https://launchpad.net/ubuntu/+source/eigensoft/7.2.1+dfsg-3build1/+build/22599459 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-ppc64el-001 4.15.0-163-generic #171-Ubuntu SMP Fri Nov 5 11:53:41 UTC 2021 ppc64le Buildd toolchain package versions: launchpad-buildd_204~508~ubuntu18.04.1 python3-lpbuildd_204~508~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_1:2.17.1-1ubuntu0.9 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... 7 Dec 17:34:35 ntpdate[2236]: adjust time server 10.211.37.1 offset 0.005349 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=jammy --arch=ppc64el PACKAGEBUILD-22599459 --image-type chroot /home/buildd/filecache-default/104362a8a1d4d9793492e39ad0c0e733056a927b Creating target for build PACKAGEBUILD-22599459 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=jammy --arch=ppc64el PACKAGEBUILD-22599459 Starting target for build PACKAGEBUILD-22599459 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=jammy --arch=ppc64el PACKAGEBUILD-22599459 'deb http://ftpmaster.internal/ubuntu jammy main universe' 'deb http://ftpmaster.internal/ubuntu jammy-security main universe' 'deb http://ftpmaster.internal/ubuntu jammy-updates main universe' 'deb http://ftpmaster.internal/ubuntu jammy-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-22599459 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=jammy --arch=ppc64el PACKAGEBUILD-22599459 Updating target for build PACKAGEBUILD-22599459 Get:1 http://ftpmaster.internal/ubuntu jammy InRelease [270 kB] Get:2 http://ftpmaster.internal/ubuntu jammy-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu jammy-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu jammy-proposed InRelease [121 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main ppc64el Packages [1356 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main Translation-en [511 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/universe ppc64el Packages [13.0 MB] Get:8 http://ftpmaster.internal/ubuntu jammy/universe Translation-en [5567 kB] Get:9 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el Packages [140 kB] Get:10 http://ftpmaster.internal/ubuntu jammy-proposed/main Translation-en [51.2 kB] Get:11 http://ftpmaster.internal/ubuntu jammy-proposed/universe ppc64el Packages [608 kB] Get:12 http://ftpmaster.internal/ubuntu jammy-proposed/universe Translation-en [312 kB] Fetched 22.1 MB in 4s (4962 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be REMOVED: libsemanage1* The following NEW packages will be installed: libsemanage2 libsepol2 libssl3 The following packages will be upgraded: apt base-files bash binutils binutils-common binutils-powerpc64le-linux-gnu bsdutils bzip2 ca-certificates cpp-11 dash debconf debianutils dpkg dpkg-dev e2fsprogs g++-11 gcc-11 gcc-11-base gpg gpg-agent gpgconf gpgv grep libapparmor1 libapt-pkg6.0 libasan6 libatomic1 libattr1 libbinutils libblkid1 libbz2-1.0 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdpkg-perl libext2fs2 libgcc-11-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libidn2-0 libip4tc2 libisl23 libitm1 libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 liblsan0 libmount1 libmpc3 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libquadmath0 libseccomp2 libselinux1 libsemanage-common libsmartcols1 libsqlite3-0 libss2 libstdc++-11-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtsan0 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev lockfile-progs login logsave lto-disabled-list make mount ncurses-base ncurses-bin openssl passwd pkgbinarymangler sed sensible-utils systemd systemd-sysv systemd-timesyncd tzdata usrmerge util-linux 106 upgraded, 3 newly installed, 1 to remove and 0 not upgraded. Need to get 82.2 MB of archives. After this operation, 330 MB disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu jammy/main ppc64el debconf all 1.5.79 [126 kB] Get:2 http://ftpmaster.internal/ubuntu jammy/main ppc64el libpam0g ppc64el 1.4.0-10ubuntu2 [69.4 kB] Get:3 http://ftpmaster.internal/ubuntu jammy/main ppc64el libcrypt-dev ppc64el 1:4.4.26-1 [142 kB] Get:4 http://ftpmaster.internal/ubuntu jammy/main ppc64el libcrypt1 ppc64el 1:4.4.26-1 [108 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main ppc64el base-files ppc64el 12ubuntu2 [63.4 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main ppc64el debianutils ppc64el 5.5-1ubuntu1 [107 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/main ppc64el bash ppc64el 5.1-5ubuntu1 [933 kB] Get:8 http://ftpmaster.internal/ubuntu jammy/main ppc64el bsdutils ppc64el 1:2.37.2-4ubuntu1 [86.7 kB] Get:9 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgpg-error0 ppc64el 1.42-3 [84.4 kB] Get:10 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgcrypt20 ppc64el 1.9.4-3ubuntu2 [697 kB] Get:11 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el bzip2 ppc64el 1.0.8-5 [37.4 kB] Get:12 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libbz2-1.0 ppc64el 1.0.8-5 [49.5 kB] Get:13 http://ftpmaster.internal/ubuntu jammy/main ppc64el libcc1-0 ppc64el 11.2.0-12ubuntu1 [48.1 kB] Get:14 http://ftpmaster.internal/ubuntu jammy/main ppc64el gcc-11-base ppc64el 11.2.0-12ubuntu1 [20.7 kB] Get:15 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgcc-s1 ppc64el 11.2.0-12ubuntu1 [34.7 kB] Get:16 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgomp1 ppc64el 11.2.0-12ubuntu1 [130 kB] Get:17 http://ftpmaster.internal/ubuntu jammy/main ppc64el libitm1 ppc64el 11.2.0-12ubuntu1 [33.1 kB] Get:18 http://ftpmaster.internal/ubuntu jammy/main ppc64el libatomic1 ppc64el 11.2.0-12ubuntu1 [10.7 kB] Get:19 http://ftpmaster.internal/ubuntu jammy/main ppc64el libasan6 ppc64el 11.2.0-12ubuntu1 [2301 kB] Get:20 http://ftpmaster.internal/ubuntu jammy/main ppc64el liblsan0 ppc64el 11.2.0-12ubuntu1 [997 kB] Get:21 http://ftpmaster.internal/ubuntu jammy/main ppc64el libtsan0 ppc64el 11.2.0-12ubuntu1 [2285 kB] Get:22 http://ftpmaster.internal/ubuntu jammy/main ppc64el libubsan1 ppc64el 11.2.0-12ubuntu1 [947 kB] Get:23 http://ftpmaster.internal/ubuntu jammy/main ppc64el libquadmath0 ppc64el 11.2.0-12ubuntu1 [166 kB] Get:24 http://ftpmaster.internal/ubuntu jammy/main ppc64el g++-11 ppc64el 11.2.0-12ubuntu1 [10.2 MB] Get:25 http://ftpmaster.internal/ubuntu jammy/main ppc64el libstdc++-11-dev ppc64el 11.2.0-12ubuntu1 [2219 kB] Get:26 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgcc-11-dev ppc64el 11.2.0-12ubuntu1 [1490 kB] Get:27 http://ftpmaster.internal/ubuntu jammy/main ppc64el gcc-11 ppc64el 11.2.0-12ubuntu1 [17.7 MB] Get:28 http://ftpmaster.internal/ubuntu jammy/main ppc64el cpp-11 ppc64el 11.2.0-12ubuntu1 [8812 kB] Get:29 http://ftpmaster.internal/ubuntu jammy/main ppc64el libstdc++6 ppc64el 11.2.0-12ubuntu1 [760 kB] Get:30 http://ftpmaster.internal/ubuntu jammy/main ppc64el libisl23 ppc64el 0.24-2 [835 kB] Get:31 http://ftpmaster.internal/ubuntu jammy/main ppc64el libmpc3 ppc64el 1.2.1-1 [52.9 kB] Get:32 http://ftpmaster.internal/ubuntu jammy/main ppc64el libzstd1 ppc64el 1.4.8+dfsg-3 [364 kB] Get:33 http://ftpmaster.internal/ubuntu jammy/main ppc64el libctf0 ppc64el 2.37-10ubuntu1 [109 kB] Get:34 http://ftpmaster.internal/ubuntu jammy/main ppc64el libctf-nobfd0 ppc64el 2.37-10ubuntu1 [108 kB] Get:35 http://ftpmaster.internal/ubuntu jammy/main ppc64el libbinutils ppc64el 2.37-10ubuntu1 [670 kB] Get:36 http://ftpmaster.internal/ubuntu jammy/main ppc64el binutils-common ppc64el 2.37-10ubuntu1 [213 kB] Get:37 http://ftpmaster.internal/ubuntu jammy/main ppc64el binutils ppc64el 2.37-10ubuntu1 [3170 B] Get:38 http://ftpmaster.internal/ubuntu jammy/main ppc64el binutils-powerpc64le-linux-gnu ppc64el 2.37-10ubuntu1 [2430 kB] Get:39 http://ftpmaster.internal/ubuntu jammy/main ppc64el libssl3 ppc64el 3.0.0-1ubuntu1 [2147 kB] Get:40 http://ftpmaster.internal/ubuntu jammy/main ppc64el libblkid1 ppc64el 2.37.2-4ubuntu1 [132 kB] Get:41 http://ftpmaster.internal/ubuntu jammy/main ppc64el libuuid1 ppc64el 2.37.2-4ubuntu1 [27.1 kB] Get:42 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libcryptsetup12 ppc64el 2:2.4.2-1ubuntu3 [304 kB] Get:43 http://ftpmaster.internal/ubuntu jammy/main ppc64el libidn2-0 ppc64el 2.3.2-2 [70.4 kB] Get:44 http://ftpmaster.internal/ubuntu jammy/main ppc64el libp11-kit0 ppc64el 0.24.0-6 [264 kB] Get:45 http://ftpmaster.internal/ubuntu jammy/main ppc64el libtasn1-6 ppc64el 4.18.0-4 [55.8 kB] Get:46 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgnutls30 ppc64el 3.7.2-2ubuntu1 [1021 kB] Get:47 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el systemd-timesyncd ppc64el 249.5-2ubuntu1 [32.1 kB] Get:48 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el systemd-sysv ppc64el 249.5-2ubuntu1 [10.5 kB] Get:49 http://ftpmaster.internal/ubuntu jammy/main ppc64el libapparmor1 ppc64el 3.0.3-0ubuntu4 [44.0 kB] Get:50 http://ftpmaster.internal/ubuntu jammy/main ppc64el libip4tc2 ppc64el 1.8.7-1ubuntu4 [24.0 kB] Get:51 http://ftpmaster.internal/ubuntu jammy/main ppc64el libkmod2 ppc64el 28-1ubuntu5 [59.3 kB] Get:52 http://ftpmaster.internal/ubuntu jammy/main ppc64el libpcre2-8-0 ppc64el 10.39-3 [249 kB] Get:53 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libselinux1 ppc64el 3.3-1build1 [94.4 kB] Get:54 http://ftpmaster.internal/ubuntu jammy/main ppc64el libmount1 ppc64el 2.37.2-4ubuntu1 [148 kB] Get:55 http://ftpmaster.internal/ubuntu jammy/main ppc64el libseccomp2 ppc64el 