https://launchpad.net/ubuntu/+source/paml/4.9j+dfsg-4/+build/25421401 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-s390x-015 5.4.0-135-generic #152-Ubuntu SMP Wed Nov 23 21:05:01 UTC 2022 s390x Buildd toolchain package versions: launchpad-buildd_225~602~ubuntu20.04.1 python3-lpbuildd_225~602~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.6 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 24 Dec 23:17:55 ntpdate[1885]: adjust time server 10.211.37.1 offset 0.009063 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-25421401 --image-type chroot /home/buildd/filecache-default/468798099027aa5e2ab21f9ad247c5e999aa6222 Creating target for build PACKAGEBUILD-25421401 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-25421401 Starting target for build PACKAGEBUILD-25421401 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-25421401 'deb http://ftpmaster.internal/ubuntu lunar main universe' 'deb http://ftpmaster.internal/ubuntu lunar-security main universe' 'deb http://ftpmaster.internal/ubuntu lunar-updates main universe' 'deb http://ftpmaster.internal/ubuntu lunar-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-25421401 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-25421401 Updating target for build PACKAGEBUILD-25421401 Get:1 http://ftpmaster.internal/ubuntu lunar InRelease [267 kB] Get:2 http://ftpmaster.internal/ubuntu lunar-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu lunar-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu lunar-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu lunar/main s390x Packages [1319 kB] Get:6 http://ftpmaster.internal/ubuntu lunar/main Translation-en [511 kB] Get:7 http://ftpmaster.internal/ubuntu lunar/universe s390x Packages [13.6 MB] Get:8 http://ftpmaster.internal/ubuntu lunar/universe Translation-en [5867 kB] Get:9 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x Packages [176 kB] Get:10 http://ftpmaster.internal/ubuntu lunar-proposed/main Translation-en [85.3 kB] Get:11 http://ftpmaster.internal/ubuntu lunar-proposed/universe s390x Packages [1740 kB] Get:12 http://ftpmaster.internal/ubuntu lunar-proposed/universe Translation-en [629 kB] Fetched 24.5 MB in 11s (2145 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: libperl5.34 perl-modules-5.34 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: lsb-base* The following NEW packages will be installed: libjansson4 libperl5.36 perl-modules-5.36 The following packages will be upgraded: adduser binutils binutils-common binutils-s390x-linux-gnu ca-certificates coreutils cpp-12 dash debconf diffutils dpkg dpkg-dev g++-12 gcc-12 gcc-12-base gpg gpg-agent gpgconf gpgv libapparmor1 libasan8 libatomic1 libaudit-common libaudit1 libbinutils libcap2 libcc1-0 libctf-nobfd0 libctf0 libdpkg-perl libgcc-12-dev libgcc-s1 libgomp1 libgssapi-krb5-2 libitm1 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblz4-1 liblzma5 libpcre3 libsqlite3-0 libssl3 libstdc++-12-dev libstdc++6 libsystemd-shared libsystemd0 libubsan1 libudev1 linux-libc-dev openssl perl perl-base systemd systemd-sysv sysvinit-utils xz-utils zlib1g 60 upgraded, 3 newly installed, 1 to remove and 0 not upgraded. Need to get 70.4 MB of archives. After this operation, 47.4 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x coreutils s390x 9.1-1ubuntu1 [1391 kB] Get:2 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x liblzma5 s390x 5.4.0-0.1 [123 kB] Get:3 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x dpkg s390x 1.21.13ubuntu1 [1333 kB] Get:4 http://ftpmaster.internal/ubuntu lunar/main s390x dash s390x 0.5.11+git20210903+057cd650a4ed-9ubuntu1 [89.3 kB] Get:5 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x diffutils s390x 1:3.8-3 [177 kB] Get:6 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x perl-modules-5.36 all 5.36.0-6 [2985 kB] Get:7 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libperl5.36 s390x 