https://launchpad.net/ubuntu/+source/phyx/1.3+ds-1build1/+build/23845388 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-ppc64el-001 5.4.0-117-generic #132-Ubuntu SMP Thu Jun 2 00:38:12 UTC 2022 ppc64le Buildd toolchain package versions: launchpad-buildd_214~560~ubuntu20.04.1 python3-lpbuildd_214~560~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.4 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 13 Jun 06:18:33 ntpdate[1899]: adjust time server 10.211.37.1 offset -0.004167 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=kinetic --arch=ppc64el PACKAGEBUILD-23845388 --image-type chroot /home/buildd/filecache-default/9bc72597519b423e8b56f0e404e85e3685e5cde4 Creating target for build PACKAGEBUILD-23845388 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=kinetic --arch=ppc64el PACKAGEBUILD-23845388 Starting target for build PACKAGEBUILD-23845388 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=kinetic --arch=ppc64el PACKAGEBUILD-23845388 'deb http://ftpmaster.internal/ubuntu kinetic main universe' 'deb http://ftpmaster.internal/ubuntu kinetic-security main universe' 'deb http://ftpmaster.internal/ubuntu kinetic-updates main universe' 'deb http://ftpmaster.internal/ubuntu kinetic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-23845388 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=kinetic --arch=ppc64el PACKAGEBUILD-23845388 Updating target for build PACKAGEBUILD-23845388 Get:1 http://ftpmaster.internal/ubuntu kinetic InRelease [267 kB] Get:2 http://ftpmaster.internal/ubuntu kinetic-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu kinetic-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu kinetic-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu kinetic/main ppc64el Packages [1341 kB] Get:6 http://ftpmaster.internal/ubuntu kinetic/main Translation-en [510 kB] Get:7 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el Packages [13.9 MB] Get:8 http://ftpmaster.internal/ubuntu kinetic/universe Translation-en [5721 kB] Get:9 http://ftpmaster.internal/ubuntu kinetic-proposed/main ppc64el Packages [46.7 kB] Get:10 http://ftpmaster.internal/ubuntu kinetic-proposed/main Translation-en [20.4 kB] Get:11 http://ftpmaster.internal/ubuntu kinetic-proposed/universe ppc64el Packages [330 kB] Get:12 http://ftpmaster.internal/ubuntu kinetic-proposed/universe Translation-en [190 kB] Fetched 22.6 MB in 9s (2639 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: util-linux-extra The following packages will be upgraded: adduser apt base-files binutils binutils-common binutils-powerpc64le-linux-gnu bsdutils cpp-11 dash dpkg dpkg-dev e2fsprogs fakeroot g++-11 gcc-11 gcc-11-base gcc-12-base init init-system-helpers libapt-pkg6.0 libasan6 libatomic1 libbinutils libblkid1 libcc1-0 libcom-err2 libctf-nobfd0 libctf0 libdb5.3 libdpkg-perl libext2fs2 libfakeroot libgcc-11-dev libgcc-s1 libgcrypt20 libgomp1 libgpg-error0 libip4tc2 libitm1 liblsan0 liblzma5 libmount1 libncurses6 libncursesw6 libpng16-16 libquadmath0 libreadline8 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 libsqlite3-0 libss2 libssl3 libstdc++-11-dev libstdc++6 libsystemd0 libtinfo6 libtsan0 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev login logsave lto-disabled-list mount ncurses-base ncurses-bin openssl passwd pinentry-curses readline-common systemd systemd-sysv util-linux xz-utils 79 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 75.8 MB of archives. After this operation, 1421 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu kinetic/main ppc64el base-files ppc64el 12.2ubuntu1 [62.8 kB] Get:2 http://ftpmaster.internal/ubuntu kinetic/main ppc64el bsdutils ppc64el 1:2.38-4ubuntu1 [86.0 kB] Get:3 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libzstd1 ppc64el 1.5.2+dfsg-1 [352 kB] Get:4 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libatomic1 ppc64el 12.1.0-2ubuntu1 [10.6 kB] Get:5 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libubsan1 ppc64el 12.1.0-2ubuntu1 [992 kB] Get:6 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libquadmath0 ppc64el 12.1.0-2ubuntu1 [155 kB] Get:7 http://ftpmaster.internal/ubuntu kinetic/main ppc64el liblsan0 ppc64el 12.1.0-2ubuntu1 [1082 kB] Get:8 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libitm1 ppc64el 12.1.0-2ubuntu1 [32.6 kB] Get:9 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libgomp1 ppc64el 12.1.0-2ubuntu1 [139 kB] Get:10 http://ftpmaster.internal/ubuntu kinetic/main ppc64el gcc-12-base ppc64el 12.1.0-2ubuntu1 [18.9 kB] Get:11 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libgcc-s1 ppc64el 12.1.0-2ubuntu1 [34.1 kB] Get:12 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libcc1-0 ppc64el 12.1.0-2ubuntu1 [48.9 kB] Get:13 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libstdc++6 ppc64el 12.1.0-2ubuntu1 [786 kB] Get:14 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libgpg-error0 ppc64el 1.45-2 [88.0 kB] Get:15 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libgcrypt20 ppc64el 1.10.1-2ubuntu1 [713 kB] Get:16 http://ftpmaster.internal/ubuntu kinetic/main ppc64el liblzma5 ppc64el 5.2.5-2.1 [123 kB] Get:17 http://ftpmaster.internal/ubuntu kinetic/main ppc64el systemd-sysv ppc64el 249.11-0ubuntu4 [10.2 kB] Get:18 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libip4tc2 ppc64el 1.8.7-1ubuntu6 [23.6 kB] Get:19 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libblkid1 ppc64el 2.38-4ubuntu1 [130 kB] Get:20 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libselinux1 ppc64el 3.4-1 [97.4 kB] Get:21 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libmount1 ppc64el 2.38-4ubuntu1 [146 kB] Get:22 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsmartcols1 ppc64el 2.38-4ubuntu1 [60.8 kB] Get:23 http://ftpmaster.internal/ubuntu kinetic/main ppc64el login ppc64el 1:4.11.1+dfsg1-2ubuntu1 [186 kB] Get:24 http://ftpmaster.internal/ubuntu kinetic/main ppc64el util-linux-extra ppc64el 2.38-4ubuntu1 [89.6 kB] Get:25 http://ftpmaster.internal/ubuntu kinetic/main ppc64el util-linux ppc64el 2.38-4ubuntu1 [1141 kB] Get:26 http://ftpmaster.internal/ubuntu kinetic/main ppc64el mount ppc64el 2.38-4ubuntu1 [122 kB] Get:27 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsemanage-common all 3.4-1 [9828 B] Get:28 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsepol2 ppc64el 3.4-1 [384 kB] Get:29 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsemanage2 ppc64el 3.4-1 [115 kB] Get:30 http://ftpmaster.internal/ubuntu kinetic/main ppc64el passwd ppc64el 1:4.11.1+dfsg1-2ubuntu1 [798 kB] Get:31 http://ftpmaster.internal/ubuntu kinetic/main ppc64el adduser all 3.121ubuntu1 [150 kB] Get:32 http://ftpmaster.internal/ubuntu kinetic/main ppc64el systemd ppc64el 249.11-0ubuntu4 [5148 kB] Get:33 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsystemd0 ppc64el 249.11-0ubuntu4 [392 kB] Get:34 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libudev1 ppc64el 249.11-0ubuntu4 [95.5 kB] Get:35 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libapt-pkg6.0 ppc64el 2.5.0 [1019 kB] Get:36 http://ftpmaster.internal/ubuntu kinetic/main ppc64el dpkg ppc64el 1.21.8ubuntu1 [1415 kB] Get:37 http://ftpmaster.internal/ubuntu kinetic-proposed/main ppc64el dash ppc64el 0.5.11+git20210903+057cd650a4ed-8 [109 kB] Get:38 http://ftpmaster.internal/ubuntu kinetic/main ppc64el ncurses-bin ppc64el 6.3+20220423-2 [196 kB] Get:39 http://ftpmaster.internal/ubuntu kinetic/main ppc64el init-system-helpers all 1.63 [38.7 kB] Get:40 http://ftpmaster.internal/ubuntu kinetic/main ppc64el ncurses-base all 6.3+20220423-2 [21.2 kB] Get:41 http://ftpmaster.internal/ubuntu kinetic/main ppc64el apt ppc64el 2.5.0 [1423 kB] Get:42 http://ftpmaster.internal/ubuntu kinetic/main ppc64el logsave ppc64el 1.46.5-2ubuntu2 [10.5 kB] Get:43 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libext2fs2 ppc64el 1.46.5-2ubuntu2 [248 kB] Get:44 http://ftpmaster.internal/ubuntu kinetic/main ppc64el e2fsprogs ppc64el 1.46.5-2ubuntu2 [645 kB] Get:45 http://ftpmaster.internal/ubuntu kinetic/main ppc64el init ppc64el 1.63 [5674 B] Get:46 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libdb5.3 ppc64el 5.3.28+dfsg1-0.9 [828 kB] Get:47 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libncurses6 ppc64el 6.3+20220423-2 [143 kB] Get:48 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libncursesw6 ppc64el 6.3+20220423-2 [180 kB] Get:49 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libtinfo6 ppc64el 6.3+20220423-2 [123 kB] Get:50 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libuuid1 ppc64el 2.38-4ubuntu1 [27.2 kB] Get:51 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libcom-err2 ppc64el 1.46.5-2ubuntu2 [9632 B] Get:52 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libss2 ppc64el 1.46.5-2ubuntu2 [13.5 kB] Get:53 http://ftpmaster.internal/ubuntu kinetic/main ppc64el readline-common all 8.1.2-1.2 [53.6 kB] Get:54 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libreadline8 ppc64el 8.1.2-1.2 [178 kB] Get:55 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsqlite3-0 ppc64el 3.38.5-1 [745 kB] Get:56 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libssl3 ppc64el 3.0.3-5ubuntu3 [2139 kB] Get:57 http://ftpmaster.internal/ubuntu kinetic/main ppc64el openssl ppc64el 3.0.3-5ubuntu3 [1190 kB] Get:58 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libpng16-16 ppc64el 1.6.37-5 [233 kB] Get:59 http://ftpmaster.internal/ubuntu kinetic/main ppc64el xz-utils ppc64el 5.2.5-2.1 [91.5 kB] Get:60 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libctf0 ppc64el 2.38-4ubuntu1 [106 kB] Get:61 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libctf-nobfd0 ppc64el 2.38-4ubuntu1 [106 kB] Get:62 http://ftpmaster.internal/ubuntu kinetic/main ppc64el binutils-powerpc64le-linux-gnu ppc64el 2.38-4ubuntu1 [2399 kB] Get:63 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libbinutils ppc64el 2.38-4ubuntu1 [668 kB] Get:64 http://ftpmaster.internal/ubuntu kinetic/main ppc64el binutils ppc64el 2.38-4ubuntu1 [3170 B] Get:65 http://ftpmaster.internal/ubuntu kinetic/main ppc64el binutils-common ppc64el 2.38-4ubuntu1 [221 kB] Get:66 http://ftpmaster.internal/ubuntu kinetic/main ppc64el g++-11 ppc64el 11.3.0-3ubuntu1 [10.1 MB] Get:67 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libstdc++-11-dev ppc64el 11.3.0-3ubuntu1 [2177 kB] Get:68 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libasan6 ppc64el 11.3.0-3ubuntu1 [2275 kB] Get:69 http://ftpmaster.internal/ubuntu kinetic/main ppc64el gcc-11 ppc64el 11.3.0-3ubuntu1 [17.6 MB] Get:70 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libgcc-11-dev ppc64el 11.3.0-3ubuntu1 [1468 kB] Get:71 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libtsan0 ppc64el 11.3.0-3ubuntu1 [2265 kB] Get:72 http://ftpmaster.internal/ubuntu kinetic/main ppc64el cpp-11 ppc64el 11.3.0-3ubuntu1 [8754 kB] Get:73 http://ftpmaster.internal/ubuntu kinetic/main ppc64el gcc-11-base ppc64el 11.3.0-3ubuntu1 [20.9 kB] Get:74 http://ftpmaster.internal/ubuntu kinetic/main ppc64el dpkg-dev all 1.21.8ubuntu1 [1069 kB] Get:75 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libdpkg-perl all 1.21.8ubuntu1 [237 kB] Get:76 http://ftpmaster.internal/ubuntu kinetic/main ppc64el lto-disabled-list all 26 [12.4 kB] Get:77 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libfakeroot ppc64el 1.29-1ubuntu1 [33.1 kB] Get:78 http://ftpmaster.internal/ubuntu kinetic/main ppc64el fakeroot ppc64el 1.29-1ubuntu1 [62.5 kB] Get:79 http://ftpmaster.internal/ubuntu kinetic-proposed/main ppc64el linux-libc-dev ppc64el 5.15.0-35.36+22.10.1 [1280 kB] Get:80 http://ftpmaster.internal/ubuntu kinetic/main ppc64el pinentry-curses ppc64el 1.2.0-1ubuntu1 [38.7 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 75.8 MB in 6s (12.8 MB/s) (Reading database ... 