2.5.2-2ubuntu2 [60.1 kB] Get:56 http://ftpmaster.internal/ubuntu jammy/main ppc64el login ppc64el 1:4.8.1-2ubuntu1 [190 kB] Get:57 http://ftpmaster.internal/ubuntu jammy/main ppc64el util-linux ppc64el 2.37.2-4ubuntu1 [1134 kB] Get:58 http://ftpmaster.internal/ubuntu jammy/main ppc64el mount ppc64el 2.37.2-4ubuntu1 [121 kB] Get:59 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el systemd ppc64el 249.5-2ubuntu1 [5281 kB] Get:60 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libsystemd0 ppc64el 249.5-2ubuntu1 [400 kB] Get:61 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libudev1 ppc64el 249.5-2ubuntu1 [98.3 kB] Get:62 http://ftpmaster.internal/ubuntu jammy/main ppc64el libapt-pkg6.0 ppc64el 2.3.13 [1031 kB] Get:63 http://ftpmaster.internal/ubuntu jammy/main ppc64el dpkg ppc64el 1.20.9ubuntu3 [1323 kB] Get:64 http://ftpmaster.internal/ubuntu jammy/main ppc64el dash ppc64el 0.5.11+git20210903+057cd650a4ed-3 [111 kB] Get:65 http://ftpmaster.internal/ubuntu jammy/main ppc64el grep ppc64el 3.7-1 [167 kB] Get:66 http://ftpmaster.internal/ubuntu jammy/main ppc64el libncurses6 ppc64el 6.3-1 [145 kB] Get:67 http://ftpmaster.internal/ubuntu jammy/main ppc64el libncursesw6 ppc64el 6.3-1 [183 kB] Get:68 http://ftpmaster.internal/ubuntu jammy/main ppc64el libtinfo6 ppc64el 6.3-1 [129 kB] Get:69 http://ftpmaster.internal/ubuntu jammy/main ppc64el ncurses-bin ppc64el 6.3-1 [196 kB] Get:70 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el sed ppc64el 4.8-1 [204 kB] Get:71 http://ftpmaster.internal/ubuntu jammy/main ppc64el ncurses-base all 6.3-1 [19.9 kB] Get:72 http://ftpmaster.internal/ubuntu jammy/main ppc64el gpgv ppc64el 2.2.27-2ubuntu1 [176 kB] Get:73 http://ftpmaster.internal/ubuntu jammy/main ppc64el apt ppc64el 2.3.13 [1435 kB] Get:74 http://ftpmaster.internal/ubuntu jammy/main ppc64el libsepol2 ppc64el 3.3-1 [370 kB] Get:75 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libsemanage-common all 3.3-1build1 [10.0 kB] Get:76 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libsemanage2 ppc64el 3.3-1build1 [113 kB] Get:77 http://ftpmaster.internal/ubuntu jammy/main ppc64el passwd ppc64el 1:4.8.1-2ubuntu1 [792 kB] Get:78 http://ftpmaster.internal/ubuntu jammy/main ppc64el libpam-modules-bin ppc64el 1.4.0-10ubuntu2 [45.0 kB] Get:79 http://ftpmaster.internal/ubuntu jammy/main ppc64el libpam-modules ppc64el 1.4.0-10ubuntu2 [326 kB] Get:80 http://ftpmaster.internal/ubuntu jammy/main ppc64el logsave ppc64el 1.46.4-1ubuntu1 [11.5 kB] Get:81 http://ftpmaster.internal/ubuntu jammy/main ppc64el libext2fs2 ppc64el 1.46.4-1ubuntu1 [255 kB] Get:82 http://ftpmaster.internal/ubuntu jammy/main ppc64el e2fsprogs ppc64el 1.46.4-1ubuntu1 [650 kB] Get:83 http://ftpmaster.internal/ubuntu jammy/main ppc64el libattr1 ppc64el 1:2.5.1-1 [14.3 kB] Get:84 http://ftpmaster.internal/ubuntu jammy/main ppc64el libcom-err2 ppc64el 1.46.4-1ubuntu1 [10.7 kB] Get:85 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libk5crypto3 ppc64el 1.19.2-0ubuntu1 [117 kB] Get:86 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libkrb5support0 ppc64el 1.19.2-0ubuntu1 [37.8 kB] Get:87 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libkrb5-3 ppc64el 1.19.2-0ubuntu1 [436 kB] Get:88 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el libgssapi-krb5-2 ppc64el 1.19.2-0ubuntu1 [184 kB] Get:89 http://ftpmaster.internal/ubuntu jammy/main ppc64el libpam-runtime all 1.4.0-10ubuntu2 [40.2 kB] Get:90 http://ftpmaster.internal/ubuntu jammy/main ppc64el libsmartcols1 ppc64el 2.37.2-4ubuntu1 [63.0 kB] Get:91 http://ftpmaster.internal/ubuntu jammy/main ppc64el libss2 ppc64el 1.46.4-1ubuntu1 [13.7 kB] Get:92 http://ftpmaster.internal/ubuntu jammy/main ppc64el sensible-utils all 0.0.17 [20.1 kB] Get:93 http://ftpmaster.internal/ubuntu jammy/main ppc64el usrmerge all 25ubuntu2 [54.7 kB] Get:94 http://ftpmaster.internal/ubuntu jammy/main ppc64el openssl ppc64el 3.0.0-1ubuntu1 [1191 kB] Get:95 http://ftpmaster.internal/ubuntu jammy/main ppc64el ca-certificates all 20211016 [148 kB] Get:96 http://ftpmaster.internal/ubuntu jammy/main ppc64el libsqlite3-0 ppc64el 3.36.0-2 [744 kB] Get:97 http://ftpmaster.internal/ubuntu jammy/main ppc64el tzdata all 2021e-1ubuntu1 [343 kB] Get:98 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgdbm6 ppc64el 1.22-1 [43.1 kB] Get:99 http://ftpmaster.internal/ubuntu jammy/main ppc64el dpkg-dev all 1.20.9ubuntu3 [933 kB] Get:100 http://ftpmaster.internal/ubuntu jammy/main ppc64el libdpkg-perl all 1.20.9ubuntu3 [235 kB] Get:101 http://ftpmaster.internal/ubuntu jammy/main ppc64el make ppc64el 4.3-4ubuntu2 [211 kB] Get:102 http://ftpmaster.internal/ubuntu jammy/main ppc64el lto-disabled-list all 17 [12.1 kB] Get:103 http://ftpmaster.internal/ubuntu jammy/main ppc64el gpg ppc64el 2.2.27-2ubuntu1 [661 kB] Get:104 http://ftpmaster.internal/ubuntu jammy/main ppc64el gpgconf ppc64el 2.2.27-2ubuntu1 [104 kB] Get:105 http://ftpmaster.internal/ubuntu jammy/main ppc64el gpg-agent ppc64el 2.2.27-2ubuntu1 [247 kB] Get:106 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgdbm-compat4 ppc64el 1.22-1 [6864 B] Get:107 http://ftpmaster.internal/ubuntu jammy-proposed/main ppc64el linux-libc-dev ppc64el 5.15.0-13.13 [1265 kB] Get:108 http://ftpmaster.internal/ubuntu jammy/main ppc64el lockfile-progs ppc64el 0.1.19 [10.2 kB] Get:109 http://ftpmaster.internal/ubuntu jammy/main ppc64el pkgbinarymangler all 149 [32.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 82.2 MB in 2s (36.9 MB/s) (Reading database ... 13185 files and directories currently installed.) Preparing to unpack .../debconf_1.5.79_all.deb ... Unpacking debconf (1.5.79) over (1.5.77) ... Setting up debconf (1.5.79) ... (Reading database ... 13184 files and directories currently installed.) Preparing to unpack .../libpam0g_1.4.0-10ubuntu2_ppc64el.deb ... Unpacking libpam0g:ppc64el (1.4.0-10ubuntu2) over (1.3.1-5ubuntu11) ... Setting up libpam0g:ppc64el (1.4.0-10ubuntu2) ... Checking for services that may need to be restarted...Checking init scripts... Nothing to restart. (Reading database ... 13184 files and directories currently installed.) Preparing to unpack .../libcrypt-dev_1%3a4.4.26-1_ppc64el.deb ... Unpacking libcrypt-dev:ppc64el (1:4.4.26-1) over (1:4.4.18-4ubuntu2) ... Preparing to unpack .../libcrypt1_1%3a4.4.26-1_ppc64el.deb ... Unpacking libcrypt1:ppc64el (1:4.4.26-1) over (1:4.4.18-4ubuntu2) ... Setting up libcrypt1:ppc64el (1:4.4.26-1) ... (Reading database ... 13184 files and directories currently installed.) 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Unpacking bsdutils (1:2.37.2-4ubuntu1) over (1:2.36.1-8ubuntu1) ... Setting up bsdutils (1:2.37.2-4ubuntu1) ... (Reading database ... 13188 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.42-3_ppc64el.deb ... Unpacking libgpg-error0:ppc64el (1.42-3) over (1.38-2build2) ... Setting up libgpg-error0:ppc64el (1.42-3) ... (Reading database ... 13188 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.9.4-3ubuntu2_ppc64el.deb ... Unpacking libgcrypt20:ppc64el (1.9.4-3ubuntu2) over (1.8.7-5ubuntu2) ... Setting up libgcrypt20:ppc64el (1.9.4-3ubuntu2) ... (Reading database ... 13188 files and directories currently installed.) Preparing to unpack .../bzip2_1.0.8-5_ppc64el.deb ... Unpacking bzip2 (1.0.8-5) over (1.0.8-4ubuntu4) ... Preparing to unpack .../libbz2-1.0_1.0.8-5_ppc64el.deb ... Unpacking libbz2-1.0:ppc64el (1.0.8-5) over (1.0.8-4ubuntu4) ... Setting up libbz2-1.0:ppc64el (1.0.8-5) ... 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Unpacking linux-libc-dev:ppc64el (5.15.0-13.13) over (5.13.0-19.19) ... Preparing to unpack .../17-lockfile-progs_0.1.19_ppc64el.deb ... Unpacking lockfile-progs (0.1.19) over (0.1.18build1) ... Preparing to unpack .../18-pkgbinarymangler_149_all.deb ... Unpacking pkgbinarymangler (149) over (148) ... Setting up libip4tc2:ppc64el (1.8.7-1ubuntu4) ... Setting up lto-disabled-list (17) ... Setting up libapparmor1:ppc64el (3.0.3-0ubuntu4) ... Setting up libsqlite3-0:ppc64el (3.36.0-2) ... Setting up binutils-common:ppc64el (2.37-10ubuntu1) ... Setting up linux-libc-dev:ppc64el (5.15.0-13.13) ... Setting up libctf-nobfd0:ppc64el (2.37-10ubuntu1) ... Setting up libgomp1:ppc64el (11.2.0-12ubuntu1) ... Setting up bzip2 (1.0.8-5) ... Setting up libasan6:ppc64el (11.2.0-12ubuntu1) ... Setting up tzdata (2021e-1ubuntu1) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Dec 7 17:35:01 UTC 2021. Universal Time is now: Tue Dec 7 17:35:01 UTC 2021. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up make (4.3-4ubuntu2) ... Setting up libncurses6:ppc64el (6.3-1) ... Setting up libquadmath0:ppc64el (11.2.0-12ubuntu1) ... Setting up libmpc3:ppc64el (1.2.1-1) ... Setting up lockfile-progs (0.1.19) ... Setting up libatomic1:ppc64el (11.2.0-12ubuntu1) ... Setting up usrmerge (25ubuntu2) ... Setting up libss2:ppc64el (1.46.4-1ubuntu1) ... Setting up libncursesw6:ppc64el (6.3-1) ... Setting up libdpkg-perl (1.20.9ubuntu3) ... Setting up logsave (1.46.4-1ubuntu1) ... Setting up libubsan1:ppc64el (11.2.0-12ubuntu1) ... Setting up mount (2.37.2-4ubuntu1) ... Setting up sensible-utils (0.0.17) ... Setting up libcrypt-dev:ppc64el (1:4.4.26-1) ... Setting up gpgconf (2.2.27-2ubuntu1) ... Setting up libcryptsetup12:ppc64el (2:2.4.2-1ubuntu3) ... Setting up libbinutils:ppc64el (2.37-10ubuntu1) ... Setting up libisl23:ppc64el (0.24-2) ... Setting up openssl (3.0.0-1ubuntu1) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up libcc1-0:ppc64el (11.2.0-12ubuntu1) ... Setting up gpg (2.2.27-2ubuntu1) ... Setting up liblsan0:ppc64el (11.2.0-12ubuntu1) ... Setting up libitm1:ppc64el (11.2.0-12ubuntu1) ... Setting up libkmod2:ppc64el (28-1ubuntu5) ... Setting up libgdbm6:ppc64el (1.22-1) ... Setting up libtsan0:ppc64el (11.2.0-12ubuntu1) ... Setting up libctf0:ppc64el (2.37-10ubuntu1) ... Setting up cpp-11 (11.2.0-12ubuntu1) ... Setting up gpg-agent (2.2.27-2ubuntu1) ... Setting up pkgbinarymangler (149) ... Setting up e2fsprogs (1.46.4-1ubuntu1) ... Installing new version of config file /etc/mke2fs.conf ... Setting up systemd (249.5-2ubuntu1) ... Installing new version of config file /etc/systemd/networkd.conf ... Installing new version of config file /etc/systemd/resolved.conf ... Initializing machine ID from random generator. Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 7 added, 8 removed; done. Setting up systemd-timesyncd (249.5-2ubuntu1) ... Setting up libgdbm-compat4:ppc64el (1.22-1) ... Setting up libgcc-11-dev:ppc64el (11.2.0-12ubuntu1) ... Setting up binutils-powerpc64le-linux-gnu (2.37-10ubuntu1) ... Setting up systemd-sysv (249.5-2ubuntu1) ... Setting up binutils (2.37-10ubuntu1) ... Setting up dpkg-dev (1.20.9ubuntu3) ... Setting up libstdc++-11-dev:ppc64el (11.2.0-12ubuntu1) ... Setting up gcc-11 (11.2.0-12ubuntu1) ... Setting up g++-11 (11.2.0-12ubuntu1) ... Processing triggers for libc-bin (2.34-0ubuntu3) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-22599459 ppc64el jammy-proposed -c chroot:build-PACKAGEBUILD-22599459 --arch=ppc64el --dist=jammy-proposed --nolog eigensoft_7.2.1+dfsg-3build1.dsc Initiating build PACKAGEBUILD-22599459 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.15.0-163-generic #171-Ubuntu SMP Fri Nov 5 11:53:41 UTC 2021 ppc64le sbuild (Debian sbuild) 0.75.0 (21 Mar 2018) on bos02-ppc64el-001.buildd +==============================================================================+ | eigensoft 7.2.1+dfsg-3build1 (ppc64el) Tue, 07 Dec 2021 17:35:05 +0000 | +==============================================================================+ Package: eigensoft Version: 7.2.1+dfsg-3build1 Source Version: 7.2.1+dfsg-3build1 Distribution: jammy-proposed Machine Architecture: ppc64el Host Architecture: ppc64el Build Architecture: ppc64el Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-22599459/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- eigensoft_7.2.1+dfsg-3build1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/eigensoft-o1PArl/eigensoft-7.2.1+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/eigensoft-o1PArl' 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-lYLHUw/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-lYLHUw/apt_archive ./ InRelease Get:2 copy:/<>/resolver-lYLHUw/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-lYLHUw/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-lYLHUw/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-lYLHUw/apt_archive ./ Packages [434 B] Fetched 1740 B in 0s (138 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 package was automatically installed and is no longer required: systemd-timesyncd Use 'apt autoremove' to remove it. 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 656 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-lYLHUw/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [656 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 656 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 13379 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), gfortran, libblas-dev, liblapack-dev, liblapacke-dev, libgsl-dev Filtered Build-Depends: debhelper-compat (= 13), gfortran, libblas-dev, liblapack-dev, liblapacke-dev, libgsl-dev dpkg-deb: building package 'sbuild-build-depends-eigensoft-dummy' in '/<>/resolver-lYLHUw/apt_archive/sbuild-build-depends-eigensoft-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-eigensoft-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-lYLHUw/apt_archive ./ InRelease Get:2 copy:/<>/resolver-lYLHUw/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-lYLHUw/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-lYLHUw/apt_archive ./ Sources [525 B] Get:5 copy:/<>/resolver-lYLHUw/apt_archive ./ Packages [602 B] Fetched 2090 B in 0s (167 kB/s) Reading package lists... Reading package lists... Install eigensoft build dependencies (apt-based resolver) --------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following package was automatically installed and is no longer required: systemd-timesyncd Use 'apt autoremove' to remove it. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base gfortran gfortran-11 groff-base intltool-debian libarchive-zip-perl libblas-dev libblas3 libdebhelper-perl libdw1 libelf1 libfile-stripnondeterminism-perl libgfortran-11-dev libgfortran5 libgsl-dev libgsl27 libgslcblas0 libicu67 liblapack-dev liblapack3 liblapacke liblapacke-dev libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libsub-override-perl libtmglib-dev libtmglib3 libtool libuchardet0 libxml2 m4 man-db po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-doc gfortran-11-doc libcoarrays-dev groff liblapack-doc gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libtool-doc gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base gfortran gfortran-11 groff-base intltool-debian libarchive-zip-perl libblas-dev libblas3 libdebhelper-perl libdw1 libelf1 libfile-stripnondeterminism-perl libgfortran-11-dev libgfortran5 libgsl-dev libgsl27 libgslcblas0 libicu67 liblapack-dev liblapack3 liblapacke liblapacke-dev libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libsub-override-perl libtmglib-dev libtmglib3 libtool libuchardet0 libxml2 m4 man-db po-debconf sbuild-build-depends-eigensoft-dummy 0 upgraded, 48 newly installed, 0 to remove and 0 not upgraded. Need to get 40.5 MB of archives. After this operation, 167 MB of additional disk space will be used. Get:1 copy:/<>/resolver-lYLHUw/apt_archive ./ sbuild-build-depends-eigensoft-dummy 0.invalid.0 [698 B] Get:2 http://ftpmaster.internal/ubuntu jammy/main ppc64el bsdextrautils ppc64el 2.37.2-4ubuntu1 [77.8 kB] Get:3 http://ftpmaster.internal/ubuntu jammy/main ppc64el libuchardet0 ppc64el 0.0.7-1build1 [80.3 kB] Get:4 http://ftpmaster.internal/ubuntu jammy/main ppc64el groff-base ppc64el 1.22.4-7 [1033 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main ppc64el libpipeline1 ppc64el 1.5.4-1 [26.8 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main ppc64el man-db ppc64el 2.9.4-2build1 [1231 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/main ppc64el libelf1 ppc64el 0.186-1 [62.7 kB] Get:8 http://ftpmaster.internal/ubuntu jammy/main ppc64el libicu67 ppc64el 67.1-7ubuntu1 [10.4 MB] Get:9 http://ftpmaster.internal/ubuntu jammy/main ppc64el libxml2 ppc64el 2.9.12+dfsg-5 [838 kB] Get:10 http://ftpmaster.internal/ubuntu jammy/main ppc64el libmagic-mgc ppc64el 1:5.41-2 [257 kB] Get:11 http://ftpmaster.internal/ubuntu jammy/main ppc64el libmagic1 ppc64el 1:5.41-2 [103 kB] Get:12 http://ftpmaster.internal/ubuntu jammy/main ppc64el file ppc64el 1:5.41-2 [22.6 kB] Get:13 http://ftpmaster.internal/ubuntu jammy/main ppc64el gettext-base ppc64el 0.21-4ubuntu3 [40.5 kB] Get:14 http://ftpmaster.internal/ubuntu jammy/main ppc64el libsigsegv2 ppc64el 2.13-1ubuntu2 [15.3 kB] Get:15 http://ftpmaster.internal/ubuntu jammy/main ppc64el m4 ppc64el 1.4.18-5ubuntu1 [213 kB] Get:16 http://ftpmaster.internal/ubuntu jammy/main ppc64el autoconf all 2.71-2 [338 kB] Get:17 http://ftpmaster.internal/ubuntu jammy/main ppc64el autotools-dev all 20180224.1+nmu1 [39.4 kB] Get:18 http://ftpmaster.internal/ubuntu jammy/main ppc64el automake all 1:1.16.5-1.1 [558 kB] Get:19 http://ftpmaster.internal/ubuntu jammy/main ppc64el autopoint all 0.21-4ubuntu3 [422 kB] Get:20 http://ftpmaster.internal/ubuntu jammy/main ppc64el libdebhelper-perl all 13.5.2ubuntu1 [66.0 kB] Get:21 http://ftpmaster.internal/ubuntu jammy/main ppc64el libtool all 2.4.6-15build1 [164 kB] Get:22 http://ftpmaster.internal/ubuntu jammy/main ppc64el dh-autoreconf all 20 [16.1 kB] Get:23 http://ftpmaster.internal/ubuntu jammy/main ppc64el libarchive-zip-perl all 1.68-1 [90.2 kB] Get:24 http://ftpmaster.internal/ubuntu jammy/main ppc64el libsub-override-perl all 0.09-2 [9532 B] Get:25 http://ftpmaster.internal/ubuntu jammy/main ppc64el libfile-stripnondeterminism-perl all 1.12.1-1 [18.1 kB] Get:26 http://ftpmaster.internal/ubuntu jammy/main ppc64el dh-strip-nondeterminism all 1.12.1-1 [5200 B] Get:27 http://ftpmaster.internal/ubuntu jammy/main ppc64el libdw1 ppc64el 0.186-1 [290 kB] Get:28 http://ftpmaster.internal/ubuntu jammy/main ppc64el debugedit ppc64el 1:5.0-3 [51.7 kB] Get:29 http://ftpmaster.internal/ubuntu jammy/main ppc64el dwz ppc64el 0.14-1build1 [125 kB] Get:30 http://ftpmaster.internal/ubuntu jammy/main ppc64el gettext ppc64el 0.21-4ubuntu3 [895 kB] Get:31 http://ftpmaster.internal/ubuntu jammy/main ppc64el intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:32 http://ftpmaster.internal/ubuntu jammy/main ppc64el po-debconf all 1.0.21+nmu1 [233 kB] Get:33 http://ftpmaster.internal/ubuntu jammy/main ppc64el debhelper all 13.5.2ubuntu1 [926 kB] Get:34 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgfortran5 ppc64el 11.2.0-12ubuntu1 [507 kB] Get:35 http://ftpmaster.internal/ubuntu jammy/main ppc64el libgfortran-11-dev ppc64el 11.2.0-12ubuntu1 [573 kB] Get:36 http://ftpmaster.internal/ubuntu jammy/main ppc64el gfortran-11 ppc64el 11.2.0-12ubuntu1 [10.0 MB] Get:37 http://ftpmaster.internal/ubuntu jammy/main ppc64el gfortran ppc64el 4:11.2.0-1ubuntu1 [1182 B] Get:38 http://ftpmaster.internal/ubuntu jammy/main ppc64el libblas3 ppc64el 3.9.0-3ubuntu3 [149 kB] Get:39 http://ftpmaster.internal/ubuntu jammy/main ppc64el libblas-dev ppc64el 3.9.0-3ubuntu3 [127 kB] Get:40 http://ftpmaster.internal/ubuntu jammy-proposed/universe ppc64el libgslcblas0 ppc64el 2.7.1+dfsg-3 [247 kB] Get:41 http://ftpmaster.internal/ubuntu jammy-proposed/universe ppc64el libgsl27 ppc64el 2.7.1+dfsg-3 [1315 kB] Get:42 http://ftpmaster.internal/ubuntu jammy-proposed/universe ppc64el libgsl-dev ppc64el 2.7.1+dfsg-3 [1825 kB] Get:43 http://ftpmaster.internal/ubuntu jammy/main ppc64el liblapack3 ppc64el 3.9.0-3ubuntu3 [2028 kB] Get:44 http://ftpmaster.internal/ubuntu jammy/main ppc64el liblapack-dev ppc64el 3.9.0-3ubuntu3 [3969 kB] Get:45 http://ftpmaster.internal/ubuntu jammy/main ppc64el libtmglib3 ppc64el 3.9.0-3ubuntu3 [117 kB] Get:46 http://ftpmaster.internal/ubuntu jammy/main ppc64el liblapacke ppc64el 3.9.0-3ubuntu3 [452 kB] Get:47 http://ftpmaster.internal/ubuntu jammy/main ppc64el libtmglib-dev ppc64el 3.9.0-3ubuntu3 [119 kB] Get:48 http://ftpmaster.internal/ubuntu jammy/main ppc64el liblapacke-dev ppc64el 3.9.0-3ubuntu3 [358 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 40.5 MB in 2s (16.5 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 13379 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.37.2-4ubuntu1_ppc64el.deb ... Unpacking bsdextrautils (2.37.2-4ubuntu1) ... Selecting previously unselected package libuchardet0:ppc64el. Preparing to unpack .../01-libuchardet0_0.0.7-1build1_ppc64el.deb ... Unpacking libuchardet0:ppc64el (0.0.7-1build1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-7_ppc64el.deb ... Unpacking groff-base (1.22.4-7) ... Selecting previously unselected package libpipeline1:ppc64el. Preparing to unpack .../03-libpipeline1_1.5.4-1_ppc64el.deb ... Unpacking libpipeline1:ppc64el (1.5.4-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2build1_ppc64el.deb ... Unpacking man-db (2.9.4-2build1) ... Selecting previously unselected package libelf1:ppc64el. Preparing to unpack .../05-libelf1_0.186-1_ppc64el.deb ... Unpacking libelf1:ppc64el (0.186-1) ... Selecting previously unselected package libicu67:ppc64el. Preparing to unpack .../06-libicu67_67.1-7ubuntu1_ppc64el.deb ... Unpacking libicu67:ppc64el (67.1-7ubuntu1) ... Selecting previously unselected package libxml2:ppc64el. Preparing to unpack .../07-libxml2_2.9.12+dfsg-5_ppc64el.deb ... Unpacking libxml2:ppc64el (2.9.12+dfsg-5) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../08-libmagic-mgc_1%3a5.41-2_ppc64el.deb ... Unpacking libmagic-mgc (1:5.41-2) ... Selecting previously unselected package libmagic1:ppc64el. Preparing to unpack .../09-libmagic1_1%3a5.41-2_ppc64el.deb ... Unpacking libmagic1:ppc64el (1:5.41-2) ... Selecting previously unselected package file. Preparing to unpack .../10-file_1%3a5.41-2_ppc64el.deb ... Unpacking file (1:5.41-2) ... Selecting previously unselected package gettext-base. Preparing to unpack .../11-gettext-base_0.21-4ubuntu3_ppc64el.deb ... Unpacking gettext-base (0.21-4ubuntu3) ... Selecting previously unselected package libsigsegv2:ppc64el. Preparing to unpack .../12-libsigsegv2_2.13-1ubuntu2_ppc64el.deb ... Unpacking libsigsegv2:ppc64el (2.13-1ubuntu2) ... Selecting previously unselected package m4. Preparing to unpack .../13-m4_1.4.18-5ubuntu1_ppc64el.deb ... Unpacking m4 (1.4.18-5ubuntu1) ... Selecting previously unselected package autoconf. Preparing to unpack .../14-autoconf_2.71-2_all.deb ... Unpacking autoconf (2.71-2) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../15-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../16-automake_1%3a1.16.5-1.1_all.deb ... Unpacking automake (1:1.16.5-1.1) ... Selecting previously unselected package autopoint. Preparing to unpack .../17-autopoint_0.21-4ubuntu3_all.deb ... Unpacking autopoint (0.21-4ubuntu3) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../18-libdebhelper-perl_13.5.2ubuntu1_all.deb ... Unpacking libdebhelper-perl (13.5.2ubuntu1) ... Selecting previously unselected package libtool. Preparing to unpack .../19-libtool_2.4.6-15build1_all.deb ... Unpacking libtool (2.4.6-15build1) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../20-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../21-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../22-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../23-libfile-stripnondeterminism-perl_1.12.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.12.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../24-dh-strip-nondeterminism_1.12.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.12.1-1) ... Selecting previously unselected package libdw1:ppc64el. Preparing to unpack .../25-libdw1_0.186-1_ppc64el.deb ... Unpacking libdw1:ppc64el (0.186-1) ... Selecting previously unselected package debugedit. Preparing to unpack .../26-debugedit_1%3a5.0-3_ppc64el.deb ... Unpacking debugedit (1:5.0-3) ... Selecting previously unselected package dwz. Preparing to unpack .../27-dwz_0.14-1build1_ppc64el.deb ... Unpacking dwz (0.14-1build1) ... Selecting previously unselected package gettext. Preparing to unpack .../28-gettext_0.21-4ubuntu3_ppc64el.deb ... Unpacking gettext (0.21-4ubuntu3) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../29-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../30-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../31-debhelper_13.5.2ubuntu1_all.deb ... Unpacking debhelper (13.5.2ubuntu1) ... Selecting previously unselected package libgfortran5:ppc64el. Preparing to unpack .../32-libgfortran5_11.2.0-12ubuntu1_ppc64el.deb ... Unpacking libgfortran5:ppc64el (11.2.0-12ubuntu1) ... Selecting previously unselected package libgfortran-11-dev:ppc64el. Preparing to unpack .../33-libgfortran-11-dev_11.2.0-12ubuntu1_ppc64el.deb ... Unpacking libgfortran-11-dev:ppc64el (11.2.0-12ubuntu1) ... Selecting previously unselected package gfortran-11. Preparing to unpack .../34-gfortran-11_11.2.0-12ubuntu1_ppc64el.deb ... Unpacking gfortran-11 (11.2.0-12ubuntu1) ... Selecting previously unselected package gfortran. Preparing to unpack .../35-gfortran_4%3a11.2.0-1ubuntu1_ppc64el.deb ... Unpacking gfortran (4:11.2.0-1ubuntu1) ... Selecting previously unselected package libblas3:ppc64el. Preparing to unpack .../36-libblas3_3.9.0-3ubuntu3_ppc64el.deb ... Unpacking libblas3:ppc64el (3.9.0-3ubuntu3) ... Selecting previously unselected package libblas-dev:ppc64el. Preparing to unpack .../37-libblas-dev_3.9.0-3ubuntu3_ppc64el.deb ... Unpacking libblas-dev:ppc64el (3.9.0-3ubuntu3) ... Selecting previously unselected package libgslcblas0:ppc64el. Preparing to unpack .../38-libgslcblas0_2.7.1+dfsg-3_ppc64el.deb ... Unpacking libgslcblas0:ppc64el (2.7.1+dfsg-3) ... Selecting previously unselected package libgsl27:ppc64el. Preparing to unpack .../39-libgsl27_2.7.1+dfsg-3_ppc64el.deb ... Unpacking libgsl27:ppc64el (2.7.1+dfsg-3) ... Selecting previously unselected package libgsl-dev. Preparing to unpack .../40-libgsl-dev_2.7.1+dfsg-3_ppc64el.deb ... Unpacking libgsl-dev (2.7.1+dfsg-3) ... 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Preparing to unpack .../46-liblapacke-dev_3.9.0-3ubuntu3_ppc64el.deb ... Unpacking liblapacke-dev:ppc64el (3.9.0-3ubuntu3) ... Selecting previously unselected package sbuild-build-depends-eigensoft-dummy. Preparing to unpack .../47-sbuild-build-depends-eigensoft-dummy_0.invalid.0_ppc64el.deb ... Unpacking sbuild-build-depends-eigensoft-dummy (0.invalid.0) ... Setting up libpipeline1:ppc64el (1.5.4-1) ... Setting up bsdextrautils (2.37.2-4ubuntu1) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:ppc64el (67.1-7ubuntu1) ... Setting up libgslcblas0:ppc64el (2.7.1+dfsg-3) ... Setting up libmagic-mgc (1:5.41-2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.5.2ubuntu1) ... Setting up libmagic1:ppc64el (1:5.41-2) ... Setting up gettext-base (0.21-4ubuntu3) ... Setting up libgsl27:ppc64el (2.7.1+dfsg-3) ... Setting up file (1:5.41-2) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libblas3:ppc64el (3.9.0-3ubuntu3) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode Setting up libsigsegv2:ppc64el (2.13-1ubuntu2) ... Setting up autopoint (0.21-4ubuntu3) ... Setting up libgfortran5:ppc64el (11.2.0-12ubuntu1) ... Setting up libuchardet0:ppc64el (0.0.7-1build1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libelf1:ppc64el (0.186-1) ... Setting up libxml2:ppc64el (2.9.12+dfsg-5) ... Setting up libblas-dev:ppc64el (3.9.0-3ubuntu3) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so to provide /usr/lib/powerpc64le-linux-gnu/libblas.so (libblas.so-powerpc64le-linux-gnu) in auto mode Setting up libfile-stripnondeterminism-perl (1.12.1-1) ... Setting up libdw1:ppc64el (0.186-1) ... Setting up liblapack3:ppc64el (3.9.0-3ubuntu3) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode Setting up gettext (0.21-4ubuntu3) ... Setting up libgsl-dev (2.7.1+dfsg-3) ... Setting up libtool (2.4.6-15build1) ... Setting up libgfortran-11-dev:ppc64el (11.2.0-12ubuntu1) ... Setting up m4 (1.4.18-5ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libtmglib3:ppc64el (3.9.0-3ubuntu3) ... Setting up liblapack-dev:ppc64el (3.9.0-3ubuntu3) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so (liblapack.so-powerpc64le-linux-gnu) in auto mode Setting up gfortran-11 (11.2.0-12ubuntu1) ... Setting up autoconf (2.71-2) ... Setting up dh-strip-nondeterminism (1.12.1-1) ... Setting up dwz (0.14-1build1) ... Setting up groff-base (1.22.4-7) ... Setting up liblapacke:ppc64el (3.9.0-3ubuntu3) ... Setting up debugedit (1:5.0-3) ... Setting up libtmglib-dev:ppc64el (3.9.0-3ubuntu3) ... Setting up automake (1:1.16.5-1.1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up liblapacke-dev:ppc64el (3.9.0-3ubuntu3) ... Setting up man-db (2.9.4-2build1) ... 