Wed Jul 28 03:24:27 UTC 2021 I: starting to build spoa/bullseye/arm64 on jenkins on '2021-07-28 03:24' Wed Jul 28 03:24:27 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_11/20437/console.log Wed Jul 28 03:24:27 UTC 2021 I: Downloading source for bullseye/spoa=4.0.7+ds-1 --2021-07-28 03:24:27-- http://cdn-fastly.deb.debian.org/debian/pool/main/s/spoa/spoa_4.0.7+ds-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2160 (2.1K) Saving to: ‘spoa_4.0.7+ds-1.dsc’ 0K .. 100% 142M=0s 2021-07-28 03:24:27 (142 MB/s) - ‘spoa_4.0.7+ds-1.dsc’ saved [2160/2160] Wed Jul 28 03:24:27 UTC 2021 I: spoa_4.0.7+ds-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: spoa Binary: spoa, libspoa7.0.0, libspoa-dev Architecture: any Version: 4.0.7+ds-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/rvaser/spoa Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/spoa Vcs-Git: https://salsa.debian.org/med-team/spoa.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, d-shlibs, libbioparser-dev (>= 3.0), libcereal-dev, libgtest-dev, zlib1g-dev, libsimde-dev, libcpu-features-dev [any-amd64 any-i386] Package-List: libspoa-dev deb libdevel optional arch=any libspoa7.0.0 deb libs optional arch=any spoa deb science optional arch=any Checksums-Sha1: 0e169a561c6d86dd1bdeca7fc907f53487e94803 314108 spoa_4.0.7+ds.orig.tar.xz b9474fa843481035b3334411681444e44ca2fd5d 8088 spoa_4.0.7+ds-1.debian.tar.xz Checksums-Sha256: b748d624cddaa7bb08b04798bdf6498c477b03ae78d3b4dd3b15026a01d01cce 314108 spoa_4.0.7+ds.orig.tar.xz 767115eca5bd10107789b0932b291e10506919911354b00948b3bae8453f4b36 8088 spoa_4.0.7+ds-1.debian.tar.xz Files: d055d2c1db854e54f8be12e90826c968 314108 spoa_4.0.7+ds.orig.tar.xz d6de7b86848e57a13433bbe725d3ef39 8088 spoa_4.0.7+ds-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmAGft4ACgkQPCZ2P2xn 5uJ9/Q//Ub0TZjK0h8THEgc5EdK3dALVSXuo5vHJknHUBKctwghl+1vjmyxLLxUs +BvpJH1ADPKThk1jyWg9kLyjpkOZZ9IU9tSCWuQnDU5Jx5fYgMMOBpzmjWqVQ102 ZWyoD+fpm0iEecUHaF/muAhhzbG7pK1ePkVTdt+keZ+jXr5uG1VqXC2ln4Oe6+gC g9hp94GBkWMYtpIhNFSVLyiWJESsI0BItFlZ1DZqpGR2Sbj7NJ6LHR6tgRPJsSZI P15QM+U5OpG2uu5meXI5wCUWA/KvQfhXVuSrLqu4EAghgu1PzqYSeAGh/Jaz04eA 1nZwSWLAsX188W2dNQp1bulvBpAnVOiNS7QVBglqBqDU/n8MCpnzp0/35eUGDrCt jM+SsWuzyAlxBN2irtjY+hbvbrGbANzB5xIPjILdQjltkJozkR1hmhrf52olxRhP 76lpNRGHFYBt4L6d7WzB1jhUUxKHkMgYQQRH1RTobH1Crw0wrfsnFeZcbLIyHJ4j P/D0oyLTboaPkerf7pFHqd6S2nJwlpD6Xjv3MCI9q8+K+DOOAO+DOtKUYYbF90O7 uqBprEqAhaZKbSSdshLWETIWPkZON9r9xrreHeoPZAceEQgzzWgI15bQmTq5I1oQ 5TWuFCN8eur7zcrfKLlj41jETaw0jQb2UmRX3sFU9Uu76b+Re6A= =ASFY -----END PGP SIGNATURE----- Wed Jul 28 03:24:27 UTC 2021 I: Checking whether the package is not for us Wed Jul 28 03:24:27 UTC 2021 I: Starting 1st build on remote node codethink11-arm64.debian.net. Wed Jul 28 03:24:27 UTC 2021 I: Preparing to do remote build '1' on codethink11-arm64.debian.net. Wed Jul 28 03:26:55 UTC 2021 I: Deleting $TMPDIR on codethink11-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Aug 29 21:47:29 -12 2022 I: pbuilder-time-stamp: 1661852849 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [spoa_4.0.7+ds-1.dsc] I: copying [./spoa_4.0.7+ds.orig.tar.xz] I: copying [./spoa_4.0.7+ds-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.jWqL36FH/trustedkeys.kbx': General error gpgv: Signature made Mon Jan 18 18:40:30 2021 -12 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./spoa_4.0.7+ds-1.dsc dpkg-source: info: extracting spoa in spoa-4.0.7+ds dpkg-source: info: unpacking spoa_4.0.7+ds.orig.tar.xz dpkg-source: info: unpacking spoa_4.0.7+ds-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying deb_cpu_features dpkg-source: info: applying fix-ftbfs-gcc-10.patch dpkg-source: info: applying use_debian_packaged_libs.patch dpkg-source: info: applying shared_and_static.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/18805/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' DISTRIBUTION='' HOME='/var/lib/jenkins' HOST_ARCH='arm64' IFS=' ' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='18805' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.7axkRIcGYz/pbuilderrc_FQqd --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.7axkRIcGYz/b1 --logfile b1/build.log spoa_4.0.7+ds-1.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a Linux codethink11-arm64 4.15.0-151-generic #157-Ubuntu SMP Fri Jul 9 21:03:48 UTC 2021 aarch64 GNU/Linux I: ls -l /bin total 5252 -rwxr-xr-x 1 root root 1282512 Jun 21 2021 bash -rwxr-xr-x 3 root root 34808 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 34808 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 34808 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 14264 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 39832 Sep 22 2020 cat -rwxr-xr-x 1 root root 64512 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 60368 Sep 22 2020 chmod -rwxr-xr-x 1 root root 64528 Sep 22 2020 chown -rwxr-xr-x 1 root root 138896 Sep 22 2020 cp -rwxr-xr-x 1 root root 129544 Dec 10 2020 dash -rwxr-xr-x 1 root root 101384 Sep 22 2020 date -rwxr-xr-x 1 root root 80984 Sep 22 2020 dd -rwxr-xr-x 1 root root 89824 Sep 22 2020 df -rwxr-xr-x 1 root root 143088 Sep 22 2020 dir -rwxr-xr-x 1 root root 76152 Feb 7 2021 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 35632 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 31512 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 64856 Feb 7 2021 findmnt -rwsr-xr-x 1 root root 34824 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 178400 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 93744 Mar 2 2021 gzip -rwxr-xr-x 1 root root 18440 Nov 6 2019 hostname -rwxr-xr-x 1 root root 68720 Sep 22 2020 ln -rwxr-xr-x 1 root root 52720 Feb 7 2020 login -rwxr-xr-x 1 root root 143088 Sep 22 2020 ls -rwxr-xr-x 1 root root 161960 Feb 7 2021 lsblk -rwxr-xr-x 1 root root 85200 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 68744 Sep 22 2020 mknod -rwxr-xr-x 1 root root 43976 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 51368 Feb 7 2021 more -rwsr-xr-x 1 root root 51360 Feb 7 2021 mount -rwxr-xr-x 1 root root 14496 Feb 7 2021 mountpoint -rwxr-xr-x 1 root root 134808 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 35720 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Jun 21 2021 rbash -> bash -rwxr-xr-x 1 root