13375 files and directories currently installed.) 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Processing triggers for libc-bin (2.35-0ubuntu3) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-23845388 ppc64el kinetic-proposed -c chroot:build-PACKAGEBUILD-23845388 --arch=ppc64el --dist=kinetic-proposed --nolog phyx_1.3+ds-1build1.dsc Initiating build PACKAGEBUILD-23845388 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-117-generic #132-Ubuntu SMP Thu Jun 2 00:38:12 UTC 2022 ppc64le sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos02-ppc64el-001.buildd +==============================================================================+ | phyx 1.3+ds-1build1 (ppc64el) Mon, 13 Jun 2022 06:19:03 +0000 | +==============================================================================+ Package: phyx Version: 1.3+ds-1build1 Source Version: 1.3+ds-1build1 Distribution: kinetic-proposed Machine Architecture: ppc64el Host Architecture: ppc64el Build Architecture: ppc64el Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-23845388/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/phyx-eBN7wU/resolver-qQaMXa' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- phyx_1.3+ds-1build1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/phyx-eBN7wU/phyx-1.3+ds' with '<>' I: NOTICE: Log filtering will replace 'build/phyx-eBN7wU' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), python3, liblapack-dev, libnlopt-cxx-dev, libnlopt-dev, libatlas-cpp-0.6-dev, libarmadillo-dev, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), python3, liblapack-dev, libnlopt-cxx-dev, libnlopt-dev, libatlas-cpp-0.6-dev, libarmadillo-dev, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [414 B] Get:5 copy:/<>/apt_archive ./ Packages [497 B] Fetched 1868 B in 0s (157 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libarmadillo-dev libarmadillo11 libarpack2 libarpack2-dev libatlas-cpp-0.6-3 libatlas-cpp-0.6-dev libatlas-cpp-0.6-tools libblas-dev libblas3 libbrotli1 libcurl4 libcurl4-openssl-dev libdebhelper-perl libdw1 libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libicu71 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblapack-dev liblapack3 libldap-2.5-0 libmagic-mgc libmagic1 libmpdec3 libnghttp2-14 libnlopt-cxx-dev libnlopt-cxx0 libnlopt-dev libnlopt0 libpipeline1 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libssl-dev libsub-override-perl libsuperlu-dev libsuperlu5 libsz2 libtool libuchardet0 libxml2 m4 man-db media-types pkg-config po-debconf python3 python3-minimal python3.10 python3.10-minimal zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libitpp-dev libatlas-cpp-doc liblapack-doc libcurl4-doc libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev libhdf5-doc libssl-doc libsuperlu-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python3.10-venv python3.10-doc binfmt-support Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libarmadillo-dev libarmadillo11 libarpack2 libarpack2-dev libatlas-cpp-0.6-3 libatlas-cpp-0.6-dev libatlas-cpp-0.6-tools libblas-dev libblas3 libbrotli1 libcurl4 libcurl4-openssl-dev libdebhelper-perl libdw1 libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libicu71 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblapack-dev liblapack3 libldap-2.5-0 libmagic-mgc libmagic1 libmpdec3 libnghttp2-14 libnlopt-cxx-dev libnlopt-cxx0 libnlopt-dev libnlopt0 libpipeline1 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libssl-dev libsub-override-perl libsuperlu-dev libsuperlu5 libsz2 libtool libuchardet0 libxml2 m4 man-db media-types pkg-config po-debconf python3 python3-minimal python3.10 python3.10-minimal sbuild-build-depends-main-dummy zlib1g-dev 0 upgraded, 91 newly installed, 0 to remove and 0 not upgraded. Need to get 47.3 MB of archives. After this operation, 200 MB of additional disk space will be used. 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ppc64el 0.21-6 [43.2 kB] Get:21 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libuchardet0 ppc64el 0.0.7-1build2 [80.4 kB] Get:22 http://ftpmaster.internal/ubuntu kinetic/main ppc64el groff-base ppc64el 1.22.4-8build1 [1031 kB] Get:23 http://ftpmaster.internal/ubuntu kinetic-proposed/main ppc64el libnghttp2-14 ppc64el 1.47.0-1 [83.0 kB] Get:24 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libpipeline1 ppc64el 1.5.6-1 [25.9 kB] Get:25 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libpsl5 ppc64el 0.21.0-1.2build2 [60.3 kB] Get:26 http://ftpmaster.internal/ubuntu kinetic/main ppc64el man-db ppc64el 2.10.2-1 [1226 kB] Get:27 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsigsegv2 ppc64el 2.13-1ubuntu3 [15.2 kB] Get:28 http://ftpmaster.internal/ubuntu kinetic/main ppc64el m4 ppc64el 1.4.18-5ubuntu2 [214 kB] Get:29 http://ftpmaster.internal/ubuntu kinetic/main ppc64el autoconf all 2.71-2 [338 kB] Get:30 http://ftpmaster.internal/ubuntu kinetic/main ppc64el autotools-dev all 20220109.1 [44.9 kB] Get:31 http://ftpmaster.internal/ubuntu kinetic/main ppc64el automake all 1:1.16.5-1.3 [558 kB] Get:32 http://ftpmaster.internal/ubuntu kinetic/main ppc64el autopoint all 0.21-6 [421 kB] Get:33 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libdebhelper-perl all 13.7.1ubuntu1 [66.9 kB] Get:34 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libtool all 2.4.7-4 [166 kB] Get:35 http://ftpmaster.internal/ubuntu kinetic/main ppc64el dh-autoreconf all 20 [16.1 kB] Get:36 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libarchive-zip-perl all 1.68-1 [90.2 kB] Get:37 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsub-override-perl all 0.09-2 [9532 B] Get:38 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libfile-stripnondeterminism-perl all 1.13.0-1 [18.1 kB] Get:39 http://ftpmaster.internal/ubuntu kinetic/main ppc64el dh-strip-nondeterminism all 1.13.0-1 [5344 B] Get:40 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libdw1 ppc64el 0.187-1 [285 kB] Get:41 http://ftpmaster.internal/ubuntu kinetic/main ppc64el debugedit ppc64el 1:5.0-4build1 [51.6 kB] Get:42 http://ftpmaster.internal/ubuntu kinetic/main ppc64el dwz ppc64el 0.14-1build2 [124 kB] Get:43 http://ftpmaster.internal/ubuntu kinetic/main ppc64el gettext ppc64el 0.21-6 [972 kB] Get:44 http://ftpmaster.internal/ubuntu kinetic/main ppc64el intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:45 http://ftpmaster.internal/ubuntu kinetic/main ppc64el po-debconf all 1.0.21+nmu1 [233 kB] Get:46 http://ftpmaster.internal/ubuntu kinetic/main ppc64el debhelper all 13.7.1ubuntu1 [940 kB] Get:47 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el hdf5-helpers ppc64el 1.10.7+repack-4ubuntu2 [14.2 kB] Get:48 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libaec0 ppc64el 1.0.6-1 [27.9 kB] Get:49 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libblas3 ppc64el 3.10.1-2 [204 kB] Get:50 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libgfortran5 ppc64el 12.1.0-2ubuntu1 [545 kB] Get:51 http://ftpmaster.internal/ubuntu kinetic/main ppc64el liblapack3 ppc64el 3.10.1-2 [2425 kB] Get:52 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libarpack2 ppc64el 3.8.0-1 [90.1 kB] Get:53 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libsuperlu5 ppc64el 5.3.0+dfsg1-2 [226 kB] Get:54 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libarmadillo11 ppc64el 1:11.1.1+dfsg-2 [106 kB] Get:55 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libblas-dev ppc64el 3.10.1-2 [275 kB] Get:56 http://ftpmaster.internal/ubuntu kinetic/main ppc64el liblapack-dev ppc64el 3.10.1-2 [5113 kB] Get:57 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libarpack2-dev ppc64el 3.8.0-1 [110 kB] Get:58 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libbrotli1 ppc64el 1.0.9-2build6 [370 kB] Get:59 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsasl2-modules-db ppc64el 2.1.28+dfsg-6ubuntu1 [22.9 kB] Get:60 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libsasl2-2 ppc64el 2.1.28+dfsg-6ubuntu1 [71.0 kB] Get:61 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libldap-2.5-0 ppc64el 2.5.12+dfsg-2ubuntu1 [216 kB] Get:62 http://ftpmaster.internal/ubuntu kinetic/main ppc64el librtmp1 ppc64el 2.4+20151223.gitfa8646d.1-2build4 [65.5 kB] Get:63 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libssh-4 ppc64el 0.9.6-2build1 [236 kB] Get:64 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libcurl4 ppc64el 7.83.1-1ubuntu1 [374 kB] Get:65 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libsz2 ppc64el 1.0.6-1 [5804 B] Get:66 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libhdf5-103-1 ppc64el 1.10.7+repack-4ubuntu2 [1385 kB] Get:67 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libhdf5-fortran-102 ppc64el 1.10.7+repack-4ubuntu2 [101 kB] Get:68 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libhdf5-hl-100 ppc64el 1.10.7+repack-4ubuntu2 [74.6 kB] Get:69 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libhdf5-hl-fortran-100 ppc64el 1.10.7+repack-4ubuntu2 [35.2 kB] Get:70 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libhdf5-cpp-103-1 ppc64el 1.10.7+repack-4ubuntu2 [130 kB] Get:71 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libhdf5-hl-cpp-100 ppc64el 1.10.7+repack-4ubuntu2 [10.7 kB] Get:72 http://ftpmaster.internal/ubuntu kinetic/main ppc64el zlib1g-dev ppc64el 1:1.2.11.dfsg-2ubuntu9 [177 kB] Get:73 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libjpeg-turbo8 ppc64el 2.1.2-0ubuntu1 [214 kB] Get:74 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libjpeg-turbo8-dev ppc64el 2.1.2-0ubuntu1 [337 kB] Get:75 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libjpeg8 ppc64el 8c-2ubuntu10 [2266 B] Get:76 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libjpeg8-dev ppc64el 8c-2ubuntu10 [1476 B] Get:77 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libjpeg-dev ppc64el 8c-2ubuntu10 [1476 B] Get:78 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libaec-dev ppc64el 1.0.6-1 [27.2 kB] Get:79 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libcurl4-openssl-dev ppc64el 7.83.1-1ubuntu1 [458 kB] Get:80 http://ftpmaster.internal/ubuntu kinetic/main ppc64el libssl-dev ppc64el 3.0.3-5ubuntu3 [2630 kB] Get:81 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libhdf5-dev ppc64el 1.10.7+repack-4ubuntu2 [3249 kB] Get:82 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libsuperlu-dev ppc64el 5.3.0+dfsg1-2 [20.0 kB] Get:83 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libarmadillo-dev ppc64el 1:11.1.1+dfsg-2 [400 kB] Get:84 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libatlas-cpp-0.6-3 ppc64el 0.6.4-3 [148 kB] Get:85 http://ftpmaster.internal/ubuntu kinetic/main ppc64el pkg-config ppc64el 0.29.2-1ubuntu3 [51.9 kB] Get:86 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libatlas-cpp-0.6-tools ppc64el 0.6.4-3 [17.5 kB] Get:87 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libatlas-cpp-0.6-dev ppc64el 0.6.4-3 [34.4 kB] Get:88 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libnlopt0 ppc64el 2.7.1-4build1 [267 kB] Get:89 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libnlopt-dev ppc64el 2.7.1-4build1 [43.6 kB] Get:90 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libnlopt-cxx0 ppc64el 2.7.1-4build1 [301 kB] Get:91 http://ftpmaster.internal/ubuntu kinetic/universe ppc64el libnlopt-cxx-dev ppc64el 2.7.1-4build1 [9864 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 47.3 MB in 5s (10.4 MB/s) Selecting previously unselected package libpython3.10-minimal:ppc64el. (Reading database ... 