Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/k/kallisto/kallisto_0.48.0+dfsg-2_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/kallisto-0.48.0+dfsg-2gnz4vnnn/kallisto_0.48.0+dfsg-2_amd64.buildinfo Get source package info: kallisto=0.48.0+dfsg-2 Source URL: http://snapshot.notset.fr/mr/package/kallisto/0.48.0+dfsg-2/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.71-2 automake=1:1.16.5-1.1 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=12 base-passwd=3.5.52 bash=5.1-6 binutils=2.37.50.20220106-2 binutils-common=2.37.50.20220106-2 binutils-x86-64-linux-gnu=2.37.50.20220106-2 bsdextrautils=2.37.2-6 bsdutils=1:2.37.2-6 build-essential=12.9 bzip2=1.0.8-5 ca-certificates=20211016 catch2=2.13.8-1 cmake=3.22.1-1+b1 cmake-data=3.22.1-1 coinor-cbc=2.10.5+ds1-3 coinor-libcbc3=2.10.5+ds1-3 coinor-libcgl1=0.60.3+repack1-3 coinor-libclp1=1.17.5+repack1-1 coinor-libcoinutils3v5=2.11.4+repack1-2 coinor-libosi1v5=0.108.6+repack1-2 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.2.0-14 dash=0.5.11+git20210903+057cd650a4ed-3 debconf=1.5.79 debhelper=13.6 debianutils=5.5-1 dh-autoreconf=20 dh-elpa-helper=2.0.10 dh-strip-nondeterminism=1.13.0-1 diffutils=1:3.7-5 docutils-common=0.17.1+dfsg-2 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 fonts-font-awesome=5.0.10+really4.7.0~dfsg-4.1 fonts-lato=2.0-2.1 fonts-mathjax=2.7.9+dfsg-1 g++=4:11.2.0-2 g++-11=11.2.0-14 gcc=4:11.2.0-2 gcc-11=11.2.0-14 gcc-11-base=11.2.0-14 gettext=0.21-4 gettext-base=0.21-4 gir1.2-glib-2.0=1.70.0-3 git=1:2.34.1-1 git-man=1:2.34.1-1 grep=3.7-1 groff-base=1.22.4-8 gzip=1.10-4 hdf5-helpers=1.10.7+repack-4 hostname=3.23 init-system-helpers=1.61 intltool-debian=0.35.0+20060710.5 libacl1=2.3.1-1 libaec-dev=1.0.6-1 libaec0=1.0.6-1 libarchive-zip-perl=1.68-1 libarchive13=3.5.2-1 libasan6=11.2.0-14 libatomic1=11.2.0-14 libattr1=1:2.5.1-1 libaudit-common=1:3.0.6-1 libaudit1=1:3.0.6-1+b1 libbinutils=2.37.50.20220106-2 libblas3=3.10.0-2 libblkid1=2.37.2-6 libbrotli1=1.0.9-2+b3 libbz2-1.0=1.0.8-5 libc-bin=2.33-3 libc-dev-bin=2.33-3 libc6=2.33-3 libc6-dev=2.33-3 libcap-ng0=0.7.9-2.2+b1 libcap2=1:2.44-1 libcc1-0=11.2.0-14 libcom-err2=1.46.5-2 libcrypt-dev=1:4.4.27-1 libcrypt1=1:4.4.27-1 libctf-nobfd0=2.37.50.20220106-2 libctf0=2.37.50.20220106-2 libcurl3-gnutls=7.81.0-1 libcurl4=7.81.0-1 libcurl4-gnutls-dev=7.81.0-1 libdatrie1=0.2.13-2 libdb5.3=5.3.28+dfsg1-0.8 libdebconfclient0=0.261 libdebhelper-perl=13.6 libdeflate-dev=1.9-1 libdeflate0=1.9-1 libdpkg-perl=1.21.1 libelf1=0.186-1 liberror-perl=0.17029-1 libexpat1=2.4.3-1 libffi8=3.4.2-4 libfile-stripnondeterminism-perl=1.13.0-1 libgcc-11-dev=11.2.0-14 libgcc-s1=11.2.0-14 libgcrypt20=1.9.4-5 libgdbm-compat4=1.22-1 libgdbm6=1.22-1 libgfortran5=11.2.0-14 libgirepository-1.0-1=1.70.0-3 libglib2.0-0=2.70.2-1 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.2-5 libgomp1=11.2.0-14 libgpg-error0=1.43-3 libgssapi-krb5-2=1.18.3-7 libhdf5-103-1=1.10.7+repack-4 libhdf5-cpp-103-1=1.10.7+repack-4 libhdf5-dev=1.10.7+repack-4 libhdf5-fortran-102=1.10.7+repack-4 libhdf5-hl-100=1.10.7+repack-4 libhdf5-hl-cpp-100=1.10.7+repack-4 libhdf5-hl-fortran-100=1.10.7+repack-4 libhogweed6=3.7.3-1 libhts-dev=1.13+ds-2 libhts3=1.13+ds-2 libhtscodecs2=1.1.1-3+b1 libicu67=67.1-7 libidn2-0=2.3.2-2 libisl23=0.24-2 libitm1=11.2.0-14 libjpeg-dev=1:2.1.2-1 libjpeg62-turbo=1:2.1.2-1 libjpeg62-turbo-dev=1:2.1.2-1 libjs-jquery=3.5.1+dfsg+~3.5.5-8 libjs-mathjax=2.7.9+dfsg-1 libjs-sphinxdoc=4.3.2-1 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 liblapack3=3.10.0-2 libldap-2.4-2=2.4.59+dfsg-1 liblsan0=11.2.0-14 liblz4-1=1.9.3-2 liblzma-dev=5.2.5-2 liblzma5=5.2.5-2 libmagic-mgc=1:5.41-2 libmagic1=1:5.41-2 libmount1=2.37.2-6 libmpc3=1.2.1-1 libmpdec3=2.5.1-2 libmpfr6=4.1.0-3 libncurses6=6.3-2 libncursesw6=6.3-2 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=1.5.5-1 libprocps8=2:3.3.17-6 