https://launchpad.net/ubuntu/+source/libmems/1.6.0+4725-9build1/+build/20400824 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-ppc64el-004 4.15.0-128-generic #131-Ubuntu SMP Wed Dec 9 06:54:14 UTC 2020 ppc64le Buildd toolchain package versions: launchpad-buildd_193~468~ubuntu18.04.1 python3-lpbuildd_193~468~ubuntu18.04.1 sbuild_0.75.0-1ubuntu1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu16.04.1 bzr_2.7.0+bzr6622-10 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu18.04.1 git_1:2.17.1-1ubuntu0.7 dpkg-dev_1.19.0.5ubuntu2.3 python-debian_0.1.32 python3-debian_0.1.32. Syncing the system clock with the buildd NTP service... 12 Dec 13:09:03 ntpdate[1959]: adjust time server 10.211.37.1 offset 0.006881 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=hirsute --arch=ppc64el PACKAGEBUILD-20400824 --image-type chroot /home/buildd/filecache-default/562b8b0d733db483afe9600af35c69ac54075a74 Creating target for build PACKAGEBUILD-20400824 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=hirsute --arch=ppc64el PACKAGEBUILD-20400824 Starting target for build PACKAGEBUILD-20400824 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=hirsute --arch=ppc64el PACKAGEBUILD-20400824 'deb http://ftpmaster.internal/ubuntu hirsute main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-security main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-updates main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-20400824 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=hirsute --arch=ppc64el PACKAGEBUILD-20400824 Updating target for build PACKAGEBUILD-20400824 Get:1 http://ftpmaster.internal/ubuntu hirsute InRelease [269 kB] Get:2 http://ftpmaster.internal/ubuntu hirsute-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute-proposed InRelease [121 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute/main ppc64el Packages [1365 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute/main Translation-en [515 kB] Get:7 http://ftpmaster.internal/ubuntu hirsute/universe ppc64el Packages [12.5 MB] Get:8 http://ftpmaster.internal/ubuntu hirsute/universe Translation-en [5360 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el Packages [161 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute-proposed/main Translation-en [63.7 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute-proposed/universe ppc64el Packages [652 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute-proposed/universe Translation-en [333 kB] Fetched 21.5 MB in 4s (4863 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libisl22 libperl5.30 perl-modules-5.30 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libisl23 libperl5.32 perl-modules-5.32 The following packages will be upgraded: adduser apt base-files base-passwd bash binutils binutils-common binutils-powerpc64le-linux-gnu bsdutils coreutils cpp-10 dash dpkg dpkg-dev fakeroot g++-10 gcc-10 gcc-10-base grep init init-system-helpers libapparmor1 libapt-pkg6.0 libasan6 libatomic1 libaudit-common libaudit1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libfakeroot libgcc-10-dev libgcc-s1 libgcrypt20 libgomp1 libgssapi-krb5-2 libidn2-0 libip4tc2 libitm1 libk5crypto3 libkrb5-3 libkrb5support0 liblsan0 liblz4-1 libmount1 libmpc3 libncurses6 libncursesw6 libnpth0 libpcre2-8-0 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsmartcols1 libsqlite3-0 libssl1.1 libstdc++-10-dev libstdc++6 libsystemd0 libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libtsan0 libubsan1 libudev1 libuuid1 linux-libc-dev login mount ncurses-base ncurses-bin openssl passwd perl perl-base readline-common systemd systemd-sysv systemd-timesyncd sysvinit-utils tar tzdata util-linux 101 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 173 MB of archives. After this operation, 462 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libcrypt-dev ppc64el 1:4.4.17-1ubuntu1 [131 kB] Get:2 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libc6-dev ppc64el 2.32-0ubuntu5 [2131 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libc-dev-bin ppc64el 2.32-0ubuntu5 [31.4 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libcrypt1 ppc64el 1:4.4.17-1ubuntu1 [99.8 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el linux-libc-dev ppc64el 5.8.0-32.34+21.04.1 [1134 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libtirpc-common all 1.2.6-3 [7444 B] Get:7 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libk5crypto3 ppc64el 1.17-10ubuntu1 [105 kB] Get:8 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libgssapi-krb5-2 ppc64el 1.17-10ubuntu1 [135 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libkrb5-3 ppc64el 1.17-10ubuntu1 [375 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libkrb5support0 ppc64el 1.17-10ubuntu1 [34.8 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libssl1.1 ppc64el 1.1.1f-1ubuntu5 [1363 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libtirpc-dev ppc64el 1.2.6-3 [208 kB] Get:13 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libtirpc3 ppc64el 1.2.6-3 [89.2 kB] Get:14 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libisl23 ppc64el 0.23-1 [713 kB] Get:15 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libcc1-0 ppc64el 10.2.1-1ubuntu1 [42.0 kB] Get:16 http://ftpmaster.internal/ubuntu hirsute/main ppc64el gcc-10-base ppc64el 10.2.1-1ubuntu1 [19.4 kB] Get:17 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libgcc-s1 ppc64el 10.2.1-1ubuntu1 [30.1 kB] Get:18 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libgomp1 ppc64el 10.2.1-1ubuntu1 [108 kB] Get:19 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libitm1 ppc64el 10.2.1-1ubuntu1 [28.6 kB] Get:20 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libatomic1 ppc64el 10.2.1-1ubuntu1 [9976 B] Get:21 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libasan6 ppc64el 10.2.1-1ubuntu1 [2105 kB] Get:22 http://ftpmaster.internal/ubuntu hirsute/main ppc64el liblsan0 ppc64el 10.2.1-1ubuntu1 [847 kB] Get:23 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libtsan0 ppc64el 10.2.1-1ubuntu1 [2029 kB] Get:24 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libubsan1 ppc64el 10.2.1-1ubuntu1 [800 kB] Get:25 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libquadmath0 ppc64el 10.2.1-1ubuntu1 [149 kB] Get:26 http://ftpmaster.internal/ubuntu hirsute/main ppc64el g++-10 ppc64el 10.2.1-1ubuntu1 [41.1 MB] Get:27 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libstdc++-10-dev ppc64el 10.2.1-1ubuntu1 [1793 kB] Get:28 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libgcc-10-dev ppc64el 10.2.1-1ubuntu1 [1247 kB] Get:29 http://ftpmaster.internal/ubuntu hirsute/main ppc64el gcc-10 ppc64el 10.2.1-1ubuntu1 [44.0 MB] Get:30 http://ftpmaster.internal/ubuntu hirsute/main ppc64el cpp-10 ppc64el 10.2.1-1ubuntu1 [37.6 MB] Get:31 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libstdc++6 ppc64el 10.2.1-1ubuntu1 [541 kB] Get:32 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libmpc3 ppc64el 1.2.0-1 [47.1 kB] Get:33 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libctf0 ppc64el 2.35.50.20201210-0ubuntu2 [85.5 kB] Get:34 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libctf-nobfd0 ppc64el 2.35.50.20201210-0ubuntu2 [85.8 kB] Get:35 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libbinutils ppc64el 2.35.50.20201210-0ubuntu2 [534 kB] Get:36 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el binutils-common ppc64el 2.35.50.20201210-0ubuntu2 [216 kB] Get:37 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el binutils ppc64el 2.35.50.20201210-0ubuntu2 [3384 B] Get:38 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el binutils-powerpc64le-linux-gnu ppc64el 2.35.50.20201210-0ubuntu2 [1827 kB] Get:39 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libc6 ppc64el 2.32-0ubuntu5 [2673 kB] Get:40 http://ftpmaster.internal/ubuntu hirsute/main ppc64el base-files ppc64el 11ubuntu16 [60.7 kB] Get:41 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el bash ppc64el 5.1-1ubuntu1 [748 kB] Get:42 http://ftpmaster.internal/ubuntu hirsute/main ppc64el bsdutils ppc64el 1:2.36.1-1ubuntu2 [91.9 kB] Get:43 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el coreutils ppc64el 8.32-4ubuntu2 [1411 kB] Get:44 http://ftpmaster.internal/ubuntu hirsute/main ppc64el tar ppc64el 1.32+dfsg-1 [317 kB] Get:45 http://ftpmaster.internal/ubuntu hirsute/main ppc64el dpkg ppc64el 1.20.5ubuntu3 [1199 kB] Get:46 http://ftpmaster.internal/ubuntu hirsute/main ppc64el dash ppc64el 0.5.11+git20200708+dd9ef66+really0.5.10.2-0ubuntu1 [101 kB] Get:47 http://ftpmaster.internal/ubuntu hirsute/main ppc64el grep ppc64el 3.6-1 [160 kB] Get:48 http://ftpmaster.internal/ubuntu hirsute/main ppc64el login ppc64el 1:4.8.1-1ubuntu7 [223 kB] Get:49 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libncurses6 ppc64el 6.2+20201114-1 [122 kB] Get:50 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libncursesw6 ppc64el 6.2+20201114-1 [153 kB] Get:51 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libtinfo6 ppc64el 6.2+20201114-1 [104 kB] Get:52 http://ftpmaster.internal/ubuntu hirsute/main ppc64el ncurses-bin ppc64el 6.2+20201114-1 [180 kB] Get:53 http://ftpmaster.internal/ubuntu hirsute/main ppc64el perl-modules-5.32 all 5.32.0-5 [2754 kB] Get:54 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libperl5.32 ppc64el 5.32.0-5 [4037 kB] Get:55 http://ftpmaster.internal/ubuntu hirsute/main ppc64el perl ppc64el 5.32.0-5 [225 kB] Get:56 http://ftpmaster.internal/ubuntu hirsute/main ppc64el perl-base ppc64el 5.32.0-5 [1546 kB] Get:57 http://ftpmaster.internal/ubuntu hirsute/main ppc64el util-linux ppc64el 2.36.1-1ubuntu2 [1118 kB] Get:58 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libdebconfclient0 ppc64el 0.255ubuntu1 [6148 B] Get:59 http://ftpmaster.internal/ubuntu hirsute/main ppc64el base-passwd ppc64el 3.5.48 [49.6 kB] Get:60 http://ftpmaster.internal/ubuntu hirsute/main ppc64el init-system-helpers all 1.59 [38.2 kB] Get:61 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libc-bin ppc64el 2.32-0ubuntu5 [637 kB] Get:62 http://ftpmaster.internal/ubuntu hirsute/main ppc64el ncurses-base all 6.2+20201114-1 [18.5 kB] Get:63 http://ftpmaster.internal/ubuntu hirsute/main ppc64el sysvinit-utils ppc64el 2.96-5ubuntu1 [22.8 kB] Get:64 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libgcrypt20 ppc64el 1.8.7-2ubuntu1 [444 kB] Get:65 http://ftpmaster.internal/ubuntu hirsute/main ppc64el liblz4-1 ppc64el 1.9.3-0ubuntu1 [70.0 kB] Get:66 http://ftpmaster.internal/ubuntu hirsute/main ppc64el systemd-sysv ppc64el 246.6-5ubuntu1 [10.3 kB] Get:67 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libaudit-common all 1:2.8.5-3ubuntu3 [4048 B] Get:68 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libcap-ng0 ppc64el 0.7.9-2.2build1 [11.7 kB] Get:69 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libaudit1 ppc64el 1:2.8.5-3ubuntu3 [42.5 kB] Get:70 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libpcre2-8-0 ppc64el 10.35-2ubuntu1 [204 kB] Get:71 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libselinux1 ppc64el 3.1-2build2 [81.5 kB] Get:72 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libsemanage-common all 3.1-1build2 [10.0 kB] Get:73 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libsemanage1 