Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/p/primer3/primer3_2.4.0-4_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/primer3-2.4.0-42cg7zo0n/primer3_2.4.0-4_all.buildinfo Get source package info: primer3=2.4.0-4 Source URL: http://snapshot.notset.fr/mr/package/primer3/2.4.0-4/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.69-11.1 automake=1:1.16.2-1 autopoint=0.19.8.1-10 autotools-dev=20180224.1 base-files=11 base-passwd=3.5.47 bash=5.0-6 binutils=2.34-8 binutils-common=2.34-8 binutils-x86-64-linux-gnu=2.34-8 bsdextrautils=2.35.2-6 bsdutils=1:2.35.2-6 build-essential=12.8 bzip2=1.0.8-3 coreutils=8.32-2 cpp=4:9.2.1-3.1 cpp-9=9.3.0-14 dash=0.5.10.2-7 debconf=1.5.74 debhelper=13.1 debianutils=4.11 dh-autoreconf=19 dh-strip-nondeterminism=1.8.1-1 diffutils=1:3.7-3 dmsetup=2:1.02.167-1+b1 dpkg=1.20.3 dpkg-dev=1.20.3 dwz=0.13-5 file=1:5.38-5 findutils=4.7.0-1 g++=4:9.2.1-3.1 g++-9=9.3.0-14 gcc=4:9.2.1-3.1 gcc-10-base=10.1.0-4 gcc-9=9.3.0-14 gcc-9-base=9.3.0-14 gettext=0.19.8.1-10 gettext-base=0.19.8.1-10 grep=3.4-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 init-system-helpers=1.57 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-8 libarchive-zip-perl=1.68-1 libargon2-1=0~20171227-0.2 libasan5=9.3.0-14 libatomic1=10.1.0-4 libattr1=1:2.4.48-5 libaudit-common=1:2.8.5-3 libaudit1=1:2.8.5-3+b1 libbinutils=2.34-8 libblkid1=2.35.2-6 libbz2-1.0=1.0.8-3 libc-bin=2.30-8 libc-dev-bin=2.30-8 libc6=2.30-8 libc6-dev=2.30-8 libcap-ng0=0.7.9-2.2 libcc1-0=10.1.0-4 libcroco3=0.6.13-1 libcrypt-dev=1:4.4.16-1 libcrypt1=1:4.4.16-1 libcryptsetup12=2:2.3.3-1 libctf-nobfd0=2.34-8 libctf0=2.34-8 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.252 libdebhelper-perl=13.1 libdevmapper1.02.1=2:1.02.167-1+b1 libdpkg-perl=1.20.3 libelf1=0.176-1.1 libffi7=3.3-4 libfile-stripnondeterminism-perl=1.8.1-1 libgcc-9-dev=9.3.0-14 libgcc-s1=10.1.0-4 libgcrypt20=1.8.5-5 libgdbm-compat4=1.18.1-5 libgdbm6=1.18.1-5 libglib2.0-0=2.64.3-2 libgmp10=2:6.2.0+dfsg-6 libgomp1=10.1.0-4 libgpg-error0=1.38-1 libicu67=67.1-2 libisl22=0.22.1-1 libitm1=10.1.0-4 libjson-c4=0.13.1+dfsg-9 liblsan0=10.1.0-4 liblz4-1=1.9.2-2 liblzma5=5.2.4-1+b1 libmagic-mgc=1:5.38-5 libmagic1=1:5.38-5 libmount1=2.35.2-6 libmpc3=1.1.0-1 libmpfr6=4.0.2-1 libpam-modules=1.3.1-5 libpam-modules-bin=1.3.1-5 libpam-runtime=1.3.1-5 libpam0g=1.3.1-5 libpcre2-8-0=10.34-7 libpcre3=2:8.39-13 libperl5.30=5.30.3-4 libpipeline1=1.5.2-2 libquadmath0=10.1.0-4 libseccomp2=2.4.3-1+b1 libselinux1=3.0-1+b3 libsigsegv2=2.12-2 libsmartcols1=2.35.2-6 libssl1.1=1.1.1g-1 libstdc++-9-dev=9.3.0-14 libstdc++6=10.1.0-4 libsub-override-perl=0.09-2 libsystemd0=245.6-1 libtinfo6=6.2-1 libtool=2.4.6-14 libtsan0=10.1.0-4 libubsan1=10.1.0-4 libuchardet0=0.0.7-1 libudev1=245.6-1 libunistring2=0.9.10-4 libuuid1=2.35.2-6 libxml2=2.9.10+dfsg-5+b1 linux-libc-dev=5.7.6-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-4 make=4.3-4 man-db=2.9.3-1 mawk=1.3.4.20200120-2 ncurses-base=6.2-1 ncurses-bin=6.2-1 patch=2.7.6-6 perl=5.30.3-4 perl-base=5.30.3-4 perl-modules-5.30=5.30.3-4 po-debconf=1.0.21 sed=4.7-1 sensible-utils=0.0.12+nmu1 sysvinit-utils=2.96-3 tar=1.30+dfsg-7 util-linux=2.35.2-6 xz-utils=5.2.4-1+b1 zlib1g=1:1.2.11.dfsg-2 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20200707T204641Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20200701T205447Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d primer3=2.4.0-4 && mkdir -p /build/primer3-jDUerU && dpkg-source --no-check -x /*.dsc /build/primer3-jDUerU/primer3-2.4.0 && chown -R builduser:builduser /build/primer3-jDUerU" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/primer3-jDUerU/primer3-2.4.0 && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1593720740" dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/primer3-jDUerU /tmp/primer3-2.4.0-42cg7zo0n bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20200701T205447Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: tar I: using /tmp/mmdebstrap.CUyW5p_oZY as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.CUyW5p_oZY Reading package lists... Building dependency tree... util-linux is already the newest version (2.35.2-6). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 132 kB of archives. After this operation, 393 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20200701T205447Z unstable/main amd64 libfakeroot amd64 1.24-1 [45.7 kB] Get:2 http://snapshot.notset.fr/archive/debian/20200701T205447Z unstable/main amd64 fakeroot amd64 1.24-1 [85.9 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 132 kB in 0s (744 kB/s) Selecting previously unselected package libfakeroot:amd64. (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 ... 4632 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.24-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.24-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.24-1_amd64.deb ... Unpacking fakeroot (1.24-1) ... Setting up libfakeroot:amd64 (1.24-1) ... Setting up fakeroot (1.24-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.30-8) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20200707T204641Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20200701T205447Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.CUyW5p_oZY Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Get:2 http://snapshot.notset.fr/archive/debian/20200707T204641Z unstable InRelease [146 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20200701T205447Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20200707T204641Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20200707T204641Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20200707T204641Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20200707T204641Z unstable/main amd64 Packages [11.2 MB] Fetched 33.9 MB in 29s (1189 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.CUyW5p_oZY I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d primer3=2.4.0-4 && mkdir -p /build/primer3-jDUerU && dpkg-source --no-check -x /*.dsc /build/primer3-jDUerU/primer3-2.4.0 && chown -R builduser:builduser /build/primer3-jDUerU"' exec /tmp/mmdebstrap.CUyW5p_oZY Reading package lists... NOTICE: 'primer3' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/primer3.git Please use: git clone https://salsa.debian.org/med-team/primer3.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 31.8 MB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main primer3 2.4.0-4 (dsc) [2101 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main primer3 2.4.0-4 (tar) [31.7 MB] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main primer3 2.4.0-4 (tar) [31.7 MB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main primer3 2.4.0-4 (diff) [12.7 kB] Fetched 21.0 MB in 55s (378 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'primer3_2.4.0-4.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting primer3 in /build/primer3-jDUerU/primer3-2.4.0 dpkg-source: info: unpacking primer3_2.4.0.orig.tar.gz dpkg-source: info: unpacking primer3_2.4.0-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying primer_thermodynamic_parameters_path_2_etc.patch dpkg-source: info: applying gcc-7.patch dpkg-source: info: applying p3test_fix_exit_status.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/primer3-jDUerU/primer3-2.4.0 && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1593720740" dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.CUyW5p_oZY dpkg-buildpackage: info: source package primer3 dpkg-buildpackage: info: source version 2.4.0-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Gianfranco Costamagna dpkg-source --before-build . debian/rules clean dh clean --sourcedirectory=src dh_auto_clean -O--sourcedirectory=src cd src && make -j4 clean make[1]: Entering directory '/build/primer3-jDUerU/primer3-2.4.0/src' rm -f *.o primer3_core ntdpal ntthal oligotm long_seq_tm_test primer3_masker *~ libprimer3.a libdpal.a libthal.a liboligotm.a libmasker.a libprimer3.so.1.0.0 libdpal.a.so.1.0.0 libthal.a.so.1.0.0 liboligotm.so.1.2.0 libmasker.a.so.1.0.0 example.for example.rev example.int