Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/r/rapmap/rapmap_0.15.0+dfsg-2_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/rapmap-0.15.0+dfsg-2lk7hlyys/rapmap_0.15.0+dfsg-2_all.buildinfo Get source package info: rapmap=0.15.0+dfsg-2 Source URL: http://snapshot.notset.fr/mr/package/rapmap/0.15.0+dfsg-2/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.71-2 automake=1:1.16.4-2 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=12 base-passwd=3.5.52 bash=5.1-3+b2 binutils=2.37-7 binutils-common=2.37-7 binutils-x86-64-linux-gnu=2.37-7 bsdextrautils=2.37.2-3 bsdutils=1:2.37.2-3 build-essential=12.9 bzip2=1.0.8-4 catch2=2.13.7-1 cmake=3.21.3-4 cmake-data=3.21.3-4 coreutils=8.32-4+b1 cpp=4:11.2.0-2 cpp-11=11.2.0-8 dash=0.5.11+git20210120+802ebd4-1 debconf=1.5.77 debhelper=13.5.2 debianutils=5.5-1 dh-autoreconf=20 dh-elpa-helper=2.0.9 dh-strip-nondeterminism=1.12.0-1 diffutils=1:3.7-5 dpkg=1.20.9 dpkg-dev=1.20.9 dwz=0.14-1 emacsen-common=3.0.4 file=1:5.39-3 findutils=4.8.0-1 g++=4:11.2.0-2 g++-11=11.2.0-8 gcc=4:11.2.0-2 gcc-11=11.2.0-8 gcc-11-base=11.2.0-8 gettext=0.21-4 gettext-base=0.21-4 grep=3.7-1 groff-base=1.22.4-7 gzip=1.10-4 hostname=3.23 init-system-helpers=1.60 intltool-debian=0.35.0+20060710.5 libacl1=2.3.1-1 libarchive-zip-perl=1.68-1 libarchive13=3.4.3-2+b1 libasan6=11.2.0-8 libatomic1=11.2.0-8 libattr1=1:2.5.1-1 libaudit-common=1:3.0.6-1 libaudit1=1:3.0.6-1 libbinutils=2.37-7 libblkid1=2.37.2-3 libbrotli1=1.0.9-2+b2 libbz2-1.0=1.0.8-4 libc-bin=2.32-4 libc-dev-bin=2.32-4 libc6=2.32-4 libc6-dev=2.32-4 libcap-ng0=0.7.9-2.2+b1 libcap2=1:2.44-1 libcc1-0=11.2.0-8 libcereal-dev=1.3.0+dfsg-2 libcom-err2=1.46.4-1 libcrypt-dev=1:4.4.25-2 libcrypt1=1:4.4.25-2 libctf-nobfd0=2.37-7 libctf0=2.37-7 libcurl4=7.74.0-1.3+b1 libdb5.3=5.3.28+dfsg1-0.8 libdebconfclient0=0.260 libdebhelper-perl=13.5.2 libdivsufsort-dev=2.0.1-5 libdivsufsort3=2.0.1-5 libdpkg-perl=1.20.9 libelf1=0.185-2 libexpat1=2.4.1-2+b1 libffi8=3.4.2-2 libfile-stripnondeterminism-perl=1.12.0-1 libfmt-dev=7.1.3+ds1-5 libfmt7=7.1.3+ds1-5 libgcc-11-dev=11.2.0-8 libgcc-s1=11.2.0-8 libgcrypt20=1.9.4-3+b1 libgdbm-compat4=1.21-1 libgdbm6=1.21-1 libglib2.0-0=2.70.0-1+b1 libgmp10=2:6.2.1+dfsg-2 libgnutls30=3.7.2-2 libgomp1=11.2.0-8 libgpg-error0=1.42-3 libgssapi-krb5-2=1.18.3-7 libhogweed6=3.7.3-1 libicu67=67.1-7 libidn2-0=2.3.2-2 libisl23=0.23-1 libitm1=11.2.0-8 libjellyfish-2.0-2=2.3.0-12 libjellyfish-2.0-dev=2.3.0-12 libjemalloc-dev=5.2.1-3 libjemalloc2=5.2.1-3 libjsoncpp24=1.9.4-5 libk5crypto3=1.18.3-7 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-7 libkrb5support0=1.18.3-7 libldap-2.4-2=2.4.59+dfsg-1 liblsan0=11.2.0-8 liblz4-1=1.9.3-2 liblzma5=5.2.5-2 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmount1=2.37.2-3 libmpc3=1.2.0-1 libmpdec3=2.5.1-2 libmpfr6=4.1.0-3 libncurses6=6.2+20210905-1 libncursesw6=6.2+20210905-1 libnettle8=3.7.3-1 libnghttp2-14=1.43.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libp11-kit0=0.24.0-5 libpam-modules=1.4.0-10 libpam-modules-bin=1.4.0-10 libpam-runtime=1.4.0-10 libpam0g=1.4.0-10 libpcre2-8-0=10.36-2 libpcre3=2:8.39-13 libperl5.32=5.32.1-6 libpipeline1=1.5.3-1 libprocps8=2:3.3.17-5 libpsl5=0.21.0-1.2 libpython3-stdlib=3.9.2-3 libpython3.9-minimal=3.9.7-4 libpython3.9-stdlib=3.9.7-4 libquadmath0=11.2.0-8 libreadline8=8.1-2 librhash0=1.4.2-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg-2.1 libsasl2-modules-db=2.1.27+dfsg-2.1 libseccomp2=2.5.2-2 libselinux1=3.1-3 libsigsegv2=2.13-1 libsimde-dev=0.7.2-4 libsmartcols1=2.37.2-3 libsparsehash-dev=2.0.3-2 libspdlog-dev=1:1.8.5+ds-3 libspdlog1=1:1.8.5+ds-3 libsqlite3-0=3.36.0-2 libssh2-1=1.10.0-2 libssl1.1=1.1.1l-1 libstdc++-11-dev=11.2.0-8 libstdc++6=11.2.0-8 libsub-override-perl=0.09-2 libsystemd0=247.9-4 libtasn1-6=4.17.0-2 libtclap-dev=1.2.4-3 libtinfo6=6.2+20210905-1 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtool=2.4.6-15 libtsan0=11.2.0-8 libubsan1=11.2.0-8 libuchardet0=0.0.7-1 libudev1=247.9-4 libunistring2=0.9.10-6 libuuid1=2.37.2-3 libuv1=1.42.0-1 libxml2=2.9.12+dfsg-5 libzstd1=1.4.8+dfsg-3 linux-libc-dev=5.14.9-2 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.9.4-2 mawk=1.3.4.20200120-2 media-types=4.0.0 ncurses-base=6.2+20210905-1 ncurses-bin=6.2+20210905-1 patch=2.7.6-7 perl=5.32.1-6 perl-base=5.32.1-6 perl-modules-5.32=5.32.1-6 pkg-config=0.29.2-1 po-debconf=1.0.21+nmu1 procps=2:3.3.17-5 python3=3.9.2-3 python3-markdown=3.3.4-1 python3-minimal=3.9.2-3 