ppc64el 3.1-1build2 [97.0 kB] Get:74 http://ftpmaster.internal/ubuntu hirsute/main ppc64el passwd ppc64el 1:4.8.1-1ubuntu7 [804 kB] Get:75 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el adduser all 3.118ubuntu4 [163 kB] Get:76 http://ftpmaster.internal/ubuntu hirsute/main ppc64el systemd-timesyncd ppc64el 246.6-5ubuntu1 [28.8 kB] Get:77 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libapparmor1 ppc64el 3.0.0-0ubuntu5 [39.6 kB] Get:78 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libcap2 ppc64el 1:2.44-1 [19.8 kB] Get:79 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libblkid1 ppc64el 2.36.1-1ubuntu2 [151 kB] Get:80 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libudev1 ppc64el 246.6-5ubuntu1 [82.8 kB] Get:81 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libdevmapper1.02.1 ppc64el 2:1.02.167-1ubuntu4 [157 kB] Get:82 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libuuid1 ppc64el 2.36.1-1ubuntu2 [23.1 kB] Get:83 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libcryptsetup12 ppc64el 2:2.3.4-1ubuntu1 [228 kB] Get:84 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libidn2-0 ppc64el 2.3.0-4 [55.3 kB] Get:85 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libip4tc2 ppc64el 1.8.5-3ubuntu4 [22.0 kB] Get:86 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libmount1 ppc64el 2.36.1-1ubuntu2 [166 kB] Get:87 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libseccomp2 ppc64el 2.4.3-1ubuntu6 [47.7 kB] Get:88 http://ftpmaster.internal/ubuntu hirsute/main ppc64el mount ppc64el 2.36.1-1ubuntu2 [128 kB] Get:89 http://ftpmaster.internal/ubuntu hirsute/main ppc64el systemd ppc64el 246.6-5ubuntu1 [4893 kB] Get:90 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libsystemd0 ppc64el 246.6-5ubuntu1 [315 kB] Get:91 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libapt-pkg6.0 ppc64el 2.1.13 [930 kB] Get:92 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el apt ppc64el 2.1.13 [1328 kB] Get:93 http://ftpmaster.internal/ubuntu hirsute/main ppc64el init ppc64el 1.59 [6168 B] Get:94 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libsmartcols1 ppc64el 2.36.1-1ubuntu2 [107 kB] Get:95 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el readline-common all 8.1-1 [54.1 kB] Get:96 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libreadline8 ppc64el 8.1-1 [151 kB] Get:97 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libsqlite3-0 ppc64el 3.34.0-1 [628 kB] Get:98 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el openssl ppc64el 1.1.1f-1ubuntu5 [621 kB] Get:99 http://ftpmaster.internal/ubuntu hirsute/main ppc64el tzdata all 2020d-1ubuntu1 [293 kB] Get:100 http://ftpmaster.internal/ubuntu hirsute/main ppc64el dpkg-dev all 1.20.5ubuntu3 [758 kB] Get:101 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libdpkg-perl all 1.20.5ubuntu3 [232 kB] Get:102 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libfakeroot ppc64el 1.25.3-1.1 [28.6 kB] Get:103 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el fakeroot ppc64el 1.25.3-1.1 [66.4 kB] Get:104 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libnpth0 ppc64el 1.6-3 [8640 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 173 MB in 4s (47.6 MB/s) (Reading database ... 12922 files and directories currently installed.) Preparing to unpack .../libcrypt-dev_1%3a4.4.17-1ubuntu1_ppc64el.deb ... Unpacking libcrypt-dev:ppc64el (1:4.4.17-1ubuntu1) over (1:4.4.16-1ubuntu1) ... Preparing to unpack .../libc6-dev_2.32-0ubuntu5_ppc64el.deb ... Unpacking libc6-dev:ppc64el (2.32-0ubuntu5) over (2.32-0ubuntu3) ... Preparing to unpack .../libc-dev-bin_2.32-0ubuntu5_ppc64el.deb ... Unpacking libc-dev-bin (2.32-0ubuntu5) over (2.32-0ubuntu3) ... Preparing to unpack .../libcrypt1_1%3a4.4.17-1ubuntu1_ppc64el.deb ... Unpacking libcrypt1:ppc64el (1:4.4.17-1ubuntu1) over (1:4.4.16-1ubuntu1) ... Setting up libcrypt1:ppc64el (1:4.4.17-1ubuntu1) ... (Reading database ... 12921 files and directories currently installed.) Preparing to unpack .../00-linux-libc-dev_5.8.0-32.34+21.04.1_ppc64el.deb ... Unpacking linux-libc-dev:ppc64el (5.8.0-32.34+21.04.1) over (5.8.0-25.26) ... Preparing to unpack .../01-libtirpc-common_1.2.6-3_all.deb ... Unpacking libtirpc-common (1.2.6-3) over (1.2.6-1build1) ... 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Setting up libtsan0:ppc64el (10.2.1-1ubuntu1) ... Setting up libctf0:ppc64el (2.35.50.20201210-0ubuntu2) ... Setting up libgcc-10-dev:ppc64el (10.2.1-1ubuntu1) ... Setting up libreadline8:ppc64el (8.1-1) ... Setting up perl (5.32.0-5) ... Setting up libgssapi-krb5-2:ppc64el (1.17-10ubuntu1) ... Setting up libdpkg-perl (1.20.5ubuntu3) ... Setting up binutils-powerpc64le-linux-gnu (2.35.50.20201210-0ubuntu2) ... Setting up libtirpc3:ppc64el (1.2.6-3) ... Setting up binutils (2.35.50.20201210-0ubuntu2) ... Setting up dpkg-dev (1.20.5ubuntu3) ... Setting up libtirpc-dev:ppc64el (1.2.6-3) ... Setting up gcc-10 (10.2.1-1ubuntu1) ... Setting up libc6-dev:ppc64el (2.32-0ubuntu5) ... Setting up libstdc++-10-dev:ppc64el (10.2.1-1ubuntu1) ... Setting up g++-10 (10.2.1-1ubuntu1) ... Processing triggers for libc-bin (2.32-0ubuntu5) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-20400824 ppc64el hirsute-proposed -c chroot:build-PACKAGEBUILD-20400824 --arch=ppc64el --dist=hirsute-proposed --nolog libmems_1.6.0+4725-9build1.dsc Initiating build PACKAGEBUILD-20400824 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.15.0-128-generic #131-Ubuntu SMP Wed Dec 9 06:54:14 UTC 2020 ppc64le sbuild (Debian sbuild) 0.75.0 (21 Mar 2018) on bos02-ppc64el-004.buildd +==============================================================================+ | libmems 1.6.0+4725-9build1 (ppc64el) Sat, 12 Dec 2020 13:09:47 +0000 | +==============================================================================+ Package: libmems Version: 1.6.0+4725-9build1 Source Version: 1.6.0+4725-9build1 Distribution: hirsute-proposed Machine Architecture: ppc64el Host Architecture: ppc64el Build Architecture: ppc64el Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-20400824/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- libmems_1.6.0+4725-9build1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/libmems-4kvbg8/libmems-1.6.0+4725' with '<>' I: NOTICE: Log filtering will replace 'build/libmems-4kvbg8' with '<>' +------------------------------------------------------------------------------+ | Install build-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-pHB6Gz/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-pHB6Gz/apt_archive ./ InRelease Get:2 copy:/<>/resolver-pHB6Gz/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-pHB6Gz/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-pHB6Gz/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-pHB6Gz/apt_archive ./ Packages [433 B] Fetched 1739 B in 0s (93.0 kB/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libisl22 libperl5.30 perl-modules-5.30 Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 856 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-pHB6Gz/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [856 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 856 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14856 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_ppc64el.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (ppc64el included in any) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), d-shlibs, pkg-config, libgenome-dev, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libmuscle-dev Filtered Build-Depends: debhelper-compat (= 13), d-shlibs, pkg-config, libgenome-dev, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libmuscle-dev dpkg-deb: building package 'sbuild-build-depends-libmems-dummy' in '/<>/resolver-pHB6Gz/apt_archive/sbuild-build-depends-libmems-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-libmems-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-pHB6Gz/apt_archive ./ InRelease Get:2 copy:/<>/resolver-pHB6Gz/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-pHB6Gz/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-pHB6Gz/apt_archive ./ Sources [556 B] Get:5 copy:/<>/resolver-pHB6Gz/apt_archive ./ Packages [635 B] Fetched 2154 B in 0s (114 kB/s) Reading package lists... Reading package lists... Install libmems build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libisl22 libperl5.30 perl-modules-5.30 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libboost-filesystem-dev libboost-filesystem1.74-dev libboost-filesystem1.74.0 libboost-iostreams-dev libboost-iostreams1.74-dev libboost-iostreams1.74.0 libboost-program-options-dev libboost-program-options1.74-dev libboost-program-options1.74.0 libboost-regex1.74-dev libboost-regex1.74.0 libboost-system1.74-dev libboost-system1.74.0 libboost1.74-dev libcroco3 libdebhelper-perl libelf1 libfile-stripnondeterminism-perl libgenome-dev libgenome0 libglib2.0-0 libicu-dev libicu67 libmagic-mgc libmagic1 libmuscle-dev libmuscle1 libpipeline1 libsigsegv2 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db pkg-config po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-serialization1.74-dev libboost-stacktrace1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev icu-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libboost-filesystem-dev libboost-filesystem1.74-dev libboost-filesystem1.74.0 libboost-iostreams-dev libboost-iostreams1.74-dev libboost-iostreams1.74.0 libboost-program-options-dev libboost-program-options1.74-dev libboost-program-options1.74.0 libboost-regex1.74-dev libboost-regex1.74.0 libboost-system1.74-dev libboost-system1.74.0 libboost1.74-dev libcroco3 libdebhelper-perl libelf1 libfile-stripnondeterminism-perl libgenome-dev libgenome0 libglib2.0-0 libicu-dev libicu67 libmagic-mgc libmagic1 libmuscle-dev libmuscle1 libpipeline1 libsigsegv2 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db pkg-config po-debconf sbuild-build-depends-libmems-dummy 0 upgraded, 55 newly installed, 0 to remove and 0 not upgraded. Need to get 41.8 MB of archives. After this operation, 301 MB of additional disk space will be used. Get:1 copy:/<>/resolver-pHB6Gz/apt_archive ./ sbuild-build-depends-libmems-dummy 0.invalid.0 [928 B] Get:2 http://ftpmaster.internal/ubuntu hirsute/main ppc64el bsdextrautils ppc64el 2.36.1-1ubuntu2 [83.5 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libuchardet0 ppc64el 0.0.7-1 [71.0 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute/main ppc64el groff-base ppc64el 1.22.4-5 [922 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libpipeline1 ppc64el 1.5.3-1 [29.6 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute/main ppc64el man-db ppc64el 2.9.3-2 [1148 kB] Get:7 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libmagic-mgc ppc64el 1:5.39-3 [228 kB] Get:8 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libmagic1 ppc64el 1:5.39-3 [93.4 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute/main ppc64el file ppc64el 1:5.39-3 [24.7 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libelf1 ppc64el 0.182-1 [52.3 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libglib2.0-0 ppc64el 2.66.3-2 [1408 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libicu67 ppc64el 