root 43872 Sep 22 2020 readlink -rwxr-xr-x 1 root root 68592 Sep 22 2020 rm -rwxr-xr-x 1 root root 43880 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 19208 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Aug 28 03:47 sh -> dash -rwxr-xr-x 1 root root 35656 Sep 22 2020 sleep -rwxr-xr-x 1 root root 72640 Sep 22 2020 stty -rwsr-xr-x 1 root root 67776 Feb 7 2021 su -rwxr-xr-x 1 root root 35672 Sep 22 2020 sync -rwxr-xr-x 1 root root 535768 Feb 16 2021 tar -rwxr-xr-x 1 root root 10568 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 89120 Sep 22 2020 touch -rwxr-xr-x 1 root root 31512 Sep 22 2020 true -rwxr-xr-x 1 root root 14264 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 30880 Feb 7 2021 umount -rwxr-xr-x 1 root root 35640 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 143088 Sep 22 2020 vdir -rwxr-xr-x 1 root root 59584 Feb 7 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/18805/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, d-shlibs, libbioparser-dev (>= 3.0), libcereal-dev, libgtest-dev, zlib1g-dev, libsimde-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19646 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on libbioparser-dev (>= 3.0); however: Package libbioparser-dev is not installed. pbuilder-satisfydepends-dummy depends on libcereal-dev; however: Package libcereal-dev is not installed. pbuilder-satisfydepends-dummy depends on libgtest-dev; however: Package libgtest-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimde-dev; however: Package libsimde-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} googletest{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbioparser-dev{a} libbrotli1{a} libcereal-dev{a} libcurl4{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgtest-dev{a} libicu67{a} libjsoncpp24{a} libldap-2.4-2{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps8{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libsimde-dev{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} rapidjson-dev{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 58 newly installed, 0 to remove and 0 not upgraded. Need to get 27.7 MB of archives. After unpacking 116 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main arm64 bsdextrautils arm64 2.36.1-7 [141 kB] Get: 2 http://deb.debian.org/debian bullseye/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main arm64 groff-base arm64 1.22.4-6 [883 kB] Get: 4 http://deb.debian.org/debian bullseye/main arm64 libpipeline1 arm64 1.5.3-1 [33.0 kB] Get: 5 http://deb.debian.org/debian bullseye/main arm64 man-db arm64 2.9.4-2 [1336 kB] Get: 6 http://deb.debian.org/debian bullseye/main arm64 libncurses6 arm64 6.2+20201114-2 [93.2 kB] Get: 7 http://deb.debian.org/debian bullseye/main arm64 libprocps8 arm64 2:3.3.17-5 [61.9 kB] Get: 8 http://deb.debian.org/debian bullseye/main arm64 procps arm64 2:3.3.17-5 [497 kB] Get: 9 http://deb.debian.org/debian bullseye/main arm64 sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main arm64 libmagic-mgc arm64 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main arm64 libmagic1 arm64 1:5.39-3 [121 kB] Get: 12 http://deb.debian.org/debian bullseye/main arm64 file arm64 1:5.39-3 [69.1 kB] Get: 13 http://deb.debian.org/debian bullseye/main arm64 gettext-base arm64 0.21-4 [173 kB] Get: 14 http://deb.debian.org/debian bullseye/main arm64 libsigsegv2 arm64 2.13-1 [34.7 kB] Get: 15 http://deb.debian.org/debian bullseye/main arm64 m4 arm64 1.4.18-5 [199 kB] Get: 16 http://deb.debian.org/debian bullseye/main arm64 autoconf all 2.69-14 [313 kB] Get: 17 http://deb.debian.org/debian bullseye/main arm64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 18 http://deb.debian.org/debian bullseye/main arm64 automake all 1:1.16.3-2 [814 kB] Get: 19 http://deb.debian.org/debian bullseye/main arm64 autopoint all 0.21-4 [510 kB] Get: 20 http://deb.debian.org/debian bullseye/main arm64 cmake-data all 3.18.4-2 [1725 kB] Get: 21 http://deb.debian.org/debian bullseye/main arm64 libicu67 arm64 67.1-7 [8467 kB] Get: 22 http://deb.debian.org/debian bullseye/main arm64 libxml2 arm64 2.9.10+dfsg-6.7 [629 kB] Get: 23 http://deb.debian.org/debian bullseye/main arm64 libarchive13 arm64 3.4.3-2+b1 [320 kB] Get: 24 http://deb.debian.org/debian bullseye/main arm64 libbrotli1 arm64 1.0.9-2+b2 [267 kB] Get: 25 http://deb.debian.org/debian bullseye/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg-2.1 [69.3 kB] Get: 26 http://deb.debian.org/debian bullseye/main arm64 libsasl2-2 arm64 2.1.27+dfsg-2.1 [105 kB] Get: 27 http://deb.debian.org/debian bullseye/main arm64 libldap-2.4-2 arm64 2.4.57+dfsg-3 [222 kB] Get: 28 http://deb.debian.org/debian bullseye/main arm64 libnghttp2-14 arm64 1.43.0-1 [73.8 kB] Get: 29 http://deb.debian.org/debian bullseye/main arm64 libpsl5 arm64 0.21.0-1.2 [57.1 kB] Get: 30 http://deb.debian.org/debian bullseye/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b2 [59.4 kB] Get: 31 http://deb.debian.org/debian bullseye/main arm64 libssh2-1 arm64 1.9.0-2 [150 kB] Get: 32 http://deb.debian.org/debian bullseye/main arm64 libcurl4 arm64 7.74.0-1.3+b1 [321 kB] Get: 33 http://deb.debian.org/debian bullseye/main arm64 libexpat1 arm64 2.2.10-2 [83.1 kB] Get: 34 http://deb.debian.org/debian bullseye/main arm64 libjsoncpp24 arm64 1.9.4-4 [72.5 kB] Get: 35 http://deb.debian.org/debian bullseye/main arm64 librhash0 arm64 1.4.1-2 [127 kB] Get: 36 http://deb.debian.org/debian bullseye/main arm64 libuv1 arm64 1.40.0-2 [126 kB] Get: 37 http://deb.debian.org/debian bullseye/main arm64 cmake arm64 3.18.4-2 [3673 kB] Get: 38 http://deb.debian.org/debian bullseye/main arm64 d-shlibs all 0.98 [17.9 kB] Get: 39 http://deb.debian.org/debian bullseye/main arm64 libdebhelper-perl all 13.3.4 [189 kB] Get: 40 http://deb.debian.org/debian bullseye/main arm64 libtool all 2.4.6-15 [513 kB] Get: 41 http://deb.debian.org/debian bullseye/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 42 http://deb.debian.org/debian bullseye/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 43 http://deb.debian.org/debian bullseye/main arm64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 44 http://deb.debian.org/debian bullseye/main arm64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 45 