python3-pkg-resources=58.2.0-1 python3.9=3.9.7-4 python3.9-minimal=3.9.7-4 rapidjson-dev=1.1.0+dfsg2-7 readline-common=8.1-2 rpcsvc-proto=1.4.2-4 sed=4.8-1 sensible-utils=0.0.17 sysvinit-utils=3.00-1 tar=1.34+dfsg-1 tzdata=2021c-2 util-linux=2.37.2-3 xz-utils=5.2.5-2 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/20211017T024714Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211017T024714Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20211127T085209Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20211010T204214Z/ 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 rapmap=0.15.0+dfsg-2 && mkdir -p /build/rapmap-ShwceB && dpkg-source --no-check -x /*.dsc /build/rapmap-ShwceB/rapmap-0.15.0+dfsg && chown -R builduser:builduser /build/rapmap-ShwceB" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1634031931" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/rapmap-ShwceB /tmp/rapmap-0.15.0+dfsg-2lk7hlyys bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20211010T204214Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: null I: using /tmp/mmdebstrap.p2myj6C9Ma 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.p2myj6C9Ma Reading package lists... Building dependency tree... util-linux is already the newest version (2.37.2-3). 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/20211010T204214Z unstable/main amd64 libfakeroot amd64 1.26-1 [47.3 kB] Get:2 http://snapshot.notset.fr/archive/debian/20211010T204214Z unstable/main amd64 fakeroot amd64 1.26-1 [87.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (1105 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 ... 4667 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.26-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.26-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.26-1_amd64.deb ... Unpacking fakeroot (1.26-1) ... Setting up libfakeroot:amd64 (1.26-1) ... Setting up fakeroot (1.26-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.32-4) ... 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/20211017T024714Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211017T024714Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20211127T085209Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20211010T204214Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.p2myj6C9Ma Get:1 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm InRelease [128 kB] Get:2 http://snapshot.notset.fr/archive/debian/20211127T085209Z unstable InRelease [165 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20211010T204214Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main Sources [11.7 MB] Get:5 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main amd64 Packages [11.2 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20211127T085209Z unstable/main amd64 Packages Err:6 http://snapshot.notset.fr/archive/debian/20211127T085209Z unstable/main amd64 Packages 404 Not Found [IP: 10.13.0.253 80] Ign:6 http://snapshot.notset.fr/archive/debian/20211127T085209Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20211127T085209Z unstable/main amd64 Packages [12.0 MB] Fetched 35.2 MB in 28s (1248 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.p2myj6C9Ma I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d rapmap=0.15.0+dfsg-2 && mkdir -p /build/rapmap-ShwceB && dpkg-source --no-check -x /*.dsc /build/rapmap-ShwceB/rapmap-0.15.0+dfsg && chown -R builduser:builduser /build/rapmap-ShwceB"' exec /tmp/mmdebstrap.p2myj6C9Ma Reading package lists... NOTICE: 'rapmap' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/rapmap.git Please use: git clone https://salsa.debian.org/med-team/rapmap.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 642 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main rapmap 0.15.0+dfsg-2 (dsc) [2347 B] Get:2 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main rapmap 0.15.0+dfsg-2 (tar) [625 kB] Get:3 http://snapshot.notset.fr/archive/debian/20211017T024714Z bookworm/main rapmap 0.15.0+dfsg-2 (diff) [14.8 kB] Fetched 642 kB in 1s (1134 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'rapmap_0.15.0+dfsg-2.