67.1-5 [8813 kB] Get:13 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libxml2 ppc64el 2.9.10+dfsg-6.3build1 [656 kB] Get:14 http://ftpmaster.internal/ubuntu hirsute/main ppc64el gettext-base ppc64el 0.19.8.1-10build1 [52.5 kB] Get:15 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libsigsegv2 ppc64el 2.12-2build1 [14.4 kB] Get:16 http://ftpmaster.internal/ubuntu hirsute/main ppc64el m4 ppc64el 1.4.18-4 [210 kB] Get:17 http://ftpmaster.internal/ubuntu hirsute/main ppc64el autoconf all 2.69-11.1 [321 kB] Get:18 http://ftpmaster.internal/ubuntu hirsute/main ppc64el autotools-dev all 20180224.1 [39.6 kB] Get:19 http://ftpmaster.internal/ubuntu hirsute/main ppc64el automake all 1:1.16.3-1ubuntu1 [552 kB] Get:20 http://ftpmaster.internal/ubuntu hirsute/main ppc64el autopoint all 0.19.8.1-10build1 [412 kB] Get:21 http://ftpmaster.internal/ubuntu hirsute/universe ppc64el d-shlibs all 0.96 [9696 B] Get:22 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libtool all 2.4.6-14 [161 kB] Get:23 http://ftpmaster.internal/ubuntu hirsute/main ppc64el dh-autoreconf all 19 [16.1 kB] Get:24 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libdebhelper-perl all 13.3ubuntu1 [64.1 kB] Get:25 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libarchive-zip-perl all 1.68-1 [90.2 kB] Get:26 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libsub-override-perl all 0.09-2 [9532 B] Get:27 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libfile-stripnondeterminism-perl all 1.9.0-1 [17.2 kB] Get:28 http://ftpmaster.internal/ubuntu hirsute/main ppc64el dh-strip-nondeterminism all 1.9.0-1 [5192 B] Get:29 http://ftpmaster.internal/ubuntu hirsute/main ppc64el dwz ppc64el 0.13+20201015-2 [156 kB] Get:30 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libcroco3 ppc64el 0.6.13-1 [92.1 kB] Get:31 http://ftpmaster.internal/ubuntu hirsute/main ppc64el gettext ppc64el 0.19.8.1-10build1 [959 kB] Get:32 http://ftpmaster.internal/ubuntu hirsute/main ppc64el intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:33 http://ftpmaster.internal/ubuntu hirsute/main ppc64el po-debconf all 1.0.21 [233 kB] Get:34 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el debhelper all 13.3ubuntu1 [881 kB] Get:35 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el icu-devtools ppc64el 67.1-5 [210 kB] Get:36 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost1.74-dev ppc64el 1.74.0-3ubuntu1 [9507 kB] Get:37 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-filesystem1.74.0 ppc64el 1.74.0-3ubuntu1 [257 kB] Get:38 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-system1.74.0 ppc64el 1.74.0-3ubuntu1 [216 kB] Get:39 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-system1.74-dev ppc64el 1.74.0-3ubuntu1 [213 kB] Get:40 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-filesystem1.74-dev ppc64el 1.74.0-3ubuntu1 [278 kB] Get:41 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libboost-filesystem-dev ppc64el 1.74.0.2ubuntu2 [3032 B] Get:42 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-regex1.74.0 ppc64el 1.74.0-3ubuntu1 [487 kB] Get:43 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libicu-dev ppc64el 67.1-5 [9990 kB] Get:44 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-regex1.74-dev ppc64el 1.74.0-3ubuntu1 [557 kB] Get:45 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-iostreams1.74.0 ppc64el 1.74.0-3ubuntu1 [237 kB] Get:46 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-iostreams1.74-dev ppc64el 1.74.0-3ubuntu1 [242 kB] Get:47 http://ftpmaster.internal/ubuntu hirsute-proposed/universe ppc64el libboost-iostreams-dev ppc64el 1.74.0.2ubuntu2 [2984 B] Get:48 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-program-options1.74.0 ppc64el 1.74.0-3ubuntu1 [331 kB] Get:49 http://ftpmaster.internal/ubuntu hirsute/main ppc64el libboost-program-options1.74-dev ppc64el 1.74.0-3ubuntu1 [363 kB] Get:50 http://ftpmaster.internal/ubuntu hirsute-proposed/main ppc64el libboost-program-options-dev ppc64el 1.74.0.2ubuntu2 [3008 B] Get:51 http://ftpmaster.internal/ubuntu hirsute/universe ppc64el libgenome0 ppc64el 1.3.11+svn20110227.4616-3 [124 kB] Get:52 http://ftpmaster.internal/ubuntu hirsute/universe ppc64el libgenome-dev ppc64el 1.3.11+svn20110227.4616-3 [205 kB] Get:53 http://ftpmaster.internal/ubuntu hirsute-proposed/universe ppc64el libmuscle1 ppc64el 3.7+4565-7 [279 kB] Get:54 http://ftpmaster.internal/ubuntu hirsute-proposed/universe ppc64el libmuscle-dev ppc64el 3.7+4565-7 [353 kB] Get:55 http://ftpmaster.internal/ubuntu hirsute/main ppc64el pkg-config ppc64el 0.29.2-1ubuntu1 [49.5 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 41.8 MB in 1s (29.8 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 14856 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-1ubuntu2_ppc64el.deb ... Unpacking bsdextrautils (2.36.1-1ubuntu2) ... Selecting previously unselected package libuchardet0:ppc64el. Preparing to unpack .../01-libuchardet0_0.0.7-1_ppc64el.deb ... Unpacking libuchardet0:ppc64el (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-5_ppc64el.deb ... Unpacking groff-base (1.22.4-5) ... Selecting previously unselected package libpipeline1:ppc64el. Preparing to unpack .../03-libpipeline1_1.5.3-1_ppc64el.deb ... Unpacking libpipeline1:ppc64el (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.3-2_ppc64el.deb ... Unpacking man-db (2.9.3-2) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../05-libmagic-mgc_1%3a5.39-3_ppc64el.deb ... Unpacking libmagic-mgc (1:5.39-3) ... 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Unpacking sbuild-build-depends-libmems-dummy (0.invalid.0) ... Setting up libpipeline1:ppc64el (1.5.3-1) ... Setting up libboost-system1.74.0:ppc64el (1.74.0-3ubuntu1) ... Setting up libboost1.74-dev:ppc64el (1.74.0-3ubuntu1) ... Setting up libgenome0:ppc64el (1.3.11+svn20110227.4616-3) ... Setting up bsdextrautils (2.36.1-1ubuntu2) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libmuscle1 (3.7+4565-7) ... Setting up libicu67:ppc64el (67.1-5) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libgenome-dev (1.3.11+svn20110227.4616-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:ppc64el (2.66.3-2) ... No schema files found: doing nothing. Setting up libboost-iostreams1.74.0:ppc64el (1.74.0-3ubuntu1) ... Setting up libboost-program-options1.74.0:ppc64el (1.74.0-3ubuntu1) ... Setting up libdebhelper-perl (13.3ubuntu1) ... Setting up libmagic1:ppc64el (1:5.39-3) ... Setting up gettext-base (0.19.8.1-10build1) ... Setting up libboost-filesystem1.74.0:ppc64el (1.74.0-3ubuntu1) ... Setting up file (1:5.39-3) ... Setting up libboost-program-options1.74-dev:ppc64el (1.74.0-3ubuntu1) ... Setting up autotools-dev (20180224.1) ... Setting up libboost-program-options-dev:ppc64el (1.74.0.2ubuntu2) ... Setting up libboost-system1.74-dev:ppc64el (1.74.0-3ubuntu1) ... Setting up libsigsegv2:ppc64el (2.12-2build1) ... Setting up libboost-regex1.74.0:ppc64el (1.74.0-3ubuntu1) ... Setting up libmuscle-dev (3.7+4565-7) ... Setting up autopoint (0.19.8.1-10build1) ... Setting up icu-devtools (67.1-5) ... Setting up pkg-config (0.29.2-1ubuntu1) ... Setting up d-shlibs (0.96) ... Setting up libuchardet0:ppc64el (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libboost-filesystem1.74-dev:ppc64el (1.74.0-3ubuntu1) ... Setting up libelf1:ppc64el (0.182-1) ... Setting up libicu-dev:ppc64el (67.1-5) ... Setting up libxml2:ppc64el (2.9.10+dfsg-6.3build1) ... Setting up libboost-filesystem-dev:ppc64el (1.74.0.2ubuntu2) ... Setting up libfile-stripnondeterminism-perl (1.9.0-1) ... Setting up libtool (2.4.6-14) ... Setting up m4 (1.4.18-4) ... Setting up libcroco3:ppc64el (0.6.13-1) ... Setting up autoconf (2.69-11.1) ... Setting up dh-strip-nondeterminism (1.9.0-1) ... Setting up dwz (0.13+20201015-2) ... Setting up libboost-regex1.74-dev:ppc64el (1.74.0-3ubuntu1) ... Setting up groff-base (1.22.4-5) ... Setting up automake (1:1.16.3-1ubuntu1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up gettext (0.19.8.1-10build1) ... Setting up man-db (2.9.3-2) ... 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 intltool-debian (0.35.0+20060710.5) ... Setting up libboost-iostreams1.74-dev:ppc64el (1.74.0-3ubuntu1) ... Setting up po-debconf (1.0.21) ... Setting up libboost-iostreams-dev:ppc64el (1.74.0.2ubuntu2) ... Setting up dh-autoreconf (19) ... Setting up debhelper (13.3ubuntu1) ... Setting up sbuild-build-depends-libmems-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.32-0ubuntu5) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.15.0-128-generic ppc64el (ppc64le) Toolchain package versions: binutils_2.35.50.20201210-0ubuntu2 dpkg-dev_1.20.5ubuntu3 g++-10_10.2.1-1ubuntu1 gcc-10_10.2.1-1ubuntu1 libc6-dev_2.32-0ubuntu5 libstdc++-10-dev_10.2.1-1ubuntu1 libstdc++6_10.2.1-1ubuntu1 linux-libc-dev_5.8.0-32.34+21.04.1 Package versions: adduser_3.118ubuntu4 advancecomp_2.1-2.1build1 apt_2.1.13 autoconf_2.69-11.1 automake_1:1.16.3-1ubuntu1 autopoint_0.19.8.1-10build1 autotools-dev_20180224.1 base-files_11ubuntu16 base-passwd_3.5.48 bash_5.1-1ubuntu1 binutils_2.35.50.20201210-0ubuntu2 binutils-common_2.35.50.20201210-0ubuntu2 binutils-powerpc64le-linux-gnu_2.35.50.20201210-0ubuntu2 bsdextrautils_2.36.1-1ubuntu2 bsdutils_1:2.36.1-1ubuntu2 build-essential_12.8ubuntu3 bzip2_1.0.8-4ubuntu2 ca-certificates_20200601 coreutils_8.32-4ubuntu2 cpp_4:10.2.0-1ubuntu1 cpp-10_10.2.1-1ubuntu1 d-shlibs_0.96 dash_0.5.11+git20200708+dd9ef66+really0.5.10.2-0ubuntu1 debconf_1.5.74 debhelper_13.3ubuntu1 debianutils_4.11.2 dh-autoreconf_19 dh-strip-nondeterminism_1.9.0-1 diffutils_1:3.7-3ubuntu1 dpkg_1.20.5ubuntu3 dpkg-dev_1.20.5ubuntu3 dwz_0.13+20201015-2 e2fsprogs_1.45.6-1ubuntu1 fakeroot_1.25.3-1.1 file_1:5.39-3 findutils_4.7.0-1ubuntu2 g++_4:10.2.0-1ubuntu1 g++-10_10.2.1-1ubuntu1 gcc_4:10.2.0-1ubuntu1 gcc-10_10.2.1-1ubuntu1 gcc-10-base_10.2.1-1ubuntu1 gettext_0.19.8.1-10build1 gettext-base_0.19.8.1-10build1 gpg_2.2.20-1ubuntu1 gpg-agent_2.2.20-1ubuntu1 gpgconf_2.2.20-1ubuntu1 gpgv_2.2.20-1ubuntu1 grep_3.6-1 groff-base_1.22.4-5 gzip_1.10-2ubuntu1 hostname_3.23 icu-devtools_67.1-5 init_1.59 init-system-helpers_1.59 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-8 libapparmor1_3.0.0-0ubuntu5 libapt-pkg6.0_2.1.13 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.2build20.10.0 libasan6_10.2.1-1ubuntu1 libassuan0_2.5.3-7.1 libatomic1_10.2.1-1ubuntu1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3ubuntu3 libaudit1_1:2.8.5-3ubuntu3 libbinutils_2.35.50.20201210-0ubuntu2 libblkid1_2.36.1-1ubuntu2 libboost-filesystem-dev_1.74.0.2ubuntu2 libboost-filesystem1.74-dev_1.74.0-3ubuntu1 libboost-filesystem1.74.0_1.74.0-3ubuntu1 libboost-iostreams-dev_1.74.0.2ubuntu2 libboost-iostreams1.74-dev_1.74.0-3ubuntu1 libboost-iostreams1.74.0_1.74.0-3ubuntu1 libboost-program-options-dev_1.74.0.2ubuntu2 libboost-program-options1.74-dev_1.74.0-3ubuntu1 libboost-program-options1.74.0_1.74.0-3ubuntu1 libboost-regex1.74-dev_1.74.0-3ubuntu1 libboost-regex1.74.0_1.74.0-3ubuntu1 libboost-system1.74-dev_1.74.0-3ubuntu1 libboost-system1.74.0_1.74.0-3ubuntu1 libboost1.74-dev_1.74.0-3ubuntu1 libbz2-1.0_1.0.8-4ubuntu2 libc-bin_2.32-0ubuntu5 libc-dev-bin_2.32-0ubuntu5 libc6_2.32-0ubuntu5 libc6-dev_2.32-0ubuntu5 libcap-ng0_0.7.9-2.2build1 libcap2_1:2.44-1 