Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/k/kissplice/kissplice_2.5.4+dfsg-1_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/kissplice-2.5.4+dfsg-1bg2es_11/kissplice_2.5.4+dfsg-1_amd64.buildinfo Get source package info: kissplice=2.5.4+dfsg-1 Source URL: http://snapshot.notset.fr/mr/package/kissplice/2.5.4+dfsg-1/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.71-2 automake=1:1.16.5-1.1 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=12 base-passwd=3.5.52 bash=5.1-5 bcalm=2.2.3-2 binutils=2.37-10 binutils-common=2.37-10 binutils-x86-64-linux-gnu=2.37-10 bsdextrautils=2.37.2-4 bsdutils=1:2.37.2-4 build-essential=12.9 bzip2=1.0.8-5 cmake=3.22.1-1+b1 cmake-data=3.22.1-1 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.2.0-12 dash=0.5.11+git20210903+057cd650a4ed-3 debconf=1.5.79 debhelper=13.5.2 debianutils=5.5-1 dh-autoreconf=20 dh-elpa-helper=2.0.9 dh-python=5.20211114 dh-strip-nondeterminism=1.12.1-1 diffutils=1:3.7-5 dpkg=1.21.1 dpkg-dev=1.21.1 dwz=0.14-1 emacsen-common=3.0.4 file=1:5.41-2 findutils=4.8.0-1 g++=4:11.2.0-2 g++-11=11.2.0-12 gcc=4:11.2.0-2 gcc-11=11.2.0-12 gcc-11-base=11.2.0-12 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=1.61 intltool-debian=0.35.0+20060710.5 libacl1=2.3.1-1 libaec0=1.0.6-1 libarchive-zip-perl=1.68-1 libarchive13=3.4.3-2+b1 libasan6=11.2.0-12 libatomic1=11.2.0-12 libattr1=1:2.5.1-1 libaudit-common=1:3.0.6-1 libaudit1=1:3.0.6-1+b1 libbinutils=2.37-10 libblkid1=2.37.2-4 libbrotli1=1.0.9-2+b3 libbz2-1.0=1.0.8-5 libc-bin=2.33-1 libc-dev-bin=2.33-1 libc6=2.33-1 libc6-dev=2.33-1 libcap-ng0=0.7.9-2.2+b1 libcap2=1:2.44-1 libcc1-0=11.2.0-12 libcom-err2=1.46.4-1 libcrypt-dev=1:4.4.26-1 libcrypt1=1:4.4.26-1 libctf-nobfd0=2.37-10 libctf0=2.37-10 libcurl4=7.79.1-2 libdb5.3=5.3.28+dfsg1-0.8 libdebconfclient0=0.261 libdebhelper-perl=13.5.2 libdpkg-perl=1.21.1 libelf1=0.186-1 libexpat1=2.4.1-3 libexpat1-dev=2.4.1-3 libffi8=3.4.2-3 libfile-stripnondeterminism-perl=1.12.1-1 libgatbcore3=1.4.2+dfsg-7 libgcc-11-dev=11.2.0-12 libgcc-s1=11.2.0-12 libgcrypt20=1.9.4-4 libgdbm-compat4=1.22-1 libgdbm6=1.22-1 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.2-2 libgomp1=11.2.0-12 libgpg-error0=1.42-3 libgssapi-krb5-2=1.18.3-7 libhdf5-103-1=1.10.7+repack-4 libhogweed6=3.7.3-1 libicu67=67.1-7 libidn2-0=2.3.2-2 libisl23=0.24-2 libitm1=11.2.0-12 libjs-jquery=3.5.1+dfsg+~3.5.5-8 libjs-sphinxdoc=4.3.1-2 libjs-underscore=1.9.1~dfsg-4 libjsoncpp25=1.9.5-2 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=11.2.0-12 liblz4-1=1.9.3-2 liblzma5=5.2.5-2 libmagic-mgc=1:5.41-2 libmagic1=1:5.41-2 libmount1=2.37.2-4 libmpc3=1.2.1-1 libmpdec3=2.5.1-2 libmpfr6=4.1.0-3 libncurses6=6.3-1 libncursesw6=6.3-1 libnettle8=3.7.3-1 libnghttp2-14=1.43.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libp11-kit0=0.24.0-6 libpam-modules=1.4.0-11 libpam-modules-bin=1.4.0-11 libpam-runtime=1.4.0-11 libpam0g=1.4.0-11 libpcre2-8-0=10.39-3 libpcre3=2:8.39-13 libperl5.32=5.32.1-6 libpipeline1=1.5.4-1 libprocps8=2:3.3.17-5 libpsl5=0.21.0-1.2 libpython3-dev=3.9.8-1 libpython3-stdlib=3.9.8-1 libpython3.9=3.9.9-1 libpython3.9-dev=3.9.9-1 libpython3.9-minimal=3.9.9-1 libpython3.9-stdlib=3.9.9-1 libquadmath0=11.2.0-12 libreadline8=8.1-2 librhash0=1.4.2-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg2-2 libsasl2-modules-db=2.1.27+dfsg2-2 libseccomp2=2.5.3-2 libselinux1=3.3-1+b1 libsigsegv2=2.13-1 libsmartcols1=2.37.2-4 libsqlite3-0=3.36.0-2 libssh2-1=1.10.0-2 libssl1.1=1.1.1l-1 libstdc++-11-dev=11.2.0-12 libstdc++6=11.2.0-12 libsub-override-perl=0.09-2 libsystemd0=249.7-1 libsz2=1.0.6-1 libtasn1-6=4.18.0-4 libtinfo6=6.3-1 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtool=2.4.6-15 libtsan0=11.2.0-12 libubsan1=11.2.0-12 libuchardet0=0.0.7-1 libudev1=249.7-1 libunistring2=0.9.10-6 libuuid1=2.37.2-4 libuv1=1.42.0-1 libxml2=2.9.12+dfsg-5+b1 libzstd1=1.4.8+dfsg-3 linux-libc-dev=5.15.5-1 login=1:4.8.1-2 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=6.3-1 ncurses-bin=6.3-1 patch=2.7.6-7 perl=5.32.1-6 perl-base=5.32.1-6 perl-modules-5.32=5.32.1-6 po-debconf=1.0.21+nmu1 procps=2:3.3.17-5 python3=3.9.8-1 python3-dev=3.9.8-1 python3-distutils=3.9.9-3 python3-lib2to3=3.9.9-3 python3-minimal=3.9.8-1 python3.9=3.9.9-1 python3.9-dev=3.9.9-1 python3.9-minimal=3.9.9-1 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=2021e-1 util-linux=2.37.2-4 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/20211215T030545Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211215T030545Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20211213T205517Z/ 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 kissplice=2.5.4+dfsg-1 && mkdir -p /build/kissplice-YSGzM8 && dpkg-source --no-check -x /*.dsc /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg && chown -R builduser:builduser /build/kissplice-YSGzM8" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1639380065" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/kissplice-YSGzM8 /tmp/kissplice-2.5.4+dfsg-1bg2es_11 bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20211213T205517Z 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.7VDv2n2jYF 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.7VDv2n2jYF Reading package lists... Building dependency tree... util-linux is already the newest version (2.37.2-4). 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/20211213T205517Z unstable/main amd64 libfakeroot amd64 1.26-1 [47.3 kB] Get:2 http://snapshot.notset.fr/archive/debian/20211213T205517Z 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 1s (242 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 ... 4679 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 (2.33-1) ... 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/20211215T030545Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211215T030545Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20211213T205517Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.7VDv2n2jYF Get:1 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm InRelease [129 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20211213T205517Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main Sources [11.8 MB] Get:4 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main amd64 Packages [11.2 MB] Fetched 23.1 MB in 51s (455 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.7VDv2n2jYF I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d kissplice=2.5.4+dfsg-1 && mkdir -p /build/kissplice-YSGzM8 && dpkg-source --no-check -x /*.dsc /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg && chown -R builduser:builduser /build/kissplice-YSGzM8"' exec /tmp/mmdebstrap.7VDv2n2jYF Reading package lists... NOTICE: 'kissplice' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/kissplice.git Please use: git clone https://salsa.debian.org/med-team/kissplice.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2846 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main kissplice 2.5.4+dfsg-1 (dsc) [2286 B] Get:2 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main kissplice 2.5.4+dfsg-1 (tar) [2835 kB] Get:3 http://snapshot.notset.fr/archive/debian/20211215T030545Z bookworm/main kissplice 2.5.4+dfsg-1 (diff) [8652 B] Fetched 2846 kB in 2s (1154 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'kissplice_2.5.4+dfsg-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting kissplice in /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg dpkg-source: info: unpacking kissplice_2.5.4+dfsg.orig.tar.xz dpkg-source: info: unpacking kissplice_2.5.4+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix-bcalm-install.patch dpkg-source: info: applying tests-2to3.patch dpkg-source: info: applying gcc10.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1639380065" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.7VDv2n2jYF dpkg-buildpackage: info: source package kissplice dpkg-buildpackage: info: source version 2.5.4+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3 debian/rules override_dh_auto_clean make[1]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg' dh_auto_clean find . -name __pycache__/ -type d | xargs rm -rf make[1]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg' dh_clean debian/rules binary-arch dh binary-arch --with python3 dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg' dh_auto_configure -- -DCMAKE_INSTALL_LIBEXECDIR=lib/ 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 -DCMAKE_INSTALL_LIBEXECDIR=lib/ .. CMake Deprecation Warning at CMakeLists.txt:4 (CMAKE_MINIMUM_REQUIRED): Compatibility with CMake < 2.8.12 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The CXX compiler identification is GNU 11.2.0 -- The C compiler identification is GNU 11.2.0 -- 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 -- 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 -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- 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 -- Build files have been written to: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg' dh_auto_build -a cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg -B/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make -f thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/build.make thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/depend make -f thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/build.make thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/depend make -f modules/CMakeFiles/ks_clean_duplicates.dir/build.make modules/CMakeFiles/ks_clean_duplicates.dir/depend make -f modules/CMakeFiles/ks_bubble_enumeration.dir/build.make modules/CMakeFiles/ks_bubble_enumeration.dir/depend make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules/CMakeFiles/ks_clean_duplicates.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules/CMakeFiles/ks_bubble_enumeration.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make -f modules/CMakeFiles/ks_bubble_enumeration.dir/build.make modules/CMakeFiles/ks_bubble_enumeration.dir/build make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make -f thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/build.make thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/build make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make -f modules/CMakeFiles/ks_clean_duplicates.dir/build.make modules/CMakeFiles/ks_clean_duplicates.dir/build make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make -f thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/build.make thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/build make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [ 1%] Building CXX object modules/CMakeFiles/ks_bubble_enumeration.dir/BubbleEnumeration.