Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/t/tiddit/tiddit_2.12.0+dfsg-3+b1_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/tiddit-2.12.0+dfsg-3+b1wgonaox3/tiddit_2.12.0+dfsg-3+b1_amd64.buildinfo Get source package info: tiddit=2.12.0+dfsg-3 Source URL: http://snapshot.notset.fr/mr/package/tiddit/2.12.0+dfsg-3/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.69-11.1 automake=1:1.16.2-4 autopoint=0.19.8.1-10 autotools-dev=20180224.1 base-files=11 base-passwd=3.5.48 bash=5.1~rc2-1 binutils=2.35.1-3 binutils-common=2.35.1-3 binutils-x86-64-linux-gnu=2.35.1-3 bsdextrautils=2.36.1-1 bsdutils=1:2.36.1-1 build-essential=12.8 bzip2=1.0.8-4 cmake=3.18.4-1 cmake-data=3.18.4-1 coreutils=8.32-4+b1 cpp=4:10.2.0-1 cpp-10=10.2.0-17 cython3=0.29.21-3 dash=0.5.11+git20200708+dd9ef66-2 debconf=1.5.74 debhelper=13.2.1 debianutils=4.11.2 dh-autoreconf=19 dh-python=4.20201102 dh-strip-nondeterminism=1.9.0-1 diffutils=1:3.7-3 dpkg=1.20.5 dpkg-dev=1.20.5 dwz=0.13-5 file=1:5.38-5 findutils=4.7.0+git20201010-2 g++=4:10.2.0-1 g++-10=10.2.0-17 gcc=4:10.2.0-1 gcc-10=10.2.0-17 gcc-10-base=10.2.0-17 gettext=0.19.8.1-10 gettext-base=0.19.8.1-10 grep=3.6-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 init-system-helpers=1.58 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-8 libarchive-zip-perl=1.68-1 libarchive13=3.4.3-2 libasan6=10.2.0-17 libatomic1=10.2.0-17 libattr1=1:2.4.48-5 libaudit-common=1:2.8.5-3.1 libaudit1=1:2.8.5-3.1 libbamtools-dev=2.5.1+dfsg-7 libbamtools2.5.1=2.5.1+dfsg-7 libbinutils=2.35.1-3 libblkid1=2.36.1-1 libbrotli1=1.0.9-2+b1 libbz2-1.0=1.0.8-4 libc-bin=2.31-4 libc-dev-bin=2.31-4 libc6=2.31-4 libc6-dev=2.31-4 libcap-ng0=0.7.9-2.2 libcc1-0=10.2.0-17 libcom-err2=1.45.6-1 libcroco3=0.6.13-1 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libctf-nobfd0=2.35.1-3 libctf0=2.35.1-3 libcurl4=7.72.0-1 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.255 libdebhelper-perl=13.2.1 libdpkg-perl=1.20.5 libelf1=0.182-1 libexpat1=2.2.10-1 libexpat1-dev=2.2.10-1 libffi7=3.3-5 libfile-stripnondeterminism-perl=1.9.0-1 libgcc-10-dev=10.2.0-17 libgcc-s1=10.2.0-17 libgcrypt20=1.8.7-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libglib2.0-0=2.66.2-1 libgmp10=2:6.2.1+dfsg-1 libgnutls30=3.6.15-4 libgomp1=10.2.0-17 libgpg-error0=1.38-2 libgssapi-krb5-2=1.17-10 libhogweed6=3.6-2 libicu67=67.1-4 libidn2-0=2.3.0-4 libisl22=0.22.1-1 libitm1=10.2.0-17 libjsoncpp1=1.7.4-3.1 libk5crypto3=1.17-10 libkeyutils1=1.6.1-2 libkrb5-3=1.17-10 libkrb5support0=1.17-10 libldap-2.4-2=2.4.56+dfsg-1 liblsan0=10.2.0-17 liblz4-1=1.9.2-2 liblzma5=5.2.4-1+b1 libmagic-mgc=1:5.38-5 libmagic1=1:5.38-5 libmount1=2.36.1-1 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libncurses6=6.2+20200918-1 libncursesw6=6.2+20200918-1 libnettle8=3.6-2 libnghttp2-14=1.41.0-3 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libnss-nis=3.1-4 libnss-nisplus=1.3-4 libp11-kit0=0.23.21-2 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 libperl5.32=5.32.0-5 libpipeline1=1.5.3-1 libprocps8=2:3.3.16-5 libpsl5=0.21.0-1.1 libpython3-dev=3.9.0-3 libpython3-stdlib=3.9.0-3 libpython3.9=3.9.0-5 libpython3.9-dev=3.9.0-5 libpython3.9-minimal=3.9.0-5 libpython3.9-stdlib=3.9.0-5 libquadmath0=10.2.0-17 libreadline8=8.1~rc2-2 librhash0=1.4.0-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg-2 libsasl2-modules-db=2.1.27+dfsg-2 libseccomp2=2.5.0-3 libselinux1=3.1-2+b1 libsigsegv2=2.12-2 libsmartcols1=2.36.1-1 libsqlite3-0=3.33.0-1 libssh2-1=1.8.0-2.1 libssl1.1=1.1.1h-1 libstdc++-10-dev=10.2.0-17 libstdc++6=10.2.0-17 libsub-override-perl=0.09-2 libsystemd0=246.6-3 libtasn1-6=4.16.0-2 libtinfo6=6.2+20200918-1 libtirpc-common=1.2.6-3 libtirpc-dev=1.2.6-3 libtirpc3=1.2.6-3 libtool=2.4.6-14 libtsan0=10.2.0-17 libubsan1=10.2.0-17 libuchardet0=0.0.7-1 libudev1=246.6-3 libunistring2=0.9.10-4 libuuid1=2.36.1-1 libuv1=1.40.0-1 libxml2=2.9.10+dfsg-6.2 libzstd1=1.4.5+dfsg-4 