13431 files and directories currently installed.) Preparing to unpack .../libpython3.10-minimal_3.10.5-1_ppc64el.deb ... Unpacking libpython3.10-minimal:ppc64el (3.10.5-1) ... Selecting previously unselected package libexpat1:ppc64el. Preparing to unpack .../libexpat1_2.4.8-1_ppc64el.deb ... Unpacking libexpat1:ppc64el (2.4.8-1) ... Selecting previously unselected package python3.10-minimal. Preparing to unpack .../python3.10-minimal_3.10.5-1_ppc64el.deb ... Unpacking python3.10-minimal (3.10.5-1) ... Setting up libpython3.10-minimal:ppc64el (3.10.5-1) ... Setting up libexpat1:ppc64el (2.4.8-1) ... Setting up python3.10-minimal (3.10.5-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 13733 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.10.4-0ubuntu2_ppc64el.deb ... Unpacking python3-minimal (3.10.4-0ubuntu2) ... Selecting previously unselected package media-types. 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Preparing to unpack .../00-python3_3.10.4-0ubuntu2_ppc64el.deb ... Unpacking python3 (3.10.4-0ubuntu2) ... Selecting previously unselected package libelf1:ppc64el. Preparing to unpack .../01-libelf1_0.187-1_ppc64el.deb ... Unpacking libelf1:ppc64el (0.187-1) ... Selecting previously unselected package libglib2.0-0:ppc64el. Preparing to unpack .../02-libglib2.0-0_2.72.2-2_ppc64el.deb ... Unpacking libglib2.0-0:ppc64el (2.72.2-2) ... Selecting previously unselected package libicu71:ppc64el. Preparing to unpack .../03-libicu71_71.1-3_ppc64el.deb ... Unpacking libicu71:ppc64el (71.1-3) ... Selecting previously unselected package libxml2:ppc64el. Preparing to unpack .../04-libxml2_2.9.14+dfsg-1_ppc64el.deb ... Unpacking libxml2:ppc64el (2.9.14+dfsg-1) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../05-bsdextrautils_2.38-4ubuntu1_ppc64el.deb ... Unpacking bsdextrautils (2.38-4ubuntu1) ... Selecting previously unselected package libmagic-mgc. 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Selecting previously unselected package libsuperlu5:ppc64el. Preparing to unpack .../42-libsuperlu5_5.3.0+dfsg1-2_ppc64el.deb ... Unpacking libsuperlu5:ppc64el (5.3.0+dfsg1-2) ... Selecting previously unselected package libarmadillo11. Preparing to unpack .../43-libarmadillo11_1%3a11.1.1+dfsg-2_ppc64el.deb ... Unpacking libarmadillo11 (1:11.1.1+dfsg-2) ... Selecting previously unselected package libblas-dev:ppc64el. Preparing to unpack .../44-libblas-dev_3.10.1-2_ppc64el.deb ... Unpacking libblas-dev:ppc64el (3.10.1-2) ... Selecting previously unselected package liblapack-dev:ppc64el. Preparing to unpack .../45-liblapack-dev_3.10.1-2_ppc64el.deb ... Unpacking liblapack-dev:ppc64el (3.10.1-2) ... Selecting previously unselected package libarpack2-dev:ppc64el. Preparing to unpack .../46-libarpack2-dev_3.8.0-1_ppc64el.deb ... Unpacking libarpack2-dev:ppc64el (3.8.0-1) ... Selecting previously unselected package libbrotli1:ppc64el. Preparing to unpack .../47-libbrotli1_1.0.9-2build6_ppc64el.deb ... Unpacking libbrotli1:ppc64el (1.0.9-2build6) ... Selecting previously unselected package libsasl2-modules-db:ppc64el. Preparing to unpack .../48-libsasl2-modules-db_2.1.28+dfsg-6ubuntu1_ppc64el.deb ... Unpacking libsasl2-modules-db:ppc64el (2.1.28+dfsg-6ubuntu1) ... Selecting previously unselected package libsasl2-2:ppc64el. Preparing to unpack .../49-libsasl2-2_2.1.28+dfsg-6ubuntu1_ppc64el.deb ... Unpacking libsasl2-2:ppc64el (2.1.28+dfsg-6ubuntu1) ... Selecting previously unselected package libldap-2.5-0:ppc64el. Preparing to unpack .../50-libldap-2.5-0_2.5.12+dfsg-2ubuntu1_ppc64el.deb ... Unpacking libldap-2.5-0:ppc64el (2.5.12+dfsg-2ubuntu1) ... Selecting previously unselected package librtmp1:ppc64el. Preparing to unpack .../51-librtmp1_2.4+20151223.gitfa8646d.1-2build4_ppc64el.deb ... Unpacking librtmp1:ppc64el (2.4+20151223.gitfa8646d.1-2build4) ... Selecting previously unselected package libssh-4:ppc64el. Preparing to unpack .../52-libssh-4_0.9.6-2build1_ppc64el.deb ... Unpacking libssh-4:ppc64el (0.9.6-2build1) ... Selecting previously unselected package libcurl4:ppc64el. Preparing to unpack .../53-libcurl4_7.83.1-1ubuntu1_ppc64el.deb ... Unpacking libcurl4:ppc64el (7.83.1-1ubuntu1) ... Selecting previously unselected package libsz2:ppc64el. Preparing to unpack .../54-libsz2_1.0.6-1_ppc64el.deb ... Unpacking libsz2:ppc64el (1.0.6-1) ... Selecting previously unselected package libhdf5-103-1:ppc64el. Preparing to unpack .../55-libhdf5-103-1_1.10.7+repack-4ubuntu2_ppc64el.deb ... Unpacking libhdf5-103-1:ppc64el (1.10.7+repack-4ubuntu2) ... Selecting previously unselected package libhdf5-fortran-102:ppc64el. Preparing to unpack .../56-libhdf5-fortran-102_1.10.7+repack-4ubuntu2_ppc64el.deb ... Unpacking libhdf5-fortran-102:ppc64el (1.10.7+repack-4ubuntu2) ... Selecting previously unselected package libhdf5-hl-100:ppc64el. 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Selecting previously unselected package libaec-dev:ppc64el. Preparing to unpack .../67-libaec-dev_1.0.6-1_ppc64el.deb ... Unpacking libaec-dev:ppc64el (1.0.6-1) ... Selecting previously unselected package libcurl4-openssl-dev:ppc64el. Preparing to unpack .../68-libcurl4-openssl-dev_7.83.1-1ubuntu1_ppc64el.deb ... Unpacking libcurl4-openssl-dev:ppc64el (7.83.1-1ubuntu1) ... Selecting previously unselected package libssl-dev:ppc64el. Preparing to unpack .../69-libssl-dev_3.0.3-5ubuntu3_ppc64el.deb ... Unpacking libssl-dev:ppc64el (3.0.3-5ubuntu3) ... Selecting previously unselected package libhdf5-dev. Preparing to unpack .../70-libhdf5-dev_1.10.7+repack-4ubuntu2_ppc64el.deb ... Unpacking libhdf5-dev (1.10.7+repack-4ubuntu2) ... Selecting previously unselected package libsuperlu-dev:ppc64el. Preparing to unpack .../71-libsuperlu-dev_5.3.0+dfsg1-2_ppc64el.deb ... Unpacking libsuperlu-dev:ppc64el (5.3.0+dfsg1-2) ... Selecting previously unselected package libarmadillo-dev. 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Setting up libpsl5:ppc64el (0.21.0-1.2build2) ... Setting up bsdextrautils (2.38-4ubuntu1) ... Setting up hdf5-helpers (1.10.7+repack-4ubuntu2) ... Setting up libmagic-mgc (1:5.41-4) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:ppc64el (2.72.2-2) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13.7.1ubuntu1) ... Setting up libbrotli1:ppc64el (1.0.9-2build6) ... Setting up libnghttp2-14:ppc64el (1.47.0-1) ... Setting up libmagic1:ppc64el (1:5.41-4) ... Setting up gettext-base (0.21-6) ... Setting up libnlopt0:ppc64el (2.7.1-4build1) ... Setting up file (1:5.41-4) ... Setting up libaec0:ppc64el (1.0.6-1) ... Setting up libsasl2-modules-db:ppc64el (2.1.28+dfsg-6ubuntu1) ... Setting up libatlas-cpp-0.6-3:ppc64el (0.6.4-3) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:ppc64el (3.10.1-2) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode Setting up librtmp1:ppc64el (2.4+20151223.gitfa8646d.1-2build4) ... Setting up libsigsegv2:ppc64el (2.13-1ubuntu3) ... Setting up libssl-dev:ppc64el (3.0.3-5ubuntu3) ... Setting up autopoint (0.21-6) ... Setting up pkg-config (0.29.2-1ubuntu3) ... Setting up libjpeg-turbo8:ppc64el (2.1.2-0ubuntu1) ... Setting up libsasl2-2:ppc64el (2.1.28+dfsg-6ubuntu1) ... Setting up libssh-4:ppc64el (0.9.6-2build1) ... Setting up libgfortran5:ppc64el (12.1.0-2ubuntu1) ... Setting up libnlopt-cxx0:ppc64el (2.7.1-4build1) ... Setting up zlib1g-dev:ppc64el (1:1.2.11.dfsg-2ubuntu9) ... Setting up libuchardet0:ppc64el (0.0.7-1build2) ... Setting up libmpdec3:ppc64el (2.5.1-2build2) ... Setting up libsub-override-perl (0.09-2) ... Setting up libnlopt-dev:ppc64el (2.7.1-4build1) ... Setting up libatlas-cpp-0.6-tools (0.6.4-3) ... Setting up libelf1:ppc64el (0.187-1) ... Setting up libxml2:ppc64el (2.9.14+dfsg-1) ... Setting up libblas-dev:ppc64el (3.10.1-2) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so to provide /usr/lib/powerpc64le-linux-gnu/libblas.so (libblas.so-powerpc64le-linux-gnu) in auto mode Setting up libsz2:ppc64el (1.0.6-1) ... Setting up libjpeg8:ppc64el (8c-2ubuntu10) ... Setting up libfile-stripnondeterminism-perl (1.13.0-1) ... Setting up libdw1:ppc64el (0.187-1) ... Setting up libjpeg-turbo8-dev:ppc64el (2.1.2-0ubuntu1) ... Setting up liblapack3:ppc64el (3.10.1-2) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode Setting up gettext (0.21-6) ... Setting up libtool (2.4.7-4) ... Setting up libaec-dev:ppc64el (1.0.6-1) ... Setting up libarpack2:ppc64el (3.8.0-1) ... Setting up libsuperlu5:ppc64el (5.3.0+dfsg1-2) ... Setting up m4 (1.4.18-5ubuntu2) ... Setting up libldap-2.5-0:ppc64el (2.5.12+dfsg-2ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libpython3.10-stdlib:ppc64el (3.10.5-1) ... Setting up libnlopt-cxx-dev:ppc64el (2.7.1-4build1) ... Setting up liblapack-dev:ppc64el (3.10.1-2) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so (liblapack.so-powerpc64le-linux-gnu) in auto mode Setting up autoconf (2.71-2) ... Setting up dh-strip-nondeterminism (1.13.0-1) ... Setting up libatlas-cpp-0.6-dev:ppc64el (0.6.4-3) ... Setting up dwz (0.14-1build2) ... Setting up groff-base (1.22.4-8build1) ... Setting up debugedit (1:5.0-4build1) ... Setting up libcurl4:ppc64el (7.83.1-1ubuntu1) ... Setting up libjpeg8-dev:ppc64el (8c-2ubuntu10) ... Setting up libsuperlu-dev:ppc64el (5.3.0+dfsg1-2) ... Setting up libpython3-stdlib:ppc64el (3.10.4-0ubuntu2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libarpack2-dev:ppc64el (3.8.0-1) ... Setting up python3.10 (3.10.5-1) ... Setting up libarmadillo11 (1:11.1.1+dfsg-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libjpeg-dev:ppc64el (8c-2ubuntu10) ... Setting up python3 (3.10.4-0ubuntu2) ... Setting up man-db (2.10.2-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up dh-autoreconf (20) ... Setting up libcurl4-openssl-dev:ppc64el (7.83.1-1ubuntu1) ... Setting up libhdf5-103-1:ppc64el (1.10.7+repack-4ubuntu2) ... Setting up libhdf5-cpp-103-1:ppc64el (1.10.7+repack-4ubuntu2) ... Setting up libhdf5-hl-100:ppc64el (1.10.7+repack-4ubuntu2) ... Setting up debhelper (13.7.1ubuntu1) ... Setting up libhdf5-hl-cpp-100:ppc64el (1.10.7+repack-4ubuntu2) ... Setting up libhdf5-fortran-102:ppc64el (1.10.7+repack-4ubuntu2) ... Setting up libhdf5-hl-fortran-100:ppc64el (1.10.7+repack-4ubuntu2) ... Setting up libhdf5-dev (1.10.7+repack-4ubuntu2) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/powerpc64le-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libarmadillo-dev (1:11.1.1+dfsg-2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (ppc64el included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-117-generic #132-Ubuntu SMP Thu Jun 2 00:38:12 UTC 2022 ppc64el (ppc64le) Toolchain package versions: binutils_2.38-4ubuntu1 dpkg-dev_1.21.8ubuntu1 g++-11_11.3.0-3ubuntu1 gcc-11_11.3.0-3ubuntu1 libc6-dev_2.35-0ubuntu3 libstdc++-11-dev_11.3.0-3ubuntu1 libstdc++6_12.1.0-2ubuntu1 linux-libc-dev_5.15.0-35.36+22.10.1 Package versions: adduser_3.121ubuntu1 advancecomp_2.1-2.1ubuntu2 apt_2.5.0 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-6 autotools-dev_20220109.1 base-files_12.2ubuntu1 base-passwd_3.5.52build1 bash_5.1-6ubuntu1 binutils_2.38-4ubuntu1 binutils-common_2.38-4ubuntu1 binutils-powerpc64le-linux-gnu_2.38-4ubuntu1 bsdextrautils_2.38-4ubuntu1 bsdutils_1:2.38-4ubuntu1 build-essential_12.9ubuntu3 bzip2_1.0.8-5build1 ca-certificates_20211016 coreutils_8.32-4.1ubuntu1 cpp_4:11.2.0-1ubuntu1 cpp-11_11.3.0-3ubuntu1 dash_0.5.11+git20210903+057cd650a4ed-8 debconf_1.5.79ubuntu1 debhelper_13.7.1ubuntu1 debianutils_5.7-0.2 debugedit_1:5.0-4build1 dh-autoreconf_20 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.8-0ubuntu2 dpkg_1.21.8ubuntu1 dpkg-dev_1.21.8ubuntu1 dwz_0.14-1build2 e2fsprogs_1.46.5-2ubuntu2 fakeroot_1.29-1ubuntu1 file_1:5.41-4 