Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/s/shasta/shasta_0.7.0-3_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/shasta-0.7.0-35n56d66a/shasta_0.7.0-3_amd64.buildinfo Get source package info: shasta=0.7.0-3 Source URL: http://snapshot.notset.fr/mr/package/shasta/0.7.0-3/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=adduser=3.118 autoconf=2.69-14 automake=1:1.16.3-2 autopoint=0.21-3 autotools-dev=20180224.1+nmu1 base-files=11 base-passwd=3.5.48 bash=5.1-2 binutils=2.35.1-7 binutils-common=2.35.1-7 binutils-x86-64-linux-gnu=2.35.1-7 bsdextrautils=2.36.1-5 bsdutils=1:2.36.1-4 build-essential=12.9 bzip2=1.0.8-4 ca-certificates=20200601 chrpath=0.16-2+b1 cmake=3.18.4-1+b1 cmake-data=3.18.4-1 coreutils=8.32-4+b1 cpp=4:10.2.0-1 cpp-10=10.2.1-6 cpp-9=9.3.0-20 dash=0.5.11+git20200708+dd9ef66-5 debconf=1.5.74 debhelper=13.3.1 debianutils=4.11.2 dh-autoreconf=19 dh-exec=0.23.2 dh-python=4.20201102 dh-strip-nondeterminism=1.9.0-1 diffutils=1:3.7-5 docutils-common=0.16+dfsg-3 dpkg=1.20.7.1 dpkg-dev=1.20.7.1 dwz=0.13+20201015-2 file=1:5.39-3 findutils=4.8.0-1 g++=4:10.2.0-1 g++-10=10.2.1-6 gcc=4:10.2.0-1 gcc-10=10.2.1-6 gcc-10-base=10.2.1-6 gcc-9=9.3.0-20 gcc-9-base=9.3.0-20 gettext=0.21-3 gettext-base=0.21-3 gfortran-9=9.3.0-20 grep=3.6-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 ibverbs-providers=33.0-1 icu-devtools=67.1-6 init-system-helpers=1.60 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-9 libarchive-zip-perl=1.68-1 libarchive13=3.4.3-2 libasan5=9.3.0-20 libasan6=10.2.1-6 libatomic1=10.2.1-6 libattr1=1:2.4.48-6 libaudit-common=1:3.0-2 libaudit1=1:3.0-2 libbinutils=2.35.1-7 libblkid1=2.36.1-4 libboost-all-dev=1.74.0.3 libboost-atomic-dev=1.74.0.3 libboost-atomic1.74-dev=1.74.0-7 libboost-atomic1.74.0=1.74.0-7 libboost-chrono-dev=1.74.0.3 libboost-chrono1.74-dev=1.74.0-7 libboost-chrono1.74.0=1.74.0-7 libboost-container-dev=1.74.0.3 libboost-container1.74-dev=1.74.0-7 libboost-container1.74.0=1.74.0-7 libboost-context-dev=1.74.0.3 libboost-context1.74-dev=1.74.0-7 libboost-context1.74.0=1.74.0-7 libboost-coroutine-dev=1.74.0.3 libboost-coroutine1.74-dev=1.74.0-7 libboost-coroutine1.74.0=1.74.0-7 libboost-date-time-dev=1.74.0.3 libboost-date-time1.74-dev=1.74.0-7 libboost-date-time1.74.0=1.74.0-7 libboost-dev=1.74.0.3 libboost-exception-dev=1.74.0.3 libboost-exception1.74-dev=1.74.0-7 libboost-fiber-dev=1.74.0.3 libboost-fiber1.74-dev=1.74.0-7 libboost-fiber1.74.0=1.74.0-7 libboost-filesystem-dev=1.74.0.3 libboost-filesystem1.74-dev=1.74.0-7 libboost-filesystem1.74.0=1.74.0-7 libboost-graph-dev=1.74.0.3 libboost-graph-parallel-dev=1.74.0.3 libboost-graph-parallel1.74-dev=1.74.0-7 libboost-graph-parallel1.74.0=1.74.0-7 libboost-graph1.74-dev=1.74.0-7 libboost-graph1.74.0=1.74.0-7 libboost-iostreams-dev=1.74.0.3 libboost-iostreams1.74-dev=1.74.0-7 libboost-iostreams1.74.0=1.74.0-7 libboost-locale-dev=1.74.0.3 libboost-locale1.74-dev=1.74.0-7 libboost-locale1.74.0=1.74.0-7 libboost-log-dev=1.74.0.3 libboost-log1.74-dev=1.74.0-7 libboost-log1.74.0=1.74.0-7 libboost-math-dev=1.74.0.3 libboost-math1.74-dev=1.74.0-7 libboost-math1.74.0=1.74.0-7 libboost-mpi-dev=1.74.0.3 libboost-mpi-python-dev=1.74.0.3 libboost-mpi-python1.74-dev=1.74.0-7 libboost-mpi-python1.74.0=1.74.0-7 libboost-mpi1.74-dev=1.74.0-7 libboost-mpi1.74.0=1.74.0-7 libboost-nowide-dev=1.74.0.3 libboost-nowide1.74-dev=1.74.0-7 libboost-nowide1.74.0=1.74.0-7 libboost-numpy-dev=1.74.0.3 libboost-numpy1.74-dev=1.74.0-7 libboost-numpy1.74.0=1.74.0-7 libboost-program-options-dev=1.74.0.3 libboost-program-options1.74-dev=1.74.0-7 libboost-program-options1.74.0=1.74.0-7 libboost-python-dev=1.74.0.3 libboost-python1.74-dev=1.74.0-7 libboost-python1.74.0=1.74.0-7 libboost-random-dev=1.74.0.3 libboost-random1.74-dev=1.74.0-7 libboost-random1.74.0=1.74.0-7 libboost-regex-dev=1.74.0.3 libboost-regex1.74-dev=1.74.0-7 libboost-regex1.74.0=1.74.0-7 libboost-serialization-dev=1.74.0.3 libboost-serialization1.74-dev=1.74.0-7 libboost-serialization1.74.0=1.74.0-7 libboost-stacktrace-dev=1.74.0.3 libboost-stacktrace1.74-dev=1.74.0-7 libboost-stacktrace1.74.0=1.74.0-7 libboost-system-dev=1.74.0.3 libboost-system1.74-dev=1.74.0-7 libboost-system1.74.0=1.74.0-7 libboost-test-dev=1.74.0.3 libboost-test1.74-dev=1.74.0-7 libboost-test1.74.0=1.74.0-7 libboost-thread-dev=1.74.0.3 libboost-thread1.74-dev=1.74.0-7 libboost-thread1.74.0=1.74.0-7 libboost-timer-dev=1.74.0.3 libboost-timer1.74-dev=1.74.0-7 libboost-timer1.74.0=1.74.0-7 libboost-tools-dev=1.74.0.3 libboost-type-erasure-dev=1.74.0.3 libboost-type-erasure1.74-dev=1.74.0-7 libboost-type-erasure1.74.0=1.74.0-7 libboost-wave-dev=1.74.0.3 