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting rapmap in /build/rapmap-ShwceB/rapmap-0.15.0+dfsg dpkg-source: info: unpacking rapmap_0.15.0+dfsg.orig.tar.xz dpkg-source: info: unpacking rapmap_0.15.0+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-debian-libs.patch dpkg-source: info: applying use_shared_libs.patch dpkg-source: info: applying avoid_privacy_breach.patch dpkg-source: info: applying spelling dpkg-source: info: applying portable_pause dpkg-source: info: applying no_gomp_needed dpkg-source: info: applying simde I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1634031931" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.p2myj6C9Ma dpkg-buildpackage: info: source package rapmap dpkg-buildpackage: info: source version 0.15.0+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg' dh_clean README.html sample_data/sample_quasi_index/ sample_data/sample_quasi_index_ph/ sample_data/sample_quasi_map.sam sample_data/sample_quasi_map_ph.sam make[1]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg' debian/rules binary-indep dh binary-indep dh_update_autotools_config -i dh_autoreconf -i debian/rules override_dh_auto_configure make[1]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg' dh_auto_configure -- -DJELLYFISH_ROOT=/usr -DNO_NATIVE_ARCH=true 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_USE_PACKAGE_REGISTRY=OFF -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 -DJELLYFISH_ROOT=/usr -DNO_NATIVE_ARCH=true .. CC: gcc CC version: -- The C compiler identification is GNU 11.2.0 -- The CXX compiler identification is GNU 11.2.0 -- 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 version: 0.6.0 -- DISABLING NATIVE ARCH. -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE Making Default build type -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Found Cereal: /usr/include (Required is at least version "1.2.2") -- Cereal found (include: /usr/include) -- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.2") -- Found Jemalloc: /usr/lib/x86_64-linux-gnu/libjemalloc.so (found version "5.2.1-0-gea6b3e973b477b8061e0076bb257dbd7f3faa756") Found Jemalloc library --- using this memory allocator CPACK_SOURCE_IGNORE_FILES = .git/ CMAKE_SYSTEM_PROCESSOR: amd64 -- 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 JELLYFISH_ROOT -- Build files have been written to: /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg' dh_auto_build cd obj-x86_64-linux-gnu && make -j10 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/rapmap-ShwceB/rapmap-0.15.0+dfsg -B/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/ksw2pp_basic.dir/build.make src/CMakeFiles/ksw2pp_basic.dir/depend make -f src/CMakeFiles/ksw2pp_sse4.dir/build.make src/CMakeFiles/ksw2pp_sse4.dir/depend make[4]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rapmap-ShwceB/rapmap-0.15.0+dfsg /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/ksw2pp_basic.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rapmap-ShwceB/rapmap-0.15.0+dfsg /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/ksw2pp_sse4.dir/DependInfo.cmake --color= make -f src/CMakeFiles/ksw2pp_sse2.dir/build.make src/CMakeFiles/ksw2pp_sse2.dir/depend make[4]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rapmap-ShwceB/rapmap-0.15.0+dfsg /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/ksw2pp_sse2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/ksw2pp_basic.dir/build.make src/CMakeFiles/ksw2pp_basic.dir/build make[4]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/ksw2pp_sse4.dir/build.make src/CMakeFiles/ksw2pp_sse4.dir/build make[4]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/ksw2pp_sse2.dir/build.make src/CMakeFiles/ksw2pp_sse2.dir/build make[4]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Building C object src/CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extf2_sse.c.o [ 6%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o [ 10%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -msse4.1 -MD -MT src/CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extf2_sse.c.o -MF CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extf2_sse.c.o.d -o CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extf2_sse.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extf2_sse.c cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extd.c cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/kalloc.c [ 13%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o [ 17%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o [ 20%] Building C object src/CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extz2_sse.c.