omp atomic +../src/process.c: In function 'anchor': +../src/process.c:208:30: warning: unused parameter 'last_match' [-Wunused-parameter] + const struct anchor *last_match, + ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ test_esa.c: In function 'setup': test_esa.c:45:44: warning: unused parameter 'test_data' [-Wunused-parameter] void setup( esa_fixture *ef, gconstpointer test_data){ @@ -688,20 +738,14 @@ test_esa.c:171:45: warning: unused parameter 'test_data' [-Wunused-parameter] void prefix( esa_fixture *ef, gconstpointer test_data){ ~~~~~~~~~~~~~~^~~~~~~~~ -gcc -DHAVE_CONFIG_H -I. -I../src -fopenmp -I../src -I../opt -I../libs -DDEBUG -std=gnu99 -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -Wall -Wextra -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -Wno-missing-field-initializers -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -c -o test_process-process.o `test -f '../src/process.c' || echo './'`../src/process.c -gcc -DHAVE_CONFIG_H -I. -I../src -fopenmp -I../src -I../opt -I../libs -DDEBUG -std=gnu99 -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -Wall -Wextra -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -Wno-missing-field-initializers -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -c -o test_process-sequence.o `test -f '../src/sequence.c' || echo './'`../src/sequence.c -../src/process.c: In function 'anchor': -../src/process.c:208:30: warning: unused parameter 'last_match' [-Wunused-parameter] - const struct anchor *last_match, - ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -gcc -Wall -Wextra -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -Wno-missing-field-initializers -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o test_seq test_seq-test_seq.o test_seq-sequence.o -lglib-2.0 ../opt/libcompat.a -ldivsufsort -lgsl -lgslcblas -lm -g++ -fopenmp -Wall -Wextra -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o test_esa test_esa-test_esa.o test_esa-esa.o test_esa-sequence.o -lglib-2.0 ../opt/libcompat.a -ldivsufsort -lgsl -lgslcblas -lm -g++ -fopenmp -Wall -Wextra -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o test_process test_process-test_process.o test_process-esa.o test_process-io.o test_process-model.o test_process-process.o test_process-sequence.o -lglib-2.0 ../opt/libcompat.a ../libs/libpfasta.a -ldivsufsort -lgsl -lgslcblas -lm +gcc -Wall -Wextra -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -Wno-missing-field-initializers -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o test_seq test_seq-test_seq.o test_seq-sequence.o -L/usr/lib/i386-linux-gnu -lglib-2.0 ../opt/libcompat.a -ldivsufsort -lgsl -lgslcblas -lm +g++ -fopenmp -Wall -Wextra -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o test_esa test_esa-test_esa.o test_esa-esa.o test_esa-sequence.o -L/usr/lib/i386-linux-gnu -lglib-2.0 ../opt/libcompat.a -ldivsufsort -lgsl -lgslcblas -lm +g++ -fopenmp -Wall -Wextra -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o test_process test_process-test_process.o test_process-esa.o test_process-io.o test_process-model.o test_process-process.o test_process-sequence.o -L/usr/lib/i386-linux-gnu -lglib-2.0 ../opt/libcompat.a ../libs/libpfasta.a -ldivsufsort -lgsl -lgslcblas -lm g++ -g -O2 -ffile-prefix-map=/build/andi-0.12=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o test_fasta test_fasta.o -ldivsufsort -lgsl -lgslcblas -lm make[2]: Leaving directory '/build/andi-0.12/test' make[1]: Leaving directory '/build/andi-0.12' dh_auto_test - make -j10 check VERBOSE=1 + make -j18 check VERBOSE=1 make[1]: Entering directory '/build/andi-0.12' Making check in . make[2]: Entering directory '/build/andi-0.12' @@ -711,9 +755,9 @@ PASS: test/test_seq PASS: test/test_process PASS: test/nan.sh +PASS: test/low_homo.sh PASS: test/test_join.sh PASS: test/test_extra.sh -PASS: test/low_homo.sh PASS: test/test_esa PASS: test/test_random.sh ============================================================================ @@ -762,13 +806,13 @@ dh_testroot dh_prep dh_auto_install - make -j10 install DESTDIR=/build/andi-0.12/debian/andi AM_UPDATE_INFO_DIR=no + make -j18 install DESTDIR=/build/andi-0.12/debian/andi AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/andi-0.12' Making install in . make[2]: Entering directory '/build/andi-0.12' make[3]: Entering directory '/build/andi-0.12' make[3]: Nothing to be done for 'install-exec-am'. - /bin/mkdir -p '/build/andi-0.12/debian/andi/usr/share/doc/andi' + /usr/bin/mkdir -p '/build/andi-0.12/debian/andi/usr/share/doc/andi' /usr/bin/install -c -m 644 andi-manual.pdf '/build/andi-0.12/debian/andi/usr/share/doc/andi' make[3]: Leaving directory '/build/andi-0.12' make[2]: Leaving directory '/build/andi-0.12' @@ -790,7 +834,7 @@ make[2]: Entering directory '/build/andi-0.12/src' make[3]: Entering directory '/build/andi-0.12/src' make[3]: Nothing to be done for 'install-data-am'. - /bin/mkdir -p '/build/andi-0.12/debian/andi/usr/bin' + /usr/bin/mkdir -p '/build/andi-0.12/debian/andi/usr/bin' /usr/bin/install -c andi '/build/andi-0.12/debian/andi/usr/bin' make[3]: Leaving directory '/build/andi-0.12/src' make[2]: Leaving directory '/build/andi-0.12/src' @@ -798,7 +842,7 @@ make[2]: Entering directory '/build/andi-0.12/docs' make[3]: Entering directory '/build/andi-0.12/docs' make[3]: Nothing to be done for 'install-exec-am'. - /bin/mkdir -p '/build/andi-0.12/debian/andi/usr/share/man/man1' + /usr/bin/mkdir -p '/build/andi-0.12/debian/andi/usr/share/man/man1' /usr/bin/install -c -m 644 andi.1 '/build/andi-0.12/debian/andi/usr/share/man/man1' make[3]: Leaving directory '/build/andi-0.12/docs' make[2]: Leaving directory '/build/andi-0.12/docs' @@ -829,20 +873,22 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'andi-dbgsym' in '../andi-dbgsym_0.12-4_i386.deb'. dpkg-deb: building package 'andi' in '../andi_0.12-4_i386.deb'. +dpkg-deb: building package 'andi-dbgsym' in '../andi-dbgsym_0.12-4_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../andi_0.12-4_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) I: copying local configuration +I: user script /srv/workspace/pbuilder/52428/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/52428/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/3940 and its subdirectories -I: Current time: Fri Jun 21 07:28:49 -12 2019 -I: pbuilder-time-stamp: 1561145329 +I: removing directory /srv/workspace/pbuilder/52428 and its subdirectories +I: Current time: Fri Jul 24 15:52:48 +14 2020 +I: pbuilder-time-stamp: 1595555568