libboost-wave1.74-dev=1.74.0-7 libboost-wave1.74.0=1.74.0-7 libboost1.74-dev=1.74.0-7 libboost1.74-tools-dev=1.74.0-7 libbrotli1=1.0.9-2+b2 libbsd0=0.10.0-1 libbz2-1.0=1.0.8-4 libc-bin=2.31-9 libc-dev-bin=2.31-9 libc6=2.31-9 libc6-dev=2.31-9 libcap-ng0=0.7.9-2.2+b1 libcbor0=0.5.0+dfsg-2 libcc1-0=10.2.1-6 libcereal-dev=1.3.0-3 libcom-err2=1.45.6-1 libcpu-features-dev=0.6.0-3 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libctf-nobfd0=2.35.1-7 libctf0=2.35.1-7 libcurl4=7.74.0-1 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.256 libdebhelper-perl=13.3.1 libdpkg-perl=1.20.7.1 libedit2=3.1-20191231-2+b1 libelf1=0.182-3 libevent-2.1-7=2.1.12-stable-1 libevent-core-2.1-7=2.1.12-stable-1 libevent-dev=2.1.12-stable-1 libevent-extra-2.1-7=2.1.12-stable-1 libevent-openssl-2.1-7=2.1.12-stable-1 libevent-pthreads-2.1-7=2.1.12-stable-1 libexpat1=2.2.10-1 libexpat1-dev=2.2.10-1 libfabric1=1.11.0-2 libffi7=3.3-5 libfido2-1=1.5.0-2 libfile-stripnondeterminism-perl=1.9.0-1 libgcc-10-dev=10.2.1-6 libgcc-9-dev=9.3.0-20 libgcc-s1=10.2.1-6 libgcrypt20=1.8.7-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libgfortran-9-dev=9.3.0-20 libgfortran5=10.2.1-6 libgmp10=2:6.2.1+dfsg-1 libgnutls30=3.7.0-5 libgomp1=10.2.1-6 libgpg-error0=1.38-2 libgssapi-krb5-2=1.18.3-4 libhogweed6=3.6-2 libhwloc-dev=2.4.0+dfsg-3 libhwloc-plugins=2.4.0+dfsg-3 libhwloc15=2.4.0+dfsg-3 libibverbs-dev=33.0-1 libibverbs1=33.0-1 libicu-dev=67.1-6 libicu67=67.1-6 libidn2-0=2.3.0-4 libisl23=0.23-1 libitm1=10.2.1-6 libjs-jquery=3.5.1+dfsg+~3.5.5-7 libjs-jquery-ui=1.12.1+dfsg-8 libjs-sphinxdoc=3.4.3-1 libjs-underscore=1.9.1~dfsg-1 libjsoncpp24=1.9.4-4 libk5crypto3=1.18.3-4 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-4 libkrb5support0=1.18.3-4 libldap-2.4-2=2.4.56+dfsg-1 liblmdb0=0.9.24-1 liblsan0=10.2.1-6 libltdl-dev=2.4.6-15 libltdl7=2.4.6-15 liblz4-1=1.9.3-1 liblzma5=5.2.5-1.0 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmbedcrypto3=2.16.9-0.1 libmbedtls12=2.16.9-0.1 libmbedx509-0=2.16.9-0.1 libmount1=2.36.1-4 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libncurses6=6.2+20201114-2 libncursesw6=6.2+20201114-2 libnettle8=3.6-2 libnghttp2-14=1.42.0-1 libnl-3-200=3.4.0-1+b1 libnl-3-dev=3.4.0-1+b1 libnl-route-3-200=3.4.0-1+b1 libnl-route-3-dev=3.4.0-1+b1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libnuma-dev=2.0.12-1+b1 libnuma1=2.0.12-1+b1 libopenmpi-dev=4.1.0-5 libopenmpi3=4.1.0-5 libp11-kit0=0.23.22-1 libpam-modules=1.4.0-2 libpam-modules-bin=1.4.0-2 libpam-runtime=1.4.0-2 libpam0g=1.4.0-2 libpciaccess0=0.16-1 libpcre2-8-0=10.36-2 libpcre3=2:8.39-13 libperl5.32=5.32.0-6 libpipeline1=1.5.3-1 libpmix-dev=4.0.0-3 libpmix2=4.0.0-3 libpng-dev=1.6.37-3 libpng16-16=1.6.37-3 libprocps8=2:3.3.16-5 libpsl5=0.21.0-1.1 libpsm-infinipath1=3.3+20.604758e7-6.1 libpsm2-2=11.2.185-1 libpython3-dev=3.9.1-1 libpython3-stdlib=3.9.1-1 libpython3.9=3.9.1-2 libpython3.9-dev=3.9.1-2 libpython3.9-minimal=3.9.1-2 libpython3.9-stdlib=3.9.1-2 libquadmath0=10.2.1-6 librdmacm1=33.0-1 libreadline8=8.1-1 librhash0=1.4.1-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg-2 libsasl2-modules-db=2.1.27+dfsg-2 libseccomp2=2.5.1-1 libselinux1=3.1-2+b2 libsemanage-common=3.1-1 libsemanage1=3.1-1+b2 libsepol1=3.1-1 libseqan2-dev=2.4.0+dfsg-13 libsigsegv2=2.12-3 libsmartcols1=2.36.1-4 libspoa-dev=4.0.6+ds2-1 libspoa7.0.0=4.0.6+ds2-1 libsqlite3-0=3.34.0-1 libssh2-1=1.9.0-2 libssl1.1=1.1.1i-1 libstdc++-10-dev=10.2.1-6 libstdc++6=10.2.1-6 libsub-override-perl=0.09-2 libsystemd0=247.2-4 libtasn1-6=4.16.0-2 libtinfo6=6.2+20201114-2 libtirpc-common=1.3.1-1 libtirpc-dev=1.3.1-1 libtirpc3=1.3.1-1 libtool=2.4.6-15 libtsan0=10.2.1-6 libubsan1=10.2.1-6 libuchardet0=0.0.7-1 libucx0=1.10.0~rc1-2 libudev1=247.2-4 libunistring2=0.9.10-4 libuuid1=2.36.1-4 libuv1=1.40.0-1 libx11-6=2:1.7.0-2 libx11-data=2:1.7.0-2 libxau6=1:1.0.8-1+b2 libxcb1=1.14-2.1 libxdmcp6=1:1.1.2-3 libxext6=2:1.3.3-1.1 libxml2=2.9.10+dfsg-6.3+b1 libxnvctrl0=460.32.03-1 libzstd1=1.4.8+dfsg-1 linux-libc-dev=5.10.5-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-5 mailcap=3.68 make=4.3-4 man-db=2.9.3-2 mawk=1.3.4.20200120-2 media-types=3.0.0 mime-support=3.66 mpi-default-bin=1.13 mpi-default-dev=1.13 ncbi-blast+=2.10.1+ds-1 ncbi-data=6.1.20170106+dfsg1-9 ncurses-base=6.2+20201114-2 ncurses-bin=6.2+20201114-2 ocl-icd-libopencl1=2.2.14-2 openmpi-bin=4.1.0-5 openmpi-common=4.1.0-5 openssh-client=1:8.4p1-3 openssl=1.1.1i-1 passwd=1:4.8.1-1 patch=2.7.6-7 patchelf=0.12-1 perl=5.32.0-6 perl-base=5.32.0-6 perl-modules-5.32=5.32.0-6 po-debconf=1.0.21+nmu1 procps=2:3.3.16-5 pybind11-dev=2.6.1-1 python-babel-localedata=2.8.0+dfsg.1-5 python3=3.9.1-1 python3-alabaster=0.7.8-1.1 