http://deb.debian.org/debian bullseye/main arm64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 46 http://deb.debian.org/debian bullseye/main arm64 libelf1 arm64 0.183-1 [164 kB] Get: 47 http://deb.debian.org/debian bullseye/main arm64 dwz arm64 0.13+20210201-1 [155 kB] Get: 48 http://deb.debian.org/debian bullseye/main arm64 gettext arm64 0.21-4 [1261 kB] Get: 49 http://deb.debian.org/debian bullseye/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 50 http://deb.debian.org/debian bullseye/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 51 http://deb.debian.org/debian bullseye/main arm64 debhelper all 13.3.4 [1049 kB] Get: 52 http://deb.debian.org/debian bullseye/main arm64 googletest all 1.10.0.20201025-1.1 [629 kB] Get: 53 http://deb.debian.org/debian bullseye/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-2 [189 kB] Get: 54 http://deb.debian.org/debian bullseye/main arm64 libbioparser-dev all 3.0.12-1 [7168 B] Get: 55 http://deb.debian.org/debian bullseye/main arm64 rapidjson-dev all 1.1.0+dfsg2-7 [98.9 kB] Get: 56 http://deb.debian.org/debian bullseye/main arm64 libcereal-dev all 1.3.0+dfsg-1 [210 kB] Get: 57 http://deb.debian.org/debian bullseye/main arm64 libgtest-dev arm64 1.10.0.20201025-1.1 [221 kB] Get: 58 http://deb.debian.org/debian bullseye/main arm64 libsimde-dev all 0.7.2-4 [259 kB] Fetched 27.7 MB in 1s (28.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19646 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-7_arm64.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../01-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_arm64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../03-libpipeline1_1.5.3-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_arm64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libncurses6:arm64. Preparing to unpack .../05-libncurses6_6.2+20201114-2_arm64.deb ... Unpacking libncurses6:arm64 (6.2+20201114-2) ... Selecting previously unselected package libprocps8:arm64. Preparing to unpack .../06-libprocps8_2%3a3.3.17-5_arm64.deb ... Unpacking libprocps8:arm64 (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../07-procps_2%3a3.3.17-5_arm64.deb ... Unpacking procps (2:3.3.17-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../08-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../09-libmagic-mgc_1%3a5.39-3_arm64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../10-libmagic1_1%3a5.39-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../11-file_1%3a5.39-3_arm64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../12-gettext-base_0.21-4_arm64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../13-libsigsegv2_2.13-1_arm64.deb ... Unpacking libsigsegv2:arm64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../14-m4_1.4.18-5_arm64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../15-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../16-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../17-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../18-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package cmake-data. Preparing to unpack .../19-cmake-data_3.18.4-2_all.deb ... Unpacking cmake-data (3.18.4-2) ... Selecting previously unselected package libicu67:arm64. Preparing to unpack .../20-libicu67_67.1-7_arm64.deb ... Unpacking libicu67:arm64 (67.1-7) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../21-libxml2_2.9.10+dfsg-6.7_arm64.deb ... Unpacking libxml2:arm64 (2.9.10+dfsg-6.7) ... Selecting previously unselected package libarchive13:arm64. Preparing to unpack .../22-libarchive13_3.4.3-2+b1_arm64.deb ... Unpacking libarchive13:arm64 (3.4.3-2+b1) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../23-libbrotli1_1.0.9-2+b2_arm64.deb ... Unpacking libbrotli1:arm64 (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../24-libsasl2-modules-db_2.1.27+dfsg-2.1_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../25-libsasl2-2_2.1.27+dfsg-2.1_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libldap-2.4-2:arm64. Preparing to unpack .../26-libldap-2.4-2_2.4.57+dfsg-3_arm64.deb ... Unpacking libldap-2.4-2:arm64 (2.4.57+dfsg-3) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../27-libnghttp2-14_1.43.0-1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.43.0-1) ... Selecting previously unselected package libpsl5:arm64. Preparing to unpack .../28-libpsl5_0.21.0-1.2_arm64.deb ... Unpacking libpsl5:arm64 (0.21.0-1.2) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../29-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:arm64. Preparing to unpack .../30-libssh2-1_1.9.0-2_arm64.deb ... Unpacking libssh2-1:arm64 (1.9.0-2) ... Selecting previously unselected package libcurl4:arm64. Preparing to unpack .../31-libcurl4_7.74.0-1.3+b1_arm64.deb ... Unpacking libcurl4:arm64 (7.74.0-1.3+b1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../32-libexpat1_2.2.10-2_arm64.deb ... Unpacking libexpat1:arm64 (2.2.10-2) ... Selecting previously unselected package libjsoncpp24:arm64. Preparing to unpack .../33-libjsoncpp24_1.9.4-4_arm64.deb ... Unpacking libjsoncpp24:arm64 (1.9.4-4) ... Selecting previously unselected package librhash0:arm64. Preparing to unpack .../34-librhash0_1.4.1-2_arm64.deb ... Unpacking librhash0:arm64 (1.4.1-2) ... Selecting previously unselected package libuv1:arm64. Preparing to unpack .../35-libuv1_1.40.0-2_arm64.deb ... Unpacking libuv1:arm64 (1.40.0-2) ... Selecting previously unselected package cmake. Preparing to unpack .../36-cmake_3.18.4-2_arm64.deb ... Unpacking cmake (3.18.4-2) ... Selecting previously unselected package d-shlibs. Preparing to unpack .../37-d-shlibs_0.98_all.deb ... Unpacking d-shlibs (0.98) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../38-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../39-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../40-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../41-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../42-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../43-libfile-stripnondeterminism-perl_1.12.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.12.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../44-dh-strip-nondeterminism_1.12.