linux-libc-dev=5.9.6-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-4 mailcap=3.67 make=4.3-4 man-db=2.9.3-2 mawk=1.3.4.20200120-2 media-types=1.0.1 mime-support=3.66 ncurses-base=6.2+20200918-1 ncurses-bin=6.2+20200918-1 patch=2.7.6-6 perl=5.32.0-5 perl-base=5.32.0-5 perl-modules-5.32=5.32.0-5 po-debconf=1.0.21 procps=2:3.3.16-5 python3=3.9.0-3 python3-dev=3.9.0-3 python3-distutils=3.8.6-1 python3-lib2to3=3.8.6-1 python3-minimal=3.9.0-3 python3.9=3.9.0-5 python3.9-dev=3.9.0-5 python3.9-minimal=3.9.0-5 readline-common=8.1~rc2-2 sed=4.7-1 sensible-utils=0.0.12+nmu1 sysvinit-utils=2.96-5 tar=1.30+dfsg-7 util-linux=2.36.1-1 xz-utils=5.2.4-1+b1 zlib1g=1:1.2.11.dfsg-2 zlib1g-dev=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/20201119T152556Z/ 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 tiddit=2.12.0+dfsg-3 && mkdir -p /build/tiddit-rZg4St && dpkg-source --no-check -x /*.dsc /build/tiddit-rZg4St/tiddit-2.12.0+dfsg && cd /build/tiddit-rZg4St/tiddit-2.12.0+dfsg && { printf '%s' 'tiddit (2.12.0+dfsg-3+b1) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Python 3.9 as default -- all / amd64 / i386 Build Daemon (x86-conova-01) Thu, 19 Nov 2020 07:41:25 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/tiddit-rZg4St" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/tiddit-rZg4St/tiddit-2.12.0+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1605771685" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/tiddit-rZg4St /tmp/tiddit-2.12.0+dfsg-3+b1wgonaox3 bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20201119T152556Z 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.rAhv8oLMJL 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.rAhv8oLMJL Reading package lists... Building dependency tree... util-linux is already the newest version (2.36.1-1). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 134 kB of archives. After this operation, 397 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20201119T152556Z unstable/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20201119T152556Z unstable/main amd64 fakeroot amd64 1.25.3-1.1 [87.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (1099 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 ... 4690 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.25.3-1.1_amd64.deb ... Unpacking libfakeroot:amd64 (1.25.3-1.1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.25.3-1.1_amd64.deb ... Unpacking fakeroot (1.25.3-1.1) ... Setting up libfakeroot:amd64 (1.25.3-1.1) ... Setting up fakeroot (1.25.3-1.1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.31-4) ... 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/20201119T152556Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.rAhv8oLMJL Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20201119T152556Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Fetched 22.6 MB in 19s (1178 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.rAhv8oLMJL I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d tiddit=2.12.0+dfsg-3 && mkdir -p /build/tiddit-rZg4St && dpkg-source --no-check -x /*.dsc /build/tiddit-rZg4St/tiddit-2.12.0+dfsg && cd /build/tiddit-rZg4St/tiddit-2.12.0+dfsg && { printf '%s' 'tiddit (2.12.0+dfsg-3+b1) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Python 3.9 as default -- all / amd64 / i386 Build Daemon (x86-conova-01) Thu, 19 Nov 2020 07:41:25 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/tiddit-rZg4St"' exec /tmp/mmdebstrap.rAhv8oLMJL Reading package lists... NOTICE: 'tiddit' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/tiddit.git Please use: git clone https://salsa.debian.org/med-team/tiddit.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1760 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main tiddit 2.12.0+dfsg-3 (dsc) [2122 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main tiddit 2.12.0+dfsg-3 (tar) [25.5 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main tiddit 2.12.0+dfsg-3 (diff) [1732 kB] Fetched 1760 kB in 1s (1242 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'tiddit_2.12.0+dfsg-3.