python3-babel=2.8.0+dfsg.1-5 python3-certifi=2020.6.20-1 python3-chardet=4.0.0-1 python3-dev=3.9.1-1 python3-distutils=3.9.1-2 python3-docutils=0.16+dfsg-3 python3-idna=2.10-1 python3-imagesize=1.2.0-2 python3-jinja2=2.11.2-1 python3-lib2to3=3.9.1-2 python3-markupsafe=1.1.1-1+b3 python3-minimal=3.9.1-1 python3-packaging=20.8-1 python3-pkg-resources=51.1.0-1 python3-pybind11=2.6.1-1 python3-pygments=2.7.1+dfsg-1 python3-pyparsing=2.4.7-1 python3-requests=2.25.1+dfsg-2 python3-roman=2.0.0-5 python3-six=1.15.0-2 python3-snowballstemmer=2.0.0-2 python3-sphinx=3.4.3-1 python3-tz=2020.5-1 python3-urllib3=1.26.2-1 python3.9=3.9.1-2 python3.9-dev=3.9.1-2 python3.9-minimal=3.9.1-2 readline-common=8.1-1 sed=4.7-1 sensible-utils=0.0.14 sgml-base=1.30 sphinx-common=3.4.3-1 sysvinit-utils=2.96-5 tar=1.32+dfsg-1 tzdata=2020f-1 util-linux=2.36.1-4 xml-core=0.18+nmu1 xz-utils=5.2.5-1.0 zlib1g=1:1.2.11.dfsg-2 zlib1g-dev=1:1.2.11.dfsg-2 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20210113T083529Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20210111T210416Z/ 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 shasta=0.7.0-3 && mkdir -p /build/shasta-g57FIM && dpkg-source --no-check -x /*.dsc /build/shasta-g57FIM/shasta-0.7.0 && chown -R builduser:builduser /build/shasta-g57FIM" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/shasta-g57FIM/shasta-0.7.0 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1610530997" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/shasta-g57FIM /tmp/shasta-0.7.0-35n56d66a bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20210111T210416Z 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.7bQqrCavuN 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.7bQqrCavuN Reading package lists... Building dependency tree... util-linux is already the newest version (2.36.1-4). 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/20210111T210416Z unstable/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20210111T210416Z unstable/main amd64 fakeroot amd64 1.25.3-1.1 [87.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (1069 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 ... 4661 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.25.3-1.1_amd64.deb ... Unpacking libfakeroot:amd64 (1.25.3-1.1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.25.3-1.1_amd64.deb ... Unpacking fakeroot (1.25.3-1.1) ... Setting up libfakeroot:amd64 (1.25.3-1.1) ... Setting up fakeroot (1.25.3-1.1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.31-9) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20210113T083529Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20210111T210416Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.7bQqrCavuN Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Get:2 http://snapshot.notset.fr/archive/debian/20210113T083529Z unstable InRelease [153 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20210111T210416Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20210113T083529Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20210113T083529Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20210113T083529Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20210113T083529Z unstable/main amd64 Packages [11.6 MB] Fetched 34.4 MB in 29s (1181 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.7bQqrCavuN I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d shasta=0.7.0-3 && mkdir -p /build/shasta-g57FIM && dpkg-source --no-check -x /*.dsc /build/shasta-g57FIM/shasta-0.7.0 && chown -R builduser:builduser /build/shasta-g57FIM"' exec /tmp/mmdebstrap.7bQqrCavuN Reading package lists... NOTICE: 'shasta' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/shasta.git Please use: git clone https://salsa.debian.org/med-team/shasta.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 3489 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main shasta 0.7.0-3 (dsc) [2306 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main shasta 0.7.0-3 (tar) [3475 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main shasta 0.7.0-3 (diff) [11.2 kB] Fetched 3489 kB in 3s (1152 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'shasta_0.7.0-3.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting shasta in /build/shasta-g57FIM/shasta-0.7.0 dpkg-source: info: unpacking shasta_0.7.0.orig.tar.gz dpkg-source: info: unpacking shasta_0.7.0-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying libspoa7.0.0 dpkg-source: info: applying spelling dpkg-source: info: applying modify_cmakelists.