5.36.0-6 [4714 kB] Get:8 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x perl s390x 5.36.0-6 [235 kB] Get:9 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x perl-base s390x 5.36.0-6 [1714 kB] Get:10 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x zlib1g s390x 1:1.2.13.dfsg-1ubuntu3 [65.6 kB] Get:11 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x sysvinit-utils s390x 3.05-7ubuntu1 [26.4 kB] Get:12 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x systemd-sysv s390x 252.1-1ubuntu1 [11.4 kB] Get:13 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libaudit-common all 1:3.0.7-1ubuntu3 [4864 B] Get:14 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libaudit1 s390x 1:3.0.7-1ubuntu3 [45.4 kB] Get:15 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x debconf all 1.5.80 [125 kB] Get:16 http://ftpmaster.internal/ubuntu lunar/main s390x libssl3 s390x 3.0.5-2ubuntu2 [1565 kB] Get:17 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libkmod2 s390x 30+20220905-1ubuntu1 [48.1 kB] Get:18 http://ftpmaster.internal/ubuntu lunar/main s390x libapparmor1 s390x 3.0.8-1ubuntu1 [37.0 kB] Get:19 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libcap2 s390x 1:2.66-3 [28.0 kB] Get:20 http://ftpmaster.internal/ubuntu lunar/main s390x liblz4-1 s390x 1.9.4-1 [59.9 kB] Get:21 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x systemd s390x 252.1-1ubuntu1 [2853 kB] Get:22 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libsystemd-shared s390x 252.1-1ubuntu1 [1655 kB] Get:23 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libsystemd0 s390x 252.1-1ubuntu1 [317 kB] Get:24 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libcc1-0 s390x 12.2.0-10ubuntu1 [45.5 kB] Get:25 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libctf-nobfd0 s390x 2.39.50.20221224-1ubuntu1 [94.3 kB] Get:26 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libctf0 s390x 2.39.50.20221224-1ubuntu1 [94.2 kB] Get:27 http://ftpmaster.internal/ubuntu lunar/main s390x libjansson4 s390x 2.14-2 [31.8 kB] Get:28 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x binutils-s390x-linux-gnu s390x 2.39.50.20221224-1ubuntu1 [2055 kB] Get:29 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libbinutils s390x 2.39.50.20221224-1ubuntu1 [462 kB] Get:30 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x binutils-common s390x 2.39.50.20221224-1ubuntu1 [225 kB] Get:31 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x binutils s390x 2.39.50.20221224-1ubuntu1 [3106 B] Get:32 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libgomp1 s390x 12.2.0-10ubuntu1 [122 kB] Get:33 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libitm1 s390x 12.2.0-10ubuntu1 [29.5 kB] Get:34 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libatomic1 s390x 12.2.0-10ubuntu1 [8942 B] Get:35 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libasan8 s390x 12.2.0-10ubuntu1 [2409 kB] Get:36 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libubsan1 s390x 12.2.0-10ubuntu1 [958 kB] Get:37 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gcc-12-base s390x 12.2.0-10ubuntu1 [19.6 kB] Get:38 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libstdc++6 s390x 12.2.0-10ubuntu1 [728 kB] Get:39 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x g++-12 s390x 12.2.0-10ubuntu1 [9436 kB] Get:40 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libstdc++-12-dev s390x 12.2.0-10ubuntu1 [2192 kB] Get:41 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libgcc-12-dev s390x 12.2.0-10ubuntu1 [853 kB] Get:42 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gcc-12 s390x 12.2.0-10ubuntu1 [16.2 MB] Get:43 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x cpp-12 s390x 12.2.0-10ubuntu1 [8165 kB] Get:44 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libgcc-s1 s390x 12.2.0-10ubuntu1 [28.4 kB] Get:45 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libudev1 