libpsl5=0.21.0-1.2 libpython3-stdlib=3.9.8-1 libpython3.9-minimal=3.9.10-1 libpython3.9-stdlib=3.9.10-1 libquadmath0=11.2.0-14 libreadline8=8.1.2-1 librhash0=1.4.2-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg2-3 libsasl2-modules-db=2.1.27+dfsg2-3 libseccomp2=2.5.3-2 libselinux1=3.3-1+b1 libsigsegv2=2.13-1 libsmartcols1=2.37.2-6 libsodium23=1.0.18-1 libsqlite3-0=3.37.2-2 libssh2-1=1.10.0-2 libssl-dev=1.1.1m-1 libssl1.1=1.1.1m-1 libstdc++-11-dev=11.2.0-14 libstdc++6=11.2.0-14 libsub-override-perl=0.09-2 libsystemd0=250.3-1 libsz2=1.0.6-1 libtasn1-6=4.18.0-4 libtinfo6=6.3-2 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtool=2.4.6-15 libtsan0=11.2.0-14 libubsan1=11.2.0-14 libuchardet0=0.0.7-1 libudev1=250.3-1 libunistring2=0.9.10-6 libuuid1=2.37.2-6 libuv1=1.43.0-1 libxml2=2.9.12+dfsg-5+b1 libyaml-0-2=0.2.2-1 libzstd1=1.4.8+dfsg-3 linux-libc-dev=5.15.15-1 login=1:4.8.1-2 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.9.4-4 mawk=1.3.4.20200120-2 media-types=4.0.0 ncurses-base=6.3-2 ncurses-bin=6.3-2 openssl=1.1.1m-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=2:3.3.17-6 python3=3.9.8-1 python3-adal=1.2.2-1 python3-aiohttp=3.8.1-4 python3-aiosignal=1.2.0-2 python3-appdirs=1.4.4-2 python3-async-timeout=4.0.1-1 python3-attr=21.2.0-1 python3-avro=1.10.2+dfsg-1 python3-azure=20211104+git-1 python3-azure-storage=20211104+git-1 python3-bcrypt=3.2.0-1+b1 python3-blinker=1.4+dfsg1-0.4 python3-boto3=1.20.34+dfsg-1 python3-botocore=1.23.34+repack-1 python3-certifi=2020.6.20-1 python3-cffi-backend=1.15.0-1+b1 python3-chardet=4.0.0-1 python3-charset-normalizer=2.0.6-2 python3-configargparse=1.5.3-1 python3-connection-pool=0.0.3-1 python3-cryptography=3.4.8-1 python3-dateutil=2.8.1-6 python3-datrie=0.8.2-1+b2 python3-distutils=3.9.10-1 python3-docutils=0.17.1+dfsg-2 python3-filelock=3.4.2-1 python3-frozenlist=1.2.0-1+b1 python3-gi=3.42.0-3 python3-git=3.1.24-1 python3-gitdb=4.0.9-1 python3-idna=3.2-2 python3-ipython-genutils=0.2.0-5 python3-isodate=0.6.1-1 python3-jmespath=0.10.0-1 python3-jsonschema=3.2.0-5 python3-jupyter-core=4.9.1-1 python3-jwt=2.1.0-1 python3-lib2to3=3.9.10-1 python3-minimal=3.9.8-1 python3-msal=1.16.0-1 python3-msal-extensions=0.3.1-1 python3-msrest=0.6.21-1 python3-msrestazure=0.6.4-1 python3-multidict=5.1.0-1+b1 python3-nacl=1.5.0-2 python3-nbformat=5.1.3-1 python3-oauthlib=3.1.1-1 python3-paramiko=2.8.1-1 python3-pkg-resources=59.6.0-1.2 python3-portalocker=2.2.1-1 python3-psutil=5.9.0-1 python3-pulp=2.5.1+dfsg-2 python3-pyparsing=2.4.7-1 python3-pyrsistent=0.15.5-1+b4 python3-ratelimiter=1.2.0.post0-1 python3-requests=2.25.1+dfsg-2 python3-requests-oauthlib=1.3.0+ds-0.1 python3-roman=3.3-1 python3-s3transfer=0.5.0-1 python3-setuptools=59.6.0-1.2 python3-six=1.16.0-3 python3-smart-open=5.2.1-4 python3-smmap=5.0.0-1 python3-stopit=1.1.2-1 python3-tabulate=0.8.9-1 python3-toposort=1.6-1 python3-traitlets=5.1.1-1 python3-typing-extensions=3.10.0.2-1 python3-uamqp=1.5.1-1 python3-urllib3=1.26.5-1~exp1 python3-wrapt=1.13.3-1+b1 python3-yaml=5.4.1-1+b1 python3-yarl=1.6.3-2+b1 python3.9=3.9.10-1 python3.9-minimal=3.9.10-1 readline-common=8.1.2-1 rpcsvc-proto=1.4.2-4 sed=4.8-1 sensible-utils=0.0.17 sgml-base=1.30 snakemake=6.12.3-1 sphinx-rtd-theme-common=1.0.0+dfsg-1 sysvinit-utils=3.01-1 tar=1.34+dfsg-1 tzdata=2021e-1 util-linux=2.37.2-6 xml-core=0.18+nmu1 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/20220221T085442Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20220221T085442Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220119T212311Z/ 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 kallisto=0.48.0+dfsg-2 && mkdir -p /build/kallisto-gqVJ6C && dpkg-source --no-check -x /*.dsc /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg && chown -R builduser:builduser /build/kallisto-gqVJ6C" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1642662590" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/kallisto-gqVJ6C /tmp/kallisto-0.48.0+dfsg-2gnz4vnnn bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20220119T212311Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: null I: using /tmp/mmdebstrap.OgnBORLHzG 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.OgnBORLHzG Reading package lists... Building dependency tree... util-linux is already the newest version (2.37.2-6). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 136 kB of archives. After this operation, 406 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20220119T212311Z unstable/main amd64 libfakeroot amd64 1.27-1 [48.5 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220119T212311Z unstable/main amd64 fakeroot amd64 1.27-1 [87.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 136 kB in 0s (883 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 ... 4681 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.27-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.27-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.27-1_amd64.deb ... Unpacking fakeroot (1.27-1) ... Setting up libfakeroot:amd64 (1.27-1) ... Setting up fakeroot (1.27-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.33-3) ... 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/20220221T085442Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20220221T085442Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220119T212311Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.OgnBORLHzG Get:1 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm InRelease [129 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20220119T212311Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main Sources [11.9 MB] Get:4 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main amd64 Packages [11.3 MB] Fetched 23.3 MB in 20s (1175 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.OgnBORLHzG I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d kallisto=0.48.0+dfsg-2 && mkdir -p /build/kallisto-gqVJ6C && dpkg-source --no-check -x /*.dsc /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg && chown -R builduser:builduser /build/kallisto-gqVJ6C"' exec /tmp/mmdebstrap.OgnBORLHzG Reading package lists... NOTICE: 'kallisto' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/kallisto.git Please use: git clone https://salsa.debian.org/med-team/kallisto.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1094 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main kallisto 0.48.0+dfsg-2 (dsc) [2287 B] Get:2 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main kallisto 0.48.0+dfsg-2 (tar) [1085 kB] Get:3 http://snapshot.notset.fr/archive/debian/20220221T085442Z bookworm/main kallisto 0.48.0+dfsg-2 (diff) [7016 B] Fetched 1094 kB in 1s (1202 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'kallisto_0.48.0+dfsg-2.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting kallisto in /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg dpkg-source: info: unpacking kallisto_0.48.0+dfsg.orig.tar.xz dpkg-source: info: unpacking kallisto_0.48.0+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_htslib.patch dpkg-source: info: applying spelling dpkg-source: info: applying htslib1.3 dpkg-source: info: applying gcc11.patch dpkg-source: info: applying disable-failing-bustools-test.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1642662590" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.OgnBORLHzG dpkg-buildpackage: info: source package kallisto dpkg-buildpackage: info: source version 0.48.0+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg' dh_auto_configure -- -DDEBIAN_BUILD=1 -DLINK=shared -DBUILD_FUNCTESTING=1 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 "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DDEBIAN_BUILD=1 -DLINK=shared -DBUILD_FUNCTESTING=1 .. -- The C compiler identification is GNU 11.2.0 -- The CXX compiler identification is GNU 11.