findutils_4.8.0-1ubuntu3 g++_4:11.2.0-1ubuntu1 g++-11_11.3.0-3ubuntu1 gcc_4:11.2.0-1ubuntu1 gcc-11_11.3.0-3ubuntu1 gcc-11-base_11.3.0-3ubuntu1 gcc-12-base_12.1.0-2ubuntu1 gettext_0.21-6 gettext-base_0.21-6 gpg_2.2.27-3ubuntu2 gpg-agent_2.2.27-3ubuntu2 gpgconf_2.2.27-3ubuntu2 gpgv_2.2.27-3ubuntu2 grep_3.7-1build1 groff-base_1.22.4-8build1 gzip_1.10-4ubuntu4 hdf5-helpers_1.10.7+repack-4ubuntu2 hostname_3.23ubuntu2 init_1.63 init-system-helpers_1.63 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libaec-dev_1.0.6-1 libaec0_1.0.6-1 libapparmor1_3.0.4-2ubuntu2 libapt-pkg6.0_2.5.0 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.3 libarmadillo-dev_1:11.1.1+dfsg-2 libarmadillo11_1:11.1.1+dfsg-2 libarpack2_3.8.0-1 libarpack2-dev_3.8.0-1 libasan6_11.3.0-3ubuntu1 libassuan0_2.5.5-3 libatlas-cpp-0.6-3_0.6.4-3 libatlas-cpp-0.6-dev_0.6.4-3 libatlas-cpp-0.6-tools_0.6.4-3 libatomic1_12.1.0-2ubuntu1 libattr1_1:2.5.1-1build1 libaudit-common_1:3.0.7-1build1 libaudit1_1:3.0.7-1build1 libbinutils_2.38-4ubuntu1 libblas-dev_3.10.1-2 libblas3_3.10.1-2 libblkid1_2.38-4ubuntu1 libbrotli1_1.0.9-2build6 libbz2-1.0_1.0.8-5build1 libc-bin_2.35-0ubuntu3 libc-dev-bin_2.35-0ubuntu3 libc6_2.35-0ubuntu3 libc6-dev_2.35-0ubuntu3 libcap-ng0_0.7.9-2.2build3 libcap2_1:2.44-1build3 libcc1-0_12.1.0-2ubuntu1 libcom-err2_1.46.5-2ubuntu2 libcrypt-dev_1:4.4.27-1 libcrypt1_1:4.4.27-1 libcryptsetup12_2:2.4.3-1ubuntu1 libctf-nobfd0_2.38-4ubuntu1 libctf0_2.38-4ubuntu1 libcurl4_7.83.1-1ubuntu1 libcurl4-openssl-dev_7.83.1-1ubuntu1 libdb5.3_5.3.28+dfsg1-0.9 libdebconfclient0_0.261ubuntu1 libdebhelper-perl_13.7.1ubuntu1 libdevmapper1.02.1_2:1.02.175-2.1ubuntu4 libdpkg-perl_1.21.8ubuntu1 libdw1_0.187-1 libelf1_0.187-1 libexpat1_2.4.8-1 libext2fs2_1.46.5-2ubuntu2 libfakeroot_1.29-1ubuntu1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-1 libgcc-11-dev_11.3.0-3ubuntu1 libgcc-s1_12.1.0-2ubuntu1 libgcrypt20_1.10.1-2ubuntu1 libgdbm-compat4_1.23-1 libgdbm6_1.23-1 libgfortran5_12.1.0-2ubuntu1 libglib2.0-0_2.72.2-2 libgmp10_2:6.2.1+dfsg-3ubuntu1 libgnutls30_3.7.4-2ubuntu1 libgomp1_12.1.0-2ubuntu1 libgpg-error0_1.45-2 libgssapi-krb5-2_1.19.2-2 libhdf5-103-1_1.10.7+repack-4ubuntu2 libhdf5-cpp-103-1_1.10.7+repack-4ubuntu2 libhdf5-dev_1.10.7+repack-4ubuntu2 libhdf5-fortran-102_1.10.7+repack-4ubuntu2 libhdf5-hl-100_1.10.7+repack-4ubuntu2 libhdf5-hl-cpp-100_1.10.7+repack-4ubuntu2 libhdf5-hl-fortran-100_1.10.7+repack-4ubuntu2 libhogweed6_3.7.3-1build2 libicu71_71.1-3 libidn2-0_2.3.2-2build1 libip4tc2_1.8.7-1ubuntu6 libisl23_0.24-2build1 libitm1_12.1.0-2ubuntu1 libjpeg-dev_8c-2ubuntu10 libjpeg-turbo8_2.1.2-0ubuntu1 libjpeg-turbo8-dev_2.1.2-0ubuntu1 libjpeg8_8c-2ubuntu10 libjpeg8-dev_8c-2ubuntu10 libjson-c5_0.16-1 libk5crypto3_1.19.2-2 libkeyutils1_1.6.1-2ubuntu3 libkmod2_29-1ubuntu1 libkrb5-3_1.19.2-2 libkrb5support0_1.19.2-2 liblapack-dev_3.10.1-2 liblapack3_3.10.1-2 libldap-2.5-0_2.5.12+dfsg-2ubuntu1 liblockfile-bin_1.17-1build2 liblockfile1_1.17-1build2 liblsan0_12.1.0-2ubuntu1 liblz4-1_1.9.3-2build2 liblzma5_5.2.5-2.1 libmagic-mgc_1:5.41-4 libmagic1_1:5.41-4 libmount1_2.38-4ubuntu1 libmpc3_1.2.1-2build1 libmpdec3_2.5.1-2build2 libmpfr6_4.1.0-3build3 libncurses6_6.3+20220423-2 libncursesw6_6.3+20220423-2 libnettle8_3.7.3-1build2 libnghttp2-14_1.47.0-1 libnlopt-cxx-dev_2.7.1-4build1 libnlopt-cxx0_2.7.1-4build1 libnlopt-dev_2.7.1-4build1 libnlopt0_2.7.1-4build1 libnpth0_1.6-3build2 libnsl-dev_1.3.0-2build2 libnsl2_1.3.0-2build2 libp11-kit0_0.24.1-1 libpam-modules_1.4.0-13ubuntu1 libpam-modules-bin_1.4.0-13ubuntu1 libpam-runtime_1.4.0-13ubuntu1 libpam0g_1.4.0-13ubuntu1 libpcre2-8-0_10.40-1 libpcre3_2:8.39-14 libperl5.34_5.34.0-3ubuntu1 libpipeline1_1.5.6-1 libpng16-16_1.6.37-5 libprocps8_2:3.3.17-6ubuntu2 libpsl5_0.21.0-1.2build2 libpython3-stdlib_3.10.4-0ubuntu2 libpython3.10-minimal_3.10.5-1 libpython3.10-stdlib_3.10.5-1 libquadmath0_12.1.0-2ubuntu1 libreadline8_8.1.2-1.2 librtmp1_2.4+20151223.gitfa8646d.1-2build4 libsasl2-2_2.1.28+dfsg-6ubuntu1 libsasl2-modules-db_2.1.28+dfsg-6ubuntu1 libseccomp2_2.5.4-1ubuntu1 libselinux1_3.4-1 libsemanage-common_3.4-1 libsemanage2_3.4-1 libsepol2_3.4-1 libsigsegv2_2.13-1ubuntu3 libsmartcols1_2.38-4ubuntu1 libsqlite3-0_3.38.5-1 libss2_1.46.5-2ubuntu2 libssh-4_0.9.6-2build1 libssl-dev_3.0.3-5ubuntu3 libssl3_3.0.3-5ubuntu3 libstdc++-11-dev_11.3.0-3ubuntu1 libstdc++6_12.1.0-2ubuntu1 libsub-override-perl_0.09-2 libsuperlu-dev_5.3.0+dfsg1-2 libsuperlu5_5.3.0+dfsg1-2 libsystemd0_249.11-0ubuntu4 libsz2_1.0.6-1 libtasn1-6_4.18.0-4build1 libtinfo6_6.3+20220423-2 libtirpc-common_1.3.2-2build1 libtirpc-dev_1.3.2-2build1 libtirpc3_1.3.2-2build1 libtool_2.4.7-4 libtsan0_11.3.0-3ubuntu1 libubsan1_12.1.0-2ubuntu1 libuchardet0_0.0.7-1build2 libudev1_249.11-0ubuntu4 libunistring2_1.0-1 libuuid1_2.38-4ubuntu1 libxml2_2.9.14+dfsg-1 libxxhash0_0.8.1-1 libzstd1_1.5.2+dfsg-1 linux-libc-dev_5.15.0-35.36+22.10.1 lockfile-progs_0.1.19build1 login_1:4.11.1+dfsg1-2ubuntu1 logsave_1.46.5-2ubuntu2 lsb-base_11.1.0ubuntu4 lto-disabled-list_26 m4_1.4.18-5ubuntu2 make_4.3-4.1build1 man-db_2.10.2-1 mawk_1.3.4.20200120-3 media-types_8.0.0 mount_2.38-4ubuntu1 ncurses-base_6.3+20220423-2 ncurses-bin_6.3+20220423-2 openssl_3.0.3-5ubuntu3 optipng_0.7.7-2build1 passwd_1:4.11.1+dfsg1-2ubuntu1 patch_2.7.6-7build2 perl_5.34.0-3ubuntu1 perl-base_5.34.0-3ubuntu1 perl-modules-5.34_5.34.0-3ubuntu1 pinentry-curses_1.2.0-1ubuntu1 pkg-config_0.29.2-1ubuntu3 pkgbinarymangler_149 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3 procps_2:3.3.17-6ubuntu2 python3_3.10.4-0ubuntu2 python3-minimal_3.10.4-0ubuntu2 python3.10_3.10.5-1 python3.10-minimal_3.10.5-1 readline-common_8.1.2-1.2 rpcsvc-proto_1.4.2-0ubuntu6 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1ubuntu2 sensible-utils_0.0.17 systemd_249.11-0ubuntu4 systemd-sysv_249.11-0ubuntu4 sysvinit-utils_3.01-1ubuntu1 tar_1.34+dfsg-1build3 tzdata_2022a-0ubuntu1 ubuntu-keyring_2021.03.26 usrmerge_25ubuntu2 util-linux_2.38-4ubuntu1 util-linux-extra_2.38-4ubuntu1 xz-utils_5.2.5-2.1 zlib1g_1:1.2.11.dfsg-2ubuntu9 zlib1g-dev_1:1.2.11.dfsg-2ubuntu9 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: phyx Binary: phyx Architecture: any Version: 1.3+ds-1build1 Maintainer: Ubuntu Developers Uploaders: Andreas Tille Homepage: https://github.com/FePhyFoFum/phyx Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/phyx Vcs-Git: https://salsa.debian.org/med-team/phyx.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), python3, liblapack-dev, libnlopt-cxx-dev, libnlopt-dev, libatlas-cpp-0.6-dev, libarmadillo-dev Package-List: phyx deb science optional arch=any Checksums-Sha1: febdde970f6f44c676047f52c6b4625f1db104fc 1187728 phyx_1.3+ds.orig.tar.xz d1ef8be0dd12fad8a8dd0038827aa6cf393a7035 7668 phyx_1.3+ds-1build1.debian.tar.xz Checksums-Sha256: f465a87b9ef03f11a41a47580b28079909e6edbf7b2bda3bab3ae8b70d92f184 1187728 phyx_1.3+ds.orig.tar.xz 514c55b372524a762ca08b71717ee3c30ad6cca83de532f4adb075bca1f98836 7668 phyx_1.3+ds-1build1.debian.tar.xz Files: cc931be75d35c74f22872985a62bfd44 1187728 phyx_1.3+ds.orig.tar.xz 406540fbb723a8dac3db6cda77b36b7a 7668 phyx_1.3+ds-1build1.debian.tar.xz Original-Maintainer: Debian Med Packaging Team -----BEGIN PGP SIGNATURE----- iQJOBAEBCgA4FiEErEg/aN5yj0PyIC/KVo0w8yGyEz0FAmKm1kYaHHN0ZXZlLmxh bmdhc2VrQHVidW50dS5jb20ACgkQVo0w8yGyEz13HxAAxIXrss97gymc3TmeoxFo wsJZKuQd7TbjacxQjTLiaYqTOF0TOVbdAp6/DhD99lMr15W8LdKoCrZHhk1uvZQJ VZg0i3JwLKQxTx4AsnvT6fihpl/ZpmfqfUSLRqVfsoXXm4WlxWUP6kpjezUlF6eo BTb67bReqMqv7xE6ioG8bdaQKsoKnmIFetApCXaVR8orEkn/r+OFQQMJ4z5ayf5/ sAie7l7jOIC9ZG5fT7VjNXoo4qE/kuz5BVeCT+6mv5bgdgp+3wRqlIYFzBw5r6cq xCM9spzshrkc7GsJuzuVXAnfu/GTpMTIfidulQrF9GAAG6DkaI9vE89r95XcJphq qMu37+Ah3/63JBNokmzHZlcKthp/cdnG0E6tGZ75a6Z3GDRIrH2oH5t0CqsSwpiV BC1DmdZO2aMGS9BtyXqdOsYOJoUDE2qlU3ovvYzTa/SsbhmS84PJb6k0gIhowS3X hk0/DVEkqsqHVZTztWRuklL9ZsR5bC/7IYTJzjZcGWcaZMzIdiETdwU5pVyoeR88 nEkEEpw7vhyVkAOFz0aAnmk6VTXKMKQQzkGAonwHrAGkkcgS+pGe3K90sXpcF4X8 VazY6Koz7XL1SWnOTrxkEKcGCu+nG82ln2UwvC8bmHJZ41aBBXILhQY0UIhbf/HY oJ3UHEi5pr63ea2f1UKPkqY= =VH4v -----END PGP SIGNATURE----- gpgv: Signature made Mon Jun 13 06:16:38 2022 UTC gpgv: using RSA key AC483F68DE728F43F2202FCA568D30F321B2133D gpgv: issuer "steve.langasek@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify signature ./phyx_1.3+ds-1build1.dsc dpkg-source: info: extracting phyx in /<> dpkg-source: info: unpacking phyx_1.3+ds.orig.tar.xz dpkg-source: info: unpacking phyx_1.3+ds-1build1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying build-more-programs.patch dpkg-source: info: applying i386.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-23845388 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-23845388 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-23845388 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package phyx dpkg-buildpackage: info: source version 1.3+ds-1build1 dpkg-buildpackage: info: source distribution kinetic dpkg-source --before-build . dpkg-buildpackage: info: host architecture ppc64el debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' rm -rf src/phyx.logfile if [ -r src/Makefile ]; then \ /usr/bin/make -C src distclean; \ fi make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary-arch dh binary-arch --sourcedirectory=src dh_update_autotools_config -a -O--sourcedirectory=src dh_autoreconf -a -O--sourcedirectory=src dh_auto_configure -a -O--sourcedirectory=src cd src && ./configure --build=powerpc64le-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/powerpc64le-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking for fabs in -lm... yes checking for nlopt_version in -lnlopt... yes checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for nlopt.h... yes checking for library containing wrapper_sgesv_... -larmadillo checking for fenv.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for _Bool... yes checking for stdbool.h that conforms to C99... yes checking for inline... inline checking for size_t... yes checking build system type... powerpc64le-unknown-linux-gnu checking host system type... powerpc64le-unknown-linux-gnu checking for GNU libc compatible malloc... yes checking for working strtod... yes checking for floor... yes checking for pow... yes checking for sqrt... yes configure: creating ./config.status config.status: creating Makefile config.status: creating config.h dh_auto_build -a -O--sourcedirectory=src cd src && make -j4 make[1]: Entering directory '/<>/src' g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "utils.d" -o "utils.o" "utils.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "citations.d" -o "citations.o" "citations.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "log.d" -o "log.o" "log.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "superdouble.d" -o "superdouble.o" "superdouble.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "timer.d" -o "timer.o" "timer.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "sequence.d" -o "sequence.o" "sequence.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "seq_reader.d" -o "seq_reader.o" "seq_reader.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "seq_utils.d" -o "seq_utils.o" "seq_utils.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "seq_models.d" -o "seq_models.o" "seq_models.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "pairwise_alignment.d" -o "pairwise_alignment.o" "pairwise_alignment.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "aa2cdn.d" -o "aa2cdn.o" "aa2cdn.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_aa2cdn.d" -o "main_aa2cdn.o" "main_aa2cdn.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "node.d" -o "node.o" "node.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "tree.d" -o "tree.o" "tree.