s390x 252.1-1ubuntu1 [86.8 kB] Get:46 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x adduser all 3.129ubuntu1 [59.0 kB] Get:47 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gpgv s390x 2.2.40-1ubuntu2 [134 kB] Get:48 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpcre3 s390x 2:8.39-15 [170 kB] Get:49 http://ftpmaster.internal/ubuntu lunar/main s390x openssl s390x 3.0.5-2ubuntu2 [1164 kB] Get:50 http://ftpmaster.internal/ubuntu lunar/main s390x ca-certificates all 20211016ubuntu1 [141 kB] Get:51 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libkeyutils1 s390x 1.6.3-2 [9134 B] Get:52 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libkrb5support0 s390x 1.20.1-1build1 [31.4 kB] Get:53 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libk5crypto3 s390x 1.20.1-1build1 [82.6 kB] Get:54 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libgssapi-krb5-2 s390x 1.20.1-1build1 [136 kB] Get:55 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libkrb5-3 s390x 1.20.1-1build1 [339 kB] Get:56 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libsqlite3-0 s390x 3.40.0-2 [642 kB] Get:57 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x xz-utils s390x 5.4.0-0.1 [176 kB] Get:58 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x dpkg-dev all 1.21.13ubuntu1 [1070 kB] Get:59 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libdpkg-perl all 1.21.13ubuntu1 [242 kB] Get:60 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gpg s390x 2.2.40-1ubuntu2 [508 kB] Get:61 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gpgconf s390x 2.2.40-1ubuntu2 [94.8 kB] Get:62 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gpg-agent s390x 2.2.40-1ubuntu2 [213 kB] Get:63 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x linux-libc-dev s390x 5.19.0-23.24 [1339 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 70.4 MB in 25s (2816 kB/s) (Reading database ... 13421 files and directories currently installed.) Preparing to unpack .../coreutils_9.1-1ubuntu1_s390x.deb ... Unpacking coreutils (9.1-1ubuntu1) over (8.32-4.1ubuntu1) ... Setting up coreutils (9.1-1ubuntu1) ... (Reading database ... 13421 files and directories currently installed.) Preparing to unpack .../liblzma5_5.4.0-0.1_s390x.deb ... Unpacking liblzma5:s390x (5.4.0-0.1) over (5.2.9-0.0) ... Setting up liblzma5:s390x (5.4.0-0.1) ... (Reading database ... 13421 files and directories currently installed.) Preparing to unpack .../dpkg_1.21.13ubuntu1_s390x.deb ... Unpacking dpkg (1.21.13ubuntu1) over (1.21.11ubuntu2) ... Setting up dpkg (1.21.13ubuntu1) ... (Reading database ... 13421 files and directories currently installed.) Preparing to unpack .../dash_0.5.11+git20210903+057cd650a4ed-9ubuntu1_s390x.deb ... Unpacking dash (0.5.11+git20210903+057cd650a4ed-9ubuntu1) over (0.5.11+git20210903+057cd650a4ed-8ubuntu1) ... Setting up dash (0.5.11+git20210903+057cd650a4ed-9ubuntu1) ... (Reading database ... 13421 files and directories currently installed.) Preparing to unpack .../diffutils_1%3a3.8-3_s390x.deb ... Unpacking diffutils (1:3.8-3) over (1:3.8-1) ... Setting up diffutils (1:3.8-3) ... (Reading database ... 13421 files and directories currently installed.) Preparing to unpack .../perl_5.36.0-6_s390x.deb ... Unpacking perl (5.36.0-6) over (5.34.0-5ubuntu1) ... Selecting previously unselected package perl-modules-5.36. Preparing to unpack .../perl-modules-5.36_5.36.0-6_all.deb ... Unpacking perl-modules-5.36 (5.36.0-6) ... Selecting previously unselected package libperl5.36:s390x. Preparing to unpack .../libperl5.36_5.36.0-6_s390x.deb ... Unpacking libperl5.36:s390x (5.36.0-6) ... Preparing to unpack .../perl-base_5.36.0-6_s390x.deb ... Unpacking perl-base (5.36.0-6) over (5.34.0-5ubuntu1) ... Setting up perl-base (5.36.0-6) ... (Reading database ... 15345 files and directories currently installed.) 