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_gg.c cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -msse4.1 -MD -MT src/CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extz2_sse.c.o -MF CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extz2_sse.c.o.d -o CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extz2_sse.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extz2_sse.c [ 24%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o [ 31%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o [ 31%] Building C object src/CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extd2_sse.c.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/digestpp -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/cereal/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -msse2 -mno-sse4.1 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extd2_sse.c cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -msse4.1 -MD -MT src/CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extd2_sse.c.o -MF CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extd2_sse.c.o.d -o CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extd2_sse.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extd2_sse.c [ 34%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extz.c cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/digestpp -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/cereal/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -msse2 -mno-sse4.1 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extf2_sse.c cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_gg2.c [ 37%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_gg2_sse.c [ 41%] Building CXX object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -DHAVE_KALLOC -DKSW_CPU_DISPATCH -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/KSW2Aligner.cpp [ 44%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/digestpp -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/cereal/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -msse2 -mno-sse4.1 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extz2_sse.c make[4]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Built target ksw2pp_sse4 make[4]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Built target ksw2pp_sse2 make[4]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Built target ksw2pp_basic make -f src/CMakeFiles/ksw2pp.dir/build.make src/CMakeFiles/ksw2pp.dir/depend make[4]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rapmap-ShwceB/rapmap-0.15.0+dfsg /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/ksw2pp.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/ksw2pp.dir/build.make src/CMakeFiles/ksw2pp.dir/build make[4]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' [ 48%] Linking CXX static library libksw2pp.a cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/ksw2pp.dir/cmake_clean_target.cmake cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ksw2pp.dir/link.txt --verbose=1 /usr/bin/ar qc libksw2pp.a CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o 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/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/RapMapSAIndex.cpp [ 68%] Building CXX object src/CMakeFiles/rapmap.dir/HitManager.cpp.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/digestpp -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/cereal/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/HitManager.cpp.o -MF CMakeFiles/rapmap.dir/HitManager.cpp.o.d 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/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/xxhash.c [ 89%] Building C object src/CMakeFiles/rapmap.dir/bit_array.c.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cc -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/digestpp -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/cereal/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/rapmap.dir/bit_array.c.o -MF CMakeFiles/rapmap.dir/bit_array.c.o.d -o CMakeFiles/rapmap.dir/bit_array.c.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/bit_array.c [ 93%] Building CXX object src/CMakeFiles/rapmap.dir/edlib.cpp.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/digestpp -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/cereal/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/edlib.cpp.o -MF CMakeFiles/rapmap.dir/edlib.cpp.o.d -o CMakeFiles/rapmap.dir/edlib.cpp.