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/shasta-g57FIM/shasta-0.7.0 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1610530997" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.7bQqrCavuN dpkg-buildpackage: info: source package shasta dpkg-buildpackage: info: source version 0.7.0-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3,sphinxdoc dh_clean debian/rules binary-arch dh binary-arch --with python3,sphinxdoc dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0' dh_auto_configure -- -DBUILD_ID=0.7.0 cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBUILD_ID=0.7.0 .. -- The C compiler identification is GNU 10.2.1 -- The CXX compiler identification is GNU 10.2.1 -- 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 -- Processor architecture is x86_64 -- CMAKE_SYSTEM_NAME is Linux -- MACOS is OFF -- BUILD_STATIC_LIBRARY is ON -- BUILD_STATIC_EXECUTABLE is OFF -- BUILD_DYNAMIC_LIBRARY is ON -- BUILD_DYNAMIC_EXECUTABLE is ON -- BUILD_APPIMAGE is OFF -- BUILD_NATIVE is OFF -- BUILD_DEBUG is OFF -- BUILD_ID is: 0.7.0 -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0' debian/rules override_dh_auto_build make[1]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0' dh_auto_build cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/shasta-g57FIM/shasta-0.7.0 -B/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/CMakeFiles /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' make -f staticLibrary/CMakeFiles/shastaStaticLibrary.dir/build.make staticLibrary/CMakeFiles/shastaStaticLibrary.dir/depend make -f dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/build.make dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/depend make[4]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/shasta-g57FIM/shasta-0.7.0 /build/shasta-g57FIM/shasta-0.7.0/staticLibrary /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary/CMakeFiles/shastaStaticLibrary.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/shasta-g57FIM/shasta-0.7.0 /build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/DependInfo.cmake --color= Dependee "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/DependInfo.cmake" is newer than depender "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/depend.internal". Dependee "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/depend.internal". Dependee "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary/CMakeFiles/shastaStaticLibrary.dir/DependInfo.cmake" is newer than depender "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary/CMakeFiles/shastaStaticLibrary.dir/depend.internal". Dependee "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary/CMakeFiles/shastaStaticLibrary.dir/depend.internal". Scanning dependencies of target shastaDynamicLibrary make[4]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' Scanning dependencies of target shastaStaticLibrary make -f dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/build.make dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/build make[4]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' make -f staticLibrary/CMakeFiles/shastaStaticLibrary.dir/build.make staticLibrary/CMakeFiles/shastaStaticLibrary.dir/build make[4]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' [ 2%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AlignmentGraph.cpp.o [ 1%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Alignment.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Alignment.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/Alignment.cpp cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AlignmentGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AlignmentGraph.cpp [ 2%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Align4.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Align4.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/Align4.cpp [ 3%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Align4.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/Align4.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/Align4.cpp [ 3%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssembledSegment.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssembledSegment.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssembledSegment.cpp [ 4%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Assembler.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Assembler.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/Assembler.cpp [ 4%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAlign.cpp [ 4%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Alignment.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/Alignment.