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "tree_reader.d" -o "tree_reader.o" "tree_reader.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "tree_utils.d" -o "tree_utils.o" "tree_utils.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "bd_sim.d" -o "bd_sim.o" "bd_sim.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_bd_sim.d" -o "main_bd_sim.o" "main_bd_sim.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "seq_sample.d" -o "seq_sample.o" "seq_sample.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_boot.d" -o "main_boot.o" "main_boot.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_bp.d" -o "main_bp.o" "main_bp.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "concat.d" -o "concat.o" "concat.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_cat.d" -o "main_cat.o" "main_cat.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "clean_seq.d" -o "clean_seq.o" "clean_seq.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_clsq.d" -o "main_clsq.o" "main_clsq.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "clean_tree.d" -o "clean_tree.o" "clean_tree.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_cltr.d" -o "main_cltr.o" "main_cltr.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "collapse_tree.d" -o "collapse_tree.o" "collapse_tree.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_colt.d" -o "main_colt.o" "main_colt.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "comp_test.d" -o "comp_test.o" "comp_test.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_comp.d" -o "main_comp.o" "main_comp.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_consq.d" -o "main_consq.o" "main_consq.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_fqfilt.d" -o "main_fqfilt.o" "main_fqfilt.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "log_manip.d" -o "log_manip.o" "log_manip.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_log.d" -o "main_log.o" "main_log.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "seq_info.d" -o "seq_info.o" "seq_info.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_lssq.d" -o "main_lssq.o" "main_lssq.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "tree_info.d" -o "tree_info.o" "tree_info.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_lstr.d" -o "main_lstr.o" "main_lstr.cpp" tree_info.cpp: In member function ‘TreeInfo::TreeInfo(Tree*)’: tree_info.cpp:13:1: note: the layout of aggregates containing vectors with 4-byte alignment has changed in GCC 5 13 | TreeInfo::TreeInfo (Tree * intree):rooted_tree_(false), ultrametric_tree_(false), | ^~~~~~~~ g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_mono.d" -o "main_mono.o" "main_mono.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_mrca.d" -o "main_mrca.o" "main_mrca.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_mrca_cut.d" -o "main_mrca_cut.o" "main_mrca_cut.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_mrca_name.d" -o "main_mrca_name.o" "main_mrca_name.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_nw.d" -o "main_nw.o" "main_nw.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "polytomy.d" -o "polytomy.o" "polytomy.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_poly.d" -o "main_poly.o" "main_poly.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "recode.d" -o "recode.o" "recode.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_recode.d" -o "main_recode.o" "main_recode.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_revcomp.d" -o "main_revcomp.o" "main_revcomp.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "edlib.d" -o "edlib.o" "edlib.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "relabel.d" -o "relabel.o" "relabel.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_rls.d" -o "main_rls.o" "main_rls.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "upgma.d" -o "upgma.o" "upgma.cpp" recode.cpp: In member function ‘SequenceRecoder::SequenceRecoder(std::__cxx11::basic_string, std::allocator >&)’: recode.cpp:29:1: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 29 | SequenceRecoder::SequenceRecoder (std::string& recodescheme):recodescheme_(string_to_upper(recodescheme)), | ^~~~~~~~~~~~~~~ g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_upgma.d" -o "main_upgma.o" "main_upgma.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_rlt.d" -o "main_rlt.o" "main_rlt.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "nj.d" -o "nj.o" "nj.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_nj.d" -o "main_nj.o" "main_nj.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_rmk.d" -o "main_rmk.o" "main_rmk.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_rms.d" -o "main_rms.o" "main_rms.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_rmt.d" -o "main_rmt.o" "main_rmt.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_rr.d" -o "main_rr.o" "main_rr.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_s2fa.d" -o "main_s2fa.o" "main_s2fa.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_s2nex.d" -o "main_s2nex.o" "main_s2nex.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_s2phy.d" -o "main_s2phy.o" "main_s2phy.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "rate_model.d" -o "rate_model.o" "rate_model.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "state_reconstructor.d" -o "state_reconstructor.o" "state_reconstructor.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "optimize_state_reconstructor_nlopt.d" -o "optimize_state_reconstructor_nlopt.o" "optimize_state_reconstructor_nlopt.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "optimize_state_reconstructor_periods_nlopt.d" -o "optimize_state_reconstructor_periods_nlopt.o" "optimize_state_reconstructor_periods_nlopt.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "branch_segment.d" -o "branch_segment.o" "branch_segment.cpp" In file included from state_reconstructor.h:8, from state_reconstructor.cpp:5: rate_model.h: In member function ‘RateModel::RateModel(RateModel const&)’: rate_model.h:11:7: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 11 | class RateModel { | ^~~~~~~~~ g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "cont_models.d" -o "cont_models.o" "cont_models.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "seq_gen.d" -o "seq_gen.o" "seq_gen.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_seqgen.d" -o "main_seqgen.o" "main_seqgen.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_ssort.d" -o "main_ssort.o" "main_ssort.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "sstat.d" -o "sstat.o" "sstat.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_sstat.d" -o "main_sstat.o" "main_sstat.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_sw.d" -o "main_sw.o" "main_sw.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_t2new.d" -o "main_t2new.o" "main_t2new.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_t2nex.d" -o "main_t2nex.o" "main_t2nex.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_tcol.d" -o "main_tcol.o" "main_tcol.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_tcomb.d" -o "main_tcomb.o" "main_tcomb.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "tgen.d" -o "tgen.o" "tgen.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_tgen.d" -o "main_tgen.o" "main_tgen.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "tlate.d" -o "tlate.o" "tlate.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_tlate.d" -o "main_tlate.o" "main_tlate.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_trt.d" -o "main_trt.o" "main_trt.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "tscale.d" -o "tscale.o" "tscale.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_tscale.d" -o "main_tscale.o" "main_tscale.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "vcf_reader.d" -o "vcf_reader.o" "vcf_reader.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_vcf2fa.d" -o "main_vcf2fa.o" "main_vcf2fa.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "bd_fit.d" -o "bd_fit.o" "bd_fit.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_bd_fit.d" -o "main_bd_fit.o" "main_bd_fit.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_contrates.d" -o "main_contrates.o" "main_contrates.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "optimize_cont_models_nlopt.d" -o "optimize_cont_models_nlopt.o" "optimize_cont_models_nlopt.cpp" g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -c -fmessage-length=0 -MMD -MP -MF "main_strec.d" -o "main_strec.o" "main_strec.cpp" building pxaa2cdn g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxaa2cdn" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math aa2cdn.o main_aa2cdn.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxaa2cdn.1.in > man/pxaa2cdn.1 building pxbdsim g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxbdsim" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math bd_sim.o main_bd_sim.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now building pxboot g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxboot" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math seq_sample.o main_boot.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now building pxbp g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxbp" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_bp.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now In file included from state_reconstructor.h:8, from main_strec.cpp:16: rate_model.h: In member function ‘RateModel::RateModel(RateModel const&)’: rate_model.h:11:7: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 11 | class RateModel { | ^~~~~~~~~ cat man/pxbdsim.1.in > man/pxbdsim.1 building pxcat g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxcat" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math concat.o main_cat.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxboot.1.in > man/pxboot.1 building pxclsq g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxclsq" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math clean_seq.o main_clsq.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now building pxcltr g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxcltr" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math clean_tree.o main_cltr.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxbp.1.in > man/pxbp.1 building pxcolt g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxcolt" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math collapse_tree.o main_colt.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxcat.1.in > man/pxcat.1 cat man/pxcltr.1.in > man/pxcltr.1 building pxcomp g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxcomp" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math comp_test.o main_comp.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now building pxconsq g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxconsq" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_consq.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxcolt.1.in > man/pxcolt.1 building pxfqfilt g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxfqfilt" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_fqfilt.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxclsq.1.in > man/pxclsq.1 building pxlog g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxlog" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math log_manip.o main_log.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxfqfilt.1.in > man/pxfqfilt.1 bulding pxlssq g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxlssq" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math seq_info.o main_lssq.