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 gfortran (4:11.2.0-1ubuntu1) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up dh-autoreconf (20) ... Setting up debhelper (13.5.2ubuntu1) ... Setting up sbuild-build-depends-eigensoft-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.34-0ubuntu3) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.15.0-163-generic ppc64el (ppc64le) Toolchain package versions: binutils_2.37-10ubuntu1 dpkg-dev_1.20.9ubuntu3 g++-11_11.2.0-12ubuntu1 gcc-11_11.2.0-12ubuntu1 libc6-dev_2.34-0ubuntu3 libstdc++-11-dev_11.2.0-12ubuntu1 libstdc++6_11.2.0-12ubuntu1 linux-libc-dev_5.15.0-13.13 Package versions: adduser_3.118ubuntu5 advancecomp_2.1-2.1ubuntu1 apt_2.3.13 autoconf_2.71-2 automake_1:1.16.5-1.1 autopoint_0.21-4ubuntu3 autotools-dev_20180224.1+nmu1 base-files_12ubuntu2 base-passwd_3.5.52 bash_5.1-5ubuntu1 binutils_2.37-10ubuntu1 binutils-common_2.37-10ubuntu1 binutils-powerpc64le-linux-gnu_2.37-10ubuntu1 bsdextrautils_2.37.2-4ubuntu1 bsdutils_1:2.37.2-4ubuntu1 build-essential_12.9ubuntu2 bzip2_1.0.8-5 ca-certificates_20211016 coreutils_8.32-4ubuntu3 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libasan6_11.2.0-12ubuntu1 libassuan0_2.5.5-1 libatomic1_11.2.0-12ubuntu1 libattr1_1:2.5.1-1 libaudit-common_1:3.0-2ubuntu3 libaudit1_1:3.0-2ubuntu3 libbinutils_2.37-10ubuntu1 libblas-dev_3.9.0-3ubuntu3 libblas3_3.9.0-3ubuntu3 libblkid1_2.37.2-4ubuntu1 libbz2-1.0_1.0.8-5 libc-bin_2.34-0ubuntu3 libc-dev-bin_2.34-0ubuntu3 libc6_2.34-0ubuntu3 libc6-dev_2.34-0ubuntu3 libcap-ng0_0.7.9-2.2build2 libcap2_1:2.44-1build2 libcc1-0_11.2.0-12ubuntu1 libcom-err2_1.46.4-1ubuntu1 libcrypt-dev_1:4.4.26-1 libcrypt1_1:4.4.26-1 libcryptsetup12_2:2.4.2-1ubuntu3 libctf-nobfd0_2.37-10ubuntu1 libctf0_2.37-10ubuntu1 libdb5.3_5.3.28+dfsg1-0.8ubuntu2 libdebconfclient0_0.256ubuntu4 libdebhelper-perl_13.5.2ubuntu1 libdevmapper1.02.1_2:1.02.175-2.1ubuntu3 libdpkg-perl_1.20.9ubuntu3 libdw1_0.186-1 libelf1_0.186-1 libext2fs2_1.46.4-1ubuntu1 libfakeroot_1.25.3-1.1ubuntu3 libffi8_3.4.2-1ubuntu5 libfile-stripnondeterminism-perl_1.12.1-1 libgcc-11-dev_11.2.0-12ubuntu1 libgcc-s1_11.2.0-12ubuntu1 libgcrypt20_1.9.4-3ubuntu2 libgdbm-compat4_1.22-1 libgdbm6_1.22-1 libgfortran-11-dev_11.2.0-12ubuntu1 libgfortran5_11.2.0-12ubuntu1 libgmp10_2:6.2.1+dfsg-1ubuntu3 libgnutls30_3.7.2-2ubuntu1 libgomp1_11.2.0-12ubuntu1 libgpg-error0_1.42-3 libgsl-dev_2.7.1+dfsg-3 libgsl27_2.7.1+dfsg-3 libgslcblas0_2.7.1+dfsg-3 libgssapi-krb5-2_1.19.2-0ubuntu1 libhogweed6_3.7.3-1build1 libicu67_67.1-7ubuntu1 libidn2-0_2.3.2-2 libip4tc2_1.8.7-1ubuntu4 libisl23_0.24-2 libitm1_11.2.0-12ubuntu1 libjson-c5_0.15-2build3 libk5crypto3_1.19.2-0ubuntu1 libkeyutils1_1.6.1-2ubuntu2 libkmod2_28-1ubuntu5 libkrb5-3_1.19.2-0ubuntu1 libkrb5support0_1.19.2-0ubuntu1 liblapack-dev_3.9.0-3ubuntu3 liblapack3_3.9.0-3ubuntu3 liblapacke_3.9.0-3ubuntu3 liblapacke-dev_3.9.0-3ubuntu3 liblockfile-bin_1.17-1build1 liblockfile1_1.17-1build1 liblsan0_11.2.0-12ubuntu1 liblz4-1_1.9.3-2build1 liblzma5_5.2.5-2build1 libmagic-mgc_1:5.41-2 libmagic1_1:5.41-2 libmount1_2.37.2-4ubuntu1 libmpc3_1.2.1-1 libmpfr6_4.1.0-3build2 libncurses6_6.3-1 libncursesw6_6.3-1 libnettle8_3.7.3-1build1 libnpth0_1.6-3build1 libnsl-dev_1.3.0-2build1 libnsl2_1.3.0-2build1 libp11-kit0_0.24.0-6 libpam-modules_1.4.0-10ubuntu2 libpam-modules-bin_1.4.0-10ubuntu2 libpam-runtime_1.4.0-10ubuntu2 libpam0g_1.4.0-10ubuntu2 libpcre2-8-0_10.39-3 libpcre3_2:8.39-13build4 libperl5.32_5.32.1-3ubuntu3 libpipeline1_1.5.4-1 libpng16-16_1.6.37-3build4 libprocps8_2:3.3.17-5ubuntu3 libquadmath0_11.2.0-12ubuntu1 libreadline8_8.1-2build1 libseccomp2_2.5.2-2ubuntu2 libselinux1_3.3-1build1 libsemanage-common_3.3-1build1 libsemanage2_3.3-1build1 libsepol1_3.1-1ubuntu2 libsepol2_3.3-1 libsigsegv2_2.13-1ubuntu2 libsmartcols1_2.37.2-4ubuntu1 libsqlite3-0_3.36.0-2 libss2_1.46.4-1ubuntu1 libssl1.1_1.1.1l-1ubuntu1 libssl3_3.0.0-1ubuntu1 libstdc++-11-dev_11.2.0-12ubuntu1 libstdc++6_11.2.0-12ubuntu1 libsub-override-perl_0.09-2 libsystemd0_249.5-2ubuntu1 libtasn1-6_4.18.0-4 libtinfo6_6.3-1 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtmglib-dev_3.9.0-3ubuntu3 libtmglib3_3.9.0-3ubuntu3 libtool_2.4.6-15build1 libtsan0_11.2.0-12ubuntu1 libubsan1_11.2.0-12ubuntu1 libuchardet0_0.0.7-1build1 libudev1_249.5-2ubuntu1 libunistring2_0.9.10-6 libuuid1_2.37.2-4ubuntu1 libxml2_2.9.12+dfsg-5 libxxhash0_0.8.0-2build1 libzstd1_1.4.8+dfsg-3 linux-libc-dev_5.15.0-13.13 lockfile-progs_0.1.19 login_1:4.8.1-2ubuntu1 logsave_1.46.4-1ubuntu1 lsb-base_11.1.0ubuntu3 lto-disabled-list_17 m4_1.4.18-5ubuntu1 make_4.3-4ubuntu2 man-db_2.9.4-2build1 mawk_1.3.4.20200120-2build1 mount_2.37.2-4ubuntu1 ncurses-base_6.3-1 ncurses-bin_6.3-1 openssl_3.0.0-1ubuntu1 optipng_0.7.7-2 passwd_1:4.8.1-2ubuntu1 patch_2.7.6-7build1 perl_5.32.1-3ubuntu3 perl-base_5.32.1-3ubuntu3 perl-modules-5.32_5.32.1-3ubuntu3 pinentry-curses_1.1.1-1build1 pkgbinarymangler_149 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3 procps_2:3.3.17-5ubuntu3 readline-common_8.1-2build1 rpcsvc-proto_1.4.2-0ubuntu5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-eigensoft-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 systemd_249.5-2ubuntu1 systemd-sysv_249.5-2ubuntu1 systemd-timesyncd_249.5-2ubuntu1 sysvinit-utils_2.96-7ubuntu2 tar_1.34+dfsg-1build2 tzdata_2021e-1ubuntu1 ubuntu-keyring_2021.03.26 usrmerge_25ubuntu2 util-linux_2.37.2-4ubuntu1 xz-utils_5.2.5-2build1 zlib1g_1:1.2.11.dfsg-2ubuntu7 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Tue Dec 7 17:29:18 2021 UTC gpgv: using RSA key AC483F68DE728F43F2202FCA568D30F321B2133D gpgv: issuer "steve.langasek@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./eigensoft_7.2.1+dfsg-3build1.dsc dpkg-source: info: extracting eigensoft in /<>/eigensoft-7.2.1+dfsg dpkg-source: info: unpacking eigensoft_7.2.1+dfsg.orig.tar.xz dpkg-source: info: unpacking eigensoft_7.2.1+dfsg-3build1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying blas.patch dpkg-source: info: applying lapacke.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-22599459 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-22599459 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-22599459 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package eigensoft dpkg-buildpackage: info: source version 7.2.1+dfsg-3build1 dpkg-buildpackage: info: source distribution jammy dpkg-source --before-build . dpkg-buildpackage: info: host architecture ppc64el debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/<>/eigensoft-7.2.1+dfsg' dh_clean /usr/bin/make -C src clobber make[2]: Entering directory '/<>/eigensoft-7.2.1+dfsg/src' rm -f *.o */*.o */*.a nicksrc/*.o eigensrc/*.o ksrc/*.o rm -f baseprog convertf mergeit pca smshrink eigensrc/pcatoy eigensrc/smartrel eigensrc/smarteigenstrat eigensrc/twstats eigensrc/eigenstrat eigensrc/eigenstratQTL eigensrc/smartpca cd ../bin/ ; rm -f baseprog convertf mergeit pca smshrink pcatoy smartrel smarteigenstrat twstats eigenstrat eigenstratQTL smartpca ; cd ../src make[2]: Leaving directory '/<>/eigensoft-7.2.1+dfsg/src' make[1]: Leaving directory '/<>/eigensoft-7.2.1+dfsg' debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>/eigensoft-7.2.1+dfsg' /usr/bin/make DEBUG_OPTIONS=-g -C src all make[2]: Entering directory '/<>/eigensoft-7.2.1+dfsg/src' cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o baseprog.o baseprog.c cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mcio.o mcio.c mcio.c: In function ‘getgenos’: mcio.c:1368:5: warning: ignoring return value of ‘system’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1368 | system (cmd); | ^~~~~~~~~~~~ mcio.c: In function ‘loadsnps’: mcio.c:872:39: note: the layout of aggregates containing vectors with 2-byte alignment has changed in GCC 5 872 | cupt->alleles[0] = sdpt->alleles[0]; | ~~~~~~~~~~~~~^~~ In file included from ../include/statsubs.h:6, from ../include/nicklib.h:4, from ../include/admutils.h:2, from ../include/mcio.h:11, from mcio.c:3: mcio.c: In function ‘getindivs’: ../include/strsubs.h:83:54: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 83 | #define ZALLOC(item,n,type) if ((item = (type *)calloc((n),sizeof(type))) == NULL) \ | ^~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../include/strsubs.h:1, from ../include/vsubs.h:5, from ../include/mcio.h:10, from mcio.c:3: /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ In file included from /usr/include/stdio.h:888, from ../include/mcio.h:4, from mcio.c:3: In function ‘printf’, inlined from ‘outfiles’ at mcio.c:3159:5: /usr/include/powerpc64le-linux-gnu/bits/stdio2.h:112:10: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 112 | return __printf_chk (__USE_FORTIFY_LEVEL - 1, __fmt, __va_arg_pack ()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o egsubs.o egsubs.c cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o admutils.o admutils.c admutils.c: In function ‘setid2pops’: admutils.c:1256:31: warning: format ‘%s’ expects a matching ‘char *’ argument [-Wformat=] 1256 | printf ("(setid2pops): %s not found\n"); | ~^ | | | char * cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o h2d.o h2d.c cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/exclude.o eigensrc/exclude.c /usr/bin/make -C nicksrc make[3]: Entering directory '/<>/eigensoft-7.2.1+dfsg/src/nicksrc' cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gauss.o gauss.