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done shared build -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") Functional testing enabled. -- 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/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg' dh_auto_build -a cd obj-x86_64-linux-gnu && make -j10 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg -B/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/depend make[3]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/kallisto_core.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/build make[3]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' [ 4%] Building CXX object src/CMakeFiles/kallisto_core.dir/BUSTools.cpp.o [ 9%] Building CXX object src/CMakeFiles/kallisto_core.dir/BUSData.cpp.o cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD 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-ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -MF CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o.d -o CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/Bootstrap.cpp [ 19%] Building CXX object src/CMakeFiles/kallisto_core.dir/H5Writer.cpp.o cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -MF CMakeFiles/kallisto_core.dir/H5Writer.cpp.o.d -o CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/H5Writer.cpp [ 23%] 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src/CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o -MF CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o.d -o CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/KmerIterator.cpp [ 33%] Building CXX object src/CMakeFiles/kallisto_core.dir/Kmer.cpp.o [ 38%] Building CXX object src/CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -MF CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o.d -o CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/KmerIndex.cpp cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/Kmer.cpp.o -MF CMakeFiles/kallisto_core.dir/Kmer.cpp.o.d -o CMakeFiles/kallisto_core.dir/Kmer.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/Kmer.cpp [ 42%] Building CXX object src/CMakeFiles/kallisto_core.dir/Merge.cpp.o [ 47%] Building CXX object src/CMakeFiles/kallisto_core.dir/MinCollector.cpp.o [ 52%] Building CXX object src/CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -MF CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o.d -o CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/PlaintextWriter.cpp cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/Merge.cpp.o -MF CMakeFiles/kallisto_core.dir/Merge.cpp.o.d -o CMakeFiles/kallisto_core.dir/Merge.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/Merge.cpp cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -MF CMakeFiles/kallisto_core.dir/MinCollector.cpp.o.d -o CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/MinCollector.cpp [ 57%] Building CXX object src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -MF CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o.d -o CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/ProcessReads.cpp [ 61%] Building CXX object src/CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o cd 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src/CMakeFiles/kallisto_core.dir/weights.cpp.o cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/weights.cpp.o -MF CMakeFiles/kallisto_core.dir/weights.cpp.o.d -o CMakeFiles/kallisto_core.dir/weights.