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxconsq.1.in > man/pxconsq.1 building pxlstr g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxlstr" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math tree_info.o main_lstr.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxcomp.1.in > man/pxcomp.1 building pxmono g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxmono" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_mono.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxlog.1.in > man/pxlog.1 building pxmrca g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxmrca" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_mrca.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxlssq.1.in > man/pxlssq.1 building pxmrcacut g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxmrcacut" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_mrca_cut.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxlstr.1.in > man/pxlstr.1 building pxmrcaname g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxmrcaname" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_mrca_name.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxmono.1.in > man/pxmono.1 building pxnw g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxnw" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_nw.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxmrca.1.in > man/pxmrca.1 building pxpoly g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxpoly" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math polytomy.o main_poly.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxmrcacut.1.in > man/pxmrcacut.1 building pxrecode g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxrecode" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math recode.o main_recode.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxmrcaname.1.in > man/pxmrcaname.1 building pxrevcomp g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxrevcomp" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_revcomp.o edlib.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxpoly.1.in > man/pxpoly.1 building pxrls g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxrls" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math relabel.o main_rls.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxnw.1.in > man/pxnw.1 building pxupgma g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxupgma" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math upgma.o main_upgma.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxrevcomp.1.in > man/pxrevcomp.1 building pxrlt g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxrlt" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math relabel.o main_rlt.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxrecode.1.in > man/pxrecode.1 building pxnj g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxnj" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math nj.o main_nj.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxrls.1.in > man/pxrls.1 building pxrmk g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxrmk" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_rmk.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxupgma.1.in > man/pxupgma.1 building pxrms g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxrms" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_rms.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxrlt.1.in > man/pxrlt.1 building pxrmt g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxrmt" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_rmt.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxrmk.1.in > man/pxrmk.1 cat man/pxnj.1.in > man/pxnj.1 building pxrr g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxrr" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_rr.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now building pxs2fa g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxs2fa" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_s2fa.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxrms.1.in > man/pxrms.1 building pxs2nex g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxs2nex" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_s2nex.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxs2fa.1.in > man/pxs2fa.1 building pxs2phy g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxs2phy" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_s2phy.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxrmt.1.in > man/pxrmt.1 building pxseqgen g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -o "pxseqgen" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_seqgen.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o ./rate_model.o ./state_reconstructor.o ./optimize_state_reconstructor_nlopt.o ./optimize_state_reconstructor_periods_nlopt.o ./branch_segment.o ./cont_models.o ./seq_gen.o -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -llapack -lblas -lpthread -lm -lnlopt -larmadillo cat man/pxrr.1.in > man/pxrr.1 building pxssort g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxssort" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_ssort.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxs2nex.1.in > man/pxs2nex.1 building pxsstat g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxsstat" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math sstat.o main_sstat.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxs2phy.1.in > man/pxs2phy.1 building pxsw g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxsw" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_sw.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxseqgen.1.in > man/pxseqgen.1 building pxt2new g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxt2new" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_t2new.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxssort.1.in > man/pxssort.1 building pxt2nex g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxt2nex" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_t2nex.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxsstat.1.in > man/pxsstat.1 building pxtcol g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxtcol" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_tcol.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxt2new.1.in > man/pxt2new.1 building pxtcomb g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxtcomb" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_tcomb.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxt2nex.1.in > man/pxt2nex.1 building pxtgen g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxtgen" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math tgen.o main_tgen.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxsw.1.in > man/pxsw.1 building pxtlate g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxtlate" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math tlate.o main_tlate.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxtgen.1.in > man/pxtgen.1 building pxtrt g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxtrt" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_trt.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxtcol.1.in > man/pxtcol.1 building pxtscale g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxtscale" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math tscale.o main_tscale.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxtcomb.1.in > man/pxtcomb.1 building pxvcf2fa g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o "pxvcf2fa" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math vcf_reader.o main_vcf2fa.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now cat man/pxvcf2fa.1.in > man/pxvcf2fa.1 building pxbdfit g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -o "pxbdfit" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math bd_fit.o main_bd_fit.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -llapack -lblas -lpthread -lm -lnlopt -larmadillo cat man/pxtlate.1.in > man/pxtlate.1 building pxcontrates g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -o "pxcontrates" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_contrates.o optimize_cont_models_nlopt.o ./rate_model.o ./state_reconstructor.o ./optimize_state_reconstructor_nlopt.o ./optimize_state_reconstructor_periods_nlopt.o ./branch_segment.o ./cont_models.o ./seq_gen.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -llapack -lblas -lpthread -lm -lnlopt -larmadillo cat man/pxtscale.1.in > man/pxtscale.1 building pxstrec g++ -g -O3 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -o "pxstrec" -O3 -std=c++14 -fopenmp -Wall -DOMP -ftree-vectorize -ffast-math main_strec.o ./utils.o ./citations.o ./log.o ./superdouble.o ./timer.o ./sequence.o ./seq_reader.o ./seq_utils.o ./seq_models.o ./pairwise_alignment.o ./node.o ./tree.o ./tree_reader.o ./tree_utils.o ./rate_model.o ./state_reconstructor.o ./optimize_state_reconstructor_nlopt.o ./optimize_state_reconstructor_periods_nlopt.o ./branch_segment.o ./cont_models.o ./seq_gen.o -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -llapack -lblas -lpthread -lm -lnlopt -larmadillo # -lgfortran cat man/pxtrt.1.in > man/pxtrt.1 rate_model.h: In member function ‘__ct_base ’: rate_model.h:11:7: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 11 | class RateModel { | ^ rate_model.h: In member function ‘operator=.isra’: rate_model.h:11:7: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 11 | class RateModel { | ^ cat man/pxbdfit.1.in > man/pxbdfit.1 cat man/pxcontrates.1.in > man/pxcontrates.1 cat man/pxstrec.1.in > man/pxstrec.1 make[1]: Leaving directory '/<>/src' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' cd src && python3 run_tests.py character: 0 character: 1 character: 2 ================= TESTING pxaa2cdn PASSED ================= TESTING pxbdfit yule PASSED birth-death PASSED best PASSED PASSED ================= TESTING pxbdsim taxon stop PASSED time stop PASSED PASSED ================= TESTING pxboot bootstrap PASSED jackknife PASSED PASSED ================= TESTING pxbp PASSED ================= TESTING pxcat PASSED ================= TESTING pxclsq delete sites PASSED info by taxon PASSED PASSED ================= TESTING pxcltr all PASSED labels PASSED knuckles PASSED PASSED ================= TESTING pxcolt probability support PASSED integer support PASSED real support PASSED PASSED ================= TESTING pxcomp PASSED ================= TESTING pxconsq PASSED ================= TESTING pxcontrates PASSED ================= TESTING pxfqfilt PASSED ================= TESTING pxlog count trees PASSED tree log PASSED count parameters PASSED parameter log PASSED PASSED ================= TESTING pxlssq default PASSED labels PASSED frequencies PASSED indidivual stats PASSED binary data PASSED morph data PASSED fastq PASSED unaliagned PASSED individual missing PASSED PASSED ================= TESTING pxlstr newick PASSED nexus (mulitple) PASSED figtree PASSED polytomy PASSED internal linebreak PASSED PASSED ================= TESTING pxmono PASSED ================= TESTING pxmrca PASSED ================= TESTING pxmrcacut PASSED ================= TESTING pxmrcaname PASSED ================= TESTING pxnj PASSED ================= TESTING pxnw PASSED ================= TESTING pxpoly PASSED ================= TESTING pxrecode RY-coding PASSED MK-coding PASSED SW-coding PASSED PASSED ================= TESTING pxrevcomp PASSED ================= TESTING pxrls PASSED ================= TESTING pxrlt PASSED ================= TESTING pxrmk PASSED ================= TESTING pxrms command line arg PASSED regex PASSED PASSED ================= TESTING pxrmt command line arg PASSED regex PASSED PASSED ================= TESTING pxrr PASSED ================= TESTING pxs2fa nexus PASSED interleaved nexus PASSED phylip PASSED interleaved phylip PASSED fastq PASSED PASSED ================= TESTING pxs2nex fasta PASSED phylip PASSED interleaved phylip PASSED interleaved nexus PASSED fastq PASSED PASSED ================= TESTING pxs2phy fasta PASSED nexus PASSED interleaved nexus PASSED interleaved phylip PASSED PASSED ================= TESTING pxseqgen PASSED ================= TESTING pxssort sort by id PASSED sort by id rev PASSED sort by length (<) PASSED sort by length (>) PASSED PASSED ================= TESTING pxsstat PASSED ================= TESTING pxstrec PASSED ================= TESTING pxsw PASSED ================= TESTING pxt2new PASSED ================= TESTING pxt2nex PASSED ================= TESTING pxtcol no test for pxtcol ================= TESTING pxtcomb no test for pxtcomb ================= TESTING pxtgen unrooted PASSED rooted PASSED prefix label PASSED PASSED ================= TESTING pxtlate standard PASSED vert mtDNA PASSED PASSED ================= TESTING pxtrt PASSED ================= TESTING pxtscale scale PASSED root height PASSED PASSED ================= TESTING pxupgma PASSED ================= TESTING pxvcf2fa PASSED ================= PASSED PROGRAMS: 47 (93 tests) FAILED PROGRAMS: 0 (0 tests) PROGRAMS WITHOUT TESTS: 2 make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_testroot -a -O--sourcedirectory=src dh_prep -a -O--sourcedirectory=src debian/rules override_dh_auto_install make[1]: Entering directory '/<>' mkdir -p /<>/debian/phyx/usr/bin dh_auto_install -- PREFIX=/<>/debian/phyx/usr cd src && make -j4 install DESTDIR=/<>/phyx-1.3\+ds/debian/phyx AM_UPDATE_INFO_DIR=no PREFIX=/<>/phyx-1.3\+ds/debian/phyx/usr make[2]: Entering directory '/<>/src' mkdir -p /<>/debian/phyx/usr/bin && install -m 0755 px* /<>/debian/phyx/usr/bin mkdir -p /<>/debian/phyx/usr/share/man/man1 && install -m 0755 man/px*.1 /<>/debian/phyx/usr/share/man/man1 make[2]: Leaving directory '/<>/src' #echo "#!/usr/bin/python3" > /<>/debian/phyx/usr/bin/Phyx_Gui #cat src/Phyx_Gui.py >> /<>/debian/phyx/usr/bin/Phyx_Gui make[1]: Leaving directory '/<>' dh_installdocs -a -O--sourcedirectory=src dh_installchangelogs -a -O--sourcedirectory=src dh_installexamples -a -O--sourcedirectory=src dh_installman -a -O--sourcedirectory=src dh_installsystemduser -a -O--sourcedirectory=src dh_perl -a -O--sourcedirectory=src dh_link -a -O--sourcedirectory=src dh_strip_nondeterminism -a -O--sourcedirectory=src debian/rules override_dh_compress make[1]: Entering directory '/<>' dh_compress --exclude=.pdf make[1]: Leaving directory '/<>' dh_fixperms -a -O--sourcedirectory=src dh_missing -a -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src dh_strip -a -O--sourcedirectory=src debugedit: debian/phyx/usr/bin/pxcomp: Unknown DWARF DW_FORM_0x1f20 3ab76d3fd65ace9224589f6db0f5c1e2a5214fee debugedit: debian/phyx/usr/bin/pxcolt: Unknown DWARF DW_FORM_0x1f21 61d1dc2b378c554d46403bbe39bc4a9a0a58c403 debugedit: debian/phyx/usr/bin/pxclsq: Unknown DWARF DW_FORM_0x1f21 065d32c500a25ddccb4196267f4db7cb875f5b95 debugedit: debian/phyx/usr/bin/pxtlate: Unknown DWARF DW_FORM_0x1f20 3d4d28104f73a3b6115a59b34a63077fe357bf80 debugedit: debian/phyx/usr/bin/pxboot: Unknown DWARF DW_FORM_0x1f21 e38ba1eeaa35674711a8218ebbe4536a2ba16e2d debugedit: debian/phyx/usr/bin/pxpoly: Unknown DWARF DW_FORM_0x1f21 c3ba097faa822527a21f020b4018fd9564bac01c debugedit: debian/phyx/usr/bin/pxseqgen: Unknown DWARF DW_FORM_0x1f21 4292714c702819d26342056975164265fc58f125 debugedit: debian/phyx/usr/bin/pxbdfit: Unknown DWARF DW_FORM_0x1f20 31eff1e702cd6d0e64cad277a416761c525a906e debugedit: debian/phyx/usr/bin/pxcontrates: Unknown DWARF DW_FORM_0x1f20 1c00ef222bc7a72930e57ecdf0f2430464fea6d1 debugedit: debian/phyx/usr/bin/pxrr: Unknown DWARF DW_FORM_0x1f20 12c21cb59f93103afabfeb234b262c93f1209def debugedit: debian/phyx/usr/bin/pxrls: Unknown DWARF DW_FORM_0x1f20 278486a06fdf1f9f4f0c36318fdb9ce4045856d3 debugedit: debian/phyx/usr/bin/pxlssq: Unknown DWARF DW_FORM_0x1f21 01827ac5efaa3b50a1990165745ccb0b3dc015e9 debugedit: debian/phyx/usr/bin/pxrevcomp: Unknown DWARF DW_FORM_0x1f20 6551ec89f662ecbd9f0af137b00c6a34e762d6c2 debugedit: debian/phyx/usr/bin/pxtrt: Unknown DWARF DW_FORM_0x1f20 c62e7d541b85c5fbf6edef07405e5044289a9c0c debugedit: debian/phyx/usr/bin/pxcltr: Unknown DWARF DW_FORM_0x1f21 aa69a1cb037545ec055b6f3df53b592b2c72ee92 debugedit: debian/phyx/usr/bin/pxbdsim: Unknown DWARF DW_FORM_0x1f20 66b9cf102ad7ce62c9876c8b394b3e8af565d387 debugedit: debian/phyx/usr/bin/pxssort: Unknown DWARF DW_FORM_0x1f20 ef53da84c81a602585d142e7ed87778472fecce9 debugedit: debian/phyx/usr/bin/pxsw: Unknown DWARF DW_FORM_0x1f20 43cf8316c46c805ee149ef1a8207f82d6fad1ff6 debugedit: debian/phyx/usr/bin/pxbp: Unknown DWARF DW_FORM_0x1f21 43ea77a84343a0a8a4a2217734bc76028c1a533a debugedit: debian/phyx/usr/bin/pxlog: Unknown DWARF DW_FORM_0x1f20 d7c560351847f24c4c220f630e17613467c3cd17 debugedit: debian/phyx/usr/bin/pxt2nex: Unknown DWARF DW_FORM_0x1f21 c29b4ca3547365e37ddfbd7411ba9b9fcab5f58b debugedit: debian/phyx/usr/bin/pxmrcacut: Unknown DWARF DW_FORM_0x1f20 eb51985147a4fcb9f632ca984ad44824949c66c7 debugedit: debian/phyx/usr/bin/pxs2nex: Unknown DWARF DW_FORM_0x1f20 f7e00be678913cb51cd32935a801aa781b90bb34 debugedit: debian/phyx/usr/bin/pxrlt: Unknown DWARF DW_FORM_0x1f20 effe0fa3d16377e7cfc463954048b4bcb81fa243 debugedit: debian/phyx/usr/bin/pxtgen: Unknown DWARF DW_FORM_0x1f20 9edea14e7d1ed662284370e470dd2593bbfa3496 debugedit: debian/phyx/usr/bin/pxsstat: Unknown DWARF DW_FORM_0x1f21 8fa79fc36bc5bd60df98362597a6effb5cfe543b debugedit: debian/phyx/usr/bin/pxt2new: Unknown DWARF DW_FORM_0x1f20 de136a0d085b991befb8fd9633d0d6c83a397cdc debugedit: debian/phyx/usr/bin/pxmrcaname: Unknown DWARF DW_FORM_0x1f20 49664531fe6c3de3154a499f6f5a90e64f4fad1c debugedit: debian/phyx/usr/bin/pxrmt: Unknown DWARF DW_FORM_0x1f20 3093aa0a7fce580efb080ee567dc123e69e4d9d4 debugedit: debian/phyx/usr/bin/pxconsq: Unknown DWARF DW_FORM_0x1f20 1494d0e5ca818665c7caed2ed053562c67125364 debugedit: debian/phyx/usr/bin/pxlstr: Unknown DWARF DW_FORM_0x1f21 2a802a55fd7ee18196544dea7bfe4887638c37d9 debugedit: debian/phyx/usr/bin/pxs2phy: Unknown DWARF DW_FORM_0x1f20 8a6c162989f477529e1300a101a96260f6f1739f debugedit: debian/phyx/usr/bin/pxstrec: Unknown DWARF DW_FORM_0x1f21 49ae4a629fcd98df0d06901939615cb5cfd1ccd8 debugedit: debian/phyx/usr/bin/pxupgma: Unknown DWARF DW_FORM_0x1f21 e6cf50a851199b08e9d4c600f0f3d29f9b384ae0 debugedit: debian/phyx/usr/bin/pxcat: Unknown DWARF DW_FORM_0x1f20 b9e975c2f71bf9c63cd181166623766f2cdac261 debugedit: debian/phyx/usr/bin/pxnw: Unknown DWARF DW_FORM_0x1f21 87219622e4d2b888a90715e0a6b3e7c365bfe8bb debugedit: debian/phyx/usr/bin/pxfqfilt: Unknown DWARF DW_FORM_0x1f20 8426e3d6610393601dbd2410847dfdccc29c76bb debugedit: debian/phyx/usr/bin/pxmono: Unknown DWARF DW_FORM_0x1f20 53290d663c2a00d3fad2da460303ac5f4fdc5206 debugedit: debian/phyx/usr/bin/pxrms: Unknown DWARF DW_FORM_0x1f20 9a0d7b10cf2c347701647dc6a68aa254f75b4fa0 debugedit: debian/phyx/usr/bin/pxtcol: Unknown DWARF DW_FORM_0x1f20 2b6d2760329eddcfd08ef318874857b2da5117ec debugedit: debian/phyx/usr/bin/pxrmk: Unknown DWARF DW_FORM_0x1f20 423d67626aca1592c5a31422db6c54c4a08fc102 debugedit: debian/phyx/usr/bin/pxs2fa: Unknown DWARF DW_FORM_0x1f20 e48689644fd6379663bf9ab4dad50c0397c0a5f4 debugedit: debian/phyx/usr/bin/pxvcf2fa: Unknown DWARF DW_FORM_0x1f20 94504d0f406006501ec0fb0d562b6c0489cd1a34 debugedit: debian/phyx/usr/bin/pxaa2cdn: Unknown DWARF DW_FORM_0x1f21 4d4f911cf222d4753dadafd2583a9f781cf1ccbe debugedit: debian/phyx/usr/bin/pxtcomb: Unknown DWARF DW_FORM_0x1f20 bc19a0ddd7598fe3540c28b8ef76ebbe2d50def3 debugedit: debian/phyx/usr/bin/pxrecode: Unknown DWARF DW_FORM_0x1f21 bdc16593c3a87d2e9570895ff9493c6bb7afe1bd debugedit: debian/phyx/usr/bin/pxtscale: Unknown DWARF DW_FORM_0x1f20 453727a54e88f279e141fbe5be5c458cf1e28154 debugedit: debian/phyx/usr/bin/pxmrca: Unknown DWARF DW_FORM_0x1f21 9ae5871f5a47d84220dcc3fbd4f9f946d1745065 debugedit: debian/phyx/usr/bin/pxnj: Unknown DWARF DW_FORM_0x1f20 8f09a5d01b28413b40a87d8f23f256bd68ea76e0 dh_makeshlibs -a -O--sourcedirectory=src dh_shlibdeps -a -O--sourcedirectory=src dh_installdeb -a -O--sourcedirectory=src dh_gencontrol -a -O--sourcedirectory=src dh_md5sums -a -O--sourcedirectory=src dh_builddeb -a -O--sourcedirectory=src INFO: pkgstriptranslations version 149 INFO: pkgstriptranslations version 149 pkgstriptranslations: processing phyx (in debian/phyx); do_strip: , oemstrip: pkgstriptranslations: processing phyx-dbgsym (in debian/.debhelper/phyx/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/.debhelper/phyx/dbgsym-root/DEBIAN/control, package phyx-dbgsym, directory debian/.debhelper/phyx/dbgsym-root dpkg-deb: building package 'phyx-dbgsym' in 'debian/.debhelper/scratch-space/build-phyx/phyx-dbgsym_1.3+ds-1build1_ppc64el.deb'. pkgstripfiles: processing control file: debian/phyx/DEBIAN/control, package phyx, directory debian/phyx pkgstripfiles: Running PNG optimization (using 4 cpus) for package phyx ... pkgstripfiles: No PNG files. dpkg-deb: building package 'phyx' in '../phyx_1.3+ds-1build1_ppc64el.deb'. Renaming phyx-dbgsym_1.3+ds-1build1_ppc64el.deb to phyx-dbgsym_1.3+ds-1build1_ppc64el.ddeb dpkg-genbuildinfo --build=any -O../phyx_1.3+ds-1build1_ppc64el.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../phyx_1.3+ds-1build1_ppc64el.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) -------------------------------------------------------------------------------- Build finished at 2022-06-13T06:21:34Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ phyx_1.3+ds-1build1_ppc64el.changes: ------------------------------------ Format: 1.8 Date: Mon, 13 Jun 2022 06:16:37 +0000 Source: phyx Binary: phyx Built-For-Profiles: noudeb Architecture: ppc64el Version: 1.3+ds-1build1 Distribution: kinetic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Steve Langasek Description: phyx - UNIX-style phylogenetic analyses on trees and sequences Changes: phyx (1.3+ds-1build1) kinetic; urgency=medium . * No-change rebuild against libarmadillo11 Checksums-Sha1: 5f1c8f96b5680515dfe099e5afc67b0142fe13bb 16673164 phyx-dbgsym_1.3+ds-1build1_ppc64el.ddeb 60a4ae0149c5f658e6c137a678c92fa976923fad 8079 phyx_1.3+ds-1build1_ppc64el.buildinfo 0700cb8c8cfcfb6e43e393d74ee3f00471c40c1e 1543020 phyx_1.3+ds-1build1_ppc64el.deb Checksums-Sha256: ab3321e63f46e8b4b0291b6421bc989fab6110615c7c2657c3c57f3e4a296e21 16673164 phyx-dbgsym_1.3+ds-1build1_ppc64el.ddeb b0be220520a6ded4113647cebfaf12777bf7ad348f6c65a343223a3caffeb831 8079 phyx_1.3+ds-1build1_ppc64el.buildinfo 4372f7bb79ca84f6f3418c4abc24b4396f8dbfb6e85ca65abacc6ee456ee257f 1543020 phyx_1.3+ds-1build1_ppc64el.deb Files: 2d5b0e22c555786c9808363de25b6526 16673164 debug optional phyx-dbgsym_1.3+ds-1build1_ppc64el.ddeb 49baf4e7658aebfc583339fc9aea20e3 8079 science optional phyx_1.3+ds-1build1_ppc64el.buildinfo 5eb2a203aa1fe08c3c3fec93faf8cd32 1543020 science optional phyx_1.3+ds-1build1_ppc64el.deb Original-Maintainer: Debian Med Packaging Team /<>/phyx_1.3+ds-1build1_ppc64el.changes.new could not be renamed to /<>/phyx_1.3+ds-1build1_ppc64el.