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gds.o gds.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o getpars.o getpars.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o linsubs.o linsubs.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o sortit.o sortit.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o statsubs.o statsubs.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o strsubs.o strsubs.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vsubs.o vsubs.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o xsearch.o xsearch.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o twtable.o twtable.c ar -r libnick.a gauss.o gds.o getpars.o linsubs.o sortit.o statsubs.o strsubs.o vsubs.o xsearch.o twtable.o ar: creating libnick.a make[3]: Leaving directory '/<>/eigensoft-7.2.1+dfsg/src/nicksrc' cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now baseprog.o mcio.o egsubs.o admutils.o h2d.o eigensrc/exclude.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o baseprog mcio.c: In function ‘main’: mcio.c:872:39: note: the layout of aggregates containing vectors with 2-byte alignment has changed in GCC 5 872 | cupt->alleles[0] = sdpt->alleles[0]; | ^ In function ‘getindivs’, inlined from ‘main’ at baseprog.c:96:15: mcio.c:952:3: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 952 | ZALLOC (indivmarkers, nindiv, Indiv *); | ^ mcio.c: In function ‘main’: /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o convertf.o convertf.c convertf.c: In function ‘main’: convertf.c:257:5: warning: implicit declaration of function ‘setfamilypopnames’ [-Wimplicit-function-declaration] 257 | setfamilypopnames (YES); | ^~~~~~~~~~~~~~~~~ convertf.c: In function ‘remap’: convertf.c:681:41: note: the layout of aggregates containing vectors with 2-byte alignment has changed in GCC 5 681 | cupt2->alleles[0] = cupt1->alleles[0]; | ~~~~~~~~~~~~~~^~~ cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now convertf.o mcio.o egsubs.o admutils.o h2d.o eigensrc/exclude.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o convertf mcio.c: In function ‘getindivs’: mcio.c:952:3: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 952 | ZALLOC (indivmarkers, nindiv, Indiv *); | ^ /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^ mcio.c: In function ‘getsnps.constprop’: mcio.c:872:39: note: the layout of aggregates containing vectors with 2-byte alignment has changed in GCC 5 872 | cupt->alleles[0] = sdpt->alleles[0]; | ^ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mergeit.o mergeit.c cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now mergeit.o mcio.o admutils.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o mergeit mcio.c: In function ‘getsnps.constprop’: mcio.c:872:39: note: the layout of aggregates containing vectors with 2-byte alignment has changed in GCC 5 872 | cupt->alleles[0] = sdpt->alleles[0]; | ^ mcio.c: In function ‘getindivs’: mcio.c:952:3: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 952 | ZALLOC (indivmarkers, nindiv, Indiv *); | ^ /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o pca.o pca.c pca.c: In function ‘main’: pca.c:102:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 102 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ pca.c:167:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 167 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ pca.c:190:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 190 | fscanf (fp, "%c", &Xchar); /* should be \n character */ | ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigsubs.o eigensrc/eigsubs.c cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigx.o eigensrc/eigx.c cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now pca.o eigensrc/eigsubs.o eigensrc/eigx.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o pca cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o smshrink.o smshrink.c smshrink.c: In function ‘main’: smshrink.c:624:5: warning: implicit declaration of function ‘setid2pops’; did you mean ‘setsdpos’? [-Wimplicit-function-declaration] 624 | setid2pops (id2pops, indivmarkers, numindivs); | ^~~~~~~~~~ | setsdpos smshrink.c:774:5: warning: implicit declaration of function ‘kjg_fpca’ [-Wimplicit-function-declaration] 774 | kjg_fpca (numeigs, fastdim, fastiter, evals, evecs); | ^~~~~~~~ smshrink.c:578:5: warning: ignoring return value of ‘system’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 578 | system (buff); | ^~~~~~~~~~~~~ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartsubs.o eigensrc/smartsubs.c cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o twsubs.o twsubs.c cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o qpsubs.o qpsubs.c cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o regsubs.o regsubs.c cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gval.o gval.c gval.c: In function ‘setgval’: gval.c:67:5: warning: implicit declaration of function ‘getcolxz’ [-Wimplicit-function-declaration] 67 | getcolxz (cc, cupt, xindex, xtypes, nrows, i, xmean, xfancy, &n0, &n1); | ^~~~~~~~ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ksrc/kjg_fpca.o ksrc/kjg_fpca.c ksrc/kjg_fpca.c: In function ‘kjg_fpca’: ksrc/kjg_fpca.c:31:14: warning: implicit declaration of function ‘get_ncols’ [-Wimplicit-function-declaration] 31 | size_t m = get_ncols (); | ^~~~~~~~~ ksrc/kjg_fpca.c:32:14: warning: implicit declaration of function ‘get_nrows’ [-Wimplicit-function-declaration] 32 | size_t n = get_nrows (); | ^~~~~~~~~ ksrc/kjg_fpca.c: In function ‘kjg_fpca_XTXA’: ksrc/kjg_fpca.c:118:11: warning: implicit declaration of function ‘kjg_geno_get_normalized_rows’ [-Wimplicit-function-declaration] 118 | r = kjg_geno_get_normalized_rows (i, KJG_FPCA_ROWS, Y); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ksrc/kjg_gsl.o ksrc/kjg_gsl.c ksrc/kjg_gsl.c: In function ‘kjg_gsl_matrix_fscanf’: ksrc/kjg_gsl.c:38:11: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 38 | fscanf (stream, "%lg", &x); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now smshrink.o eigensrc/eigsubs.o eigensrc/exclude.o eigensrc/smartsubs.o eigensrc/eigx.o twsubs.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o gval.o nicksrc/libnick.a ksrc/kjg_fpca.o ksrc/kjg_gsl.o -lgsl -lblas -lm -llapacke -llapack -lpthread -o smshrink ksrc/kjg_fpca.c:118:11: warning: type of ‘kjg_geno_get_normalized_rows’ does not match original declaration [-Wlto-type-mismatch] 118 | r = kjg_geno_get_normalized_rows (i, KJG_FPCA_ROWS, Y); | ^ gval.c:200:1: note: return value type mismatch 200 | kjg_geno_get_normalized_rows (const size_t i, const size_t r, double *Y) | ^ gval.c:200:1: note: type ‘size_t’ should match type ‘int’ gval.c:200:1: note: ‘kjg_geno_get_normalized_rows’ was previously declared here gval.c:200:1: note: code may be misoptimized unless ‘-fno-strict-aliasing’ is used ksrc/kjg_fpca.c:31:14: warning: type of ‘get_ncols’ does not match original declaration [-Wlto-type-mismatch] 31 | size_t m = get_ncols (); | ^ gval.c:157:1: note: return value type mismatch 157 | get_ncols () | ^ gval.c:157:1: note: type ‘size_t’ should match type ‘int’ gval.c:157:1: note: ‘get_ncols’ was previously declared here gval.c:157:1: note: code may be misoptimized unless ‘-fno-strict-aliasing’ is used ksrc/kjg_fpca.c:32:14: warning: type of ‘get_nrows’ does not match original declaration [-Wlto-type-mismatch] 32 | size_t n = get_nrows (); | ^ gval.c:151:1: note: return value type mismatch 151 | get_nrows () | ^ gval.c:151:1: note: type ‘size_t’ should match type ‘int’ gval.c:151:1: note: ‘get_nrows’ was previously declared here gval.c:151:1: note: code may be misoptimized unless ‘-fno-strict-aliasing’ is used mcio.c: In function ‘getsnps.constprop’: mcio.c:872:39: note: the layout of aggregates containing vectors with 2-byte alignment has changed in GCC 5 872 | cupt->alleles[0] = sdpt->alleles[0]; | ^ In function ‘getindivs’, inlined from ‘main’ at smshrink.c:621:15: mcio.c:952:3: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 952 | ZALLOC (indivmarkers, nindiv, Indiv *); | ^ mcio.c: In function ‘main’: /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/pcatoy.o eigensrc/pcatoy.c cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now eigensrc/pcatoy.o eigensrc/eigsubs.o eigensrc/eigx.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/pcatoy cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartrel.o eigensrc/smartrel.c cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now eigensrc/smartrel.o twsubs.