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/weights.cpp [ 90%] Linking CXX static library libkallisto_core.a cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/kallisto_core.dir/cmake_clean_target.cmake cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/kallisto_core.dir/link.txt --verbose=1 /usr/bin/ar qc libkallisto_core.a CMakeFiles/kallisto_core.dir/BUSData.cpp.o CMakeFiles/kallisto_core.dir/BUSTools.cpp.o CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o CMakeFiles/kallisto_core.dir/GeneModel.cpp.o CMakeFiles/kallisto_core.dir/H5Writer.cpp.o CMakeFiles/kallisto_core.dir/Kmer.cpp.o CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o CMakeFiles/kallisto_core.dir/Merge.cpp.o CMakeFiles/kallisto_core.dir/MinCollector.cpp.o CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o CMakeFiles/kallisto_core.dir/common.cpp.o CMakeFiles/kallisto_core.dir/h5utils.cpp.o CMakeFiles/kallisto_core.dir/hash.cpp.o CMakeFiles/kallisto_core.dir/main.cpp.o CMakeFiles/kallisto_core.dir/weights.cpp.o /usr/bin/ranlib libkallisto_core.a make[3]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' [ 90%] Built target kallisto_core make -f src/CMakeFiles/kallisto.dir/build.make src/CMakeFiles/kallisto.dir/depend make[3]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/kallisto.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/kallisto.dir/build.make src/CMakeFiles/kallisto.dir/build make[3]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' [ 95%] Building CXX object src/CMakeFiles/kallisto.dir/main.cpp.o cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto.dir/main.cpp.o -MF CMakeFiles/kallisto.dir/main.cpp.o.d -o CMakeFiles/kallisto.dir/main.cpp.o -c /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src/main.cpp [100%] Linking CXX executable kallisto cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/kallisto.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/kallisto.dir/main.cpp.o -o kallisto libkallisto_core.a -lpthread -lhts libkallisto_core.a -lz -lrt make[3]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' [100%] Built target kallisto make[2]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' debian/rules override_dh_auto_test make[1]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg' dh_auto_test cd test && PATH=$(find ../obj-* -name src):/usr/sbin:/usr/bin:/sbin:/bin:/usr/sbin:/usr/bin:/sbin:/bin HOME=$(mktemp --directory) snakemake --cores 1 Building DAG of jobs... Using shell: /bin/bash Provided cores: 1 (use --cores to define parallelism) Rules claiming more threads will be scaled down. Job stats: job count min threads max threads -------------- ------- ------------- ------------- all 1 1 1 index 1 1 1 kallisto_bus 1 1 1 kallisto_quant 1 1 1 total 4 1 1 Select jobs to execute... [Thu Mar 24 09:41:29 2022] rule index: input: transcripts.fasta.gz output: transcripts.kidx jobid: 2 resources: tmpdir=/tmp [build] loading fasta file transcripts.fasta.gz [build] k-mer length: 31 [build] counting k-mers ... done. [build] building target de Bruijn graph ... done [build] creating equivalence classes ... done [build] target de Bruijn graph has 27 contigs and contains 22118 k-mers [Thu Mar 24 09:41:29 2022] Finished job 2. 1 of 4 steps (25%) done Select jobs to execute... [Thu Mar 24 09:41:29 2022] rule kallisto_quant: input: reads_1.fastq.gz, reads_2.fastq.gz, transcripts.kidx output: quant_out/abundance.tsv, quant_out/run_info.json jobid: 1 resources: tmpdir=/tmp [quant] fragment length distribution will be estimated from the data Warning: kallisto was not compiled with HDF5 support so no bootstrapping will be performed. Run quant with --plaintext option or recompile with HDF5 support to obtain bootstrap estimates. [index] k-mer length: 31 [index] number of targets: 14 [index] number of k-mers: 22,118 [index] number of equivalence classes: 20 Warning: 13 transcripts were defined in GTF file, but not in the index [quant] running in paired-end mode [quant] will process pair 1: reads_1.fastq.gz reads_2.fastq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 10,000 reads, 9,413 reads pseudoaligned [quant] estimated average fragment length: 178.02 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 52 rounds [ bam] writing pseudoalignments to BAM format .. done [ bam] sorting BAM files .. done [ bam] indexing BAM file .. done [Thu Mar 24 09:41:30 2022] Finished job 1. 