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/Alignment.cpp [ 5%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign1.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign1.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAlign1.cpp [ 6%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AlignmentGraph.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AlignmentGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AlignmentGraph.cpp [ 7%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign3.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign3.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAlign3.cpp [ 8%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssembledSegment.cpp [ 8%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign4.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign4.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAlign4.cpp [ 8%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY 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-D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAlignmentGraph.cpp [ 9%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignments.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignments.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAlignments.cpp [ 10%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAlign.cpp [ 11%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o cd 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerCompressedAssemblyGraph.cpp [ 13%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion 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Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerDetangle.cpp [ 14%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ 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CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp [ 17%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAlign4.cpp [ 18%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer-MarkerGraph.cpp [ 19%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o cd 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-Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAlignments.cpp [ 20%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAnalyzePaths.cpp [ 20%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer-Reads.cpp [ 21%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer.cpp [ 22%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerAssemblyGraph.cpp [ 22%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerInducedAlignments.cpp [ 23%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerCompressedAssemblyGraph.cpp [ 24%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerKmers.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerKmers.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerKmers.cpp [ 24%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerLowHash.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerLowHash.cpp [ 25%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerMarkerGraph.cpp [ 26%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerDetangle.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerDetangle.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerDetangle.cpp [ 27%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphRefine.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphRefine.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerMarkerGraphRefine.cpp [ 27%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer-Alignments.cpp [ 27%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkers.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API 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/build/shasta-g57FIM/shasta-0.7.0/src/AssemblerOptions.cpp [ 30%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp [ 31%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph.cpp.o cd 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-DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer-MarkerGraph.cpp [ 31%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph2.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC 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/build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer-ReadGraph.cpp [ 33%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer-Reads.cpp [ 34%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReads.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ 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-Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblyPathGraph.cpp [ 35%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerHttpServer.cpp [ 36%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblyPathGraph2.cpp [ 36%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Base.