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_bubble_enumeration.dir/BubbleEnumeration.cpp.o -MF CMakeFiles/ks_bubble_enumeration.dir/BubbleEnumeration.cpp.o.d -o CMakeFiles/ks_bubble_enumeration.dir/BubbleEnumeration.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.cpp [ 3%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/commons.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/commons.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/commons.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/commons.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/commons.c [ 4%] Building CXX object modules/CMakeFiles/ks_clean_duplicates.dir/CleanDuplicates.cpp.o [ 6%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/commons.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_clean_duplicates.dir/CleanDuplicates.cpp.o -MF CMakeFiles/ks_clean_duplicates.dir/CleanDuplicates.cpp.o.d -o CMakeFiles/ks_clean_duplicates.dir/CleanDuplicates.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CleanDuplicates.cpp cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/commons.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/commons.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/commons.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/commons.c [ 7%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/extension_algorithm.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/extension_algorithm.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/extension_algorithm.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/extension_algorithm.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/extension_algorithm.c [ 9%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/extension_algorithm.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/extension_algorithm.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/extension_algorithm.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/extension_algorithm.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/extension_algorithm.c [ 11%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/interface_libchash.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/interface_libchash.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/interface_libchash.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/interface_libchash.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/interface_libchash.c [ 12%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/interface_libchash.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/interface_libchash.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/interface_libchash.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/interface_libchash.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/interface_libchash.c [ 14%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/libchash.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/libchash.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/libchash.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/libchash.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c [ 15%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/libchash.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/libchash.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/libchash.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/libchash.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashFind’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashFind’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:220:7: note: in expansion of macro ‘READ_UL’ 220 | READ_UL((ht)->fpData, cchData); \ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1221:4: note: in expansion of macro ‘LOAD_AND_RETURN’ 1221 | LOAD_AND_RETURN(ht, Find(ht, KEY_TRUNC(ht, key), NULL)); | ^~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:220:7: note: in expansion of macro ‘READ_UL’ 220 | READ_UL((ht)->fpData, cchData); \ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1221:4: note: in expansion of macro ‘LOAD_AND_RETURN’ 1221 | LOAD_AND_RETURN(ht, Find(ht, KEY_TRUNC(ht, key), NULL)); | ^~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashFindLast’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashFindLast’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:220:7: note: in expansion of macro ‘READ_UL’ 220 | READ_UL((ht)->fpData, cchData); \ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1226:4: note: in expansion of macro ‘LOAD_AND_RETURN’ 1226 | LOAD_AND_RETURN(ht, ht->posLastFind); | ^~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:220:7: note: in expansion of macro ‘READ_UL’ 220 | READ_UL((ht)->fpData, cchData); \ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1226:4: note: in expansion of macro ‘LOAD_AND_RETURN’ 1226 | LOAD_AND_RETURN(ht, ht->posLastFind); | ^~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashFirstBucket’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashFirstBucket’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:220:7: note: in expansion of macro ‘READ_UL’ 220 | READ_UL((ht)->fpData, cchData); \ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1290:10: note: in expansion of macro ‘LOAD_AND_RETURN’ 1290 | LOAD_AND_RETURN(ht, retval); | ^~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:220:7: note: in expansion of macro ‘READ_UL’ 220 | READ_UL((ht)->fpData, cchData); \ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1290:10: note: in expansion of macro ‘LOAD_AND_RETURN’ 1290 | LOAD_AND_RETURN(ht, retval); | ^~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashNextBucket’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashNextBucket’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:220:7: note: in expansion of macro ‘READ_UL’ 220 | READ_UL((ht)->fpData, cchData); \ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1300:10: note: in expansion of macro ‘LOAD_AND_RETURN’ 1300 | LOAD_AND_RETURN(ht, retval); | ^~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:220:7: note: in expansion of macro ‘READ_UL’ 220 | READ_UL((ht)->fpData, cchData); \ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1300:10: note: in expansion of macro ‘LOAD_AND_RETURN’ 1300 | LOAD_AND_RETURN(ht, retval); | ^~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashDoLoad’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1407:4: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1407 | fread(szMagicKey, 1, 4, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘HashDoLoad’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1407:4: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1407 | fread(szMagicKey, 1, 4, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1416:4: note: in expansion of macro ‘READ_UL’ 1416 | READ_UL(fp, ht->cchKey); | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1417:4: note: in expansion of macro ‘READ_UL’ 1417 | READ_UL(fp, ht->cItems); | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1416:4: note: in expansion of macro ‘READ_UL’ 1416 | READ_UL(fp, ht->cchKey); | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1418:4: note: in expansion of macro ‘READ_UL’ 1418 | READ_UL(fp, ht->cDeletedItems); | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1417:4: note: in expansion of macro ‘READ_UL’ 1417 | READ_UL(fp, ht->cItems); | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1421:4: note: in expansion of macro ‘READ_UL’ 1421 | READ_UL(fp, cchKey); | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1423:4: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1423 | fread(rgchKeys, 1, cchKey, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1418:4: note: in expansion of macro ‘READ_UL’ 1418 | READ_UL(fp, ht->cDeletedItems); | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1428:7: note: in expansion of macro ‘READ_UL’ 1428 | READ_UL(fp, bck->data); /* all we need if dataRead is NULL */ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1421:4: note: in expansion of macro ‘READ_UL’ 1421 | READ_UL(fp, cchKey); | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1423:4: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1423 | fread(rgchKeys, 1, cchKey, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:1428:7: note: in expansion of macro ‘READ_UL’ 1428 | READ_UL(fp, bck->data); /* all we need if dataRead is NULL */ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘SparseRead’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:622:4: note: in expansion of macro ‘READ_UL’ 622 | READ_UL(fp, cBuckets); /* actually, cBuckets is stored */ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:627:10: note: in expansion of macro ‘READ_UL’ 627 | READ_UL(fp, (*pbinSparse)[i].bmOccupied[j]); | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c: In function ‘SparseRead’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:622:4: note: in expansion of macro ‘READ_UL’ 622 | READ_UL(fp, cBuckets); /* actually, cBuckets is stored */ | ^~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:193:7: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 193 | fread(&_ul, sizeof(_ul), 1, (fp)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/libchash.c:627:10: note: in expansion of macro ‘READ_UL’ 627 | READ_UL(fp, (*pbinSparse)[i].bmOccupied[j]); | ^~~~~~~ In file included from /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.cpp:61: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.h:124:1: warning: ‘typedef’ was ignored in this declaration 124 | typedef struct Path { | ^~~~~~~ In file included from /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.cpp:61: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.h: In function ‘bool read_edges_and_nodes_withoptimIO(char*, char*, char*, char*, char*, int*, TEdgeFunctor, TNodeFunctor&) [with TEdgeFunctor = EdgeLoader; TNodeFunctor = NodeLoader]’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.h:84:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 84 | fscanf(info_file, "%d \n",&bcc_size ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.h:85:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 85 | fscanf(info_file, "%d \n",&records_per_file ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.cpp:60: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h: In function ‘bool read_node_noncontigous_file_withoptimIO(FILE*, FILE*, int*, int*, TFunctor&) [with TFunctor = NodeLoader]’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:252:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 252 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file_node); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:253:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 253 | fscanf(contents_file_node, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:254:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 254 | fscanf(contents_file_node, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:265:58: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 265 | for (int i = 0; i < written_lines_before ; i++) fgets(buffer, 100 * MAX, node_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h: In member function ‘void NodeLoader::operator()(FILE*, int)’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:215:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 215 | fgets(buffer, 100 * MAX, node_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h: In function ‘void read_edge_file_withoptimIO(FILE*, FILE*, int*, int*, TFunctor&) [with TFunctor = EdgeLoader]’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:330:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 330 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file_edge); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:331:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 331 | fscanf(contents_file_edge, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:332:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 332 | fscanf(contents_file_edge, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:339:56: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 339 | for (int i = 0; i < written_lines_before ; i++) fgets(buffer, 100 * MAX, edge_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h: In member function ‘void EdgeLoader::operator()(FILE*, int)’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:294:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 294 | fgets(buffer, 100 * MAX, edge_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 17%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/outputs.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/outputs.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/outputs.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/outputs.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/outputs.c [ 19%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/outputs.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/outputs.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/outputs.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/outputs.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/outputs.c [ 20%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/coherent_algorithm.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/coherent_algorithm.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/coherent_algorithm.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/coherent_algorithm.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/coherent_algorithm.c [ 22%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/coherent_algorithm.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/coherent_algorithm.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/coherent_algorithm.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/coherent_algorithm.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/coherent_algorithm.c [ 23%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/couple.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/couple.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/couple.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/couple.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/couple.c [ 25%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/couple.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/couple.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/couple.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/couple.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/couple.c [ 26%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/fragment_index.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/fragment_index.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/fragment_index.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/fragment_index.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/fragment_index.c [ 28%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/fragment_index.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/fragment_index.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/fragment_index.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/fragment_index.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/fragment_index.c [ 30%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/kissReads.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/kissReads.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/kissReads.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/kissReads.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/kissReads.c [ 31%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/kissReads.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/kissReads.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/kissReads.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/kissReads.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/kissReads.c [ 33%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/list.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/list.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/list.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/list.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/list.c [ 34%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/list.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/list.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/list.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/list.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/list.c [ 36%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/tree.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSNPS.dir/tree.c.o -MF CMakeFiles/ks_kissreadsSNPS.dir/tree.c.o.d -o CMakeFiles/ks_kissreadsSNPS.dir/tree.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/tree.c [ 38%] Linking C executable ../../../lib/kissplice/ks_kissreadsSNPS cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ks_kissreadsSNPS.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ks_kissreadsSNPS.dir/commons.c.o CMakeFiles/ks_kissreadsSNPS.dir/extension_algorithm.c.o CMakeFiles/ks_kissreadsSNPS.dir/interface_libchash.c.o CMakeFiles/ks_kissreadsSNPS.dir/libchash.c.o CMakeFiles/ks_kissreadsSNPS.dir/outputs.c.o CMakeFiles/ks_kissreadsSNPS.dir/coherent_algorithm.c.o CMakeFiles/ks_kissreadsSNPS.dir/couple.c.o CMakeFiles/ks_kissreadsSNPS.dir/fragment_index.c.o CMakeFiles/ks_kissreadsSNPS.dir/kissReads.c.o CMakeFiles/ks_kissreadsSNPS.dir/list.c.o CMakeFiles/ks_kissreadsSNPS.dir/tree.c.o -o ../../../lib/kissplice/ks_kissreadsSNPS -lm -lz [ 39%] Building C object thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/tree.c.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cc -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/include -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DCLASSICAL_SPANNING -DINPUT_FROM_KISSPLICE -MD -MT thirdparty/kissreads/src/CMakeFiles/ks_kissreadsSplice.dir/tree.c.o -MF CMakeFiles/ks_kissreadsSplice.dir/tree.c.o.d -o CMakeFiles/ks_kissreadsSplice.dir/tree.c.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/thirdparty/kissreads/src/tree.c [ 41%] Linking C executable ../../../lib/kissplice/ks_kissreadsSplice cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/thirdparty/kissreads/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ks_kissreadsSplice.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ks_kissreadsSplice.dir/commons.c.o CMakeFiles/ks_kissreadsSplice.dir/extension_algorithm.c.o CMakeFiles/ks_kissreadsSplice.dir/interface_libchash.c.o CMakeFiles/ks_kissreadsSplice.dir/libchash.c.o CMakeFiles/ks_kissreadsSplice.dir/outputs.c.o CMakeFiles/ks_kissreadsSplice.dir/coherent_algorithm.c.o CMakeFiles/ks_kissreadsSplice.dir/couple.c.o CMakeFiles/ks_kissreadsSplice.dir/fragment_index.c.o CMakeFiles/ks_kissreadsSplice.dir/kissReads.c.o CMakeFiles/ks_kissreadsSplice.dir/list.c.o CMakeFiles/ks_kissreadsSplice.dir/tree.c.o -o ../../../lib/kissplice/ks_kissreadsSplice -lm -lz make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [ 41%] Built target ks_kissreadsSNPS [ 42%] Building CXX object modules/CMakeFiles/ks_clean_duplicates.dir/CycleCompression.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_clean_duplicates.dir/CycleCompression.cpp.o -MF CMakeFiles/ks_clean_duplicates.dir/CycleCompression.cpp.o.d -o CMakeFiles/ks_clean_duplicates.dir/CycleCompression.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CycleCompression.cpp [ 42%] Built target ks_kissreadsSplice make -f modules/CMakeFiles/ks_run_modules.dir/build.make modules/CMakeFiles/ks_run_modules.dir/depend make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules/CMakeFiles/ks_run_modules.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make -f modules/CMakeFiles/ks_run_modules.dir/build.make modules/CMakeFiles/ks_run_modules.dir/build make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [ 44%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/run.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/run.cpp.o -MF CMakeFiles/ks_run_modules.dir/run.cpp.o.d -o CMakeFiles/ks_run_modules.dir/run.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/run.cpp [ 46%] Building CXX object modules/CMakeFiles/ks_clean_duplicates.dir/NGraph.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_clean_duplicates.dir/NGraph.cpp.o -MF CMakeFiles/ks_clean_duplicates.dir/NGraph.cpp.o.d -o CMakeFiles/ks_clean_duplicates.dir/NGraph.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp [ 47%] Building CXX object modules/CMakeFiles/ks_clean_duplicates.dir/CGraph.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_clean_duplicates.dir/CGraph.cpp.o -MF CMakeFiles/ks_clean_duplicates.dir/CGraph.cpp.o.d -o CMakeFiles/ks_clean_duplicates.dir/CGraph.