libcc1-0_10.2.1-1ubuntu1 libcom-err2_1.45.6-1ubuntu1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.17-1ubuntu1 libcrypt1_1:4.4.17-1ubuntu1 libcryptsetup12_2:2.3.4-1ubuntu1 libctf-nobfd0_2.35.50.20201210-0ubuntu2 libctf0_2.35.50.20201210-0ubuntu2 libdb5.3_5.3.28+dfsg1-0.6ubuntu3 libdebconfclient0_0.255ubuntu1 libdebhelper-perl_13.3ubuntu1 libdevmapper1.02.1_2:1.02.167-1ubuntu4 libdpkg-perl_1.20.5ubuntu3 libelf1_0.182-1 libext2fs2_1.45.6-1ubuntu1 libfakeroot_1.25.3-1.1 libffi8ubuntu1_3.4~20200819gead65ca871-0ubuntu3 libfile-stripnondeterminism-perl_1.9.0-1 libgcc-10-dev_10.2.1-1ubuntu1 libgcc-s1_10.2.1-1ubuntu1 libgcrypt20_1.8.7-2ubuntu1 libgdbm-compat4_1.18.1-5.1 libgdbm6_1.18.1-5.1 libgenome-dev_1.3.11+svn20110227.4616-3 libgenome0_1.3.11+svn20110227.4616-3 libglib2.0-0_2.66.3-2 libgmp10_2:6.2.0+dfsg-6ubuntu1 libgnutls30_3.6.15-4ubuntu2 libgomp1_10.2.1-1ubuntu1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.17-10ubuntu1 libhogweed6_3.6-2 libicu-dev_67.1-5 libicu67_67.1-5 libidn2-0_2.3.0-4 libip4tc2_1.8.5-3ubuntu4 libisl22_0.22.1-1 libisl23_0.23-1 libitm1_10.2.1-1ubuntu1 libjson-c5_0.15-1 libk5crypto3_1.17-10ubuntu1 libkeyutils1_1.6.1-2ubuntu1 libkmod2_27+20200310-2ubuntu1 libkrb5-3_1.17-10ubuntu1 libkrb5support0_1.17-10ubuntu1 liblockfile-bin_1.16-1.1 liblockfile1_1.16-1.1 liblsan0_10.2.1-1ubuntu1 liblz4-1_1.9.3-0ubuntu1 liblzma5_5.2.4-1ubuntu1 libmagic-mgc_1:5.39-3 libmagic1_1:5.39-3 libmount1_2.36.1-1ubuntu2 libmpc3_1.2.0-1 libmpfr6_4.1.0-3 libmuscle-dev_3.7+4565-7 libmuscle1_3.7+4565-7 libncurses6_6.2+20201114-1 libncursesw6_6.2+20201114-1 libnettle8_3.6-2 libnpth0_1.6-3 libnsl-dev_1.3.0-0ubuntu3 libnsl2_1.3.0-0ubuntu3 libnss-nis_3.1-0ubuntu4 libnss-nisplus_1.3-0ubuntu4 libp11-kit0_0.23.21-2build1 libpam-modules_1.3.1-5ubuntu6 libpam-modules-bin_1.3.1-5ubuntu6 libpam-runtime_1.3.1-5ubuntu6 libpam0g_1.3.1-5ubuntu6 libpcre2-8-0_10.35-2ubuntu1 libpcre3_2:8.39-13 libperl5.30_5.30.3-4 libperl5.32_5.32.0-5 libpipeline1_1.5.3-1 libpng16-16_1.6.37-3 libprocps8_2:3.3.16-5ubuntu2 libquadmath0_10.2.1-1ubuntu1 libreadline8_8.1-1 libseccomp2_2.4.3-1ubuntu6 libselinux1_3.1-2build2 libsemanage-common_3.1-1build2 libsemanage1_3.1-1build2 libsepol1_3.1-1 libsigsegv2_2.12-2build1 libsmartcols1_2.36.1-1ubuntu2 libsqlite3-0_3.34.0-1 libss2_1.45.6-1ubuntu1 libssl1.1_1.1.1f-1ubuntu5 libstdc++-10-dev_10.2.1-1ubuntu1 libstdc++6_10.2.1-1ubuntu1 libsub-override-perl_0.09-2 libsystemd0_246.6-5ubuntu1 libtasn1-6_4.16.0-2 libtinfo6_6.2+20201114-1 libtirpc-common_1.2.6-3 libtirpc-dev_1.2.6-3 libtirpc3_1.2.6-3 libtool_2.4.6-14 libtsan0_10.2.1-1ubuntu1 libubsan1_10.2.1-1ubuntu1 libuchardet0_0.0.7-1 libudev1_246.6-5ubuntu1 libunistring2_0.9.10-4 libuuid1_2.36.1-1ubuntu2 libxml2_2.9.10+dfsg-6.3build1 libzstd1_1.4.5+dfsg-4 linux-libc-dev_5.8.0-32.34+21.04.1 lockfile-progs_0.1.18 login_1:4.8.1-1ubuntu7 logsave_1.45.6-1ubuntu1 lsb-base_11.1.0ubuntu2 m4_1.4.18-4 make_4.3-4ubuntu1 man-db_2.9.3-2 mawk_1.3.4.20200120-2 mount_2.36.1-1ubuntu2 ncurses-base_6.2+20201114-1 ncurses-bin_6.2+20201114-1 openssl_1.1.1f-1ubuntu5 optipng_0.7.7-1 passwd_1:4.8.1-1ubuntu7 patch_2.7.6-6 perl_5.32.0-5 perl-base_5.32.0-5 perl-modules-5.30_5.30.3-4 perl-modules-5.32_5.32.0-5 pinentry-curses_1.1.0-4build1 pkg-config_0.29.2-1ubuntu1 pkgbinarymangler_146 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.16-5ubuntu2 readline-common_8.1-1 rpcsvc-proto_1.4.2-0ubuntu4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-libmems-dummy_0.invalid.0 sed_4.7-1ubuntu1 sensible-utils_0.0.13 systemd_246.6-5ubuntu1 systemd-sysv_246.6-5ubuntu1 systemd-timesyncd_246.6-5ubuntu1 sysvinit-utils_2.96-5ubuntu1 tar_1.32+dfsg-1 tzdata_2020d-1ubuntu1 ubuntu-keyring_2020.06.17.1 util-linux_2.36.1-1ubuntu2 xz-utils_5.2.4-1ubuntu1 zlib1g_1:1.2.11.dfsg-2ubuntu4 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sat Dec 12 12:17:58 2020 UTC gpgv: using RSA key D56571B88A8BBAF140BF63D6BD7EAA60778FA6F5 gpgv: issuer "doko@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./libmems_1.6.0+4725-9build1.dsc dpkg-source: info: extracting libmems in /<>/libmems-1.6.0+4725 dpkg-source: info: unpacking libmems_1.6.0+4725.orig.tar.xz dpkg-source: info: unpacking libmems_1.6.0+4725-9build1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 01_fix_ctors.patch dpkg-source: info: applying 02_fix_a_Wformat.patch dpkg-source: info: applying pkg-config-directive.patch dpkg-source: info: applying 03_update_boost_m4_to_git_d9ff75.patch dpkg-source: info: applying 04_add_dependend_libs_to_link_command.patch dpkg-source: info: applying 05_gcc-6.patch dpkg-source: info: applying boost1.62.patch dpkg-source: info: applying drop-version-number.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-20400824 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-20400824 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-20400824 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package libmems dpkg-buildpackage: info: source version 1.6.0+4725-9build1 dpkg-buildpackage: info: source distribution hirsute dpkg-source --before-build . dpkg-buildpackage: info: host architecture ppc64el debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'config'. libtoolize: copying file 'config/ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:54: warning: AM_INIT_AUTOMAKE: two- and three-arguments forms are deprecated. For more info, see: configure.ac:54: https://www.gnu.org/software/automake/manual/automake.html#Modernize-AM_005fINIT_005fAUTOMAKE-invocation configure.ac:66: installing 'config/compile' configure.ac:66: installing 'config/config.guess' configure.ac:66: installing 'config/config.sub' configure.ac:54: installing 'config/install-sh' configure.ac:54: installing 'config/missing' libMems/Makefile.am:48: warning: source file 'HomologyHMM/algebras.cc' is in a subdirectory, libMems/Makefile.am:48: but option 'subdir-objects' is disabled automake: warning: possible forward-incompatibility. automake: At least a source file is in a subdirectory, but the 'subdir-objects' automake: automake option hasn't been enabled. For now, the corresponding output automake: object file(s) will be placed in the top-level directory. However, automake: this behaviour will change in future Automake versions: they will automake: unconditionally cause object files to be placed in the same subdirectory automake: of the corresponding sources. automake: You are advised to start using 'subdir-objects' option throughout your automake: project, to avoid future incompatibilities. libMems/Makefile.am:48: warning: source file 'HomologyHMM/homology.cc' is in a subdirectory, libMems/Makefile.am:48: but option 'subdir-objects' is disabled libMems/Makefile.am:48: warning: source file 'HomologyHMM/homologymain.cc' is in a subdirectory, libMems/Makefile.am:48: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/asyncio.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/alinuxaio.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/aPOSIXaio.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/alibc.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/awin32aio.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/buffer.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/util.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/sorting.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/dmsort.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/timing.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/sml.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am: installing 'config/depcomp' dh_auto_configure -a ./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 a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes 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 we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking whether ln -s works... yes checking build system type... powerpc64le-unknown-linux-gnu checking host system type... powerpc64le-unknown-linux-gnu checking how to print strings... printf checking for gcc... gcc checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking the maximum length of command line arguments... 1572864 checking how to convert powerpc64le-unknown-linux-gnu file names to powerpc64le-unknown-linux-gnu format... func_convert_file_noop checking how to convert powerpc64le-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking how to run the C preprocessor... gcc -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for ANSI C header files... (cached) yes checking for Boost headers version >= 1.34.0... yes checking for Boost's header version... 1_74 checking whether the compiler implements namespaces... yes checking for the toolset name used by Boost for g++... configure: WARNING: could not figure out which toolset name to use for g++ checking boost/system/error_code.hpp usability... yes checking boost/system/error_code.hpp presence... yes checking for boost/system/error_code.hpp... yes checking for the Boost system library... yes checking boost/filesystem/path.hpp usability... yes checking boost/filesystem/path.hpp presence... yes checking for boost/filesystem/path.hpp... yes checking for the Boost filesystem library... (cached) yes checking boost/program_options.hpp usability... yes checking boost/program_options.hpp presence... yes checking for boost/program_options.hpp... yes checking for the Boost program_options library... (cached) yes checking boost/iostreams/device/file_descriptor.hpp usability... yes checking boost/iostreams/device/file_descriptor.hpp presence... yes checking for boost/iostreams/device/file_descriptor.hpp... yes checking for the Boost iostreams library... (cached) yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for DEPS... yes checking for sys/types.h... (cached) yes checking sys/aio.h usability... no checking sys/aio.h presence... no checking for sys/aio.h... no checking aio.h usability... yes checking aio.h presence... yes checking for aio.h... yes checking features.h usability... yes checking features.h presence... yes checking for features.h... yes checking for pthread_mutex_unlock in -lpthread... yes checking for aio_write in -lrt... yes checking for doxygen... no configure: WARNING: doxygen not found - will not generate any doxygen documentation checking for perl... /usr/bin/perl checking for an ANSI C-conforming const... yes checking for inline... inline checking whether time.h and sys/time.h may both be included... yes checking whether gcc needs -traditional... no checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating libMems/Makefile config.status: creating libMems.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands dh_auto_build -a make -j4 make[1]: Entering directory '/<>/libmems-1.6.0+4725' make all-recursive make[2]: Entering directory '/<>/libmems-1.6.0+4725' Making all in libMems make[3]: Entering directory '/<>/libmems-1.6.0+4725/libMems' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o RepeatHash.lo RepeatHash.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o DNAFileSML.lo DNAFileSML.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MatchFinder.lo MatchFinder.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o DNAMemorySML.lo DNAMemorySML.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MatchFinder.cpp -fPIC -DPIC -o .libs/MatchFinder.