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ 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CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/CompressedAssemblyGraph.cpp [ 39%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/ConsensusCaller.cpp [ 40%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -I/build/shasta-g57FIM/shasta-0.7.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/AssemblerInducedAlignments.cpp [ 40%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerKmers.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG 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dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/pybind11/include -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/src/Histogram.cpp [ 43%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY 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CMakeFiles/shastaDynamicLibrary.dir/__/src/CompactUndirectedGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/Coverage.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalReadGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LongBaseSequence.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LowHash0.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LowHash1.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerFinder.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MedianConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedVector.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MultithreadedObject.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MurmurHash2.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/dset64Test.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/filesystem.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/html.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/mappedCopy.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/platformDependent.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/runCommandWithTimeout.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/testSpoa.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o -latomic -lpng -lboost_program_options -lpthread -lz -lspoa -lpython3.9 -lcrypt -lpthread -ldl -lutil -lm -lm make[4]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' [ 98%] Built target shastaDynamicLibrary make -f dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/build.make dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/depend make[4]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/shasta-g57FIM/shasta-0.7.0 /build/shasta-g57FIM/shasta-0.7.0/dynamicExecutable /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicExecutable /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/DependInfo.cmake --color= Dependee "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/DependInfo.cmake" is newer than depender "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/depend.internal". Dependee "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicExecutable/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/depend.internal". Scanning dependencies of target shastaDynamicExecutable make[4]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' make -f dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/build.make dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/build make[4]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' [ 98%] Building CXX object dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicExecutable && /usr/bin/c++ -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.7.0 -DNDEBUG -DSHASTA_HTTP_SERVER -DSHASTA_PYTHON_API -I/build/shasta-g57FIM/shasta-0.7.0/dynamicExecutable/../src -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -o CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o -c /build/shasta-g57FIM/shasta-0.7.0/srcMain/main.cpp [ 99%] Linking CXX static library shasta.a cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/cmake -P CMakeFiles/shastaStaticLibrary.dir/cmake_clean_target.cmake cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/shastaStaticLibrary.dir/link.txt --verbose=1 /usr/bin/ar qc shasta.a CMakeFiles/shastaStaticLibrary.dir/__/src/Align4.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Alignment.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AlignmentGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign1.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerDetangle.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerKmers.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerLowHash.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphRefine.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkers.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerOptions.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph2.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReads.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph2.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Base.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/BubbleGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/CompactUndirectedGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ConsensusCaller.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Coverage.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Histogram.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash1.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ShortBaseSequence.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleConsensusCaller.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/buildId.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/compressAlignment.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/dset64Test.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/filesystem.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/html.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/mappedCopy.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/platformDependent.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/runCommandWithTimeout.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/testSpoa.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/touchMemory.cpp.o /usr/bin/ranlib shasta.a make[4]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' [ 99%] Built target shastaStaticLibrary [100%] Linking CXX executable shastaDynamic cd /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicExecutable && /usr/bin/cmake -E cmake_link_script CMakeFiles/shastaDynamicExecutable.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/shasta-g57FIM/shasta-0.7.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o -o shastaDynamic -Wl,-rpath,/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary: ../dynamicLibrary/shasta.so -latomic -lboost_system -lboost_program_options -lboost_chrono -lspoa -lcpu_features -lpng -lz -lpthread -lpython3.9 -lcrypt -lpthread -ldl -lutil -lm -lm make[4]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' [100%] Built target shastaDynamicExecutable make[3]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' # Move shared library into sphinx documentation folder for doc generation find . -name "shasta.so" -exec cp {} docs/PythonApi/ \; cp: './docs/PythonApi/shasta.so' and 'docs/PythonApi/shasta.so' are the same file PYTHONPATH=docs/PythonApi/ python3 -m sphinx -N -bhtml docs/PythonApi/ build/html # HTML generator Running Sphinx v3.4.3 making output directory... done WARNING: html_static_path entry '_static' does not exist building [mo]: targets for 0 po files that are out of date building [html]: targets for 1 source files that are out of date updating environment: [new config] 1 added, 0 changed, 0 removed reading sources... [100%] index looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [100%] index generating indices... genindex py-modindex done writing additional pages... search done copying static files... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 1 warning. The HTML pages are in build/html. make[1]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0' dh_auto_test -a create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a cd obj-x86_64-linux-gnu && make -j4 install DESTDIR=/build/shasta-g57FIM/shasta-0.7.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/shasta-g57FIM/shasta-0.7.0 -B/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/AlignOrientedReads.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/AlignOrientedReads1.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/AlignOrientedReads4.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/AlignPseudoPaths.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/AnalyzeAlignmentMatrix.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/AnalyzeReadGraph.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/Assemble.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/AssembleMarkerGraphEdges.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/AssembleMarkerGraphVertices.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/AssembleSegment.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/CheckMarkerGraphIsStrandSymmetric.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/CleanupRunDirectory.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/ColorGfaBySimilarityToSegment.