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.cpp /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp: In function ‘void read_graph_edges_new(NGraph&, FILE*, FILE*, FILE*, int*, int*)’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1050:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1050 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1051:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1051 | fscanf(contents_file, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1052:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1052 | fscanf(contents_file, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1061:56: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1061 | for (int i = 0; i < written_lines_before ; i++) fgets(buffer, 100 * MAX, data_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1065:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1065 | fgets(buffer, 100 * MAX, data_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp: In function ‘void read_graph_nodes_new(NGraph&, FILE*, FILE*, FILE*, int*, int*)’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1097:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1097 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1098:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1098 | fscanf(contents_file, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1099:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1099 | fscanf(contents_file, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1108:58: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1108 | for (int i = 0; i < written_lines_before ; i++) { fgets(buffer, 100 * MAX, data_file); } | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1112:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1112 | fgets(buffer, 100 * MAX, data_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 49%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/CycleCompression.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/CycleCompression.cpp.o -MF CMakeFiles/ks_run_modules.dir/CycleCompression.cpp.o.d -o CMakeFiles/ks_run_modules.dir/CycleCompression.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CycleCompression.cpp [ 50%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/NGraph.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/NGraph.cpp.o -MF CMakeFiles/ks_run_modules.dir/NGraph.cpp.o.d -o CMakeFiles/ks_run_modules.dir/NGraph.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp [ 52%] Building CXX object modules/CMakeFiles/ks_clean_duplicates.dir/CEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_clean_duplicates.dir/CEdge.cpp.o -MF CMakeFiles/ks_clean_duplicates.dir/CEdge.cpp.o.d -o CMakeFiles/ks_clean_duplicates.dir/CEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CEdge.cpp [ 53%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/CGraph.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/CGraph.cpp.o -MF CMakeFiles/ks_run_modules.dir/CGraph.cpp.o.d -o CMakeFiles/ks_run_modules.dir/CGraph.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.cpp /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp: In function ‘void read_graph_edges_new(NGraph&, FILE*, FILE*, FILE*, int*, int*)’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1050:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1050 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1051:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1051 | fscanf(contents_file, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1052:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1052 | fscanf(contents_file, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1061:56: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1061 | for (int i = 0; i < written_lines_before ; i++) fgets(buffer, 100 * MAX, data_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1065:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1065 | fgets(buffer, 100 * MAX, data_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp: In function ‘void read_graph_nodes_new(NGraph&, FILE*, FILE*, FILE*, int*, int*)’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1097:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1097 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1098:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1098 | fscanf(contents_file, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1099:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1099 | fscanf(contents_file, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1108:58: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1108 | for (int i = 0; i < written_lines_before ; i++) { fgets(buffer, 100 * MAX, data_file); } | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1112:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1112 | fgets(buffer, 100 * MAX, data_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 55%] Building CXX object modules/CMakeFiles/ks_bubble_enumeration.dir/CycleCompression.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_bubble_enumeration.dir/CycleCompression.cpp.o -MF CMakeFiles/ks_bubble_enumeration.dir/CycleCompression.cpp.o.d -o CMakeFiles/ks_bubble_enumeration.dir/CycleCompression.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CycleCompression.cpp [ 57%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/CEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/CEdge.cpp.o -MF CMakeFiles/ks_run_modules.dir/CEdge.cpp.o.d -o CMakeFiles/ks_run_modules.dir/CEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CEdge.cpp [ 58%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/LabelledCEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/LabelledCEdge.cpp.o -MF CMakeFiles/ks_run_modules.dir/LabelledCEdge.cpp.o.d -o CMakeFiles/ks_run_modules.dir/LabelledCEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/LabelledCEdge.cpp [ 60%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/NNode.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/NNode.cpp.o -MF CMakeFiles/ks_run_modules.dir/NNode.cpp.o.d -o CMakeFiles/ks_run_modules.dir/NNode.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NNode.cpp [ 61%] Building CXX object modules/CMakeFiles/ks_bubble_enumeration.dir/NGraph.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_bubble_enumeration.dir/NGraph.cpp.o -MF CMakeFiles/ks_bubble_enumeration.dir/NGraph.cpp.o.d -o CMakeFiles/ks_bubble_enumeration.dir/NGraph.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp [ 63%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/NEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/NEdge.cpp.o -MF CMakeFiles/ks_run_modules.dir/NEdge.cpp.o.d -o CMakeFiles/ks_run_modules.dir/NEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NEdge.cpp /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp: In function ‘void read_graph_edges_new(NGraph&, FILE*, FILE*, FILE*, int*, int*)’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1050:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1050 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1051:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1051 | fscanf(contents_file, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1052:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1052 | fscanf(contents_file, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1061:56: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1061 | for (int i = 0; i < written_lines_before ; i++) fgets(buffer, 100 * MAX, data_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1065:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1065 | fgets(buffer, 100 * MAX, data_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp: In function ‘void read_graph_nodes_new(NGraph&, FILE*, FILE*, FILE*, int*, int*)’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1097:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1097 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1098:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1098 | fscanf(contents_file, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1099:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1099 | fscanf(contents_file, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1108:58: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1108 | for (int i = 0; i < written_lines_before ; i++) { fgets(buffer, 100 * MAX, data_file); } | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NGraph.cpp:1112:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1112 | fgets(buffer, 100 * MAX, data_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/SplitBcc.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/SplitBcc.cpp.o -MF CMakeFiles/ks_run_modules.dir/SplitBcc.cpp.o.d -o CMakeFiles/ks_run_modules.dir/SplitBcc.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/SplitBcc.cpp [ 66%] Building CXX object modules/CMakeFiles/ks_run_modules.dir/Utils.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_run_modules.dir/Utils.cpp.o -MF CMakeFiles/ks_run_modules.dir/Utils.cpp.o.d -o CMakeFiles/ks_run_modules.dir/Utils.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/Utils.cpp [ 68%] Building CXX object modules/CMakeFiles/ks_bubble_enumeration.dir/CGraph.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_bubble_enumeration.dir/CGraph.cpp.o -MF CMakeFiles/ks_bubble_enumeration.dir/CGraph.cpp.o.d -o CMakeFiles/ks_bubble_enumeration.dir/CGraph.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.cpp [ 69%] Building CXX object modules/CMakeFiles/ks_bubble_enumeration.dir/CEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_bubble_enumeration.dir/CEdge.cpp.o -MF CMakeFiles/ks_bubble_enumeration.dir/CEdge.cpp.o.d -o CMakeFiles/ks_bubble_enumeration.dir/CEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CEdge.cpp [ 71%] Building CXX object modules/CMakeFiles/ks_bubble_enumeration.dir/LabelledCEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_bubble_enumeration.dir/LabelledCEdge.cpp.o -MF CMakeFiles/ks_bubble_enumeration.dir/LabelledCEdge.cpp.o.d -o CMakeFiles/ks_bubble_enumeration.dir/LabelledCEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/LabelledCEdge.cpp [ 73%] Building CXX object modules/CMakeFiles/ks_bubble_enumeration.dir/NNode.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_bubble_enumeration.dir/NNode.cpp.o -MF CMakeFiles/ks_bubble_enumeration.dir/NNode.cpp.o.d -o CMakeFiles/ks_bubble_enumeration.dir/NNode.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NNode.cpp [ 74%] Building CXX object modules/CMakeFiles/ks_bubble_enumeration.dir/NEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_bubble_enumeration.dir/NEdge.cpp.o -MF CMakeFiles/ks_bubble_enumeration.dir/NEdge.cpp.o.d -o CMakeFiles/ks_bubble_enumeration.dir/NEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NEdge.cpp [ 76%] Building CXX object modules/CMakeFiles/ks_clean_duplicates.dir/LabelledCEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_clean_duplicates.dir/LabelledCEdge.cpp.o -MF CMakeFiles/ks_clean_duplicates.dir/LabelledCEdge.cpp.o.d -o CMakeFiles/ks_clean_duplicates.dir/LabelledCEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/LabelledCEdge.cpp [ 77%] Building CXX object modules/CMakeFiles/ks_clean_duplicates.dir/NNode.