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Setting up libsqlite3-0:s390x (3.40.0-2) ... Setting up binutils-common:s390x (2.39.50.20221224-1ubuntu1) ... Setting up linux-libc-dev:s390x (5.19.0-23.24) ... Setting up libctf-nobfd0:s390x (2.39.50.20221224-1ubuntu1) ... Setting up libgomp1:s390x (12.2.0-10ubuntu1) ... Setting up libjansson4:s390x (2.14-2) ... Setting up libkrb5support0:s390x (1.20.1-1build1) ... Setting up libpcre3:s390x (2:8.39-15) ... Setting up perl-modules-5.36 (5.36.0-6) ... Setting up xz-utils (5.4.0-0.1) ... Setting up libatomic1:s390x (12.2.0-10ubuntu1) ... Setting up libk5crypto3:s390x (1.20.1-1build1) ... Setting up libubsan1:s390x (12.2.0-10ubuntu1) ... Setting up libasan8:s390x (12.2.0-10ubuntu1) ... Setting up gpgconf (2.2.40-1ubuntu2) ... Setting up libkrb5-3:s390x (1.20.1-1build1) ... Setting up libbinutils:s390x (2.39.50.20221224-1ubuntu1) ... Setting up openssl (3.0.5-2ubuntu2) ... Setting up libcc1-0:s390x (12.2.0-10ubuntu1) ... Setting up libperl5.36:s390x (5.36.0-6) ... Setting up gpg (2.2.40-1ubuntu2) ... Setting up libitm1:s390x (12.2.0-10ubuntu1) ... Setting up libkmod2:s390x (30+20220905-1ubuntu1) ... Setting up libctf0:s390x (2.39.50.20221224-1ubuntu1) ... Setting up binutils-s390x-linux-gnu (2.39.50.20221224-1ubuntu1) ... Setting up gpg-agent (2.2.40-1ubuntu2) ... Setting up binutils (2.39.50.20221224-1ubuntu1) ... Setting up ca-certificates (20211016ubuntu1) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 0 added, 3 removed; done. Setting up perl (5.36.0-6) ... Setting up libgcc-12-dev:s390x (12.2.0-10ubuntu1) ... Setting up libgssapi-krb5-2:s390x (1.20.1-1build1) ... Setting up libsystemd-shared:s390x (252.1-1ubuntu1) ... Setting up libdpkg-perl (1.21.13ubuntu1) ... Setting up libstdc++-12-dev:s390x (12.2.0-10ubuntu1) ... Setting up systemd (252.1-1ubuntu1) ... Installing new version of config file /etc/systemd/logind.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... Initializing machine ID from random generator. Setting up dpkg-dev (1.21.13ubuntu1) ... Setting up gcc-12 (12.2.0-10ubuntu1) ... Setting up g++-12 (12.2.0-10ubuntu1) ... Setting up systemd-sysv (252.1-1ubuntu1) ... Processing triggers for debianutils (5.7-0.4) ... Processing triggers for libc-bin (2.36-0ubuntu4) ... (Reading database ... 15353 files and directories currently installed.) Purging configuration files for lsb-base (11.2ubuntu1) ... Processing triggers for ca-certificates (20211016ubuntu1) ... 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-25421401 s390x lunar-proposed -c chroot:build-PACKAGEBUILD-25421401 --arch=s390x --dist=lunar-proposed --nolog paml_4.9j+dfsg-4.dsc Initiating build PACKAGEBUILD-25421401 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-135-generic #152-Ubuntu SMP Wed Nov 23 21:05:01 UTC 2022 s390x sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos02-s390x-015.buildd +==============================================================================+ | paml 4.9j+dfsg-4 (s390x) Sat, 24 Dec 2022 23:18:46 +0000 | +==============================================================================+ Package: paml Version: 4.9j+dfsg-4 Source Version: 4.9j+dfsg-4 Distribution: lunar-proposed Machine Architecture: s390x Host Architecture: s390x Build Architecture: s390x Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-25421401/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/paml-aWNIhO/resolver-wAKgAd' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- paml_4.9j+dfsg-4.