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/edlib.cpp [ 96%] Building CXX object src/CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/digestpp -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/cereal/include -I/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o -MF CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o.d -o CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o -c /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/metro/metrohash64.cpp In file included from /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include/zstr/zstr.hpp:16, from /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:62: /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include/zstr/strict_fstream.hpp: In static member function ‘static void strict_fstream::detail::static_method_holder::check_peek(std::istream*, const string&, std::ios_base::openmode)’: /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/include/zstr/strict_fstream.hpp:128:39: warning: catching polymorphic type ‘class std::ios_base::failure’ by value [-Wcatch-value=] 128 | catch (std::ios_base::failure e) {} | ^ At global scope: cc1plus: note: unrecognized command-line option ‘-Wno-unused-local-typedef’ may have been intended to silence earlier diagnostics [100%] Linking CXX executable rapmap cd /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/rapmap.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/rapmap-ShwceB/rapmap-0.15.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -Wl,-z,relro -Wl,-z,now CMakeFiles/rapmap.dir/RapMap.cpp.o CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o CMakeFiles/rapmap.dir/RapMapUtils.cpp.o CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o CMakeFiles/rapmap.dir/HitManager.cpp.o CMakeFiles/rapmap.dir/FastxParser.cpp.o CMakeFiles/rapmap.dir/rank9b.cpp.o CMakeFiles/rapmap.dir/stringpiece.cc.o CMakeFiles/rapmap.dir/xxhash.c.o CMakeFiles/rapmap.dir/bit_array.c.o CMakeFiles/rapmap.dir/edlib.cpp.o CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o -o rapmap -L/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/lib -L/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/external/install/lib -Wl,-rpath,"\$ORIGIN/../lib:\$ORIGIN/../../lib:\$ORIGIN/:\$ORIGIN/../../external/install/lib" /usr/lib/x86_64-linux-gnu/libz.so -ldivsufsort -ldivsufsort64 -lm -lrt /usr/lib/x86_64-linux-gnu/libjemalloc.so -lpthread -lrt libksw2pp.a -ldl /usr/lib/x86_64-linux-gnu/libjemalloc.so -lpthread -ldl make[4]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' [100%] Built target rapmap make[3]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' python3 -m markdown -f README.html README.md make[1]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg' dh: command-omitted: The call to "dh_auto_test -i" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_prep -i dh_auto_install -i cd obj-x86_64-linux-gnu && make -j10 install DESTDIR=/build/rapmap-ShwceB/rapmap-0.15.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/rapmap-ShwceB/rapmap-0.15.0+dfsg -B/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/debian/tmp/usr/bin/rapmap -- Installing: /build/rapmap-ShwceB/rapmap-0.15.0+dfsg/debian/tmp/usr/bin/RunRapMap.sh make[1]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg/obj-x86_64-linux-gnu' dh_install -i dh_installdocs -i dh_installchangelogs -i dh_installman -i dh_perl -i dh_link -i dh_strip_nondeterminism -i dh_compress -i dh_fixperms -i dh_missing -i dh_installdeb -i debian/rules override_dh_gencontrol make[1]: Entering directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg' dh_gencontrol -- -Vsimde:Built-Using="simde (= 0.7.2-4), " make[1]: Leaving directory '/build/rapmap-ShwceB/rapmap-0.15.0+dfsg' dh_md5sums -i dh_builddeb -i dpkg-deb: building package 'rapmap-example-data' in '../rapmap-example-data_0.15.0+dfsg-2_all.deb'. dpkg-deb: building package 'rapmap-dev' in '../rapmap-dev_0.15.0+dfsg-2_all.deb'. dpkg-genbuildinfo --build=all dpkg-genchanges --build=all >../rapmap_0.15.0+dfsg-2_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/rapmap-ShwceB /tmp/rapmap-0.15.0+dfsg-2lk7hlyys I: cleaning package lists and apt cache... I: removing tempdir /tmp/mmdebstrap.p2myj6C9Ma... I: success in 500.6673 seconds md5: rapmap-dev_0.15.0+dfsg-2_all.deb: OK md5: rapmap-example-data_0.15.0+dfsg-2_all.deb: OK sha1: rapmap-dev_0.15.0+dfsg-2_all.deb: OK sha1: rapmap-example-data_0.15.0+dfsg-2_all.deb: OK sha256: rapmap-dev_0.15.0+dfsg-2_all.deb: OK sha256: rapmap-example-data_0.15.0+dfsg-2_all.deb: OK Checksums: OK