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.12.0-1) ... Selecting previously unselected package libelf1:arm64. Preparing to unpack .../45-libelf1_0.183-1_arm64.deb ... Unpacking libelf1:arm64 (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../46-dwz_0.13+20210201-1_arm64.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package gettext. Preparing to unpack .../47-gettext_0.21-4_arm64.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../48-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../49-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../50-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package googletest. Preparing to unpack .../51-googletest_1.10.0.20201025-1.1_all.deb ... Unpacking googletest (1.10.0.20201025-1.1) ... Selecting previously unselected package zlib1g-dev:arm64. Preparing to unpack .../52-zlib1g-dev_1%3a1.2.11.dfsg-2_arm64.deb ... Unpacking zlib1g-dev:arm64 (1:1.2.11.dfsg-2) ... Selecting previously unselected package libbioparser-dev. Preparing to unpack .../53-libbioparser-dev_3.0.12-1_all.deb ... Unpacking libbioparser-dev (3.0.12-1) ... Selecting previously unselected package rapidjson-dev. Preparing to unpack .../54-rapidjson-dev_1.1.0+dfsg2-7_all.deb ... Unpacking rapidjson-dev (1.1.0+dfsg2-7) ... Selecting previously unselected package libcereal-dev. Preparing to unpack .../55-libcereal-dev_1.3.0+dfsg-1_all.deb ... Unpacking libcereal-dev (1.3.0+dfsg-1) ... Selecting previously unselected package libgtest-dev:arm64. Preparing to unpack .../56-libgtest-dev_1.10.0.20201025-1.1_arm64.deb ... Unpacking libgtest-dev:arm64 (1.10.0.20201025-1.1) ... Selecting previously unselected package libsimde-dev. Preparing to unpack .../57-libsimde-dev_0.7.2-4_all.deb ... Unpacking libsimde-dev (0.7.2-4) ... Setting up libexpat1:arm64 (2.2.10-2) ... Setting up libpipeline1:arm64 (1.5.3-1) ... Setting up libsimde-dev (0.7.2-4) ... Setting up libpsl5:arm64 (0.21.0-1.2) ... Setting up bsdextrautils (2.36.1-7) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:arm64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:arm64 (1.0.9-2+b2) ... Setting up libnghttp2-14:arm64 (1.43.0-1) ... Setting up libmagic1:arm64 (1:5.39-3) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up googletest (1.10.0.20201025-1.1) ... Setting up rapidjson-dev (1.1.0+dfsg2-7) ... Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libuv1:arm64 (1.40.0-2) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:arm64 (6.2+20201114-2) ... Setting up libsigsegv2:arm64 (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up d-shlibs (0.98) ... Setting up libsasl2-2:arm64 (2.1.27+dfsg-2.1) ... Setting up libjsoncpp24:arm64 (1.9.4-4) ... Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-2) ... Setting up sensible-utils (0.0.14) ... Setting up libbioparser-dev (3.0.12-1) ... Setting up librhash0:arm64 (1.4.1-2) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:arm64 (1.9.0-2) ... Setting up cmake-data (3.18.4-2) ... Setting up libelf1:arm64 (0.183-1) ... Setting up libxml2:arm64 (2.9.10+dfsg-6.7) ... Setting up libprocps8:arm64 (2:3.3.17-5) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libgtest-dev:arm64 (1.10.0.20201025-1.1) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:arm64 (3.4.3-2+b1) ... Setting up libcereal-dev (1.3.0+dfsg-1) ... Setting up libldap-2.4-2:arm64 (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:arm64 (7.74.0-1.3+b1) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up cmake (3.18.4-2) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-13) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/spoa-4.0.7+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../spoa_4.0.7+ds-1_source.changes dpkg-buildpackage: info: source package spoa dpkg-buildpackage: info: source version 4.0.7+ds-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --no-parallel dh_autoreconf_clean -O--no-parallel dh_clean -O--no-parallel debian/rules binary dh binary --no-parallel dh_update_autotools_config -O--no-parallel dh_autoreconf -O--no-parallel debian/rules override_dh_auto_configure make[1]: Entering directory '/build/spoa-4.0.7+ds' dh_auto_configure -- -DCMAKE_BUILD_TYPE=Release -Dspoa_build_executable=ON -Dspoa_build_tests=ON -Dspoa_use_simde_nonvec=ON -Dspoa_use_simde_openmp=ON -Dspoa_optimize_for_native=OFF -DCMAKE_PREFIX_PATH=/usr/lib/aarch64-linux-gnu/cmake/CpuFeatures cd obj-aarch64-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/aarch64-linux-gnu -DCMAKE_BUILD_TYPE=Release -Dspoa_build_executable=ON -Dspoa_build_tests=ON -Dspoa_use_simde_nonvec=ON -Dspoa_use_simde_openmp=ON -Dspoa_optimize_for_native=OFF -DCMAKE_PREFIX_PATH=/usr/lib/aarch64-linux-gnu/cmake/CpuFeatures .. -- The CXX compiler identification is GNU 10.2.1 -- 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 CMake Warning (dev) at vendor/cereal/CMakeLists.txt:2 (project): Policy CMP0048 is not set: project() command manages VERSION variables. Run "cmake --help-policy CMP0048" for policy details. Use the cmake_policy command to set the policy and suppress this warning. The following variable(s) would be set to empty: PROJECT_VERSION PROJECT_VERSION_MAJOR PROJECT_VERSION_MINOR PROJECT_VERSION_PATCH This warning is for project developers. Use -Wno-dev to suppress it. -- The C 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 -- Could NOT find Boost (missing: Boost_INCLUDE_DIR serialization) -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Found GTest: /usr/lib/aarch64-linux-gnu/libgtest.a -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu make[1]: Leaving directory '/build/spoa-4.0.7+ds' dh_auto_build -O--no-parallel cd obj-aarch64-linux-gnu && make -j1 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/spoa-4.0.7+ds -B/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/spoa.dir/build.make CMakeFiles/spoa.dir/depend make[3]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' cd /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/spoa-4.0.7+ds /build/spoa-4.0.7+ds /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa.dir/DependInfo.cmake --color= Dependee "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa.dir/DependInfo.cmake" is newer than depender "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa.dir/depend.internal". Dependee "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa.dir/depend.internal". Scanning dependencies of target spoa make[3]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/spoa.dir/build.make CMakeFiles/spoa.dir/build make[3]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' [ 0%] Building CXX object CMakeFiles/spoa.dir/src/alignment_engine.