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o eigensrc/eigsubs.o eigensrc/eigx.o eigensrc/smartsubs.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/smartrel mcio.c: In function ‘main’: mcio.c:872:39: note: the layout of aggregates containing vectors with 2-byte alignment has changed in GCC 5 872 | cupt->alleles[0] = sdpt->alleles[0]; | ^ In function ‘getindivs’, inlined from ‘main’ at eigensrc/smartrel.c:309:15: mcio.c:952:3: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 952 | ZALLOC (indivmarkers, nindiv, Indiv *); | ^ mcio.c: In function ‘main’: /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smarteigenstrat.o eigensrc/smarteigenstrat.c eigensrc/smarteigenstrat.c: In function ‘readpcafile’: eigensrc/smarteigenstrat.c:332:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 332 | fscanf (fppca, "%d", &K); | ^~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/smarteigenstrat.c:339:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 339 | fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/smarteigenstrat.c:342:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 342 | fscanf (fppca, "%lf", &V[NSAMPLES * n + k]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/smarteigenstrat.c:360:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 360 | fscanf (fppca, "%lf", &tempdouble); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now eigensrc/smarteigenstrat.o mcio.o admutils.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/smarteigenstrat mcio.c: In function ‘main’: mcio.c:872:39: note: the layout of aggregates containing vectors with 2-byte alignment has changed in GCC 5 872 | cupt->alleles[0] = sdpt->alleles[0]; | ^ In function ‘getindivs’, inlined from ‘main’ at eigensrc/smarteigenstrat.c:95:14: mcio.c:952:3: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 952 | ZALLOC (indivmarkers, nindiv, Indiv *); | ^ mcio.c: In function ‘main’: /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/twstats.o eigensrc/twstats.c cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now eigensrc/twstats.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/twstats cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now eigensrc/eigenstrat.c -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/eigenstrat eigensrc/eigenstrat.c: In function ‘main’: eigensrc/eigenstrat.c:86:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 86 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:123:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 123 | fscanf (fppca, "%d", &K); | ^~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:130:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 130 | fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:133:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 133 | fscanf (fppca, "%lf", &V[NSAMPLES * n + k]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:151:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 151 | fscanf (fppca, "%lf", &tempdouble); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:165:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 165 | fscanf (fppheno, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:188:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 188 | fscanf (fppheno, "%c", &Xchar); /* should be end of file */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:244:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 244 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:267:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 267 | fscanf (fp, "%c", &Xchar); /* should be \n character */ | ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now eigensrc/eigenstratQTL.c -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/eigenstratQTL eigensrc/eigenstratQTL.c: In function ‘main’: eigensrc/eigenstratQTL.c:86:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 86 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:123:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 123 | fscanf (fppca, "%d", &K); | ^~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:130:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 130 | fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:133:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 133 | fscanf (fppca, "%lf", &V[NSAMPLES * n + k]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:151:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 151 | fscanf (fppca, "%lf", &tempdouble); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:172:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 172 | fscanf (fppheno, "%lf", &iscase[n]); /* QTL phenotype */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:174:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 174 | fscanf (fppheno, "%lf", &tempdouble); /* to check # entries */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:227:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 227 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:250:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 250 | fscanf (fp, "%c", &Xchar); /* should be \n character */ | ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O3 -ffile-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartpca.o eigensrc/smartpca.c eigensrc/smartpca.c: In function ‘main’: eigensrc/smartpca.c:644:5: warning: implicit declaration of function ‘setid2pops’; did you mean ‘setsdpos’? [-Wimplicit-function-declaration] 644 | setid2pops (id2pops, indivmarkers, numindivs); | ^~~~~~~~~~ | setsdpos eigensrc/smartpca.c:809:5: warning: implicit declaration of function ‘kjg_fpca’ [-Wimplicit-function-declaration] 809 | kjg_fpca (numeigs, fastdim, fastiter, evals, evecs); | ^~~~~~~~ eigensrc/smartpca.c:597:5: warning: ignoring return value of ‘system’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 597 | system (buff); | ^~~~~~~~~~~~~ cc -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now eigensrc/smartpca.o eigensrc/eigsubs.o eigensrc/exclude.o eigensrc/smartsubs.o eigensrc/eigx.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o gval.o nicksrc/libnick.a ksrc/kjg_fpca.o ksrc/kjg_gsl.o -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/smartpca ksrc/kjg_fpca.c:118:11: warning: type of ‘kjg_geno_get_normalized_rows’ does not match original declaration [-Wlto-type-mismatch] 118 | r = kjg_geno_get_normalized_rows (i, KJG_FPCA_ROWS, Y); | ^ gval.c:200:1: note: return value type mismatch 200 | kjg_geno_get_normalized_rows (const size_t i, const size_t r, double *Y) | ^ gval.c:200:1: note: type ‘size_t’ should match type ‘int’ gval.c:200:1: note: ‘kjg_geno_get_normalized_rows’ was previously declared here gval.c:200:1: note: code may be misoptimized unless ‘-fno-strict-aliasing’ is used ksrc/kjg_fpca.c:31:14: warning: type of ‘get_ncols’ does not match original declaration [-Wlto-type-mismatch] 31 | size_t m = get_ncols (); | ^ gval.c:157:1: note: return value type mismatch 157 | get_ncols () | ^ gval.c:157:1: note: type ‘size_t’ should match type ‘int’ gval.c:157:1: note: ‘get_ncols’ was previously declared here gval.c:157:1: note: code may be misoptimized unless ‘-fno-strict-aliasing’ is used ksrc/kjg_fpca.c:32:14: warning: type of ‘get_nrows’ does not match original declaration [-Wlto-type-mismatch] 32 | size_t n = get_nrows (); | ^ gval.c:151:1: note: return value type mismatch 151 | get_nrows () | ^ gval.c:151:1: note: type ‘size_t’ should match type ‘int’ gval.c:151:1: note: ‘get_nrows’ was previously declared here gval.c:151:1: note: code may be misoptimized unless ‘-fno-strict-aliasing’ is used mcio.c: In function ‘getsnps.constprop’: mcio.c:872:39: note: the layout of aggregates containing vectors with 2-byte alignment has changed in GCC 5 872 | cupt->alleles[0] = sdpt->alleles[0]; | ^ In function ‘getindivs’, inlined from ‘main’ at eigensrc/smartpca.c:641:15: mcio.c:952:3: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 952 | ZALLOC (indivmarkers, nindiv, Indiv *); | ^ mcio.c: In function ‘main’: /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^ make[2]: Leaving directory '/<>/eigensoft-7.2.1+dfsg/src' cd src && make install make[2]: Entering directory '/<>/eigensoft-7.2.1+dfsg/src' mv baseprog convertf mergeit pca smshrink eigensrc/pcatoy eigensrc/smartrel eigensrc/smarteigenstrat eigensrc/twstats eigensrc/eigenstrat eigensrc/eigenstratQTL eigensrc/smartpca ../bin make[2]: Leaving directory '/<>/eigensoft-7.2.1+dfsg/src' make[1]: Leaving directory '/<>/eigensoft-7.2.1+dfsg' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install --destdir=debian/eigensoft/ -a debian/rules override_dh_install make[1]: Entering directory '/<>/eigensoft-7.2.1+dfsg' dh_install find debian/eigensoft/usr/share/ -type f -empty -delete # file consists only from single line with wrong interpreter find debian/eigensoft/usr/share/ -type f -name HGDP.X.perl -delete # Fix wrappers and drop *.perl extension in /usr/bin while keeping # the original name in /usr/lib/debian-med/bin mkdir -p debian/eigensoft/usr/lib/debian-med/bin for pl in evec2pca-ped evec2pca smarteigenstrat smartpca ; do \ rm debian/eigensoft/usr/bin/${pl} ; \ sed -i \ -e "s?\(command[[:space:]]*=[[:space:]]*\"\)\(${pl}\)?\1/usr/lib/eigensoft/\2?" \ -e "s?\(cmd[[:space:]]*=[[:space:]]*\"\)\(${pl}\)?\1/usr/lib/eigensoft/\2?" \ -e "s?\(cmd[[:space:]]*=[[:space:]]*\"\)\(evec2pca.*\)\.perl?\1?" \ -e "s?\(${pl}\)\.perl?