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_clean_duplicates.dir/NNode.cpp.o -MF CMakeFiles/ks_clean_duplicates.dir/NNode.cpp.o.d -o CMakeFiles/ks_clean_duplicates.dir/NNode.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NNode.cpp [ 79%] Building CXX object modules/CMakeFiles/ks_clean_duplicates.dir/NEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_clean_duplicates.dir/NEdge.cpp.o -MF CMakeFiles/ks_clean_duplicates.dir/NEdge.cpp.o.d -o CMakeFiles/ks_clean_duplicates.dir/NEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/NEdge.cpp [ 80%] Building CXX object modules/CMakeFiles/ks_bubble_enumeration.dir/Utils.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_bubble_enumeration.dir/Utils.cpp.o -MF CMakeFiles/ks_bubble_enumeration.dir/Utils.cpp.o.d -o CMakeFiles/ks_bubble_enumeration.dir/Utils.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/Utils.cpp make -f modules/CMakeFiles/ks_error_removal.dir/build.make modules/CMakeFiles/ks_error_removal.dir/depend make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules/CMakeFiles/ks_error_removal.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make -f modules/CMakeFiles/ks_error_removal.dir/build.make modules/CMakeFiles/ks_error_removal.dir/build make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [ 82%] Building CXX object modules/CMakeFiles/ks_error_removal.dir/ErrorRemoval.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_error_removal.dir/ErrorRemoval.cpp.o -MF CMakeFiles/ks_error_removal.dir/ErrorRemoval.cpp.o.d -o CMakeFiles/ks_error_removal.dir/ErrorRemoval.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/ErrorRemoval.cpp [ 84%] Linking CXX executable ../lib/kissplice/ks_bubble_enumeration cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/cmake -E cmake_link_script CMakeFiles/ks_bubble_enumeration.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ks_bubble_enumeration.dir/BubbleEnumeration.cpp.o CMakeFiles/ks_bubble_enumeration.dir/CycleCompression.cpp.o CMakeFiles/ks_bubble_enumeration.dir/NGraph.cpp.o CMakeFiles/ks_bubble_enumeration.dir/CGraph.cpp.o CMakeFiles/ks_bubble_enumeration.dir/CEdge.cpp.o CMakeFiles/ks_bubble_enumeration.dir/LabelledCEdge.cpp.o CMakeFiles/ks_bubble_enumeration.dir/NNode.cpp.o CMakeFiles/ks_bubble_enumeration.dir/NEdge.cpp.o CMakeFiles/ks_bubble_enumeration.dir/Utils.cpp.o -o ../lib/kissplice/ks_bubble_enumeration [ 85%] Building CXX object modules/CMakeFiles/ks_clean_duplicates.dir/Utils.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_clean_duplicates.dir/Utils.cpp.o -MF CMakeFiles/ks_clean_duplicates.dir/Utils.cpp.o.d -o CMakeFiles/ks_clean_duplicates.dir/Utils.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/Utils.cpp make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [ 87%] Building CXX object modules/CMakeFiles/ks_error_removal.dir/CEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_error_removal.dir/CEdge.cpp.o -MF CMakeFiles/ks_error_removal.dir/CEdge.cpp.o.d -o CMakeFiles/ks_error_removal.dir/CEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CEdge.cpp [ 88%] Linking CXX executable ../lib/kissplice/ks_clean_duplicates cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/cmake -E cmake_link_script CMakeFiles/ks_clean_duplicates.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ks_clean_duplicates.dir/CleanDuplicates.cpp.o CMakeFiles/ks_clean_duplicates.dir/CycleCompression.cpp.o CMakeFiles/ks_clean_duplicates.dir/NGraph.cpp.o CMakeFiles/ks_clean_duplicates.dir/CGraph.cpp.o CMakeFiles/ks_clean_duplicates.dir/CEdge.cpp.o CMakeFiles/ks_clean_duplicates.dir/LabelledCEdge.cpp.o CMakeFiles/ks_clean_duplicates.dir/NNode.cpp.o CMakeFiles/ks_clean_duplicates.dir/NEdge.cpp.o CMakeFiles/ks_clean_duplicates.dir/Utils.cpp.o -o ../lib/kissplice/ks_clean_duplicates [ 90%] Building CXX object modules/CMakeFiles/ks_error_removal.dir/LabelledCEdge.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_error_removal.dir/LabelledCEdge.cpp.o -MF CMakeFiles/ks_error_removal.dir/LabelledCEdge.cpp.o.d -o CMakeFiles/ks_error_removal.dir/LabelledCEdge.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/LabelledCEdge.cpp make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [ 92%] Building CXX object modules/CMakeFiles/ks_error_removal.dir/Utils.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_error_removal.dir/Utils.cpp.o -MF CMakeFiles/ks_error_removal.dir/Utils.cpp.o.d -o CMakeFiles/ks_error_removal.dir/Utils.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/Utils.cpp [ 93%] Linking CXX executable ../lib/kissplice/ks_error_removal cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/cmake -E cmake_link_script CMakeFiles/ks_error_removal.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ks_error_removal.dir/ErrorRemoval.cpp.o CMakeFiles/ks_error_removal.dir/CEdge.cpp.o CMakeFiles/ks_error_removal.dir/LabelledCEdge.cpp.o CMakeFiles/ks_error_removal.dir/Utils.cpp.o -o ../lib/kissplice/ks_error_removal make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [ 95%] Linking CXX executable ../lib/kissplice/ks_run_modules cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/cmake -E cmake_link_script CMakeFiles/ks_run_modules.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ks_run_modules.dir/run.cpp.o CMakeFiles/ks_run_modules.dir/CycleCompression.cpp.o CMakeFiles/ks_run_modules.dir/NGraph.cpp.o CMakeFiles/ks_run_modules.dir/CGraph.cpp.o CMakeFiles/ks_run_modules.dir/CEdge.cpp.o CMakeFiles/ks_run_modules.dir/LabelledCEdge.cpp.o CMakeFiles/ks_run_modules.dir/NNode.cpp.o CMakeFiles/ks_run_modules.dir/NEdge.cpp.o CMakeFiles/ks_run_modules.dir/SplitBcc.cpp.o CMakeFiles/ks_run_modules.dir/Utils.cpp.o -o ../lib/kissplice/ks_run_modules make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target ks_bubble_enumeration make -f modules/CMakeFiles/ks_print_bcc.dir/build.make modules/CMakeFiles/ks_print_bcc.dir/depend make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules/CMakeFiles/ks_print_bcc.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make -f modules/CMakeFiles/ks_print_bcc.dir/build.make modules/CMakeFiles/ks_print_bcc.dir/build make[3]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object modules/CMakeFiles/ks_print_bcc.dir/PrintBcc.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_print_bcc.dir/PrintBcc.cpp.o -MF CMakeFiles/ks_print_bcc.dir/PrintBcc.cpp.o.d -o CMakeFiles/ks_print_bcc.dir/PrintBcc.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/PrintBcc.cpp [ 96%] Built target ks_clean_duplicates [ 98%] Building CXX object modules/CMakeFiles/ks_print_bcc.dir/Utils.cpp.o cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/c++ -I/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT modules/CMakeFiles/ks_print_bcc.dir/Utils.cpp.o -MF CMakeFiles/ks_print_bcc.dir/Utils.cpp.o.d -o CMakeFiles/ks_print_bcc.dir/Utils.cpp.o -c /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/Utils.cpp [ 98%] Built target ks_error_removal In file included from /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/PrintBcc.cpp:51: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.h:124:1: warning: ‘typedef’ was ignored in this declaration 124 | typedef struct Path { | ^~~~~~~ In file included from /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/PrintBcc.cpp:51: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.h: In function ‘bool read_edges_and_nodes_withoptimIO(char*, char*, char*, char*, char*, int*, TEdgeFunctor, TNodeFunctor&) [with TEdgeFunctor = Printer; TNodeFunctor = Printer]’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.h:84:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 84 | fscanf(info_file, "%d \n",&bcc_size ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/BubbleEnumeration.h:85:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 85 | fscanf(info_file, "%d \n",&records_per_file ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/PrintBcc.cpp:50: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h: In function ‘bool read_node_noncontigous_file_withoptimIO(FILE*, FILE*, int*, int*, TFunctor&) [with TFunctor = Printer]’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:252:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 252 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file_node); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:253:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 253 | fscanf(contents_file_node, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:254:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 254 | fscanf(contents_file_node, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:265:58: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 265 | for (int i = 0; i < written_lines_before ; i++) fgets(buffer, 100 * MAX, node_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/PrintBcc.cpp: In member function ‘void Printer::operator()(FILE*, int)’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/PrintBcc.cpp:64:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 64 | fgets(buffer, 100 * MAX, in_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/PrintBcc.cpp:50: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h: In function ‘void read_edge_file_withoptimIO(FILE*, FILE*, int*, int*, TFunctor&) [with TFunctor = Printer]’: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:330:68: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 330 | for (int i = 0; i < *required_sequence+*file_index-2 ; i++) fgets(buffer, 100 * MAX, contents_file_edge); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:331:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 331 | fscanf(contents_file_edge, "%d \n",&written_lines_before ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:332:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 332 | fscanf(contents_file_edge, "%d \n",&written_lines_for_record ); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/modules/CGraph.h:339:56: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 339 | for (int i = 0; i < written_lines_before ; i++) fgets(buffer, 100 * MAX, edge_file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable ../lib/kissplice/ks_print_bcc cd /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/modules && /usr/bin/cmake -E cmake_link_script CMakeFiles/ks_print_bcc.