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/paml-aWNIhO/paml-4.9j+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/paml-aWNIhO' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [370 B] Get:5 copy:/<>/apt_archive ./ Packages [452 B] Fetched 1779 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.34 perl-modules-5.34 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdw1 libelf1 libfile-stripnondeterminism-perl libicu71 libmagic-mgc libmagic1 libpipeline1 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libtool-doc gfortran | fortran95-compiler 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 groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdw1 libelf1 libfile-stripnondeterminism-perl libicu71 libmagic-mgc libmagic1 libpipeline1 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf sbuild-build-depends-main-dummy 0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 18.4 MB of archives. After this operation, 66.7 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [670 B] Get:2 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libelf1 s390x 0.188-2 [56.2 kB] Get:3 http://ftpmaster.internal/ubuntu lunar/main s390x libicu71 s390x 71.1-3ubuntu1 [10.5 MB] Get:4 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libxml2 s390x 2.9.14+dfsg-1.1 [717 kB] Get:5 http://ftpmaster.internal/ubuntu lunar/main s390x bsdextrautils s390x 2.38.1-4ubuntu1 [71.3 kB] Get:6 http://ftpmaster.internal/ubuntu lunar/main s390x libmagic-mgc s390x 1:5.41-4 [258 kB] Get:7 http://ftpmaster.internal/ubuntu lunar/main s390x libmagic1 s390x 1:5.41-4 [84.8 kB] Get:8 http://ftpmaster.internal/ubuntu lunar/main s390x file s390x 1:5.41-4 [21.4 kB] Get:9 http://ftpmaster.internal/ubuntu lunar/main s390x gettext-base s390x 0.21-10 [37.6 kB] Get:10 http://ftpmaster.internal/ubuntu lunar/main s390x libuchardet0 s390x 0.0.7-1build2 [76.4 kB] Get:11 http://ftpmaster.internal/ubuntu lunar/main s390x groff-base s390x 1.22.4-9 [914 kB] Get:12 http://ftpmaster.internal/ubuntu lunar/main s390x libpipeline1 s390x 1.5.7-1 [23.4 kB] Get:13 http://ftpmaster.internal/ubuntu lunar/main s390x man-db s390x 2.11.1-1 [1216 kB] Get:14 http://ftpmaster.internal/ubuntu lunar/main s390x m4 s390x 1.4.19-1 [243 kB] Get:15 http://ftpmaster.internal/ubuntu lunar/main s390x autoconf all 2.71-2 [338 kB] Get:16 http://ftpmaster.internal/ubuntu lunar/main s390x autotools-dev all 20220109.1 [44.9 kB] Get:17 http://ftpmaster.internal/ubuntu lunar/main s390x automake all 1:1.16.5-1.3 [558 kB] Get:18 http://ftpmaster.internal/ubuntu lunar/main s390x autopoint all 0.21-10 [421 kB] Get:19 http://ftpmaster.internal/ubuntu lunar/main s390x libdebhelper-perl all 13.10.1ubuntu1 [67.1 kB] Get:20 http://ftpmaster.internal/ubuntu lunar/main s390x libtool all 2.4.7-5 [166 kB] Get:21 http://ftpmaster.internal/ubuntu lunar/main s390x dh-autoreconf all 20 [16.1 kB] Get:22 http://ftpmaster.internal/ubuntu lunar/main s390x libarchive-zip-perl all 1.68-1 [90.2 kB] Get:23 http://ftpmaster.internal/ubuntu lunar/main s390x libsub-override-perl all 0.09-4 [8706 B] Get:24 http://ftpmaster.internal/ubuntu lunar/main s390x libfile-stripnondeterminism-perl all 1.13.0-2 [18.2 kB] Get:25 http://ftpmaster.internal/ubuntu lunar/main s390x dh-strip-nondeterminism all 1.13.0-2 [5308 B] Get:26 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libdw1 s390x 0.188-2 [246 kB] Get:27 http://ftpmaster.internal/ubuntu lunar/main s390x debugedit s390x 1:5.0-5 [47.5 kB] Get:28 http://ftpmaster.internal/ubuntu lunar/main s390x dwz s390x 0.14+20220924-2 [108 kB] Get:29 http://ftpmaster.internal/ubuntu lunar/main s390x gettext s390x 0.21-10 [851 kB] Get:30 http://ftpmaster.internal/ubuntu lunar/main s390x intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:31 http://ftpmaster.internal/ubuntu lunar/main s390x po-debconf all 1.0.21+nmu1 [233 kB] Get:32 http://ftpmaster.internal/ubuntu lunar/main s390x debhelper all 13.10.1ubuntu1 [924 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 18.4 MB in 3s (5508 kB/s) Selecting previously unselected package libelf1:s390x. (Reading database ... 