\1?" \ debian/eigensoft/usr/bin/${pl}.perl ; \ cp -a debian/eigensoft/usr/bin/${pl}.perl debian/eigensoft/usr/bin/${pl} ; \ mv debian/eigensoft/usr/bin/${pl}.perl debian/eigensoft/usr/lib/debian-med/bin ; \ done rm: cannot remove 'debian/eigensoft/usr/bin/evec2pca-ped': No such file or directory rm: cannot remove 'debian/eigensoft/usr/bin/evec2pca': No such file or directory rm debian/eigensoft/usr/bin/gc.perl make[1]: Leaving directory '/<>/eigensoft-7.2.1+dfsg' dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a debian/rules override_dh_fixperms make[1]: Entering directory '/<>/eigensoft-7.2.1+dfsg' dh_fixperms find debian/*/usr/share/eigensoft -type f -name "*.perl" -exec chmod +x \{\} \; make[1]: Leaving directory '/<>/eigensoft-7.2.1+dfsg' dh_missing -a dh_dwz -a dh_strip -a debugedit: debian/eigensoft/usr/lib/eigensoft/smarteigenstrat: Unknown DWARF DW_FORM_0x1f20 10c9ef2eef493d17489175ab18091c9116777ba5 debugedit: debian/eigensoft/usr/lib/eigensoft/smartpca: Unknown DWARF DW_FORM_0x1f20 4359746d22454410b0ecc0c9486a90753c02850f debugedit: debian/eigensoft/usr/bin/convertf: Unknown DWARF DW_FORM_0x1f20 7231c498474a249d56635c42d97fedd7ce2956e9 debugedit: debian/eigensoft/usr/bin/pcatoy: Unknown DWARF DW_FORM_0x1f21 feb5485731b8b100e500bbf2f29ff97e223dde9f debugedit: debian/eigensoft/usr/bin/smartrel: Unknown DWARF DW_FORM_0x1f20 2222c715adba088ffcb247fcbbdd9b33c7dcc912 debugedit: debian/eigensoft/usr/bin/pca: Unknown DWARF DW_FORM_0x1f21 99cf4adc8f4e357ea9a59242efa036d17822fb4b debugedit: debian/eigensoft/usr/bin/mergeit: Unknown DWARF DW_FORM_0x1f20 284873d977f712e81dba3898fbcde4da959ab0ed debugedit: debian/eigensoft/usr/bin/twstats: Unknown DWARF DW_FORM_0x1f21 58695ee3e5432d1dcede3224b480516fcff23b63 debugedit: debian/eigensoft/usr/bin/smshrink: Unknown DWARF DW_FORM_0x1f21 c365b993c8d26fcdd1ca2ea3795c37d281b226b9 debugedit: debian/eigensoft/usr/bin/eigenstratQTL: Unknown DWARF DW_FORM_0x1f21 1ab79043602924e21b8b51e937f4f796a37e6897 debugedit: debian/eigensoft/usr/bin/eigenstrat: Unknown DWARF DW_FORM_0x1f21 084a6a0d376152c3c995750d6af52ce31c737ee1 debugedit: debian/eigensoft/usr/bin/baseprog: Unknown DWARF DW_FORM_0x1f20 15b9de28710db700cf05019d1f7a282345520af2 dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/eigensoft/usr/lib/eigensoft/smartpca debian/eigensoft/usr/bin/smshrink were not linked against libblas.so.3 (they use none of the library's symbols) dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 149 INFO: pkgstriptranslations version 149 pkgstriptranslations: processing eigensoft-dbgsym (in debian/.debhelper/eigensoft/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing eigensoft (in debian/eigensoft); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/.debhelper/eigensoft/dbgsym-root/DEBIAN/control, package eigensoft-dbgsym, directory debian/.debhelper/eigensoft/dbgsym-root dpkg-deb: building package 'eigensoft-dbgsym' in 'debian/.debhelper/scratch-space/build-eigensoft/eigensoft-dbgsym_7.2.1+dfsg-3build1_ppc64el.deb'. Renaming eigensoft-dbgsym_7.2.1+dfsg-3build1_ppc64el.deb to eigensoft-dbgsym_7.2.1+dfsg-3build1_ppc64el.ddeb pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/eigensoft/DEBIAN/control, package eigensoft, directory debian/eigensoft pkgstripfiles: Running PNG optimization (using 4 cpus) for package eigensoft ... pkgstripfiles: No PNG files. dpkg-deb: building package 'eigensoft' in '../eigensoft_7.2.1+dfsg-3build1_ppc64el.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../eigensoft_7.2.1+dfsg-3build1_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 2021-12-07T17:36:01Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ eigensoft_7.2.1+dfsg-3build1_ppc64el.changes: --------------------------------------------- Format: 1.8 Date: Tue, 07 Dec 2021 17:29:17 +0000 Source: eigensoft Binary: eigensoft Built-For-Profiles: noudeb Architecture: ppc64el Version: 7.2.1+dfsg-3build1 Distribution: jammy-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Steve Langasek Description: eigensoft - reduction of population bias for genetic analyses Changes: eigensoft (7.2.1+dfsg-3build1) jammy; urgency=medium . * No-change rebuild against libgsl27 Checksums-Sha1: e00d2e2d269367fc2017cd4b47c78a53d7babd8b 799578 eigensoft-dbgsym_7.2.1+dfsg-3build1_ppc64el.ddeb a7a2fbd3f789ec6ee5d367a7cf4f81f47e7fb10b 6286 eigensoft_7.2.1+dfsg-3build1_ppc64el.buildinfo afab1da84eeb0c266a89ae6781814f10b6d4bcec 399500 eigensoft_7.2.1+dfsg-3build1_ppc64el.deb Checksums-Sha256: 0e8f65a0dc9386e946ea6322e3cd7050099255c29dfbb8d9e510c2ab788a6f58 799578 eigensoft-dbgsym_7.2.1+dfsg-3build1_ppc64el.ddeb a660aef25f5f399caa3792b95b5fcc96f9d9fbe47992c6f3c0d9ea1bbdf92972 6286 eigensoft_7.2.1+dfsg-3build1_ppc64el.buildinfo 291b311c836b6640270ba03d0fc998737a052a46b53337f874b062456fd80af0 399500 eigensoft_7.2.1+dfsg-3build1_ppc64el.deb Files: 86346140d3c679c26eb9ee3dae0fe2ed 799578 debug optional eigensoft-dbgsym_7.2.1+dfsg-3build1_ppc64el.ddeb 4c40aa3b0ec03fd14691d91a3a045ea4 6286 science optional eigensoft_7.2.1+dfsg-3build1_ppc64el.buildinfo 0e2aaab34079878cc5f660f18ab3861f 399500 science optional eigensoft_7.2.1+dfsg-3build1_ppc64el.deb Original-Maintainer: Debian Med Packaging Team +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: eigensoft Binary: eigensoft eigensoft-dbgsym Architecture: ppc64el Version: 7.2.1+dfsg-3build1 Checksums-Md5: 86346140d3c679c26eb9ee3dae0fe2ed 799578 eigensoft-dbgsym_7.2.1+dfsg-3build1_ppc64el.ddeb 0e2aaab34079878cc5f660f18ab3861f 399500 eigensoft_7.2.1+dfsg-3build1_ppc64el.deb Checksums-Sha1: e00d2e2d269367fc2017cd4b47c78a53d7babd8b 799578 eigensoft-dbgsym_7.2.1+dfsg-3build1_ppc64el.ddeb afab1da84eeb0c266a89ae6781814f10b6d4bcec 399500 eigensoft_7.2.1+dfsg-3build1_ppc64el.deb Checksums-Sha256: 0e8f65a0dc9386e946ea6322e3cd7050099255c29dfbb8d9e510c2ab788a6f58 799578 eigensoft-dbgsym_7.2.1+dfsg-3build1_ppc64el.ddeb 291b311c836b6640270ba03d0fc998737a052a46b53337f874b062456fd80af0 399500 eigensoft_7.2.1+dfsg-3build1_ppc64el.deb Build-Origin: Ubuntu Build-Architecture: ppc64el Build-Date: Tue, 07 Dec 2021 17:36:01 +0000 Build-Path: /<>/eigensoft-7.2.1+dfsg Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1.1), autopoint (= 0.21-4ubuntu3), autotools-dev (= 20180224.1+nmu1), base-files (= 12ubuntu2), base-passwd (= 3.5.52), bash (= 5.1-5ubuntu1), binutils (= 2.37-10ubuntu1), binutils-common (= 2.37-10ubuntu1), binutils-powerpc64le-linux-gnu (= 2.37-10ubuntu1), bsdextrautils (= 2.37.2-4ubuntu1), bsdutils (= 1:2.37.2-4ubuntu1), build-essential (= 12.9ubuntu2), bzip2 (= 1.0.8-5), coreutils (= 8.32-4ubuntu3), cpp (= 4:11.2.0-1ubuntu1), cpp-11 (= 11.2.0-12ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-3), debconf (= 1.5.79), debhelper (= 13.5.2ubuntu1), debianutils (= 5.5-1ubuntu1), debugedit (= 1:5.0-3), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.12.1-1), diffutils (= 1:3.8-0ubuntu1), dpkg (= 1.20.9ubuntu3), dpkg-dev (= 1.20.9ubuntu3), dwz (= 0.14-1build1), file (= 1:5.41-2), findutils 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(= 2.96-7ubuntu2), tar (= 1.34+dfsg-1build2), util-linux (= 2.37.2-4ubuntu1), xz-utils (= 5.2.5-2build1), zlib1g (= 1:1.2.11.dfsg-2ubuntu7) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1638898157" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ eigensoft_7.2.1+dfsg-3build1_ppc64el.deb ---------------------------------------- new Debian package, version 2.0. size 399500 bytes: control archive=3358 bytes. 1238 bytes, 21 lines control 13143 bytes, 161 lines md5sums Package: eigensoft Version: 7.2.1+dfsg-3build1 Architecture: ppc64el Maintainer: Ubuntu Developers Installed-Size: 3267 Depends: libblas3 | libblas.so.3, libc6 (>= 2.34), libgsl27 (>= 2.7.1), liblapack3 | liblapack.so.3, liblapacke (>= 3.9.0), perl:any Recommends: gnuplot Section: science Priority: optional Homepage: http://www.hsph.harvard.edu/faculty/alkes-price/software/ Description: reduction of population bias for genetic analyses The EIGENSOFT package combines functionality from the group's population genetics methods (Patterson et al. 2006) and their EIGENSTRAT stratification method (Price et al. 2006). The EIGENSTRAT method uses principal components analysis to explicitly model ancestry differences between cases and controls along continuous axes of variation; the resulting correction is specific to a candidate marker's variation in frequency across ancestral populations, minimizing spurious associations while maximizing power to detect true associations. The EIGENSOFT package has a built-in plotting script and supports multiple file formats and quantitative phenotypes. 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+------------------------------------------------------------------------------+ Build Architecture: ppc64el Build Type: any Build-Space: n/a Build-Time: 46 Distribution: jammy-proposed Host Architecture: ppc64el Install-Time: 9 Job: eigensoft_7.2.1+dfsg-3build1.dsc Machine Architecture: ppc64el Package: eigensoft Package-Time: 56 Source-Version: 7.2.1+dfsg-3build1 Space: n/a Status: successful Version: 7.2.1+dfsg-3build1 -------------------------------------------------------------------------------- Finished at 2021-12-07T17:36:01Z Build needed 00:00:56, no disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=jammy --arch=ppc64el PACKAGEBUILD-22599459 Scanning for processes to kill in build PACKAGEBUILD-22599459