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -Dspoa_EXPORTS -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -fPIC -std=c++11 -o CMakeFiles/spoa.dir/src/alignment_engine.cpp.o -c /build/spoa-4.0.7+ds/src/alignment_engine.cpp [ 16%] Building CXX object CMakeFiles/spoa.dir/src/graph.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -Dspoa_EXPORTS -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -fPIC -std=c++11 -o CMakeFiles/spoa.dir/src/graph.cpp.o -c /build/spoa-4.0.7+ds/src/graph.cpp [ 16%] Building CXX object CMakeFiles/spoa.dir/src/sisd_alignment_engine.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -Dspoa_EXPORTS -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -fPIC -std=c++11 -o CMakeFiles/spoa.dir/src/sisd_alignment_engine.cpp.o -c /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp: In member function 'void spoa::SisdAlignmentEngine::Initialize(const char*, uint32_t, const spoa::Graph&)': /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:156:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 156 | } | ^ /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:157:5: note: here 157 | case AlignmentSubtype::kAffine: | ^~~~ /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:173:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 173 | } | ^ /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:174:5: note: here 174 | case AlignmentSubtype::kLinear: | ^~~~ [ 33%] Building CXX object CMakeFiles/spoa.dir/src/dispatcher.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -Dspoa_EXPORTS -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -fPIC -std=c++11 -o CMakeFiles/spoa.dir/src/dispatcher.cpp.o -c /build/spoa-4.0.7+ds/src/dispatcher.cpp In file included from /build/spoa-4.0.7+ds/src/dispatcher.cpp:3: /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:315:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 315 | std::unique_ptr<__mxxxi[]> sequence_profile_storage; | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:320:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 320 | std::unique_ptr<__mxxxi[]> M_storage; | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:328:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 328 | std::unique_ptr<__mxxxi[]> masks_storage; | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:332:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 332 | std::unique_ptr<__mxxxi[]> penalties_storage; | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine::Realloc(uint64_t, uint64_t, uint8_t)': /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:432:65: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 432 | pimpl_->sequence_profile_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:446:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 446 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:462:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 462 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:480:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 480 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:491:54: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 491 | pimpl_->masks_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:501:58: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 501 | pimpl_->penalties_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine::Initialize(const char*, const spoa::Graph&, uint64_t, uint64_t, uint64_t) [with T = spoa::InstructionSet; spoa::Architecture A = spoa::Architecture::kAutomatic]': /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:557:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 557 | for (std::uint32_t i = 1; i < matrix_height; ++i) { | ^~~ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:566:5: note: here 566 | case AlignmentSubtype::kAffine: | ^~~~ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine::Initialize(const char*, const spoa::Graph&, uint64_t, uint64_t, uint64_t) [with T = spoa::InstructionSet; spoa::Architecture A = spoa::Architecture::kAutomatic]': /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:557:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 557 | for (std::uint32_t i = 1; i < matrix_height; ++i) { | ^~~ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:566:5: note: here 566 | case AlignmentSubtype::kAffine: | ^~~~ [ 33%] Linking CXX shared library lib/libspoa.so /usr/bin/cmake -E cmake_link_script CMakeFiles/spoa.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libspoa.so.7.0.0 -o lib/libspoa.so.7.0.0 CMakeFiles/spoa.dir/src/alignment_engine.cpp.o CMakeFiles/spoa.dir/src/graph.cpp.o CMakeFiles/spoa.dir/src/sisd_alignment_engine.cpp.o CMakeFiles/spoa.dir/src/dispatcher.cpp.o /usr/bin/cmake -E cmake_symlink_library lib/libspoa.so.7.0.0 lib/libspoa.so.7.0.0 lib/libspoa.so make[3]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' [ 33%] Built target spoa make -f CMakeFiles/spoa_test.dir/build.make CMakeFiles/spoa_test.dir/depend make[3]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' cd /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/spoa-4.0.7+ds /build/spoa-4.0.7+ds /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_test.dir/DependInfo.cmake --color= Dependee "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_test.dir/DependInfo.cmake" is newer than depender "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_test.dir/depend.internal". Dependee "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_test.dir/depend.internal". Scanning dependencies of target spoa_test make[3]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/spoa_test.dir/build.make CMakeFiles/spoa_test.dir/build make[3]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' [ 33%] Building CXX object CMakeFiles/spoa_test.dir/test/spoa_test.