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: phyx Binary: phyx phyx-dbgsym Architecture: ppc64el Version: 1.3+ds-1build1 Checksums-Md5: 2d5b0e22c555786c9808363de25b6526 16673164 phyx-dbgsym_1.3+ds-1build1_ppc64el.ddeb 5eb2a203aa1fe08c3c3fec93faf8cd32 1543020 phyx_1.3+ds-1build1_ppc64el.deb Checksums-Sha1: 5f1c8f96b5680515dfe099e5afc67b0142fe13bb 16673164 phyx-dbgsym_1.3+ds-1build1_ppc64el.ddeb 0700cb8c8cfcfb6e43e393d74ee3f00471c40c1e 1543020 phyx_1.3+ds-1build1_ppc64el.deb Checksums-Sha256: ab3321e63f46e8b4b0291b6421bc989fab6110615c7c2657c3c57f3e4a296e21 16673164 phyx-dbgsym_1.3+ds-1build1_ppc64el.ddeb 4372f7bb79ca84f6f3418c4abc24b4396f8dbfb6e85ca65abacc6ee456ee257f 1543020 phyx_1.3+ds-1build1_ppc64el.deb Build-Origin: Ubuntu Build-Architecture: ppc64el Build-Date: Mon, 13 Jun 2022 06:21:33 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1.3), autopoint (= 0.21-6), autotools-dev (= 20220109.1), base-files (= 12.2ubuntu1), base-passwd (= 3.5.52build1), bash (= 5.1-6ubuntu1), binutils (= 2.38-4ubuntu1), binutils-common (= 2.38-4ubuntu1), binutils-powerpc64le-linux-gnu (= 2.38-4ubuntu1), bsdextrautils (= 2.38-4ubuntu1), bsdutils (= 1:2.38-4ubuntu1), build-essential (= 12.9ubuntu3), bzip2 (= 1.0.8-5build1), coreutils (= 8.32-4.1ubuntu1), cpp (= 4:11.2.0-1ubuntu1), cpp-11 (= 11.3.0-3ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-8), debconf (= 1.5.79ubuntu1), debhelper (= 13.7.1ubuntu1), debianutils (= 5.7-0.2), debugedit (= 1:5.0-4build1), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.0-1), diffutils (= 1:3.8-0ubuntu2), dpkg (= 1.21.8ubuntu1), dpkg-dev (= 1.21.8ubuntu1), dwz (= 0.14-1build2), file (= 1:5.41-4), findutils (= 4.8.0-1ubuntu3), g++ (= 4:11.2.0-1ubuntu1), g++-11 (= 11.3.0-3ubuntu1), gcc (= 4:11.2.0-1ubuntu1), gcc-11 (= 11.3.0-3ubuntu1), gcc-11-base (= 11.3.0-3ubuntu1), gcc-12-base (= 12.1.0-2ubuntu1), gettext (= 0.21-6), gettext-base (= 0.21-6), grep (= 3.7-1build1), groff-base (= 1.22.4-8build1), gzip (= 1.10-4ubuntu4), hdf5-helpers (= 1.10.7+repack-4ubuntu2), hostname (= 3.23ubuntu2), init-system-helpers (= 1.63), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.3.1-1), libaec-dev (= 1.0.6-1), libaec0 (= 1.0.6-1), libarchive-zip-perl (= 1.68-1), libarmadillo-dev (= 1:11.1.1+dfsg-2), libarmadillo11 (= 1:11.1.1+dfsg-2), libarpack2 (= 3.8.0-1), libarpack2-dev (= 3.8.0-1), libasan6 (= 11.3.0-3ubuntu1), libatlas-cpp-0.6-3 (= 0.6.4-3), libatlas-cpp-0.6-dev (= 0.6.4-3), libatlas-cpp-0.6-tools (= 0.6.4-3), libatomic1 (= 12.1.0-2ubuntu1), libattr1 (= 1:2.5.1-1build1), libaudit-common (= 1:3.0.7-1build1), libaudit1 (= 1:3.0.7-1build1), libbinutils (= 2.38-4ubuntu1), libblas-dev (= 3.10.1-2), libblas3 (= 3.10.1-2), libblkid1 (= 2.38-4ubuntu1), libbrotli1 (= 1.0.9-2build6), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.35-0ubuntu3), libc-dev-bin (= 2.35-0ubuntu3), libc6 (= 2.35-0ubuntu3), libc6-dev (= 2.35-0ubuntu3), libcap-ng0 (= 0.7.9-2.2build3), libcap2 (= 1:2.44-1build3), libcc1-0 (= 12.1.0-2ubuntu1), libcom-err2 (= 1.46.5-2ubuntu2), libcrypt-dev (= 1:4.4.27-1), libcrypt1 (= 1:4.4.27-1), libctf-nobfd0 (= 2.38-4ubuntu1), libctf0 (= 2.38-4ubuntu1), libcurl4 (= 7.83.1-1ubuntu1), libcurl4-openssl-dev (= 7.83.1-1ubuntu1), libdb5.3 (= 5.3.28+dfsg1-0.9), libdebconfclient0 (= 0.261ubuntu1), libdebhelper-perl (= 13.7.1ubuntu1), libdpkg-perl (= 1.21.8ubuntu1), libdw1 (= 0.187-1), libelf1 (= 0.187-1), libexpat1 (= 2.4.8-1), libffi8 (= 3.4.2-4), libfile-stripnondeterminism-perl (= 1.13.0-1), libgcc-11-dev (= 11.3.0-3ubuntu1), libgcc-s1 (= 12.1.0-2ubuntu1), libgcrypt20 (= 1.10.1-2ubuntu1), libgdbm-compat4 (= 1.23-1), libgdbm6 (= 1.23-1), libgfortran5 (= 12.1.0-2ubuntu1), libglib2.0-0 (= 2.72.2-2), libgmp10 (= 2:6.2.1+dfsg-3ubuntu1), libgnutls30 (= 3.7.4-2ubuntu1), libgomp1 (= 12.1.0-2ubuntu1), libgpg-error0 (= 1.45-2), libgssapi-krb5-2 (= 1.19.2-2), libhdf5-103-1 (= 1.10.7+repack-4ubuntu2), libhdf5-cpp-103-1 (= 1.10.7+repack-4ubuntu2), libhdf5-dev (= 1.10.7+repack-4ubuntu2), libhdf5-fortran-102 (= 1.10.7+repack-4ubuntu2), libhdf5-hl-100 (= 1.10.7+repack-4ubuntu2), libhdf5-hl-cpp-100 (= 1.10.7+repack-4ubuntu2), libhdf5-hl-fortran-100 (= 1.10.7+repack-4ubuntu2), libhogweed6 (= 3.7.3-1build2), libicu71 (= 71.1-3), libidn2-0 (= 2.3.2-2build1), libisl23 (= 0.24-2build1), libitm1 (= 12.1.0-2ubuntu1), libjpeg-dev (= 8c-2ubuntu10), libjpeg-turbo8 (= 2.1.2-0ubuntu1), libjpeg-turbo8-dev (= 2.1.2-0ubuntu1), libjpeg8 (= 8c-2ubuntu10), libjpeg8-dev (= 8c-2ubuntu10), libk5crypto3 (= 1.19.2-2), libkeyutils1 (= 1.6.1-2ubuntu3), libkrb5-3 (= 1.19.2-2), libkrb5support0 (= 1.19.2-2), liblapack-dev (= 3.10.1-2), liblapack3 (= 3.10.1-2), libldap-2.5-0 (= 2.5.12+dfsg-2ubuntu1), liblsan0 (= 12.1.0-2ubuntu1), liblz4-1 (= 1.9.3-2build2), liblzma5 (= 5.2.5-2.1), libmagic-mgc (= 1:5.41-4), libmagic1 (= 1:5.41-4), libmount1 (= 2.38-4ubuntu1), libmpc3 (= 1.2.1-2build1), libmpdec3 (= 2.5.1-2build2), libmpfr6 (= 4.1.0-3build3), libncursesw6 (= 6.3+20220423-2), libnettle8 (= 3.7.3-1build2), libnghttp2-14 (= 1.47.0-1), libnlopt-cxx-dev (= 2.7.1-4build1), libnlopt-cxx0 (= 2.7.1-4build1), libnlopt-dev (= 2.7.1-4build1), libnlopt0 (= 2.7.1-4build1), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libp11-kit0 (= 0.24.1-1), libpam-modules (= 1.4.0-13ubuntu1), libpam-modules-bin (= 1.4.0-13ubuntu1), libpam-runtime (= 1.4.0-13ubuntu1), libpam0g (= 1.4.0-13ubuntu1), libpcre2-8-0 (= 10.40-1), libpcre3 (= 2:8.39-14), libperl5.34 (= 5.34.0-3ubuntu1), libpipeline1 (= 1.5.6-1), libpsl5 (= 0.21.0-1.2build2), libpython3-stdlib (= 3.10.4-0ubuntu2), libpython3.10-minimal (= 3.10.5-1), libpython3.10-stdlib (= 3.10.5-1), libquadmath0 (= 12.1.0-2ubuntu1), libreadline8 (= 8.1.2-1.2), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build4), libsasl2-2 (= 2.1.28+dfsg-6ubuntu1), libsasl2-modules-db (= 2.1.28+dfsg-6ubuntu1), libseccomp2 (= 2.5.4-1ubuntu1), libselinux1 (= 3.4-1), libsigsegv2 (= 2.13-1ubuntu3), libsmartcols1 (= 2.38-4ubuntu1), libsqlite3-0 (= 3.38.5-1), libssh-4 (= 0.9.6-2build1), libssl-dev (= 3.0.3-5ubuntu3), libssl3 (= 3.0.3-5ubuntu3), libstdc++-11-dev (= 11.3.0-3ubuntu1), libstdc++6 (= 12.1.0-2ubuntu1), libsub-override-perl (= 0.09-2), libsuperlu-dev (= 5.3.0+dfsg1-2), libsuperlu5 (= 5.3.0+dfsg1-2), libsystemd0 (= 249.11-0ubuntu4), libsz2 (= 1.0.6-1), libtasn1-6 (= 4.18.0-4build1), libtinfo6 (= 6.3+20220423-2), libtirpc-common (= 1.3.2-2build1), libtirpc-dev (= 1.3.2-2build1), libtirpc3 (= 1.3.2-2build1), libtool (= 2.4.7-4), libtsan0 (= 11.3.0-3ubuntu1), libubsan1 (= 12.1.0-2ubuntu1), libuchardet0 (= 0.0.7-1build2), libudev1 (= 249.11-0ubuntu4), libunistring2 (= 1.0-1), libuuid1 (= 2.38-4ubuntu1), libxml2 (= 2.9.14+dfsg-1), libzstd1 (= 1.5.2+dfsg-1), linux-libc-dev (= 5.15.0-35.36+22.10.1), login (= 1:4.11.1+dfsg1-2ubuntu1), lsb-base (= 11.1.0ubuntu4), lto-disabled-list (= 26), m4 (= 1.4.18-5ubuntu2), make (= 4.3-4.1build1), man-db (= 2.10.2-1), mawk (= 1.3.4.20200120-3), media-types (= 8.0.0), ncurses-base (= 6.3+20220423-2), ncurses-bin (= 6.3+20220423-2), patch (= 2.7.6-7build2), perl (= 5.34.0-3ubuntu1), perl-base (= 5.34.0-3ubuntu1), perl-modules-5.34 (= 5.34.0-3ubuntu1), pkg-config (= 0.29.2-1ubuntu3), po-debconf (= 1.0.21+nmu1), python3 (= 3.10.4-0ubuntu2), python3-minimal (= 3.10.4-0ubuntu2), python3.10 (= 3.10.5-1), python3.10-minimal (= 3.10.5-1), readline-common (= 8.1.2-1.2), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.8-1ubuntu2), sensible-utils (= 0.0.17), sysvinit-utils (= 3.01-1ubuntu1), tar (= 1.34+dfsg-1build3), util-linux (= 2.38-4ubuntu1), util-linux-extra (= 2.38-4ubuntu1), xz-utils (= 5.2.5-2.1), zlib1g (= 1:1.2.11.dfsg-2ubuntu9), zlib1g-dev (= 1:1.2.11.dfsg-2ubuntu9) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1655100997" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ phyx_1.3+ds-1build1_ppc64el.deb ------------------------------- new Debian package, version 2.0. size 1543020 bytes: control archive=5039 bytes. 1429 bytes, 23 lines control 12472 bytes, 175 lines md5sums Package: phyx Version: 1.3+ds-1build1 Architecture: ppc64el Maintainer: Ubuntu Developers Installed-Size: 8536 Depends: libarmadillo11 (>= 1:11.1.1+dfsg), libc6 (>= 2.34), libgcc-s1 (>= 3.4.4), libgomp1 (>= 4.9), libnlopt0 (>= 2.6.1), libstdc++6 (>= 11), python3 Section: science Priority: optional Homepage: https://github.com/FePhyFoFum/phyx Description: UNIX-style phylogenetic analyses on trees and sequences phyx provides a convenient, lightweight and inclusive toolkit consisting of programs spanning the wide breadth of programs utilized by researchers performing phylogenomic analyses. Modeled after Unix/GNU/Linux command line tools, individual programs perform a single task and operate on standard I/O streams. A result of this stream-centric approach is that, for most programs, only a single sequence or tree is in memory at any moment. Thus, large datasets can be processed with minimal memory requirements. phyx’s ever-growing complement of programs consists of over 35 programs focused on exploring, manipulating, analyzing and simulating phylogenetic objects (alignments, trees and MCMC logs). As with standard Unix command line tools, these programs can be piped (together with non-phyx tools), allowing the easy construction of efficient analytical pipelines. Original-Maintainer: Debian Med Packaging Team drwxr-xr-x root/root 0 2022-06-13 06:16 ./ drwxr-xr-x root/root 0 2022-06-13 06:16 ./usr/ drwxr-xr-x root/root 0 2022-06-13 06:16 ./usr/bin/ -rwxr-xr-x root/root 133384 2022-06-13 06:16 ./usr/bin/pxaa2cdn -rwxr-xr-x root/root 133512 2022-06-13 06:16 ./usr/bin/pxbdfit -rwxr-xr-x root/root 67960 2022-06-13 06:16 ./usr/bin/pxbdsim -rwxr-xr-x root/root 133488 2022-06-13 06:16 ./usr/bin/pxboot -rwxr-xr-x root/root 133488 2022-06-13 06:16 ./usr/bin/pxbp -rwxr-xr-x root/root 133384 2022-06-13 06:16 ./usr/bin/pxcat -rwxr-xr-x root/root 133488 2022-06-13 06:16 ./usr/bin/pxclsq -rwxr-xr-x root/root 67944 2022-06-13 06:16 ./usr/bin/pxcltr -rwxr-xr-x root/root 67952 2022-06-13 06:16 ./usr/bin/pxcolt -rwxr-xr-x root/root 133480 2022-06-13 06:16 ./usr/bin/pxcomp -rwxr-xr-x root/root 133384 2022-06-13 06:16 ./usr/bin/pxconsq -rwxr-xr-x root/root 199048 2022-06-13 06:16 ./usr/bin/pxcontrates -rwxr-xr-x root/root 67944 2022-06-13 06:16 ./usr/bin/pxfqfilt 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-rwxr-xr-x root/root 265576 2022-06-13 06:16 ./usr/bin/pxrmt -rwxr-xr-x root/root 133480 2022-06-13 06:16 ./usr/bin/pxrr -rwxr-xr-x root/root 133384 2022-06-13 06:16 ./usr/bin/pxs2fa -rwxr-xr-x root/root 133384 2022-06-13 06:16 ./usr/bin/pxs2nex -rwxr-xr-x root/root 133384 2022-06-13 06:16 ./usr/bin/pxs2phy -rwxr-xr-x root/root 264560 2022-06-13 06:16 ./usr/bin/pxseqgen -rwxr-xr-x root/root 133392 2022-06-13 06:16 ./usr/bin/pxssort -rwxr-xr-x root/root 133480 2022-06-13 06:16 ./usr/bin/pxsstat -rwxr-xr-x root/root 264584 2022-06-13 06:16 ./usr/bin/pxstrec -rwxr-xr-x root/root 133488 2022-06-13 06:16 ./usr/bin/pxsw -rwxr-xr-x root/root 67944 2022-06-13 06:16 ./usr/bin/pxt2new -rwxr-xr-x root/root 67944 2022-06-13 06:16 ./usr/bin/pxt2nex -rwxr-xr-x root/root 67944 2022-06-13 06:16 ./usr/bin/pxtcol -rwxr-xr-x root/root 67944 2022-06-13 06:16 ./usr/bin/pxtcomb -rwxr-xr-x root/root 67856 2022-06-13 06:16 ./usr/bin/pxtgen -rwxr-xr-x root/root 133384 2022-06-13 06:16 ./usr/bin/pxtlate 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+------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: ppc64el Build Type: any Build-Space: 404104 Build-Time: 137 Distribution: kinetic-proposed Host Architecture: ppc64el Install-Time: 12 Job: phyx_1.3+ds-1build1.dsc Machine Architecture: ppc64el Package: phyx Package-Time: 151 Source-Version: 1.3+ds-1build1 Space: 404104 Status: successful Version: 1.3+ds-1build1 -------------------------------------------------------------------------------- Finished at 2022-06-13T06:21:34Z Build needed 00:02:31, 404104k disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=kinetic --arch=ppc64el PACKAGEBUILD-23845388 Scanning for processes to kill in build PACKAGEBUILD-23845388