core ../*~ cd ../test/; make clean make[2]: Entering directory '/build/primer3-jDUerU/primer3-2.4.0/test' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. echo; echo; echo 'CLEAN UP TEST DIRECTORIES'; echo; echo; CLEAN UP TEST DIRECTORIES rm -rf primer_list_tmp/* rm -rf primer1_list_tmp/* rm -rf primer1_th_list_tmp/* rm -rf th-w-other-tasks_list_tmp/* rm -f primer_global_err/*.tmp primer_global_err/*.tmp2 primer_global_err/*.bak rm -f *.tmp *.bak *.tmp.err *~ rm -f hyb_probe_only.for hyb_probe_only.int rm -f right_only.for right_only.rev left_only.for rm -f pcr_primers_and_io.int pcr_primers_and_io.rev pcr_primers_and_io.for rm -f pcr_primers.rev pcr_primers.for rm -f pick_primer_list_and_file_flag_th_[1-4].for pick_primer_list_and_file_flag_th_[1-4].rev rm -f pick_primer_list_and_file_flag_th_[1-4].int rm -f syntax[0-1][0-9].for syntax[0-1][0-9].int syntax[0-1][0-9].rev rm -f oligotm.*.valg # valgrind output from oligotm_test.pl --valgrind rm -f ntdpal.*.valg # valgrind output from dpal_test.pl --valgrind rm -f ntthal.*.valg # valgrind output from thal_test.pl --valgrind rm -f masker.*.valg # valgrind output from thal_test.pl --valgrind rm -f oligotm.*.valg.* # valgrind output from oligotm_test.pl --valgrind rm -f ntdpal.*.valg.* # valgrind output from dpal_test.pl --valgrind rm -f ntthal.*.valg.* # valgrind output from thal_test.pl --valgrind rm -f masker.*.valg.* # valgrind output from masker_test.pl --valgrind rm -f *.vg */*.vg # valgrind output from p3test{,z}.pl --valgrind rm -f *.vg.core.* # core files from crashed valgrind test rm -f ./core # in case we crashed and left a core file make[2]: Leaving directory '/build/primer3-jDUerU/primer3-2.4.0/test' make[1]: Leaving directory '/build/primer3-jDUerU/primer3-2.4.0/src' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary-indep dh binary-indep --sourcedirectory=src dh_update_autotools_config -i -O--sourcedirectory=src dh_autoreconf -i -O--sourcedirectory=src dh_auto_configure -i -O--sourcedirectory=src debian/rules override_dh_auto_build make[1]: Entering directory '/build/primer3-jDUerU/primer3-2.4.0' dh_auto_build -- 'CPP=$(CXX)' cd src && make -j4 "INSTALL=install --strip-program=true" CPP=\$\(CXX\) make[2]: Entering directory '/build/primer3-jDUerU/primer3-2.4.0/src' g++ -c -g -O2 -fdebug-prefix-map=/build/primer3-jDUerU/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 primer3_boulder_main.c g++ -c -g -O2 -fdebug-prefix-map=/build/primer3-jDUerU/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o format_output.o format_output.c g++ -c -g -O2 -fdebug-prefix-map=/build/primer3-jDUerU/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o read_boulder.o read_boulder.c g++ -c -g -O2 -fdebug-prefix-map=/build/primer3-jDUerU/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o print_boulder.o print_boulder.c g++ -c -g -O2 -fdebug-prefix-map=/build/primer3-jDUerU/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 masker.c g++ -c -g -O2 -fdebug-prefix-map=/build/primer3-jDUerU/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -Wno-deprecated -o libprimer3.o libprimer3.c g++ -c -g -O2 -fdebug-prefix-map=/build/primer3-jDUerU/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o p3_seq_lib.o p3_seq_lib.c g++ -c -g -O2 -fdebug-prefix-map=/build/primer3-jDUerU/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o dpal_primer.o dpal.c dpal.c: In function ‘void print_align(const unsigned char*, const unsigned char*, int (*)[1600][3], int, int, const dpal_args*)’: dpal.c:1036:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1036 | for(i=j;i../primer3_2.4.0-4_all.changes dpkg-genchanges: info: binary-only arch-indep upload (source code and arch-specific packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/primer3-jDUerU /tmp/primer3-2.4.0-42cg7zo0n I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.CUyW5p_oZY... I: success in 1520.2921 seconds md5: primer3-examples_2.4.0-4_all.deb: OK sha1: primer3-examples_2.4.0-4_all.deb: OK sha256: primer3-examples_2.4.0-4_all.deb: OK Checksums: OK