2 of 4 steps (50%) done Select jobs to execute... [Thu Mar 24 09:41:30 2022] rule kallisto_bus: input: sc_reads_1.fastq.gz, sc_reads_2.fastq.gz, transcripts.kidx output: bus_out/matrix.ec, bus_out/transcripts.txt, bus_out/output.bus, bus_out/run_info.json jobid: 3 resources: tmpdir=/tmp [bus] Note: Strand option was not specified; setting it to --fr-stranded for specified technology [index] k-mer length: 31 [index] number of targets: 14 [index] number of k-mers: 22,118 [index] number of equivalence classes: 20 [quant] will process sample 1: sc_reads_1.fastq.gz sc_reads_2.fastq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 10,000 reads, 4,808 reads pseudoaligned [Thu Mar 24 09:41:30 2022] Finished job 3. 3 of 4 steps (75%) done Select jobs to execute... [Thu Mar 24 09:41:30 2022] localrule all: input: quant_out/abundance.tsv, bus_out/output.bus jobid: 0 resources: tmpdir=/tmp [Thu Mar 24 09:41:30 2022] Finished job 0. 4 of 4 steps (100%) done Complete log: /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/test/.snakemake/log/2022-03-24T094127.765802.snakemake.log rm -rf test/.snakemake test/bus_out test/transcripts.kidx.gz make[1]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a cd obj-x86_64-linux-gnu && make -j10 install DESTDIR=/build/kallisto-gqVJ6C/kallisto-0.48.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg -B/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/depend make[3]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/kallisto_core.dir/DependInfo.cmake --color= Consolidate compiler generated dependencies of target kallisto_core make[3]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/build make[3]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'src/CMakeFiles/kallisto_core.dir/build'. make[3]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' [ 90%] Built target kallisto_core make -f src/CMakeFiles/kallisto.dir/build.make src/CMakeFiles/kallisto.dir/depend make[3]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' cd /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/src /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/kallisto.dir/DependInfo.cmake --color= Consolidate compiler generated dependencies of target kallisto make[3]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/kallisto.dir/build.make src/CMakeFiles/kallisto.dir/build make[3]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'src/CMakeFiles/kallisto.dir/build'. make[3]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' [100%] Built target kallisto make[2]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/debian/tmp/usr/bin/kallisto make[1]: Leaving directory '/build/kallisto-gqVJ6C/kallisto-0.48.0+dfsg/obj-x86_64-linux-gnu' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a 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 'kallisto' in '../kallisto_0.48.0+dfsg-2_amd64.deb'. dpkg-deb: building package 'kallisto-dbgsym' in '../kallisto-dbgsym_0.48.0+dfsg-2_amd64.deb'. dpkg-genbuildinfo --build=any -O../kallisto_0.48.0+dfsg-2_amd64.buildinfo dpkg-genchanges --build=any -O../kallisto_0.48.0+dfsg-2_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/kallisto-gqVJ6C /tmp/kallisto-0.48.0+dfsg-2gnz4vnnn I: cleaning package lists and apt cache... W: deleting files in /tmp: tmp.tMrRAe1raN I: removing tempdir /tmp/mmdebstrap.OgnBORLHzG... I: success in 1094.8807 seconds md5: kallisto-dbgsym_0.48.0+dfsg-2_amd64.deb: OK md5: kallisto_0.48.0+dfsg-2_amd64.deb: OK sha1: kallisto-dbgsym_0.48.0+dfsg-2_amd64.deb: OK sha1: kallisto_0.48.0+dfsg-2_amd64.deb: OK sha256: kallisto-dbgsym_0.48.0+dfsg-2_amd64.deb: OK sha256: kallisto_0.48.0+dfsg-2_amd64.deb: OK Checksums: OK