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DSPOA_DATA_PATH=\"/build/spoa-4.0.7+ds/test/data/sample.fastq.gz\" -DUSE_SIMDE -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -o CMakeFiles/spoa_test.dir/test/spoa_test.cpp.o -c /build/spoa-4.0.7+ds/test/spoa_test.cpp [ 50%] Linking CXX executable bin/spoa_test /usr/bin/cmake -E cmake_link_script CMakeFiles/spoa_test.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -Wl,-z,relro -Wl,-z,now CMakeFiles/spoa_test.dir/test/spoa_test.cpp.o -o bin/spoa_test -Wl,-rpath,/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/lib lib/libspoa.so.7.0.0 -lz -lpthread /usr/lib/aarch64-linux-gnu/libgtest_main.a /usr/lib/aarch64-linux-gnu/libgtest.a -lpthread make[3]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' [ 50%] Built target spoa_test make -f CMakeFiles/spoa_exe.dir/build.make CMakeFiles/spoa_exe.dir/depend make[3]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' cd /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/spoa-4.0.7+ds /build/spoa-4.0.7+ds /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_exe.dir/DependInfo.cmake --color= Dependee "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_exe.dir/DependInfo.cmake" is newer than depender "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_exe.dir/depend.internal". Dependee "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_exe.dir/depend.internal". Scanning dependencies of target spoa_exe make[3]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/spoa_exe.dir/build.make CMakeFiles/spoa_exe.dir/build make[3]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' [ 50%] Building CXX object CMakeFiles/spoa_exe.dir/src/main.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DSPOA_VERSION=\"v4.0.7\" -DUSE_SIMDE -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -o CMakeFiles/spoa_exe.dir/src/main.cpp.o -c /build/spoa-4.0.7+ds/src/main.cpp [ 66%] Linking CXX executable bin/spoa /usr/bin/cmake -E cmake_link_script CMakeFiles/spoa_exe.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -Wl,-z,relro -Wl,-z,now CMakeFiles/spoa_exe.dir/src/main.cpp.o -o bin/spoa -Wl,-rpath,/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/lib: lib/libspoa.so.7.0.0 -lz make[3]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' [ 66%] Built target spoa_exe make -f CMakeFiles/spoa_static.dir/build.make CMakeFiles/spoa_static.dir/depend make[3]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' cd /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/spoa-4.0.7+ds /build/spoa-4.0.7+ds /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_static.dir/DependInfo.cmake --color= Dependee "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_static.dir/DependInfo.cmake" is newer than depender "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_static.dir/depend.internal". Dependee "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles/spoa_static.dir/depend.internal". Scanning dependencies of target spoa_static make[3]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/spoa_static.dir/build.make CMakeFiles/spoa_static.dir/build make[3]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' [ 66%] Building CXX object CMakeFiles/spoa_static.dir/src/alignment_engine.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -o CMakeFiles/spoa_static.dir/src/alignment_engine.cpp.o -c /build/spoa-4.0.7+ds/src/alignment_engine.cpp [ 83%] Building CXX object CMakeFiles/spoa_static.dir/src/graph.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -o CMakeFiles/spoa_static.dir/src/graph.cpp.o -c /build/spoa-4.0.7+ds/src/graph.cpp [ 83%] Building CXX object CMakeFiles/spoa_static.dir/src/sisd_alignment_engine.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -o CMakeFiles/spoa_static.dir/src/sisd_alignment_engine.cpp.o -c /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp: In member function 'void spoa::SisdAlignmentEngine::Initialize(const char*, uint32_t, const spoa::Graph&)': /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:156:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 156 | } | ^ /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:157:5: note: here 157 | case AlignmentSubtype::kAffine: | ^~~~ /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:173:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 173 | } | ^ /build/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:174:5: note: here 174 | case AlignmentSubtype::kLinear: | ^~~~ [ 83%] Building CXX object CMakeFiles/spoa_static.dir/src/dispatcher.cpp.o /usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -I/build/spoa-4.0.7+ds/include -I/build/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/build/spoa-4.0.7+ds/src -I/build/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -fdebug-prefix-map=/build/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -o CMakeFiles/spoa_static.dir/src/dispatcher.cpp.o -c /build/spoa-4.0.7+ds/src/dispatcher.cpp In file included from /build/spoa-4.0.7+ds/src/dispatcher.cpp:3: /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:315:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 315 | std::unique_ptr<__mxxxi[]> sequence_profile_storage; | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:320:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 320 | std::unique_ptr<__mxxxi[]> M_storage; | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:328:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 328 | std::unique_ptr<__mxxxi[]> masks_storage; | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:332:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 332 | std::unique_ptr<__mxxxi[]> penalties_storage; | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine::Realloc(uint64_t, uint64_t, uint8_t)': /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:432:65: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 432 | pimpl_->sequence_profile_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:446:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 446 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:462:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 462 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:480:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 480 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:491:54: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 