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ks_print_bcc.dir/PrintBcc.cpp.o CMakeFiles/ks_print_bcc.dir/Utils.cpp.o -o ../lib/kissplice/ks_print_bcc make[3]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' [100%] Built target ks_run_modules [100%] Built target ks_print_bcc make[2]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' dh_auto_test -a cd obj-x86_64-linux-gnu && make -j4 test ARGS\+=--verbose ARGS\+=-j4 make[1]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j4 UpdateCTestConfiguration from :/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 1 Start 1: KisspliceBasicTest 1: Test command: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin/kissplice "-h" 1: Test timeout computed to be: 10000000 test 2 Start 2: KisspliceDBGTest 2: Test command: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/kisspliceDBGTest.py "/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin" 2: Test timeout computed to be: 10000000 test 3 Start 3: KisspliceTwoSequencesTest 3: Test command: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/kisspliceTwoSequencesTest.py "/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin" 3: Test timeout computed to be: 10000000 test 4 Start 4: KisspliceGraphAndSequenceTest 4: Test command: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/kisspliceGraphAndSequenceTest.py "/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin" 4: Test timeout computed to be: 10000000 1: KISSPLICE_INSTDIR: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin 1: KS_SEC_EXEC_PATH: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice 1: usage: kissplice [-h] [-r READFILES] [-k KVAL] [-b BVAL] [-l LLMAX] 1: [-m LL_MIN] [-M UL_MAX] [-g GRAPH_PREFIX] [-o OUT_DIR] 1: [-d PATH_TO_TMP] [-t NBPROCS] [-s OUTPUT_SNPS] [-v] [-u] 1: [-c MIN_COV] [-C MIN_RELATIVE_COV] [-e MIN_EDIT_DIST] 1: [-y MAX_CYCLES] [--mismatches MISM] [--counts COUNTSMETHOD] 1: [--min_overlap MINOVERLAP] [--timeout TIMEOUT] [--version] 1: [--output-context] [--output-path] [--output-branch-count] 1: [--keep-bccs] [--not-experimental] [--max-memory MAX_MEMORY] 1: [--keep-counts] [--get-mapping-info] [--stranded] 1: [--strandedAbsoluteThreshold STRANDEDABSOLUTETHRESHOLD] 1: [--strandedRelativeThreshold STRANDEDRELATIVETHRESHOLD] 1: 1: kisSplice - local assembly of SNPs, indels and AS events 1: 1: optional arguments: 1: -h, --help show this help message and exit 1: -r READFILES input fasta/q read files or compressed (.gz) fasta/q 1: files (mutiple, such as "-r file1 -r file2...") 1: -k KVAL k-mer size (default=41) 1: -b BVAL maximum number of branching nodes (default 5) 1: -l LLMAX maximal length of the shorter path (default: 2k+1) 1: -m LL_MIN minimum length of the shorter path (default 2k-8) 1: -M UL_MAX maximum length of the longest path (default 1000000), 1: skipped exons longer than UL_MAX are not reported 1: -g GRAPH_PREFIX path and prefix to pre-built de Bruijn graph (suffixed 1: by .edges/.nodes) if jointly used with -r, graph used 1: to find bubbles and reads used for quantification 1: -o OUT_DIR path to store the results and the summary log file 1: (default = ./results) 1: -d PATH_TO_TMP specific directory (absolute path) where to build 1: temporary files (default temporary directory 1: otherwise) 1: -t NBPROCS number of cores (must be <= number of physical cores) 1: -s OUTPUT_SNPS 0, 1 or 2. Changes which types of SNPs will be output. 1: If 0 (default), will not output SNPs. If 1, will 1: output Type0a-SNPs. If 2, will output Type0a and 1: Type0b SNPs (warning: this option may increase a lot 1: the running time. You might also want to try the 1: experimental algorithm here) 1: -v Verbose mode 1: -u keep the nodes/edges file for unfinished bccs 1: -c MIN_COV an integer, k-mers present strictly less than this 1: number of times in the dataset will be discarded 1: (default 2) 1: -C MIN_RELATIVE_COV a percentage from [0,1), edges with relative coverage 1: below this number are removed (default 0.05) 1: -e MIN_EDIT_DIST edit distance threshold, if the two sequences (paths) 1: of a bubble have edit distance smaller than this 1: threshold, the bubble is classified as an inexact 1: repeat (default 3) 1: -y MAX_CYCLES maximal number of bubbles enumeration in each bcc. If 1: exceeded, no bubble is output for the bcc (default 1: 100M) 1: --mismatches MISM Maximal number of substitutions authorized between a 1: read and a fragment (for quantification only), default 1: 2. If you increase the mismatch and use --counts think 1: of increasing min_overlap too. 1: --counts COUNTSMETHOD 1: 0,1 or 2 . Changes how the counts will be reported. If 1: 0 : total counts, if 1: counts on junctions, if 2 1: (default): all counts. see User guide for more 1: information 1: --min_overlap MINOVERLAP 1: Set how many nt must overlap a junction to be counted 1: by --counts option. Default=5. see User guide for more 1: information 1: --timeout TIMEOUT max amount of time (in seconds) spent for enumerating 1: bubbles in each bcc. If exceeded, no bubble is output 1: for the bcc (default 100000) 1: --version show program's version number and exit 1: --output-context Will output the maximum non-ambiguous context of a 1: bubble 1: --output-path Will output the id of the nodes composing the two 1: paths of the bubbles. 1: --output-branch-count 1: Will output the number of branching nodes in each 1: path. 1: --keep-bccs Keep the node/edges files for all bccs. 1: --not-experimental Do not use a new experimental algorithm that searches 1: for bubbles by listing all paths. 1: --max-memory MAX_MEMORY 1: If you use the experimental algorithm, you must 1: provide the maximum size of the process's virtual 1: memory (address space) in megabytes (default 1: unlimited). WARNING: this option does not work on Mac 1: operating systems. 1: --keep-counts Keep the .counts file after the sequencing-errors- 1: removal step. 1: --get-mapping-info Creates a file with the KissReads mapping information 1: of the reads on the bubbles. 1: --stranded Execute kissreads in stranded mode. 1: --strandedAbsoluteThreshold STRANDEDABSOLUTETHRESHOLD 1: Sets the minimum number of reads mapping to a path of 1: a bubble in a read set is needed to call a strand. 1: --strandedRelativeThreshold STRANDEDRELATIVETHRESHOLD 1: If a strand is called for a path of a bubble in a read 1: set, but the proportion of reads calling this strand 1: is less than this threshold, then the strand of the 1: path is set to '?' (any strand - not enough evidence 1: to call a strand). 1/8 Test #1: KisspliceBasicTest ............... Passed 0.19 sec test 5 Start 5: KisspliceGraphTest 5: Test command: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/kisspliceGraphTest.py "/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin" 5: Test timeout computed to be: 10000000 5: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin/kissplice -s 2 -k 25 -M 1000 -g /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/graph_HBM75brain_100000_HBM75liver_100000_k25 -C 0 5: b'KISSPLICE_INSTDIR: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin\nKS_SEC_EXEC_PATH: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice\n\nThis is KisSplice, version 2.5.4\n\nThe command line was: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin/kissplice -s 2 -k 25 -M 1000 -g /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/graph_HBM75brain_100000_HBM75liver_100000_k25 -C 0\nUsing the read files: None\nResults will be stored in: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/tests/integration_tests/results\nSummary log file will be saved in: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/tests/integration_tests/results/kissplice_log_summary_04-22-19_20-12-2021_198211\n\n\nElapsed time: 2.6226043701171875e-06 seconds\n\n[04:22:19 20/12/2021] --> Finding the BCCs...\n[04:22:19 20/12/2021] --> Done!\nElapsed time: 0.03233146667480469 seconds\n\n[04:22:19 20/12/2021] --> Enumerating all bubbles...\nTotal number of bubbles found: 57.0\n[04:22:23 20/12/2021] --> Done!\nElapsed time: 4.167469263076782 seconds\n\n[04:22:23 20/12/2021] --> Starting Bubble Output Module\n[04:22:23 20/12/2021] --> Sampling bubbles by type...\n[04:22:23 20/12/2021] --> Done!\nYou can now access all bubbles without read coherency in: results\nElapsed time: 0.0014758110046386719 seconds\n\n\n\n \t\t ******** We are done, final results are in files results/results_graph_HBM75brain_100000_HBM75liver_100000_k25_type_*.fa **********\n\t\t TYPES:\n\t\t\t 0a: Single SNPs, Inexact Repeats or sequencing substitution errors, 83 found\n\t\t\t 0b: Multiple SNPs, Inexact Repeats or sequencing substitution errors, 17 found\n\t\t\t 1: Alternative Splicing Events, 1 found\n\t\t\t 2: Inexact Tandem Repeats, 0 found\n\t\t\t 3: Short Indels (<3nt), 16 found\n\t\t\t 4: All others, composed by a shorter path of length > 2k not being a SNP, 0 found\n\n\n \t\t ******** A summary of the execution can be found in the log file: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/tests/integration_tests/results/kissplice_log_summary_04-22-19_20-12-2021_198211**********\n' 5: kisspliceGraphTest.py: test SUCCESSFUL 2/8 Test #5: KisspliceGraphTest ............... Passed 4.33 sec test 6 Start 6: ksBubbleEnumerationTest 6: Test command: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/ksBubbleEnumerationTest.py "/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice" 6: Test timeout computed to be: 10000000 6: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice/ks_bubble_enumeration /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/graph_info_bcc /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/graph_contents_edges_bcc /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/graph_contents_nodes_bcc /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/graph_all_edges_bcc /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/graph_all_nodes_bcc 2 25 /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/test_ks_bubble_enumeration_output 3 bcc_test 0 -u 1000 -L 49 -l 42 -M 10000 -b 5 6: b'\t Enumerating bubbles with at most 5 branching nodes in each path!