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting tiddit in /build/tiddit-rZg4St/tiddit-2.12.0+dfsg dpkg-source: info: unpacking tiddit_2.12.0+dfsg.orig.tar.xz dpkg-source: info: unpacking tiddit_2.12.0+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_libs.patch dpkg-source: info: applying Fix-tiddit-binary-location.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/tiddit-rZg4St/tiddit-2.12.0+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1605771685" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.rAhv8oLMJL dpkg-buildpackage: info: source package tiddit dpkg-buildpackage: info: source version 2.12.0+dfsg-3+b1 dpkg-buildpackage: info: source distribution sid dpkg-buildpackage: info: source changed by all / amd64 / i386 Build Daemon (x86-conova-01) dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3 --buildsystem=cmake dh_auto_clean -O--buildsystem=cmake dh_autoreconf_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake debian/rules binary-arch dh binary-arch --with python3 --buildsystem=cmake dh_update_autotools_config -a -O--buildsystem=cmake dh_autoreconf -a -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' dh_auto_configure -- -DCMAKE_BUILD_TYPE=RelWithDebInfo cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DCMAKE_BUILD_TYPE=RelWithDebInfo .. -- The C compiler identification is GNU 10.2.0 -- The CXX compiler identification is GNU 10.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu dh_auto_configure --sourcedirectory=src --buildsystem=pybuild I: pybuild base:232: python3.9 setup.py config /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src/DBSCAN.py tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src/TIDDIT_calling.py tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src/TIDDIT_coverage.py tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src/TIDDIT_filtering.py tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src/TIDDIT_signals.py tree = Parsing.p_module(s, pxd, full_module_name) Compiling TIDDIT_calling.py because it changed. Compiling TIDDIT_coverage.py because it changed. Compiling TIDDIT_filtering.py because it changed. Compiling TIDDIT_signals.py because it changed. Compiling DBSCAN.py because it changed. [1/5] Cythonizing DBSCAN.py [2/5] Cythonizing TIDDIT_calling.py [3/5] Cythonizing TIDDIT_coverage.py [4/5] Cythonizing TIDDIT_filtering.py [5/5] Cythonizing TIDDIT_signals.py running config make[1]: Leaving directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' sed -i 's/betwen/between/' src/data_structures/Translocation.cpp dh_auto_build cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/tiddit-rZg4St/tiddit-2.12.0+dfsg -B/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/TIDDIT.dir/build.make CMakeFiles/TIDDIT.dir/depend make[4]: Entering directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu' cd /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/tiddit-rZg4St/tiddit-2.12.0+dfsg /build/tiddit-rZg4St/tiddit-2.12.0+dfsg /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles/TIDDIT.dir/DependInfo.cmake --color= Scanning dependencies of target TIDDIT make[4]: Leaving directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/TIDDIT.dir/build.make CMakeFiles/TIDDIT.dir/build make[4]: Entering directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu' [ 20%] Building CXX object CMakeFiles/TIDDIT.dir/src/TIDDIT.cpp.o /usr/bin/c++ -I/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -Wno-deprecated -o CMakeFiles/TIDDIT.dir/src/TIDDIT.cpp.o -c /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src/TIDDIT.cpp [ 60%] Building CXX object CMakeFiles/TIDDIT.dir/src/data_structures/findTranslocationsOnTheFly.cpp.o /usr/bin/c++ -I/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -Wno-deprecated -o CMakeFiles/TIDDIT.dir/src/data_structures/findTranslocationsOnTheFly.cpp.o -c /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src/data_structures/findTranslocationsOnTheFly.cpp [ 40%] Building CXX object CMakeFiles/TIDDIT.dir/src/data_structures/CoverageModule.cpp.o [ 80%] Building CXX object CMakeFiles/TIDDIT.dir/src/data_structures/Translocation.cpp.o /usr/bin/c++ -I/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -Wno-deprecated -o CMakeFiles/TIDDIT.dir/src/data_structures/CoverageModule.cpp.o -c /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src/data_structures/CoverageModule.cpp /usr/bin/c++ -I/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -Wno-deprecated -o CMakeFiles/TIDDIT.dir/src/data_structures/Translocation.cpp.o -c /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/src/data_structures/Translocation.cpp [100%] Linking CXX executable ../bin/TIDDIT /usr/bin/cmake -E cmake_link_script CMakeFiles/TIDDIT.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/TIDDIT.dir/src/TIDDIT.cpp.o CMakeFiles/TIDDIT.dir/src/data_structures/CoverageModule.cpp.o CMakeFiles/TIDDIT.dir/src/data_structures/Translocation.cpp.o CMakeFiles/TIDDIT.dir/src/data_structures/findTranslocationsOnTheFly.cpp.o -o ../bin/TIDDIT -lbamtools make[4]: Leaving directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu' [100%] Built target TIDDIT make[3]: Leaving directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg/obj-x86_64-linux-gnu' dh_auto_build --sourcedirectory=src --buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py build running build running build_ext building 'TIDDIT_calling' extension creating build creating build/temp.linux-x86_64-3.9 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c TIDDIT_calling.c -o build/temp.linux-x86_64-3.9/TIDDIT_calling.o x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/TIDDIT_calling.o -o /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/TIDDIT_calling.cpython-39-x86_64-linux-gnu.so building 'TIDDIT_coverage' extension x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c TIDDIT_coverage.c -o build/temp.linux-x86_64-3.9/TIDDIT_coverage.o x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/TIDDIT_coverage.o -o /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/TIDDIT_coverage.cpython-39-x86_64-linux-gnu.so building 'TIDDIT_filtering' extension x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c TIDDIT_filtering.c -o build/temp.linux-x86_64-3.9/TIDDIT_filtering.o x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/TIDDIT_filtering.o -o /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/TIDDIT_filtering.cpython-39-x86_64-linux-gnu.so building 'TIDDIT_signals' extension x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c TIDDIT_signals.c -o build/temp.linux-x86_64-3.9/TIDDIT_signals.o x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/TIDDIT_signals.o -o /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/TIDDIT_signals.cpython-39-x86_64-linux-gnu.so building 'DBSCAN' extension x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c DBSCAN.c -o build/temp.linux-x86_64-3.9/DBSCAN.o x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/tiddit-rZg4St/tiddit-2.12.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/DBSCAN.o -o /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/DBSCAN.cpython-39-x86_64-linux-gnu.so make[1]: Leaving directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' dh_auto_test -a -O--buildsystem=cmake create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=cmake dh_prep -a -O--buildsystem=cmake debian/rules override_dh_auto_install make[1]: Entering directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' dh_auto_install dh_auto_install --sourcedirectory=src --buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py install --root /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit running install running build running build_ext running install_lib creating /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr creating /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr/lib creating /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr/lib/python3.9 creating /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr/lib/python3.9/dist-packages copying /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/DBSCAN.cpython-39-x86_64-linux-gnu.so -> /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr/lib/python3.9/dist-packages copying /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/TIDDIT_filtering.cpython-39-x86_64-linux-gnu.so -> /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr/lib/python3.9/dist-packages copying /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/TIDDIT_calling.cpython-39-x86_64-linux-gnu.so -> /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr/lib/python3.9/dist-packages copying /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/TIDDIT_coverage.cpython-39-x86_64-linux-gnu.so -> /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr/lib/python3.9/dist-packages copying /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/.pybuild/cpython3_3.9/build/TIDDIT_signals.cpython-39-x86_64-linux-gnu.so -> /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr/lib/python3.9/dist-packages running install_egg_info Writing /build/tiddit-rZg4St/tiddit-2.12.0+dfsg/debian/tiddit/usr/lib/python3.9/dist-packages/TIDDIT-0.0.0.egg-info make[1]: Leaving directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' dh_install -a -O--buildsystem=cmake dh_installdocs -a -O--buildsystem=cmake dh_installchangelogs -a -O--buildsystem=cmake debian/rules override_dh_installman make[1]: Entering directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' dh_installman --language=C make[1]: Leaving directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' debian/rules override_dh_python3 make[1]: Entering directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' dh_python3 --shebang=/usr/bin/python3 I: dh_python3 tools:114: replacing shebang in debian/tiddit/usr/bin/TIDDIT.py make[1]: Leaving directory '/build/tiddit-rZg4St/tiddit-2.12.0+dfsg' dh_installsystemduser -a -O--buildsystem=cmake dh_lintian -a -O--buildsystem=cmake dh_perl -a -O--buildsystem=cmake dh_link -a -O--buildsystem=cmake dh_strip_nondeterminism -a -O--buildsystem=cmake dh_compress -a -O--buildsystem=cmake dh_fixperms -a -O--buildsystem=cmake dh_missing -a -O--buildsystem=cmake dh_dwz -a -a -O--buildsystem=cmake dwz: debian/tiddit/usr/bin/TIDDIT: DWARF compression not beneficial - old size 1808983 new size 1815187 dh_strip -a -a -O--buildsystem=cmake dh_makeshlibs -a -a -O--buildsystem=cmake dh_shlibdeps -a -a -O--buildsystem=cmake dh_installdeb -a -O--buildsystem=cmake dh_gencontrol -a -O--buildsystem=cmake dpkg-gencontrol: warning: package tiddit: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package tiddit: substitution variable ${python3:Versions} unused, but is defined dh_md5sums -a -O--buildsystem=cmake dh_builddeb -a -O--buildsystem=cmake dpkg-deb: building package 'tiddit' in '../tiddit_2.12.0+dfsg-3+b1_amd64.deb'. dpkg-deb: building package 'tiddit-dbgsym' in '../tiddit-dbgsym_2.12.0+dfsg-3+b1_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../tiddit_2.12.0+dfsg-3+b1_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/tiddit-rZg4St /tmp/tiddit-2.12.0+dfsg-3+b1wgonaox3 I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.rAhv8oLMJL... I: success in 695.5883 seconds md5: tiddit-dbgsym_2.12.0+dfsg-3+b1_amd64.deb: OK md5: tiddit_2.12.0+dfsg-3+b1_amd64.deb: OK sha1: tiddit-dbgsym_2.12.0+dfsg-3+b1_amd64.deb: OK sha1: tiddit_2.12.0+dfsg-3+b1_amd64.deb: OK sha256: tiddit-dbgsym_2.12.0+dfsg-3+b1_amd64.deb: OK sha256: tiddit_2.12.0+dfsg-3+b1_amd64.deb: OK Checksums: OK