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/ColorGfaKeySegments.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/ColorGfaWithTwoReads.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/ComputeAlignments.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/ComputeAssemblyStatistics.py -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/ComputeMarkerGraphCoverageHistogram.py -- Installing: 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/build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/shasta.so -- Installing: /build/shasta-g57FIM/shasta-0.7.0/debian/tmp/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/./shasta-install/bin/shastaDynamic make[1]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu' debian/rules override_dh_install-arch make[1]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0' dh_install -a # Rename shastaDynamic to shasta for ease mv debian/shasta/usr/bin/shastaDynamic debian/shasta/usr/bin/shasta # The library is in a more unusual place (nested within /usr/lib), so modify # the ELF chrpath -r /usr/lib/python3/dist-packages \ debian/shasta/usr/bin/shasta debian/shasta/usr/bin/shasta: RUNPATH=/build/shasta-g57FIM/shasta-0.7.0/obj-x86_64-linux-gnu/dynamicLibrary: debian/shasta/usr/bin/shasta: new RUNPATH: /usr/lib/python3/dist-packages patchelf \ --replace-needed shasta.so shasta.cpython-39-x86_64-linux-gnu.so \ debian/shasta/usr/bin/shasta make[1]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0' dh_installdocs -a dh_sphinxdoc -a dh_sphinxdoc: warning: Sphinx documentation not found dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_python3 -a I: dh_python3 fs:343: renaming shasta.so to shasta.cpython-39-x86_64-linux-gnu.so debian/rules execute_after_dh_python3-arch make[1]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0' patchelf \ --set-soname shasta.cpython-39-x86_64-linux-gnu.so \ /build/shasta-g57FIM/shasta-0.7.0/debian/python3-shasta/usr/lib/python3/dist-packages/shasta.cpython-39-x86_64-linux-gnu.so make[1]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0' dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a debian/rules override_dh_missing make[1]: Entering directory '/build/shasta-g57FIM/shasta-0.7.0' # No need to install docker files find debian/tmp -type d -name docker | xargs rm -rf # static library should not be installed find debian/tmp -name shasta.a -delete # dynamic library was installed manually before - so remove it from debian/tmp find debian/tmp -name shasta.so -delete # 11MB of generated docs should go into a separate package if this is considered sensible # FIXME: for the moment do not install these find debian/tmp -name docs | xargs rm -rf # Remove rest of files which have already been installed rm -rf debian/tmp//build/shasta-g57FIM/shasta-0.7.0 dh_missing --list-missing make[1]: Leaving directory '/build/shasta-g57FIM/shasta-0.7.0' dh_dwz -a -a dwz: debian/shasta/usr/bin/shasta: .debug_info section not present dwz: debian/python3-shasta/usr/lib/python3/dist-packages/shasta.cpython-39-x86_64-linux-gnu.so: .debug_info section not present dh_strip -a -a dh_makeshlibs -a -a dh_shlibdeps -a -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: package python3-shasta: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-shasta: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-shasta: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-shasta: substitution variable ${python3:Versions} unused, but is defined dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'shasta' in '../shasta_0.7.0-3_amd64.deb'. dpkg-deb: building package 'shasta-dbgsym' in '../shasta-dbgsym_0.7.0-3_amd64.deb'. dpkg-deb: building package 'python3-shasta' in '../python3-shasta_0.7.0-3_amd64.deb'. dpkg-deb: building package 'python3-shasta-dbgsym' in '../python3-shasta-dbgsym_0.7.0-3_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../shasta_0.7.0-3_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/shasta-g57FIM /tmp/shasta-0.7.0-35n56d66a I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.7bQqrCavuN... I: success in 3907.5233 seconds md5: python3-shasta-dbgsym_0.7.0-3_amd64.deb: OK md5: python3-shasta_0.7.0-3_amd64.deb: OK md5: shasta-dbgsym_0.7.0-3_amd64.deb: OK md5: shasta_0.7.0-3_amd64.deb: OK sha1: python3-shasta-dbgsym_0.7.0-3_amd64.deb: OK sha1: python3-shasta_0.7.0-3_amd64.deb: OK sha1: shasta-dbgsym_0.7.0-3_amd64.deb: OK sha1: shasta_0.7.0-3_amd64.deb: OK sha256: python3-shasta-dbgsym_0.7.0-3_amd64.deb: OK sha256: python3-shasta_0.7.0-3_amd64.deb: OK sha256: shasta-dbgsym_0.7.0-3_amd64.deb: OK sha256: shasta_0.7.0-3_amd64.deb: OK Checksums: OK