\n============================================================================\nSummary of results\n============================================================================\nNo of bubbles: 4\n============================================================================\n' 6: Ks_Bubble_Enumeration_Test: test SUCCESSFUL 3/8 Test #6: ksBubbleEnumerationTest .......... Passed 0.04 sec test 7 Start 7: ksRunModulesTest 7: Test command: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/ksRunModulesTest.py "/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice" 7: Test timeout computed to be: 10000000 7: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice/ks_run_modules /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/graph_HBM75brainliver_100000_k25.edges /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/graph_HBM75brainliver_100000_k25.nodes 25 /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/test_ks_run_modules_output_graph 7: b'Searching biconnected components...\nNumber of biconnected components found: 109\n\nProcessing component 1...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 2...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 5 nodes.\nDone!\n\nProcessing component 3...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 4...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 5...\nInitial size: 9 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 8 nodes.\nDone!\n\nProcessing component 6...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 7...\nInitial size: 41 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 11.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 30 nodes.\nDone!\n\nProcessing component 8...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 9...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 10...\nInitial size: 68 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 4.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 64 nodes.\nDone!\n\nProcessing component 11...\nInitial size: 54 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 5.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 49 nodes.\nDone!\n\nProcessing component 12...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 13...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 14...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 15...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 16...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 17...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 18...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 5 nodes.\nDone!\n\nProcessing component 19...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 20...\nInitial size: 37 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 37 nodes.\nDone!\n\nProcessing component 21...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 22...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 23...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 24...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 25...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 26...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 27...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 28...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 29...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 30...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 31...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 32...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 33...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 34...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 35...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 6 nodes.\nDone!\n\nProcessing component 36...\nInitial size: 9 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 8 nodes.\nDone!\n\nProcessing component 37...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 38...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 39...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 40...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 41...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 42...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 43...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 44...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 45...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 46...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 47...\nInitial size: 13 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 8.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 5 nodes.\nDone!\n\nProcessing component 48...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 49...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 50...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 51...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 52...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 53...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 54...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 55...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 56...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 57...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 58...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 59...\nInitial size: 8 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 6 nodes.\nDone!\n\nProcessing component 60...\nInitial size: 9 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 8 nodes.\nDone!\n\nProcessing component 61...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 5 nodes.\nDone!\n\nProcessing component 62...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 63...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 64...\nInitial size: 8 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 7 nodes.\nDone!\n\nProcessing component 65...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 66...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 67...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 68...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 5 nodes.\nDone!\n\nProcessing component 69...\nInitial size: 3 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 1 nodes.\nDone!\n\nProcessing component 70...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 4.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 1 nodes.\nDone!\n\nProcessing component 71...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 72...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 73...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 74...\nInitial size: 29 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 8.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 21 nodes.\nDone!\n\nProcessing component 75...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 2.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 76...\nInitial size: 8 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 3.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 3.\nFinal size: 1 nodes.\nDone!\n\nProcessing component 77...\nInitial size: 6 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 6 nodes.\nDone!\n\nProcessing component 78...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 79...\nInitial size: 7 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 3.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 80...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 81...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 82...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 83...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 84...\nInitial size: 8 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 8 nodes.\nDone!\n\nProcessing component 85...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 86...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 87...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 88...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 89...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 90...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 91...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 92...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 93...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 94...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 1.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 95...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 96...\nInitial size: 33 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 5.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 28 nodes.\nDone!\n\nProcessing component 97...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 98...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 99...\nInitial size: 5 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 5 nodes.\nDone!\n\nProcessing component 100...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 101...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 102...\nInitial size: 14 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 14 nodes.\nDone!\n\nProcessing component 103...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 104...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 105...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 0.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 4 nodes.\nDone!\n\nProcessing component 106...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 107...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 108...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\nProcessing component 109...\nInitial size: 4 nodes.\nCompressing linear paths...\nNumber of compressed nodes: 0.\nCompressing simple bubbles...\nNumber of compressed bubbles: 1.\nRecompressing linear paths...\nNumber of compressed nodes: 0.\nFinal size: 3 nodes.\nDone!\n\n' 7: ks_run_modules: test SUCCESSFUL 4/8 Test #7: ksRunModulesTest ................. Passed 0.10 sec test 8 Start 8: ksErrorRemovalTest 8: Test command: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/ksErrorRemovalTest.py "/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice" 8: Test timeout computed to be: 10000000 8: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice/ks_error_removal /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/graph_HBM75brainliver_100000_k25.edges /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/graph_HBM75brainliver_100000_k25.abundance 25 0.02/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/functional_tests/data/test_ks_error_removal_output 8: b'252 out of 5336 edges removed\n' 8: ks_error_removal: test SUCCESSFUL 5/8 Test #8: ksErrorRemovalTest ............... Passed 0.07 sec 4: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin/kissplice -s 2 -k 25 -M 1000 -g /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/graph_HBM75brain_100000_HBM75liver_100000_k25 -r /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75brain_100000.fasta -C 0 4: b'KISSPLICE_INSTDIR: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin\nKS_SEC_EXEC_PATH: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice\n\nThis is KisSplice, version 2.5.4\n\nThe command line was: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin/kissplice -s 2 -k 25 -M 1000 -g /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/graph_HBM75brain_100000_HBM75liver_100000_k25 -r /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75brain_100000.fasta -C 0\n-r and -g options used together: \nthe graph will be used to find events, while reads files are used for checking read-coherency and coverage\nUsing the read files: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75brain_100000.fasta\nResults will be stored in: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/tests/integration_tests/results\nSummary log file will be saved in: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/tests/integration_tests/results/kissplice_log_summary_04-22-19_20-12-2021_264835\n\n\nElapsed time: 2.86102294921875e-06 seconds\n\n[04:22:19 20/12/2021] --> Finding the BCCs...