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c RepeatHash.cpp -fPIC -DPIC -o .libs/RepeatHash.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c DNAFileSML.cpp -fPIC -DPIC -o .libs/DNAFileSML.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c DNAMemorySML.cpp -fPIC -DPIC -o .libs/DNAMemorySML.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c DNAMemorySML.cpp -o DNAMemorySML.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MemorySML.lo MemorySML.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MemorySML.cpp -fPIC -DPIC -o .libs/MemorySML.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c DNAFileSML.cpp -o DNAFileSML.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MemorySML.cpp -o MemorySML.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o SortedMerList.lo SortedMerList.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c SortedMerList.cpp -fPIC -DPIC -o .libs/SortedMerList.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o FileSML.lo FileSML.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c FileSML.cpp -fPIC -DPIC -o .libs/FileSML.o MatchFinder.cpp: In copy constructor ‘mems::MatchFinder::MatchFinder(const mems::MatchFinder&)’: MatchFinder.cpp:32:1: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 32 | MatchFinder::MatchFinder(const MatchFinder& mf){ | ^~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c RepeatHash.cpp -o RepeatHash.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c SortedMerList.cpp -o SortedMerList.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MatchFinder.cpp -o MatchFinder.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MemHash.lo MemHash.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MemHash.cpp -fPIC -DPIC -o .libs/MemHash.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MatchHashEntry.lo MatchHashEntry.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MatchHashEntry.cpp -fPIC -DPIC -o .libs/MatchHashEntry.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Interval.lo Interval.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c Interval.cpp -fPIC -DPIC -o .libs/Interval.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c FileSML.cpp -o FileSML.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MatchHashEntry.cpp -o MatchHashEntry.o >/dev/null 2>&1 MemHash.cpp: In member function ‘mems::MemHash& mems::MemHash::operator=(const mems::MemHash&)’: MemHash.cpp:50:10: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 50 | MemHash& MemHash::operator=( const MemHash& mh ){ | ^~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 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-I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c IntervalList.cpp -fPIC -DPIC -o .libs/IntervalList.o /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o twister.lo twister.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c twister.c -fPIC -DPIC -o .libs/twister.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c twister.c -o twister.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gnAlignedSequences.lo gnAlignedSequences.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c gnAlignedSequences.cpp -fPIC -DPIC -o .libs/gnAlignedSequences.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MatchList.lo MatchList.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MatchList.cpp -fPIC -DPIC -o .libs/MatchList.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c IntervalList.cpp -o IntervalList.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c gnAlignedSequences.cpp -o gnAlignedSequences.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MatchList.cpp -o MatchList.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Aligner.lo Aligner.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c Aligner.cpp -fPIC -DPIC -o .libs/Aligner.o In file included from /usr/include/c++/10/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from Aligner.cpp:10: /usr/include/c++/10/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Islands.lo Islands.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c Islands.cpp -fPIC -DPIC -o .libs/Islands.o In file included from /usr/include/c++/10/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from Islands.cpp:13: /usr/include/c++/10/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MaskedMemHash.lo MaskedMemHash.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MaskedMemHash.cpp -fPIC -DPIC -o .libs/MaskedMemHash.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GappedAlignment.lo GappedAlignment.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c GappedAlignment.cpp -fPIC -DPIC -o .libs/GappedAlignment.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c GappedAlignment.cpp -o GappedAlignment.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MaskedMemHash.cpp -o MaskedMemHash.o >/dev/null 2>&1 In file included from ../libMems/NumericMatrix.h:16, from ../libMems/Aligner.h:25, from Aligner.cpp:9: ../libMems/Matrix.h: In function ‘void mems::IdentityMatrix(const AbstractMatchVectorType&, const std::vector&, NumericMatrix&) [with AbstractMatchVectorType = mems::GenericMatchList >*>]’: ../libMems/Matrix.h:115:9: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 115 | nrows_ = m.nrows_; | ~~~~~~~^~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MuscleInterface.lo MuscleInterface.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MuscleInterface.cpp -fPIC -DPIC -o .libs/MuscleInterface.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o PhyloTree.lo PhyloTree.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c PhyloTree.cpp -fPIC -DPIC -o .libs/PhyloTree.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c Islands.cpp -o Islands.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c PhyloTree.cpp -o PhyloTree.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o RepeatMatchList.lo RepeatMatchList.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c RepeatMatchList.cpp -fPIC -DPIC -o .libs/RepeatMatchList.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c MuscleInterface.cpp -o MuscleInterface.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c RepeatMatchList.cpp -o RepeatMatchList.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c Aligner.cpp -o Aligner.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o RepeatMatch.lo RepeatMatch.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c RepeatMatch.cpp -fPIC -DPIC -o .libs/RepeatMatch.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Backbone.lo Backbone.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c Backbone.cpp -fPIC -DPIC -o .libs/Backbone.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o PairwiseMatchFinder.lo PairwiseMatchFinder.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c PairwiseMatchFinder.cpp -fPIC -DPIC -o .libs/PairwiseMatchFinder.o In file included from /usr/include/c++/10/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from ../libMems/ProgressiveAligner.h:21, from Backbone.cpp:13: /usr/include/c++/10/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c RepeatMatch.cpp -o RepeatMatch.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ProgressiveAligner.lo ProgressiveAligner.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c ProgressiveAligner.cpp -fPIC -DPIC -o .libs/ProgressiveAligner.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c PairwiseMatchFinder.cpp -o PairwiseMatchFinder.o >/dev/null 2>&1 In file included from /usr/include/c++/10/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from ../libMems/ProgressiveAligner.h:21, from ProgressiveAligner.cpp:14: /usr/include/c++/10/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o SuperInterval.lo SuperInterval.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c SuperInterval.cpp -fPIC -DPIC -o .libs/SuperInterval.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c SuperInterval.cpp -o SuperInterval.o >/dev/null 2>&1 In file included from ../libMems/IntervalList.h:24, from ../libMems/Aligner.h:21, from ../libMems/ProgressiveAligner.h:17, from Backbone.cpp:13: ../libMems/CompactGappedAlignment.h: In member function ‘void mems::CompactGappedAlignment::copyRange(mems::CompactGappedAlignment&, gnSeqI, gnSeqI) [with BaseType = mems::AbstractGappedAlignment >]’: ../libMems/CompactGappedAlignment.h:675:6: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 675 | void CompactGappedAlignment::copyRange( CompactGappedAlignment& dest, gnSeqI left_column, gnSeqI length ) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GreedyBreakpointElimination.lo GreedyBreakpointElimination.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c GreedyBreakpointElimination.cpp -fPIC -DPIC -o .libs/GreedyBreakpointElimination.o In file included from /usr/include/c++/10/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from ../libMems/ProgressiveAligner.h:21, from GreedyBreakpointElimination.cpp:7: /usr/include/c++/10/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o algebras.lo `test -f 'HomologyHMM/algebras.cc' || echo './'`HomologyHMM/algebras.cc libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c HomologyHMM/algebras.cc -fPIC -DPIC -o .libs/algebras.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c HomologyHMM/algebras.cc -o algebras.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o homology.lo `test -f 'HomologyHMM/homology.cc' || echo './'`HomologyHMM/homology.cc libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c HomologyHMM/homology.cc -fPIC -DPIC -o .libs/homology.o In file included from /usr/include/c++/10/ext/hash_map:60, from HomologyHMM/dptables.h:43, from HomologyHMM/homology.h:27, from HomologyHMM/homology.cc:24: /usr/include/c++/10/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ In file included from ../libMems/NumericMatrix.h:16, from ../libMems/Aligner.h:25, from ../libMems/ProgressiveAligner.h:17, from ProgressiveAligner.cpp:14: ../libMems/Matrix.h: In function ‘void mems::IdentityMatrix(const AbstractMatchVectorType&, const std::vector&, NumericMatrix&) [with AbstractMatchVectorType = std::vector]’: ../libMems/Matrix.h:115:9: note: the layout of aggregates containing vectors with 8-byte alignment has changed in GCC 5 115 | nrows_ = m.nrows_; | ~~~~~~~^~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c HomologyHMM/homology.cc -o homology.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o homologymain.lo `test -f 'HomologyHMM/homologymain.cc' || echo './'`HomologyHMM/homologymain.cc libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c HomologyHMM/homologymain.cc -fPIC -DPIC -o .libs/homologymain.o In file included from /usr/include/c++/10/ext/hash_map:60, from HomologyHMM/dptables.h:43, from HomologyHMM/homology.h:27, from HomologyHMM/homologymain.cc:21: /usr/include/c++/10/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c HomologyHMM/homologymain.cc -o homologymain.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o asyncio.lo `test -f 'dmSML/asyncio.c' || echo './'`dmSML/asyncio.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/asyncio.c -fPIC -DPIC -o .libs/asyncio.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/asyncio.c -o asyncio.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o alinuxaio.lo `test -f 'dmSML/alinuxaio.c' || echo './'`dmSML/alinuxaio.