491 | pimpl_->masks_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:501:58: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes] 501 | pimpl_->penalties_storage = std::unique_ptr<__mxxxi[]>(storage); | ^ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine::Initialize(const char*, const spoa::Graph&, uint64_t, uint64_t, uint64_t) [with T = spoa::InstructionSet; spoa::Architecture A = spoa::Architecture::kAutomatic]': /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:557:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 557 | for (std::uint32_t i = 1; i < matrix_height; ++i) { | ^~~ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:566:5: note: here 566 | case AlignmentSubtype::kAffine: | ^~~~ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine::Initialize(const char*, const spoa::Graph&, uint64_t, uint64_t, uint64_t) [with T = spoa::InstructionSet; spoa::Architecture A = spoa::Architecture::kAutomatic]': /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:557:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 557 | for (std::uint32_t i = 1; i < matrix_height; ++i) { | ^~~ /build/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:566:5: note: here 566 | case AlignmentSubtype::kAffine: | ^~~~ [100%] Linking CXX static library lib/libspoa_static.a /usr/bin/cmake -P CMakeFiles/spoa_static.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/spoa_static.dir/link.txt --verbose=1 /usr/bin/ar qc lib/libspoa_static.a CMakeFiles/spoa_static.dir/src/alignment_engine.cpp.o CMakeFiles/spoa_static.dir/src/graph.cpp.o CMakeFiles/spoa_static.dir/src/sisd_alignment_engine.cpp.o CMakeFiles/spoa_static.dir/src/dispatcher.cpp.o /usr/bin/ranlib lib/libspoa_static.a make[3]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' [100%] Built target spoa_static make[2]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/spoa-4.0.7+ds/obj-aarch64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' debian/rules override_dh_auto_test make[1]: Entering directory '/build/spoa-4.0.7+ds' `find . -name spoa_test` Running main() from /build/googletest-GKBoPn/googletest-1.10.0.20201025/googletest/src/gtest_main.cc [==========] Running 23 tests from 2 test suites. [----------] Global test environment set-up. [----------] 3 tests from SpoaAlignmentTest [ RUN ] SpoaAlignmentTest.TypeError [ OK ] SpoaAlignmentTest.TypeError (0 ms) [ RUN ] SpoaAlignmentTest.EmptyInput [ OK ] SpoaAlignmentTest.EmptyInput (0 ms) [ RUN ] SpoaAlignmentTest.LargeInput [ OK ] SpoaAlignmentTest.LargeInput (0 ms) [----------] 3 tests from SpoaAlignmentTest (0 ms total) [----------] 20 tests from SpoaTest [ RUN ] SpoaTest.Clear [ OK ] SpoaTest.Clear (335 ms) [ RUN ] SpoaTest.Archive [ OK ] SpoaTest.Archive (3 ms) [ RUN ] SpoaTest.Local [ OK ] SpoaTest.Local (172 ms) [ RUN ] SpoaTest.LocalAffine [ OK ] SpoaTest.LocalAffine (230 ms) [ RUN ] SpoaTest.LocalConvex [ OK ] SpoaTest.LocalConvex (365 ms) [ RUN ] SpoaTest.LocalWithQualities [ OK ] SpoaTest.LocalWithQualities (166 ms) [ RUN ] SpoaTest.LocalAffineWithQualities [ OK ] SpoaTest.LocalAffineWithQualities (224 ms) [ RUN ] SpoaTest.LocalConvexWithQualities [ OK ] SpoaTest.LocalConvexWithQualities (366 ms) [ RUN ] SpoaTest.Global [ OK ] SpoaTest.Global (177 ms) [ RUN ] SpoaTest.GlobalAffine [ OK ] SpoaTest.GlobalAffine (231 ms) [ RUN ] SpoaTest.GlobalConvex [ OK ] SpoaTest.GlobalConvex (377 ms) [ RUN ] SpoaTest.GlobalWithQualities [ OK ] SpoaTest.GlobalWithQualities (178 ms) [ RUN ] SpoaTest.GlobalAffineWithQualities [ OK ] SpoaTest.GlobalAffineWithQualities (230 ms) [ RUN ] SpoaTest.GlobalConvexWithQualities [ OK ] SpoaTest.GlobalConvexWithQualities (363 ms) [ RUN ] SpoaTest.SemiGlobal [ OK ] SpoaTest.SemiGlobal (161 ms) [ RUN ] SpoaTest.SemiGlobalAffine [ OK ] SpoaTest.SemiGlobalAffine (223 ms) [ RUN ] SpoaTest.SemiGlobalConvex [ OK ] SpoaTest.SemiGlobalConvex (363 ms) [ RUN ] SpoaTest.SemiGlobalWithQualities [ OK ] SpoaTest.SemiGlobalWithQualities (164 ms) [ RUN ] SpoaTest.SemiGlobalAffineWithQualities [ OK ] SpoaTest.SemiGlobalAffineWithQualities (225 ms) [ RUN ] SpoaTest.SemiGlobalConvexWithQualities [ OK ] SpoaTest.SemiGlobalConvexWithQualities (362 ms) [----------] 20 tests from SpoaTest (4916 ms total) [----------] Global test environment tear-down [==========] 23 tests from 2 test suites ran. (4916 ms total) [ PASSED ] 23 tests. `find . -name spoa | grep bin` test/data/sample.fastq.gz >Consensus LN:i:495 AATGATGCGCTTTGTTGGCGCGGTGGCTTGATGCAGGGGCTAATCGACCTCTGGCAACCACTTTTCCATGACAGGAGTTGAATATGGCATTCAGTAATCCCTTCGATGATCCGCAGGGAGCGTTTTACATATTGCGCAATGCGCAGGGCAATTCAGTCTGTGGCCGCAACAATGCGTCTTACCGGCAGGCTGGGACATTGTGTGTCAGCCGCAGTCACAGGCGTCCTGCCAGCAGTGGCTGGAAGCCCACTGGCGTACTCTGACACCGACGAATTTTACCCAGTTGCAGGAGGCACAATGAGCCAGCATTTACCTTTGGTCGCCGCACAGCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTTTACACGCGCAACCAAGGATTTCGG make[1]: Leaving directory '/build/spoa-4.0.7+ds' create-stamp debian/debhelper-build-stamp dh_testroot -O--no-parallel dh_prep -O--no-parallel dh_auto_install -O--no-parallel cd obj-aarch64-linux-gnu && make -j1 install DESTDIR=/build/spoa-4.0.7\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/spoa-4.0.7+ds -B/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "Release" -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/lib/aarch64-linux-gnu/libspoa.so.7.0.0 -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/lib/aarch64-linux-gnu/libspoa.so -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/lib/aarch64-linux-gnu/libspoa_static.a -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/include/spoa -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/include/spoa/spoa.hpp -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/include/spoa/alignment_engine.hpp -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/include/spoa/graph.hpp -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/include/spoa/architectures.hpp -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/lib/aarch64-linux-gnu/pkgconfig/spoa-1.pc -- Installing: /build/spoa-4.0.7+ds/debian/tmp/usr/bin/spoa -- Set runtime path of "/build/spoa-4.0.7+ds/debian/tmp/usr/bin/spoa" to "" make[1]: Leaving directory '/build/spoa-4.0.7+ds/obj-aarch64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/spoa-4.0.7+ds' dh_install