\n[04:22:19 20/12/2021] --> Done!\nElapsed time: 0.06797647476196289 seconds\n\n[04:22:19 20/12/2021] --> Enumerating all bubbles...\nTotal number of bubbles found: 57.0\n[04:22:23 20/12/2021] --> Done!\nElapsed time: 3.9276416301727295 seconds\n\n[04:22:23 20/12/2021] --> Starting Bubble Output Module\nBefore checking for read coherency, all bubbles will be written to folder results/results_without_read_coherency\nThis enables you to access them even before the read coherency module finishes, which can take a long time\n[04:22:23 20/12/2021] --> Sampling bubbles by type...\n[04:22:23 20/12/2021] --> Done!\nYou can now access all bubbles without read coherency in: results/results_without_read_coherency\n\n[04:22:23 20/12/2021] --> Computing read coherence and coverage...\n[04:22:23 20/12/2021] --> Done!\n[04:22:23 20/12/2021] --> Sorting all bubbles...\n[04:22:23 20/12/2021] --> Done!\nElapsed time: 0.5514845848083496 seconds\n\n\n\n \t\t ******** We are done, final coherent results are in files results/results_HBM75brain_100000_k25_coherents_type_*.fa ********** \n \t\t ******** All non read coherent results are in files results/results_HBM75brain_100000_k25_uncoherent.fa ****** \n\n\n\t\t TYPES:\n\t\t\t 0a: Single SNPs, Inexact Repeats or sequencing substitution errors, 29 found\n\t\t\t 0b: Multiple SNPs, Inexact Repeats or sequencing substitution errors, 8 found\n\t\t\t 1: Alternative Splicing Events, 0 found\n\t\t\t 2: Inexact Tandem Repeats, 0 found\n\t\t\t 3: Short Indels (<3nt), 14 found\n\t\t\t 4: All others, composed by a shorter path of length > 2k not being a SNP, 0 found\n\n\n \t\t ******** A summary of the execution can be found in the log file: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/tests/integration_tests/results/kissplice_log_summary_04-22-19_20-12-2021_264835**********\n' 4: kisspliceGraphAndSequenceTest.py: test SUCCESSFUL 6/8 Test #4: KisspliceGraphAndSequenceTest .... Passed 4.75 sec 2: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin/kissplice -k 25 -M 1000 -r /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75brain_100000.fasta -r /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75liver_100000.fasta --keep-counts -o /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/results 2: diff /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/results/graph_HBM75brain_100000_HBM75liver_100000_k25.edges0 /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/graph_HBM75brain_100000_HBM75liver_100000_k25.edges0 2: diff /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/results/graph_HBM75brain_100000_HBM75liver_100000_k25.nodes0 /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/graph_HBM75brain_100000_HBM75liver_100000_k25.nodes0 2: diff /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/results/graph_HBM75brain_100000_HBM75liver_100000_k25.abundance0 /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/graph_HBM75brain_100000_HBM75liver_100000_k25.abundance0 2: kisspliceDBGTest.py: test SUCCESSFUL 2: rm -r /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/results 7/8 Test #2: KisspliceDBGTest ................. Passed 19.01 sec 3: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin/kissplice -s 2 -k 25 -M 1000 -r /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75brain_100000.fasta -r /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75liver_100000.fasta -C 0 3: b'KISSPLICE_INSTDIR: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin\nKS_SEC_EXEC_PATH: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/lib/kissplice\n\nThis is KisSplice, version 2.5.4\n\nThe command line was: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/bin/kissplice -s 2 -k 25 -M 1000 -r /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75brain_100000.fasta -r /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75liver_100000.fasta -C 0\nUsing the read files: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75brain_100000.fasta /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/tests/integration_tests/data/HBM75liver_100000.fasta\nResults will be stored in: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/tests/integration_tests/results\nSummary log file will be saved in: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/tests/integration_tests/results/kissplice_log_summary_04-22-19_20-12-2021_746913\n\n\n[04:22:19 20/12/2021] --> Building de Bruijn graph...\nGraph will be written in results/graph_HBM75brain_100000_HBM75liver_100000_k25.[edges/nodes]\n[04:22:34 20/12/2021] --> Done!\nElapsed time: 14.950847387313843 seconds\nElapsed time: 9.298324584960938e-06 seconds\n\n[04:22:34 20/12/2021] --> Finding the BCCs...\n[04:22:34 20/12/2021] --> Done!\nElapsed time: 0.11561965942382812 seconds\n\n[04:22:34 20/12/2021] --> Enumerating all bubbles...\nTotal number of bubbles found: 57.0\n[04:22:37 20/12/2021] --> Done!\nElapsed time: 3.658097505569458 seconds\n\n[04:22:37 20/12/2021] --> Starting Bubble Output Module\nBefore checking for read coherency, all bubbles will be written to folder results/results_without_read_coherency\nThis enables you to access them even before the read coherency module finishes, which can take a long time\n[04:22:37 20/12/2021] --> Sampling bubbles by type...\n[04:22:37 20/12/2021] --> Done!\nYou can now access all bubbles without read coherency in: results/results_without_read_coherency\n\n[04:22:37 20/12/2021] --> Computing read coherence and coverage...\n[04:22:39 20/12/2021] --> Done!\n[04:22:39 20/12/2021] --> Sorting all bubbles...\n[04:22:39 20/12/2021] --> Done!\nElapsed time: 1.5416698455810547 seconds\n\n\n\n \t\t ******** We are done, final coherent results are in files results/results_HBM75brain_100000_HBM75liver_100000_k25_coherents_type_*.fa ********** \n \t\t ******** All non read coherent results are in files results/results_HBM75brain_100000_HBM75liver_100000_k25_uncoherent.fa ****** \n\n\n\t\t TYPES:\n\t\t\t 0a: Single SNPs, Inexact Repeats or sequencing substitution errors, 81 found\n\t\t\t 0b: Multiple SNPs, Inexact Repeats or sequencing substitution errors, 17 found\n\t\t\t 1: Alternative Splicing Events, 1 found\n\t\t\t 2: Inexact Tandem Repeats, 0 found\n\t\t\t 3: Short Indels (<3nt), 16 found\n\t\t\t 4: All others, composed by a shorter path of length > 2k not being a SNP, 0 found\n\n\n \t\t ******** A summary of the execution can be found in the log file: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu/tests/integration_tests/results/kissplice_log_summary_04-22-19_20-12-2021_746913**********\n' 3: kisspliceTwoSequencesTest.py: test SUCCESSFUL 8/8 Test #3: KisspliceTwoSequencesTest ........ Passed 21.73 sec 100% tests passed, 0 tests failed out of 8 Total Test time (real) = 21.75 sec make[1]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install --destdir=debian/kissplice/ -a cd obj-x86_64-linux-gnu && make -j4 install DESTDIR=/build/kissplice-YSGzM8/kissplice-2.5.4\+dfsg/debian/kissplice AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg -B/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/bin/kissplice -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/lib/kissplice/ks_kissreadsSNPS -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/lib/kissplice/ks_kissreadsSplice -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/lib/kissplice/ks_clean_duplicates -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/lib/kissplice/ks_bubble_enumeration -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/lib/kissplice/ks_run_modules -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/lib/kissplice/ks_error_removal -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/lib/kissplice/ks_print_bcc -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/share/man/man1/kissplice.1 -- Installing: /build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/debian/kissplice/usr/share/doc/kissplice/user_guide.pdf make[1]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg/obj-x86_64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg' rm -rf debian/kissplice/usr/README.md debian/kissplice/build debian/kissplice/builds mkdir -p debian/kissplice/usr/share/kissplice mv debian/kissplice/usr/bin/kissplice debian/kissplice/usr/share/kissplice/kissplice.py make[1]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg' dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_python3 -a I: dh_python3 tools:114: replacing shebang in debian/kissplice/usr/share/kissplice/kissplice.py dh_perl -a dh_link -a dh_strip_nondeterminism -a debian/rules override_dh_compress make[1]: Entering directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg' dh_compress --exclude=.pdf make[1]: Leaving directory '/build/kissplice-YSGzM8/kissplice-2.5.4+dfsg' dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'kissplice' in '../kissplice_2.5.4+dfsg-1_amd64.deb'. dpkg-deb: building package 'kissplice-dbgsym' in '../kissplice-dbgsym_2.5.4+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=any -O../kissplice_2.5.4+dfsg-1_amd64.buildinfo dpkg-genchanges --build=any -O../kissplice_2.5.4+dfsg-1_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/kissplice-YSGzM8 /tmp/kissplice-2.5.4+dfsg-1bg2es_11 I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.7VDv2n2jYF... I: success in 4142.1040 seconds md5: kissplice-dbgsym_2.5.4+dfsg-1_amd64.deb: OK md5: kissplice_2.5.4+dfsg-1_amd64.deb: OK sha1: kissplice-dbgsym_2.5.4+dfsg-1_amd64.deb: OK sha1: kissplice_2.5.4+dfsg-1_amd64.deb: OK sha256: kissplice-dbgsym_2.5.4+dfsg-1_amd64.deb: OK sha256: kissplice_2.5.4+dfsg-1_amd64.deb: OK Checksums: OK