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/alinuxaio.c -fPIC -DPIC -o .libs/alinuxaio.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/alinuxaio.c -o alinuxaio.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o aPOSIXaio.lo `test -f 'dmSML/aPOSIXaio.c' || echo './'`dmSML/aPOSIXaio.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/aPOSIXaio.c -fPIC -DPIC -o .libs/aPOSIXaio.o dmSML/aPOSIXaio.c: In function ‘QueryLastCompletePAIO’: dmSML/aPOSIXaio.c:115:21: warning: passing argument 1 of ‘aio_suspend’ from incompatible pointer type [-Wincompatible-pointer-types] 115 | rval = aio_suspend(request_array, 1, &zero_wait); | ^~~~~~~~~~~~~ | | | struct aiocb ** In file included from /usr/include/features.h:461, from /usr/include/powerpc64le-linux-gnu/sys/types.h:25, from ../libMems/dmSML/asyncio.h:24, from ../libMems/dmSML/aPOSIXaio.h:8, from dmSML/aPOSIXaio.c:5: /usr/include/aio.h:198:12: note: expected ‘const struct aiocb * const*’ but argument is of type ‘struct aiocb **’ 198 | extern int __REDIRECT_NTH (aio_suspend, | ^~~~~~~~~~~~~~ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/aPOSIXaio.c -o aPOSIXaio.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o alibc.lo `test -f 'dmSML/alibc.c' || echo './'`dmSML/alibc.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/alibc.c -fPIC -DPIC -o .libs/alibc.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/alibc.c -o alibc.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o awin32aio.lo `test -f 'dmSML/awin32aio.c' || echo './'`dmSML/awin32aio.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/awin32aio.c -fPIC -DPIC -o .libs/awin32aio.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/awin32aio.c -o awin32aio.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o buffer.lo `test -f 'dmSML/buffer.c' || echo './'`dmSML/buffer.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/buffer.c -fPIC -DPIC -o .libs/buffer.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/buffer.c -o buffer.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o util.lo `test -f 'dmSML/util.c' || echo './'`dmSML/util.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/util.c -fPIC -DPIC -o .libs/util.o dmSML/util.c: In function ‘removeFile’: dmSML/util.c:126:24: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 126 | rm_cmd = Fmt( "/bin/rm -fv %s", filename ); | ^ dmSML/util.c:128:24: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 128 | rm_cmd = Fmt( "/bin/rm -f %s", filename ); | ^ dmSML/util.c:129:16: warning: implicit declaration of function ‘system’ [-Wimplicit-function-declaration] 129 | return system( rm_cmd ); | ^~~~~~ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/util.c -o util.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sorting.lo `test -f 'dmSML/sorting.c' || echo './'`dmSML/sorting.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/sorting.c -fPIC -DPIC -o .libs/sorting.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/sorting.c -o sorting.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o dmsort.lo `test -f 'dmSML/dmsort.c' || echo './'`dmSML/dmsort.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/dmsort.c -fPIC -DPIC -o .libs/dmsort.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/dmsort.c -o dmsort.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o timing.lo `test -f 'dmSML/timing.c' || echo './'`dmSML/timing.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/timing.c -fPIC -DPIC -o .libs/timing.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/timing.c -o timing.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sml.lo `test -f 'dmSML/sml.c' || echo './'`dmSML/sml.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/sml.c -fPIC -DPIC -o .libs/sml.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c dmSML/sml.c -o sml.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c Backbone.cpp -o Backbone.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c GreedyBreakpointElimination.cpp -o GreedyBreakpointElimination.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -c ProgressiveAligner.cpp -o ProgressiveAligner.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=link g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O3 -fdebug-prefix-map=/<>/libmems-1.6.0+4725=. -fstack-protector-strong -Wformat -Werror=format-security -version-info 1:0:0 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o libMems.la -rpath /usr/lib/powerpc64le-linux-gnu RepeatHash.lo DNAFileSML.lo MatchFinder.lo DNAMemorySML.lo MemorySML.lo SortedMerList.lo FileSML.lo MemHash.lo MatchHashEntry.lo Interval.lo IntervalList.lo twister.lo gnAlignedSequences.lo MatchList.lo Aligner.lo Islands.lo MaskedMemHash.lo GappedAlignment.lo MuscleInterface.lo PhyloTree.lo RepeatMatchList.lo RepeatMatch.lo Backbone.lo PairwiseMatchFinder.lo ProgressiveAligner.lo SuperInterval.lo GreedyBreakpointElimination.lo algebras.lo homology.lo homologymain.lo asyncio.lo alinuxaio.lo aPOSIXaio.lo alibc.lo awin32aio.lo buffer.lo util.lo sorting.lo dmsort.lo timing.lo sml.lo -lGenome -lMUSCLE -lboost_filesystem -lboost_iostreams -lboost_system -lrt -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/powerpc64le-linux-gnu/10/../../../powerpc64le-linux-gnu/crti.o /usr/lib/gcc/powerpc64le-linux-gnu/10/crtbeginS.o .libs/RepeatHash.o .libs/DNAFileSML.o .libs/MatchFinder.o .libs/DNAMemorySML.o .libs/MemorySML.o .libs/SortedMerList.o .libs/FileSML.o .libs/MemHash.o .libs/MatchHashEntry.o .libs/Interval.o .libs/IntervalList.o .libs/twister.o .libs/gnAlignedSequences.o .libs/MatchList.o .libs/Aligner.o .libs/Islands.o .libs/MaskedMemHash.o .libs/GappedAlignment.o .libs/MuscleInterface.o .libs/PhyloTree.o .libs/RepeatMatchList.o .libs/RepeatMatch.o .libs/Backbone.o .libs/PairwiseMatchFinder.o .libs/ProgressiveAligner.o .libs/SuperInterval.o .libs/GreedyBreakpointElimination.o .libs/algebras.o .libs/homology.o .libs/homologymain.o .libs/asyncio.o .libs/alinuxaio.o .libs/aPOSIXaio.o .libs/alibc.o .libs/awin32aio.o .libs/buffer.o .libs/util.o .libs/sorting.o .libs/dmsort.o .libs/timing.o .libs/sml.o -lGenome -lMUSCLE -lboost_filesystem -lboost_iostreams -lboost_system -lrt -lpthread -L/usr/lib/gcc/powerpc64le-linux-gnu/10 -L/usr/lib/gcc/powerpc64le-linux-gnu/10/../../../powerpc64le-linux-gnu -L/usr/lib/gcc/powerpc64le-linux-gnu/10/../../../../lib -L/lib/powerpc64le-linux-gnu -L/lib/../lib -L/usr/lib/powerpc64le-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/powerpc64le-linux-gnu/10/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/powerpc64le-linux-gnu/10/crtendS.o /usr/lib/gcc/powerpc64le-linux-gnu/10/../../../powerpc64le-linux-gnu/crtn.o -O2 -g -O3 -fstack-protector-strong -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,libMems.so.1 -o .libs/libMems.so.1.0.0 libtool: link: (cd ".libs" && rm -f "libMems.so.1" && ln -s "libMems.so.1.0.0" "libMems.so.1") libtool: link: (cd ".libs" && rm -f "libMems.so" && ln -s "libMems.so.1.0.0" "libMems.so") libtool: link: ar cr .libs/libMems.a RepeatHash.o DNAFileSML.o MatchFinder.o DNAMemorySML.o MemorySML.o SortedMerList.o FileSML.o MemHash.o MatchHashEntry.o Interval.o IntervalList.o twister.o gnAlignedSequences.o MatchList.o Aligner.o Islands.o MaskedMemHash.o GappedAlignment.o MuscleInterface.o PhyloTree.o RepeatMatchList.o RepeatMatch.o Backbone.o PairwiseMatchFinder.o ProgressiveAligner.o SuperInterval.o GreedyBreakpointElimination.o algebras.o homology.o homologymain.o asyncio.o alinuxaio.o aPOSIXaio.o alibc.o awin32aio.o buffer.o util.o sorting.o dmsort.o timing.o sml.o libtool: link: ranlib .libs/libMems.a libtool: link: ( cd ".libs" && rm -f "libMems.la" && ln -s "../libMems.la" "libMems.la" ) make[3]: Leaving directory '/<>/libmems-1.6.0+4725/libMems' make[3]: Entering directory '/<>/libmems-1.6.0+4725' make[3]: Leaving directory '/<>/libmems-1.6.0+4725' make[2]: Leaving directory '/<>/libmems-1.6.0+4725' make[1]: Leaving directory '/<>/libmems-1.6.0+4725' dh_auto_test -a make -j4 check VERBOSE=1 make[1]: Entering directory '/<>/libmems-1.6.0+4725' Making check in libMems make[2]: Entering directory '/<>/libmems-1.6.0+4725/libMems' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/libmems-1.6.0+4725/libMems' make[2]: Entering directory '/<>/libmems-1.6.0+4725' make[2]: Leaving directory '/<>/libmems-1.6.0+4725' make[1]: Leaving directory '/<>/libmems-1.6.0+4725' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a make -j1 install DESTDIR=/<>/libmems-1.6.0\+4725/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>/libmems-1.6.0+4725' Making install in libMems make[2]: Entering directory '/<>/libmems-1.6.0+4725/libMems' make[3]: Entering directory '/<>/libmems-1.6.0+4725/libMems' /bin/mkdir -p '/<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu' /bin/bash ../libtool --mode=install /usr/bin/install -c libMems.la '/<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu' libtool: install: /usr/bin/install -c .libs/libMems.so.1.0.0 /<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu/libMems.so.1.0.0 libtool: install: (cd /<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu && { ln -s -f libMems.so.1.0.0 libMems.so.1 || { rm -f libMems.so.1 && ln -s libMems.so.1.0.0 libMems.so.1; }; }) libtool: install: (cd /<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu && { ln -s -f libMems.so.1.0.0 libMems.so || { rm -f libMems.so && ln -s libMems.so.1.0.0 libMems.so; }; }) libtool: install: /usr/bin/install -c .libs/libMems.lai /<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu/libMems.la libtool: install: /usr/bin/install -c .libs/libMems.a /<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu/libMems.a libtool: install: chmod 644 /<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu/libMems.a libtool: install: ranlib /<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu/libMems.a libtool: warning: remember to run 'libtool --finish /usr/lib/powerpc64le-linux-gnu' /bin/mkdir -p '/<>/libmems-1.6.0+4725/debian/tmp/usr/include/libMems/dmSML' /usr/bin/install -c -m 644 dmSML/asyncio.h dmSML/alinuxaio.h dmSML/aPOSIXaio.h dmSML/alibc.h dmSML/awin32aio.h dmSML/buffer.h dmSML/util.h dmSML/sorting.h dmSML/dmsort.h dmSML/timing.h dmSML/sml.h '/<>/libmems-1.6.0+4725/debian/tmp/usr/include/libMems/dmSML' /bin/mkdir -p '/<>/libmems-1.6.0+4725/debian/tmp/usr/include/libMems/HomologyHMM' /usr/bin/install -c -m 644 HomologyHMM/homology.h HomologyHMM/dptables.h HomologyHMM/algebras.h HomologyHMM/parameters.h '/<>/libmems-1.6.0+4725/debian/tmp/usr/include/libMems/HomologyHMM' /bin/mkdir -p '/<>/libmems-1.6.0+4725/debian/tmp/usr/include/libMems' /usr/bin/install -c -m 644 RepeatHash.h MatchHashEntry.h DNAFileSML.h MemorySML.h MatchProjectionAdapter.h DNAMemorySML.h MatchFinder.h SortedMerList.h IntervalList.h FileSML.h gnAlignedSequences.h Interval.h MemHash.h AbstractMatch.h SlotAllocator.h Aligner.h Match.h MatchList.h Matrix.h NumericMatrix.h Islands.h MaskedMemHash.h SeedMasks.h GappedAlignment.h MuscleInterface.h GappedAligner.h PhyloTree.h SparseAbstractMatch.h DenseAbstractMatch.h RepeatMatch.h UngappedLocalAlignment.h AbstractGappedAlignment.h CompactGappedAlignment.h HybridAbstractMatch.h twister.h SubstitutionMatrix.h RepeatMatchList.h Backbone.h ProgressiveAligner.h PairwiseMatchAdapter.h '/<>/libmems-1.6.0+4725/debian/tmp/usr/include/libMems' /usr/bin/install -c -m 644 PairwiseMatchFinder.h SeedOccurrenceList.h TreeUtilities.h SuperInterval.h GreedyBreakpointElimination.h LCB.h DistanceMatrix.h Scoring.h configuration.h Memory.h Files.h gnRAWSequence.h '/<>/libmems-1.6.0+4725/debian/tmp/usr/include/libMems' make[3]: Leaving directory '/<>/libmems-1.6.0+4725/libMems' make[2]: Leaving directory '/<>/libmems-1.6.0+4725/libMems' make[2]: Entering directory '/<>/libmems-1.6.0+4725' make[3]: Entering directory '/<>/libmems-1.6.0+4725' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 libMems.pc '/<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu/pkgconfig' make[3]: Leaving directory '/<>/libmems-1.6.0+4725' make[2]: Leaving directory '/<>/libmems-1.6.0+4725' make[1]: Leaving directory '/<>/libmems-1.6.0+4725' debian/rules override_dh_install make[1]: Entering directory '/<>/libmems-1.6.0+4725' dh_install d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --override s/libGenome0-dev/libgenome-dev/ \ --override s/libMUSCLE1-dev/libmuscle-dev/ \ --movedev debian/tmp/usr/include usr \ --movedev "debian/tmp/usr/lib/*/pkgconfig/*.pc" usr/lib/powerpc64le-linux-gnu/pkgconfig \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility --> libboost-filesystem1.74-dev package exists. --> libboost-iostreams1.74-dev package exists. --> libgenome-dev package exists. --> libmuscle-dev package exists. set -e install -d -m 755 debian/libmems-dev/usr/lib/powerpc64le-linux-gnu install -d -m 755 debian/libmems1/usr/lib/powerpc64le-linux-gnu mv debian/tmp/usr/lib/powerpc64le-linux-gnu/libMems.a debian/libmems-dev/usr/lib/powerpc64le-linux-gnu mv debian/tmp/usr/lib/powerpc64le-linux-gnu/libMems.so debian/libmems-dev/usr/lib/powerpc64le-linux-gnu mv /<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu/libMems.so.1 debian/libmems1/usr/lib/powerpc64le-linux-gnu mv /<>/libmems-1.6.0+4725/debian/tmp/usr/lib/powerpc64le-linux-gnu/libMems.so.1.0.0 debian/libmems1/usr/lib/powerpc64le-linux-gnu PKGDEV=libmems-dev PKGSHL=libmems1 install -d -m 755 debian/libmems-dev/usr mv debian/tmp/usr/include debian/libmems-dev/usr install -d -m 755 debian/libmems-dev/usr/lib/powerpc64le-linux-gnu/pkgconfig mv debian/tmp/usr/lib/*/pkgconfig/*.pc debian/libmems-dev/usr/lib/powerpc64le-linux-gnu/pkgconfig find debian -name "lib*.la" -delete make[1]: Leaving directory '/<>/libmems-1.6.0+4725' dh_installdocs -a dh_installchangelogs -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a -a dh_strip -a -a dh_makeshlibs -a -a dh_shlibdeps -a -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 146 INFO: pkgstriptranslations version 146 INFO: pkgstriptranslations version 146 pkgstriptranslations: processing libmems-dev (in debian/libmems-dev); do_strip: , oemstrip: pkgstriptranslations: processing libmems1 (in debian/libmems1); do_strip: , oemstrip: pkgstriptranslations: processing libmems1-dbgsym (in debian/.debhelper/libmems1/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libmems-dev/DEBIAN/control, package libmems-dev, directory debian/libmems-dev Searching for duplicated docs in dependency libmems1... pkgstripfiles: processing control file: debian/.debhelper/libmems1/dbgsym-root/DEBIAN/control, package libmems1-dbgsym, directory debian/.debhelper/libmems1/dbgsym-root dpkg-deb: building package 'libmems1-dbgsym' in 'debian/.debhelper/scratch-space/build-libmems1/libmems1-dbgsym_1.6.0+4725-9build1_ppc64el.deb'. symlinking changelog.Debian.gz in libmems-dev to file in libmems1 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libmems-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libmems-dev' in '../libmems-dev_1.6.0+4725-9build1_ppc64el.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libmems1/DEBIAN/control, package libmems1, directory debian/libmems1 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libmems1 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libmems1' in '../libmems1_1.6.0+4725-9build1_ppc64el.deb'. Renaming libmems1-dbgsym_1.6.0+4725-9build1_ppc64el.deb to libmems1-dbgsym_1.6.0+4725-9build1_ppc64el.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../libmems_1.6.0+4725-9build1_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 2020-12-12T13:14:31Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ libmems_1.6.0+4725-9build1_ppc64el.changes: ------------------------------------------- Format: 1.8 Date: Sat, 12 Dec 2020 13:07:47 +0100 Source: libmems Binary: libmems-dev libmems1 Architecture: ppc64el Version: 1.6.0+4725-9build1 Distribution: hirsute-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Matthias Klose Description: libmems-dev - development library to support DNA string matching and comparativ libmems1 - library to support DNA string matching and comparative genomics Changes: libmems (1.6.0+4725-9build1) hirsute; urgency=medium . * No-change rebuild for boost soname change. 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d3d9b0abe3bbb9fef727676eb2ff6597ffa55700 11923152 libmems1-dbgsym_1.6.0+4725-9build1_ppc64el.ddeb 8d36dc3be5fc3b5da1c4fff7e7f7867f5dba680d 807848 libmems1_1.6.0+4725-9build1_ppc64el.deb Checksums-Sha256: 2f6f7a5a54c454f31a97c260c28c024804a8bf26b749ffec3b03a41c6b34c88c 1202360 libmems-dev_1.6.0+4725-9build1_ppc64el.deb 3c050892dc0f2264124879031ba6366a5aca2f2a895c02ead5b74770f764a800 11923152 libmems1-dbgsym_1.6.0+4725-9build1_ppc64el.ddeb 168aa170f5b7ba292f59beef4124c19f4b001fbe650fee404fbefe5877253963 807848 libmems1_1.6.0+4725-9build1_ppc64el.deb Build-Origin: Ubuntu Build-Architecture: ppc64el Build-Date: Sat, 12 Dec 2020 13:14:30 +0000 Build-Path: /<>/libmems-1.6.0+4725 Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: adduser (= 3.118ubuntu4), apt (= 2.1.13), autoconf (= 2.69-11.1), automake (= 1:1.16.3-1ubuntu1), autopoint (= 0.19.8.1-10build1), autotools-dev (= 20180224.1), base-files (= 11ubuntu16), base-passwd (= 3.5.48), bash (= 5.1-1ubuntu1), binutils (= 2.35.50.20201210-0ubuntu2), binutils-common (= 2.35.50.20201210-0ubuntu2), binutils-powerpc64le-linux-gnu (= 2.35.50.20201210-0ubuntu2), bsdextrautils (= 2.36.1-1ubuntu2), bsdutils (= 1:2.36.1-1ubuntu2), build-essential (= 12.8ubuntu3), bzip2 (= 1.0.8-4ubuntu2), coreutils (= 8.32-4ubuntu2), cpp (= 4:10.2.0-1ubuntu1), cpp-10 (= 10.2.1-1ubuntu1), d-shlibs (= 0.96), dash (= 0.5.11+git20200708+dd9ef66+really0.5.10.2-0ubuntu1), debconf (= 1.5.74), debhelper (= 13.3ubuntu1), debianutils (= 4.11.2), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.9.0-1), diffutils (= 1:3.7-3ubuntu1), dpkg (= 1.20.5ubuntu3), dpkg-dev (= 1.20.5ubuntu3), dwz (= 0.13+20201015-2), file (= 1:5.39-3), findutils (= 4.7.0-1ubuntu2), g++ (= 4:10.2.0-1ubuntu1), g++-10 (= 10.2.1-1ubuntu1), gcc (= 4:10.2.0-1ubuntu1), gcc-10 (= 10.2.1-1ubuntu1), gcc-10-base (= 10.2.1-1ubuntu1), gettext (= 0.19.8.1-10build1), gettext-base (= 0.19.8.1-10build1), gpgv (= 2.2.20-1ubuntu1), grep (= 3.6-1), groff-base (= 1.22.4-5), gzip (= 1.10-2ubuntu1), hostname (= 3.23), icu-devtools (= 67.1-5), init-system-helpers (= 1.59), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-8), libapt-pkg6.0 (= 2.1.13), libarchive-zip-perl (= 1.68-1), libasan6 (= 10.2.1-1ubuntu1), libatomic1 (= 10.2.1-1ubuntu1), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-3ubuntu3), libaudit1 (= 1:2.8.5-3ubuntu3), libbinutils (= 2.35.50.20201210-0ubuntu2), libblkid1 (= 2.36.1-1ubuntu2), libboost-filesystem-dev (= 1.74.0.2ubuntu2), libboost-filesystem1.74-dev (= 1.74.0-3ubuntu1), libboost-filesystem1.74.0 (= 1.74.0-3ubuntu1), libboost-iostreams-dev (= 1.74.0.2ubuntu2), libboost-iostreams1.74-dev (= 1.74.0-3ubuntu1), libboost-iostreams1.74.0 (= 1.74.0-3ubuntu1), libboost-program-options-dev (= 1.74.0.2ubuntu2), libboost-program-options1.74-dev (= 1.74.0-3ubuntu1), libboost-program-options1.74.0 (= 1.74.0-3ubuntu1), libboost-regex1.74-dev (= 1.74.0-3ubuntu1), libboost-regex1.74.0 (= 1.74.0-3ubuntu1), libboost-system1.74-dev (= 1.74.0-3ubuntu1), libboost-system1.74.0 (= 1.74.0-3ubuntu1), libboost1.74-dev (= 1.74.0-3ubuntu1), libbz2-1.0 (= 1.0.8-4ubuntu2), libc-bin (= 2.32-0ubuntu5), libc-dev-bin (= 2.32-0ubuntu5), libc6 (= 2.32-0ubuntu5), libc6-dev (= 2.32-0ubuntu5), libcap-ng0 (= 0.7.9-2.2build1), libcc1-0 (= 10.2.1-1ubuntu1), libcom-err2 (= 1.45.6-1ubuntu1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.17-1ubuntu1), libcrypt1 (= 1:4.4.17-1ubuntu1), libctf-nobfd0 (= 2.35.50.20201210-0ubuntu2), libctf0 (= 2.35.50.20201210-0ubuntu2), libdb5.3 (= 5.3.28+dfsg1-0.6ubuntu3), libdebconfclient0 (= 0.255ubuntu1), libdebhelper-perl (= 13.3ubuntu1), libdpkg-perl (= 1.20.5ubuntu3), libelf1 (= 0.182-1), libffi8ubuntu1 (= 3.4~20200819gead65ca871-0ubuntu3), libfile-stripnondeterminism-perl (= 1.9.0-1), libgcc-10-dev (= 10.2.1-1ubuntu1), libgcc-s1 (= 10.2.1-1ubuntu1), libgcrypt20 (= 1.8.7-2ubuntu1), libgdbm-compat4 (= 1.18.1-5.1), libgdbm6 (= 1.18.1-5.1), libgenome-dev (= 1.3.11+svn20110227.4616-3), libgenome0 (= 1.3.11+svn20110227.4616-3), libglib2.0-0 (= 2.66.3-2), libgmp10 (= 2:6.2.0+dfsg-6ubuntu1), libgnutls30 (= 3.6.15-4ubuntu2), libgomp1 (= 10.2.1-1ubuntu1), libgpg-error0 (= 1.38-2), libgssapi-krb5-2 (= 1.17-10ubuntu1), libhogweed6 (= 3.6-2), libicu-dev (= 67.1-5), libicu67 (= 67.1-5), libidn2-0 (= 2.3.0-4), libisl23 (= 0.23-1), libitm1 (= 10.2.1-1ubuntu1), libk5crypto3 (= 1.17-10ubuntu1), libkeyutils1 (= 1.6.1-2ubuntu1), libkrb5-3 (= 1.17-10ubuntu1), libkrb5support0 (= 1.17-10ubuntu1), liblsan0 (= 10.2.1-1ubuntu1), liblz4-1 (= 1.9.3-0ubuntu1), liblzma5 (= 5.2.4-1ubuntu1), libmagic-mgc (= 1:5.39-3), libmagic1 (= 1:5.39-3), libmount1 (= 2.36.1-1ubuntu2), libmpc3 (= 1.2.0-1), libmpfr6 (= 4.1.0-3), libmuscle-dev (= 3.7+4565-7), libmuscle1 (= 3.7+4565-7), libnettle8 (= 3.6-2), libnsl-dev (= 1.3.0-0ubuntu3), libnsl2 (= 1.3.0-0ubuntu3), libp11-kit0 (= 0.23.21-2build1), libpam-modules (= 1.3.1-5ubuntu6), libpam-modules-bin (= 1.3.1-5ubuntu6), libpam-runtime (= 1.3.1-5ubuntu6), libpam0g (= 1.3.1-5ubuntu6), libpcre2-8-0 (= 10.35-2ubuntu1), libpcre3 (= 2:8.39-13), libperl5.32 (= 5.32.0-5), libpipeline1 (= 1.5.3-1), libquadmath0 (= 10.2.1-1ubuntu1), libseccomp2 (= 2.4.3-1ubuntu6), libselinux1 (= 3.1-2build2), libsemanage-common (= 3.1-1build2), libsemanage1 (= 3.1-1build2), libsepol1 (= 3.1-1), libsigsegv2 (= 2.12-2build1), libsmartcols1 (= 2.36.1-1ubuntu2), libssl1.1 (= 1.1.1f-1ubuntu5), libstdc++-10-dev (= 10.2.1-1ubuntu1), libstdc++6 (= 10.2.1-1ubuntu1), libsub-override-perl (= 0.09-2), libsystemd0 (= 246.6-5ubuntu1), libtasn1-6 (= 4.16.0-2), libtinfo6 (= 6.2+20201114-1), libtirpc-common (= 1.2.6-3), libtirpc-dev (= 1.2.6-3), libtirpc3 (= 1.2.6-3), libtool (= 2.4.6-14), libtsan0 (= 10.2.1-1ubuntu1), libubsan1 (= 10.2.1-1ubuntu1), libuchardet0 (= 0.0.7-1), libudev1 (= 246.6-5ubuntu1), libunistring2 (= 0.9.10-4), libuuid1 (= 2.36.1-1ubuntu2), libxml2 (= 2.9.10+dfsg-6.3build1), libzstd1 (= 1.4.5+dfsg-4), linux-libc-dev (= 5.8.0-32.34+21.04.1), login (= 1:4.8.1-1ubuntu7), lsb-base (= 11.1.0ubuntu2), m4 (= 1.4.18-4), make (= 4.3-4ubuntu1), man-db (= 2.9.3-2), mawk (= 1.3.4.20200120-2), ncurses-base (= 6.2+20201114-1), ncurses-bin (= 6.2+20201114-1), passwd (= 1:4.8.1-1ubuntu7), patch (= 2.7.6-6), perl (= 5.32.0-5), perl-base (= 5.32.0-5), perl-modules-5.32 (= 5.32.0-5), pkg-config (= 0.29.2-1ubuntu1), po-debconf (= 1.0.21), rpcsvc-proto (= 1.4.2-0ubuntu4), sed (= 4.7-1ubuntu1), sensible-utils (= 0.0.13), sysvinit-utils (= 2.96-5ubuntu1), tar (= 1.32+dfsg-1), ubuntu-keyring (= 2020.06.17.1), util-linux (= 2.36.1-1ubuntu2), xz-utils (= 5.2.4-1ubuntu1), zlib1g (= 1:1.2.11.dfsg-2ubuntu4) Environment: DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1607774867" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ libmems-dev_1.6.0+4725-9build1_ppc64el.deb ------------------------------------------ new Debian package, version 2.0. size 1202360 bytes: control archive=2924 bytes. 