d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --exclude-a \ --movedev debian/tmp/usr/include/spoa usr/include \ --movedev debian/tmp/usr/lib/*/pkgconfig usr/lib/aarch64-linux-gnu \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility set -e install -d -m 755 debian/libspoa-dev/usr/lib/aarch64-linux-gnu install -d -m 755 debian/libspoa7.0.0/usr/lib/aarch64-linux-gnu mv debian/tmp/usr/lib/aarch64-linux-gnu/libspoa.so debian/libspoa-dev/usr/lib/aarch64-linux-gnu mv /build/spoa-4.0.7+ds/debian/tmp/usr/lib/aarch64-linux-gnu/libspoa.so.7.0.0 debian/libspoa7.0.0/usr/lib/aarch64-linux-gnu PKGDEV=libspoa-dev PKGSHL=libspoa7.0.0 install -d -m 755 debian/libspoa-dev/usr/include mv debian/tmp/usr/include/spoa debian/libspoa-dev/usr/include install -d -m 755 debian/libspoa-dev/usr/lib/aarch64-linux-gnu mv debian/tmp/usr/lib/aarch64-linux-gnu/pkgconfig debian/libspoa-dev/usr/lib/aarch64-linux-gnu make[1]: Leaving directory '/build/spoa-4.0.7+ds' dh_installdocs -O--no-parallel dh_installchangelogs -O--no-parallel dh_installexamples -O--no-parallel dh_installman -O--no-parallel dh_installsystemduser -O--no-parallel dh_perl -O--no-parallel dh_link -O--no-parallel dh_strip_nondeterminism -O--no-parallel dh_compress -O--no-parallel dh_fixperms -O--no-parallel dh_missing -O--no-parallel dh_dwz -a -O--no-parallel dh_strip -a -O--no-parallel dh_makeshlibs -a -O--no-parallel dh_shlibdeps -a -O--no-parallel dh_installdeb -O--no-parallel dh_gencontrol -O--no-parallel dpkg-gencontrol: warning: Depends field of package libspoa-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--no-parallel dh_builddeb -O--no-parallel dpkg-deb: building package 'spoa' in '../spoa_4.0.7+ds-1_arm64.deb'. dpkg-deb: building package 'spoa-dbgsym' in '../spoa-dbgsym_4.0.7+ds-1_arm64.deb'. dpkg-deb: building package 'libspoa7.0.0' in '../libspoa7.0.0_4.0.7+ds-1_arm64.deb'. dpkg-deb: building package 'libspoa7.0.0-dbgsym' in '../libspoa7.0.0-dbgsym_4.0.7+ds-1_arm64.deb'. dpkg-deb: building package 'libspoa-dev' in '../libspoa-dev_4.0.7+ds-1_arm64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../spoa_4.0.7+ds-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/18805 and its subdirectories I: Current time: Mon Aug 29 21:49:53 -12 2022 I: pbuilder-time-stamp: 1661852993 Wed Jul 28 03:26:55 UTC 2021 I: 1st build successful. Starting 2nd build on remote node codethink14-arm64.debian.net. Wed Jul 28 03:26:55 UTC 2021 I: Preparing to do remote build '2' on codethink14-arm64.debian.net. Wed Jul 28 03:29:44 UTC 2021 I: Deleting $TMPDIR on codethink14-arm64.debian.net. Wed Jul 28 03:29:45 UTC 2021 I: spoa_4.0.7+ds-1_arm64.changes: Format: 1.8 Date: Tue, 19 Jan 2021 07:33:42 +0100 Source: spoa Binary: libspoa-dev libspoa7.0.0 libspoa7.0.0-dbgsym spoa spoa-dbgsym Architecture: arm64 Version: 4.0.7+ds-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: libspoa-dev - SIMD partial order alignment library (development files) libspoa7.0.0 - SIMD partial order alignment library spoa - SIMD partial order alignment tool Changes: spoa (4.0.7+ds-1) unstable; urgency=medium . * Team upload. * New upstream version Checksums-Sha1: e4ab9346a4748aef5fcb0e6eb64540b23aa630d2 6716 libspoa-dev_4.0.7+ds-1_arm64.deb 4c315dda0d6fe8f26b50405cf116bc864e7a8ab4 685948 libspoa7.0.0-dbgsym_4.0.7+ds-1_arm64.deb 0ac0095e055cfbd8313b693293032cdd50f27574 46136 libspoa7.0.0_4.0.7+ds-1_arm64.deb ee47455410c5ef277658d6099a7ba43127dc1a20 305868 spoa-dbgsym_4.0.7+ds-1_arm64.deb b2eedd3fd29864f888807e237c0946ffa5262dbf 6926 spoa_4.0.7+ds-1_arm64.buildinfo 78fdf155ba9c083482192c1861beb11f9f573433 36456 spoa_4.0.7+ds-1_arm64.deb Checksums-Sha256: 4c199c673eb451a62ca370590bc571317b2938347e6a8eb9553b35faa59b6fc2 6716 libspoa-dev_4.0.7+ds-1_arm64.deb 6f52f83ce0f37adf362fee4c6e07d505893d48d0deb5094403f9991d95bdec22 685948 libspoa7.0.0-dbgsym_4.0.7+ds-1_arm64.deb 0334fbb0ae3656692221e10563ee8321c379254d507dbf3d31ee7f77c49ccd5b 46136 libspoa7.0.0_4.0.7+ds-1_arm64.deb c5c1f5602d1b9c796439273c745ada7051f39bfe4356b7f2040a417f9e981bbe 305868 spoa-dbgsym_4.0.7+ds-1_arm64.deb 817addd244aa474fd0d239eb100f7b69b796f99dbe8fb6ca4393006efc60ab48 6926 spoa_4.0.7+ds-1_arm64.buildinfo e99dfa9fa187a4051f5117388f3e8eb4442339812f11233142c805077fd55d51 36456 spoa_4.0.7+ds-1_arm64.deb Files: b4789b9991f56108a5193cbd1ae0fd3a 6716 libdevel optional libspoa-dev_4.0.7+ds-1_arm64.deb 4494f7c9b18424491d1fa730dc5241c0 685948 debug optional libspoa7.0.0-dbgsym_4.0.7+ds-1_arm64.deb 26b455f0489bf139ac7cff1983614968 46136 libs optional libspoa7.0.0_4.0.7+ds-1_arm64.deb 43772310421f0fa0720a5da3adc754ee 305868 debug optional spoa-dbgsym_4.0.7+ds-1_arm64.deb bf40b17218210a313800b1fd6495c846 6926 science optional spoa_4.0.7+ds-1_arm64.buildinfo 3c5b5629088d563602b0ab273997a14f 36456 science optional spoa_4.0.7+ds-1_arm64.deb Wed Jul 28 03:29:46 UTC 2021 I: diffoscope 177 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.7axkRIcGYz/spoa_4.0.7+ds-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.7axkRIcGYz/spoa_4.0.7+ds-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.7axkRIcGYz/spoa_4.0.7+ds-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.7axkRIcGYz/b1/spoa_4.0.7+ds-1_arm64.changes /srv/reproducible-results/rbuild-debian/tmp.7axkRIcGYz/b2/spoa_4.0.7+ds-1_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.430s) 0.430s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.027s) 0.026s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Wed Jul 28 03:29:48 UTC 2021 I: diffoscope 177 found no differences in the changes files, and a .buildinfo file also exists. Wed Jul 28 03:29:48 UTC 2021 I: spoa from bullseye built successfully and reproducibly on arm64. Wed Jul 28 03:29:50 UTC 2021 I: Submitting .buildinfo files to external archives: Wed Jul 28 03:29:50 UTC 2021 I: Submitting 8.0K b1/spoa_4.0.7+ds-1_arm64.buildinfo.asc Wed Jul 28 03:29:51 UTC 2021 I: Submitting 8.0K b2/spoa_4.0.7+ds-1_arm64.buildinfo.asc Wed Jul 28 03:29:52 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Jul 28 03:29:52 UTC 2021 I: Done submitting .buildinfo files. Wed Jul 28 03:29:52 UTC 2021 I: Removing signed spoa_4.0.7+ds-1_arm64.buildinfo.asc files: removed './b1/spoa_4.0.7+ds-1_arm64.buildinfo.asc' removed './b2/spoa_4.0.7+ds-1_arm64.buildinfo.asc'