1277 bytes, 24 lines control 4938 bytes, 70 lines md5sums Package: libmems-dev Source: libmems Version: 1.6.0+4725-9build1 Architecture: ppc64el Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 7940 Depends: libmems1 (= 1.6.0+4725-9build1), libboost-filesystem1.74-dev, libboost-iostreams1.74-dev, libgenome-dev, libmuscle-dev Provides: libmems-1.6-dev Section: libdevel Priority: optional Homepage: http://sourceforge.net/p/mauve/code/HEAD/tree/libMems/trunk/ Description: development library to support DNA string matching and comparative genomics libMems is a freely available software development library to support DNA string matching and comparative genomics. Among other things, libMems implements an algorithm to perform approximate multi-MUM and multi-MEM identification. The algorithm uses spaced seed patterns in conjunction with a seed-and-extend style hashing method to identify matches. The method is efficient, requiring a maximum of only 16 bytes per base of the largest input sequence, and this data can be stored externally (i.e. on disk) to further reduce memory requirements. . This is the development package containing the statically linked library and the header files. drwxr-xr-x root/root 0 2020-12-12 12:07 ./ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/include/ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/include/libMems/ -rw-r--r-- root/root 3614 2020-12-12 12:07 ./usr/include/libMems/AbstractGappedAlignment.h -rw-r--r-- root/root 13029 2020-12-12 12:07 ./usr/include/libMems/AbstractMatch.h -rw-r--r-- root/root 11670 2020-12-12 12:07 ./usr/include/libMems/Aligner.h -rw-r--r-- root/root 8161 2020-12-12 12:07 ./usr/include/libMems/Backbone.h -rw-r--r-- root/root 26662 2020-12-12 12:07 ./usr/include/libMems/CompactGappedAlignment.h -rw-r--r-- root/root 2075 2020-12-12 12:07 ./usr/include/libMems/DNAFileSML.h -rw-r--r-- root/root 1905 2020-12-12 12:07 ./usr/include/libMems/DNAMemorySML.h -rw-r--r-- root/root 5031 2020-12-12 12:07 ./usr/include/libMems/DenseAbstractMatch.h -rw-r--r-- root/root 10891 2020-12-12 12:07 ./usr/include/libMems/DistanceMatrix.h -rw-r--r-- root/root 4590 2020-12-12 12:07 ./usr/include/libMems/FileSML.h -rw-r--r-- root/root 5777 2020-12-12 12:07 ./usr/include/libMems/Files.h -rw-r--r-- root/root 2513 2020-12-12 12:07 ./usr/include/libMems/GappedAligner.h -rw-r--r-- root/root 8478 2020-12-12 12:07 ./usr/include/libMems/GappedAlignment.h -rw-r--r-- root/root 29239 2020-12-12 12:07 ./usr/include/libMems/GreedyBreakpointElimination.h drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/include/libMems/HomologyHMM/ -rw-r--r-- root/root 20861 2020-12-12 12:07 ./usr/include/libMems/HomologyHMM/algebras.h -rw-r--r-- root/root 13161 2020-12-12 12:07 ./usr/include/libMems/HomologyHMM/dptables.h -rw-r--r-- root/root 7163 2020-12-12 12:07 ./usr/include/libMems/HomologyHMM/homology.h -rw-r--r-- root/root 7759 2020-12-12 12:07 ./usr/include/libMems/HomologyHMM/parameters.h -rw-r--r-- root/root 9786 2020-12-12 12:07 ./usr/include/libMems/HybridAbstractMatch.h -rw-r--r-- root/root 30049 2020-12-12 12:07 ./usr/include/libMems/Interval.h -rw-r--r-- root/root 27519 2020-12-12 12:07 ./usr/include/libMems/IntervalList.h -rw-r--r-- root/root 13712 2020-12-12 12:07 ./usr/include/libMems/Islands.h -rw-r--r-- root/root 1825 2020-12-12 12:07 ./usr/include/libMems/LCB.h -rw-r--r-- root/root 1416 2020-12-12 12:07 ./usr/include/libMems/MaskedMemHash.h -rw-r--r-- root/root 926 2020-12-12 12:07 ./usr/include/libMems/Match.h -rw-r--r-- root/root 13449 2020-12-12 12:07 ./usr/include/libMems/MatchFinder.h -rw-r--r-- root/root 4728 2020-12-12 12:07 ./usr/include/libMems/MatchHashEntry.h -rw-r--r-- root/root 22769 2020-12-12 12:07 ./usr/include/libMems/MatchList.h -rw-r--r-- root/root 4377 2020-12-12 12:07 ./usr/include/libMems/MatchProjectionAdapter.h -rw-r--r-- root/root 4016 2020-12-12 12:07 ./usr/include/libMems/Matrix.h -rw-r--r-- root/root 7182 2020-12-12 12:07 ./usr/include/libMems/MemHash.h -rw-r--r-- root/root 1543 2020-12-12 12:07 ./usr/include/libMems/Memory.h -rw-r--r-- root/root 1988 2020-12-12 12:07 ./usr/include/libMems/MemorySML.h -rw-r--r-- root/root 5235 2020-12-12 12:07 ./usr/include/libMems/MuscleInterface.h -rw-r--r-- root/root 4605 2020-12-12 12:07 ./usr/include/libMems/NumericMatrix.h -rw-r--r-- root/root 3674 2020-12-12 12:07 ./usr/include/libMems/PairwiseMatchAdapter.h -rw-r--r-- root/root 1013 2020-12-12 12:07 ./usr/include/libMems/PairwiseMatchFinder.h -rw-r--r-- root/root 10333 2020-12-12 12:07 ./usr/include/libMems/PhyloTree.h -rw-r--r-- root/root 24671 2020-12-12 12:07 ./usr/include/libMems/ProgressiveAligner.h -rw-r--r-- root/root 1428 2020-12-12 12:07 ./usr/include/libMems/RepeatHash.h -rw-r--r-- root/root 1453 2020-12-12 12:07 ./usr/include/libMems/RepeatMatch.h -rw-r--r-- root/root 2195 2020-12-12 12:07 ./usr/include/libMems/RepeatMatchList.h -rw-r--r-- root/root 10167 2020-12-12 12:07 ./usr/include/libMems/Scoring.h -rw-r--r-- root/root 9694 2020-12-12 12:07 ./usr/include/libMems/SeedMasks.h -rw-r--r-- root/root 2483 2020-12-12 12:07 ./usr/include/libMems/SeedOccurrenceList.h -rw-r--r-- root/root 4383 2020-12-12 12:07 ./usr/include/libMems/SlotAllocator.h -rw-r--r-- root/root 12250 2020-12-12 12:07 ./usr/include/libMems/SortedMerList.h -rw-r--r-- root/root 7625 2020-12-12 12:07 ./usr/include/libMems/SparseAbstractMatch.h -rw-r--r-- root/root 3100 2020-12-12 12:07 ./usr/include/libMems/SubstitutionMatrix.h -rw-r--r-- root/root 1879 2020-12-12 12:07 ./usr/include/libMems/SuperInterval.h -rw-r--r-- root/root 4590 2020-12-12 12:07 ./usr/include/libMems/TreeUtilities.h -rw-r--r-- root/root 7254 2020-12-12 12:07 ./usr/include/libMems/UngappedLocalAlignment.h -rw-r--r-- root/root 1214 2020-12-12 12:07 ./usr/include/libMems/configuration.h drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/include/libMems/dmSML/ -rw-r--r-- root/root 381 2020-12-12 12:07 ./usr/include/libMems/dmSML/aPOSIXaio.h -rw-r--r-- root/root 328 2020-12-12 12:07 ./usr/include/libMems/dmSML/alibc.h -rw-r--r-- root/root 387 2020-12-12 12:07 ./usr/include/libMems/dmSML/alinuxaio.h -rw-r--r-- root/root 4402 2020-12-12 12:07 ./usr/include/libMems/dmSML/asyncio.h -rw-r--r-- root/root 377 2020-12-12 12:07 ./usr/include/libMems/dmSML/awin32aio.h -rw-r--r-- root/root 7161 2020-12-12 12:07 ./usr/include/libMems/dmSML/buffer.h -rw-r--r-- root/root 4979 2020-12-12 12:07 ./usr/include/libMems/dmSML/dmsort.h -rw-r--r-- root/root 2197 2020-12-12 12:07 ./usr/include/libMems/dmSML/sml.h -rw-r--r-- root/root 2438 2020-12-12 12:07 ./usr/include/libMems/dmSML/sorting.h -rw-r--r-- root/root 393 2020-12-12 12:07 ./usr/include/libMems/dmSML/timing.h -rw-r--r-- root/root 731 2020-12-12 12:07 ./usr/include/libMems/dmSML/util.h -rw-r--r-- root/root 13038 2020-12-12 12:07 ./usr/include/libMems/gnAlignedSequences.h -rw-r--r-- root/root 7484 2020-12-12 12:07 ./usr/include/libMems/gnRAWSequence.h -rw-r--r-- root/root 309 2020-12-12 12:07 ./usr/include/libMems/twister.h drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/lib/ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/lib/powerpc64le-linux-gnu/ -rw-r--r-- root/root 7582734 2020-12-12 12:07 ./usr/lib/powerpc64le-linux-gnu/libMems.a lrwxrwxrwx root/root 0 2020-12-12 12:07 ./usr/lib/powerpc64le-linux-gnu/libMems.so -> libMems.so.1.0.0 drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/lib/powerpc64le-linux-gnu/pkgconfig/ -rw-r--r-- root/root 395 2020-12-12 12:07 ./usr/lib/powerpc64le-linux-gnu/pkgconfig/libMems.pc drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/share/ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/share/doc/libmems-dev/ lrwxrwxrwx root/root 0 2020-12-12 12:07 ./usr/share/doc/libmems-dev/changelog.Debian.gz -> ../libmems1/changelog.Debian.gz -rw-r--r-- root/root 2464 2020-11-17 08:12 ./usr/share/doc/libmems-dev/copyright libmems1_1.6.0+4725-9build1_ppc64el.deb --------------------------------------- new Debian package, version 2.0. size 807848 bytes: control archive=1256 bytes. 1359 bytes, 25 lines control 225 bytes, 3 lines md5sums 35 bytes, 1 lines shlibs 72 bytes, 2 lines triggers Package: libmems1 Source: libmems Version: 1.6.0+4725-9build1 Architecture: ppc64el Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 2328 Depends: libboost-filesystem1.74.0 (>= 1.74.0), libboost-iostreams1.74.0 (>= 1.74.0), libc6 (>= 2.29), libgcc-s1 (>= 3.0), libgenome0 (>= 1.3.11+svn20110227.4616), libmuscle1 (>= 3.7+4565), libstdc++6 (>= 9) Conflicts: libmems-1.6-1, libmems-1.6-1v5 Replaces: libmems-1.6-1, libmems-1.6-1v5 Section: libs Priority: optional Multi-Arch: same Homepage: http://sourceforge.net/p/mauve/code/HEAD/tree/libMems/trunk/ Description: library to support DNA string matching and comparative genomics libMems is a freely available software development library to support DNA string matching and comparative genomics. Among other things, libMems implements an algorithm to perform approximate multi-MUM and multi-MEM identification. The algorithm uses spaced seed patterns in conjunction with a seed-and-extend style hashing method to identify matches. The method is efficient, requiring a maximum of only 16 bytes per base of the largest input sequence, and this data can be stored externally (i.e. on disk) to further reduce memory requirements. . This package contains the dynamic library. drwxr-xr-x root/root 0 2020-12-12 12:07 ./ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/lib/ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/lib/powerpc64le-linux-gnu/ lrwxrwxrwx root/root 0 2020-12-12 12:07 ./usr/lib/powerpc64le-linux-gnu/libMems.so.1 -> libMems.so.1.0.0 -rw-r--r-- root/root 2366496 2020-12-12 12:07 ./usr/lib/powerpc64le-linux-gnu/libMems.so.1.0.0 drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/share/ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-12-12 12:07 ./usr/share/doc/libmems1/ -rw-r--r-- root/root 1139 2020-12-12 12:07 ./usr/share/doc/libmems1/changelog.Debian.gz -rw-r--r-- root/root 2464 2020-11-17 08:12 ./usr/share/doc/libmems1/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: ppc64el Build Type: any Build-Space: n/a Build-Time: 267 Distribution: hirsute-proposed Host Architecture: ppc64el Install-Time: 16 Job: libmems_1.6.0+4725-9build1.dsc Machine Architecture: ppc64el Package: libmems Package-Time: 284 Source-Version: 1.6.0+4725-9build1 Space: n/a Status: successful Version: 1.6.0+4725-9build1 -------------------------------------------------------------------------------- Finished at 2020-12-12T13:14:31Z Build needed 00:04:44, no disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=hirsute --arch=ppc64el PACKAGEBUILD-20400824 Scanning for processes to kill in build PACKAGEBUILD-20400824