15353 files and directories currently installed.) Preparing to unpack .../00-libelf1_0.188-2_s390x.deb ... Unpacking libelf1:s390x (0.188-2) ... Selecting previously unselected package libicu71:s390x. Preparing to unpack .../01-libicu71_71.1-3ubuntu1_s390x.deb ... Unpacking libicu71:s390x (71.1-3ubuntu1) ... Selecting previously unselected package libxml2:s390x. Preparing to unpack .../02-libxml2_2.9.14+dfsg-1.1_s390x.deb ... Unpacking libxml2:s390x (2.9.14+dfsg-1.1) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../03-bsdextrautils_2.38.1-4ubuntu1_s390x.deb ... Unpacking bsdextrautils (2.38.1-4ubuntu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../04-libmagic-mgc_1%3a5.41-4_s390x.deb ... Unpacking libmagic-mgc (1:5.41-4) ... Selecting previously unselected package libmagic1:s390x. Preparing to unpack .../05-libmagic1_1%3a5.41-4_s390x.deb ... Unpacking libmagic1:s390x (1:5.41-4) ... 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Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../31-sbuild-build-depends-main-dummy_0.invalid.0_s390x.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libpipeline1:s390x (1.5.7-1) ... Setting up libicu71:s390x (71.1-3ubuntu1) ... Setting up bsdextrautils (2.38.1-4ubuntu1) ... Setting up libmagic-mgc (1:5.41-4) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.10.1ubuntu1) ... Setting up libmagic1:s390x (1:5.41-4) ... Setting up gettext-base (0.21-10) ... Setting up m4 (1.4.19-1) ... Setting up file (1:5.41-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-10) ... Setting up autoconf (2.71-2) ... Setting up libuchardet0:s390x (0.0.7-1build2) ... Setting up libsub-override-perl (0.09-4) ... Setting up libelf1:s390x (0.188-2) ... Setting up libxml2:s390x (2.9.14+dfsg-1.1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.0-2) ... Setting up libdw1:s390x (0.188-2) ... Setting up gettext (0.21-10) ... Setting up libtool (2.4.7-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.0-2) ... Setting up dwz (0.14+20220924-2) ... Setting up groff-base (1.22.4-9) ... Setting up debugedit (1:5.0-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.11.1-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up debhelper (13.10.1ubuntu1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.36-0ubuntu4) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (s390x included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-135-generic #152-Ubuntu SMP Wed Nov 23 21:05:01 UTC 2022 s390x (s390x) Toolchain package versions: binutils_2.39.50.20221224-1ubuntu1 dpkg-dev_1.21.13ubuntu1 g++-12_12.2.0-10ubuntu1 gcc-12_12.2.0-10ubuntu1 libc6-dev_2.36-0ubuntu4 libstdc++-12-dev_12.2.0-10ubuntu1 libstdc++6_12.2.0-10ubuntu1 linux-libc-dev_5.19.0-23.24 Package versions: adduser_3.129ubuntu1 advancecomp_2.4-1 apt_2.5.4 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-10 autotools-dev_20220109.1 base-files_12.3ubuntu1 base-passwd_3.6.1 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ubuntu-keyring_2021.03.26 usrmerge_33ubuntu1 util-linux_2.38.1-4ubuntu1 util-linux-extra_2.38.1-4ubuntu1 xz-utils_5.4.0-0.1 zlib1g_1:1.2.13.dfsg-1ubuntu3 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: paml Binary: paml, paml-doc Architecture: any all Version: 4.9j+dfsg-4 Maintainer: Debian Med Packaging Team Uploaders: Pjotr Prins , Steffen Moeller , Andreas Tille Homepage: http://abacus.gene.ucl.ac.uk/software/paml.html Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/paml Vcs-Git: https://salsa.debian.org/med-team/paml.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: paml deb science optional arch=any paml-doc deb doc optional arch=all Checksums-Sha1: d40ca19fbd5a49c232a1bd1b863f0d5d69e21bc3 1375380 paml_4.9j+dfsg.orig.tar.xz 6df72417f214dbdbc854288f858daf2dc4f4b4d6 7128 paml_4.9j+dfsg-4.debian.tar.xz Checksums-Sha256: af7ccf450cb26b6b235559f3e6e70241ac59ed87caacf57bd91d6cdfaf81b9b8 1375380 paml_4.9j+dfsg.orig.tar.xz 4b5e900cf702a91e62edaba0d2da4bc780dcd1f6fede76b37b8477ab4980ae57 7128 paml_4.9j+dfsg-4.debian.tar.xz Files: 1300f92065c7d3249a649caf2dad9417 1375380 paml_4.9j+dfsg.orig.tar.xz 4b23b0a163d9adf4f1f3547a12f82adb 7128 paml_4.9j+dfsg-4.debian.tar.xz Dgit: bafdf0890b7a0f08f1b07d2d1fc4d1bfc60aebb3 debian archive/debian/4.9j+dfsg-4 https://git.dgit.debian.org/paml -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmOnFIgUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdrx0RAAovVjfUQxla9ZeV6ShMvIjfui7XyS YjpYPoof0F8ldB9co6NSadVeoonLMdYx0g2Q2XumcNxcpiWFsgqBR8WRcJ5OvW0N VuqhF3dcKM38aXM0TAxSAVEGD0/F26IXJFfeWLN4EEE9GFvE3z5rePYpKfAaaTED iUTt9buwcV6mfb/tDawAEyqWqeHHQM0xOlCzflW24/rQkEITuuMKphYhh2bbzEHK WYMo7sgL1zYMWsVvp5XofPu806gef+uyf0iph7BlPIFtsTvZC5yT1IzEXWtN/K7L 0cnCUvPJaxeqANN8xwh5FqEAX1jhg10W9c49r/7GXaMg49q2bunPnmAF30trG735 WdZhUTIuDo39Un9hV5+buCN1DdR5QTU/W7T/odpPfdvVNzt0ewHprHUtoWEF71R6 B7X15nR2jT1x73LKmELaLBJJxKLo/vD4OSuL7+2VKVxoHh5Br7uaX/pjAWYyzxQK j++6K7QKU+pH3r9u2A/Kfgwy4YW4/X58OBj3lJNLT1qlKR/yxmTYGgU11J3KrJ/P v6qtTBB7HhZ0yJnNsC19EER3P3n+aWLnYDd1dq47NaaHWUtHXTEbtrvjmzgtKOdk jBlqIjgOtB+9MCAR5T1CKpRbIxLJxuEuqqFqrft7IiF1NImCfJ0rchKJueLhKe8j GaAyJ6oK4bSajyQ= =9Rt6 -----END PGP SIGNATURE----- gpgv: Signature made Sat Dec 24 15:02:32 2022 UTC gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./paml_4.9j+dfsg-4.dsc: no acceptable signature found dpkg-source: info: extracting paml in /<> dpkg-source: info: unpacking paml_4.9j+dfsg.orig.tar.xz dpkg-source: info: unpacking paml_4.9j+dfsg-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying gcc10.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying add_clean_target.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-25421401 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-25421401 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-25421401 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package paml dpkg-buildpackage: info: source version 4.9j+dfsg-4 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture s390x debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean cd src && make -j4 clean make[2]: Entering directory '/<>/src' rm -f baseml codeml basemlg mcmctree pamp evolver yn00 chi2 infinitesites make[2]: Leaving directory '/<>/src' rm -f src/baseml src/basemlg src/chi2 src/codeml src/evolver src/infinitesites src/mcmctree src/pamp src/yn00 make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary-arch dh binary-arch --sourcedirectory=src dh_update_autotools_config -a -O--sourcedirectory=src dh_autoreconf -a -O--sourcedirectory=src dh_auto_configure -a -O--sourcedirectory=src dh_auto_build -a -O--sourcedirectory=src cd src && make -j4 "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/src' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -o baseml baseml.c tools.c -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -lm cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -o codeml codeml.c tools.c -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -lm cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -o basemlg basemlg.c tools.c -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -lm cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -o mcmctree mcmctree.c tools.c -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -lm In file included from mcmctree.c:192: treesub.c: In function ‘IdenticalSeqs’: treesub.c:1310:33: warning: passing argument 3 of ‘printSeqs’ from incompatible pointer type [-Wincompatible-pointer-types] 1310 | printSeqs(ftmp, com.z, com.spname, com.ns, com.ls, com.npatt, com.fpatt, NULL, keep, 1); | ~~~^~~~~~~ | | | char ** In file included from mcmctree.c:22: paml.h:150:63: note: expected ‘unsigned char **’ but argument is of type ‘char **’ 150 | void printSeqs(FILE *fout, unsigned char *z[], unsigned char *spnames[], int ns, int ls, int npatt, double fpatt[], int *pose, char keep[], int format); | ~~~~~~~~~~~~~~~^~~~~~~~~ In file included from basemlg.c:80: treesub.c: In function ‘ReadSeq’: treesub.c:858:31: warning: passing argument 2 of ‘printsma’ from incompatible pointer type [-Wincompatible-pointer-types] 858 | printsma(fout, com.spname, com.z, com.ns, com.ls, com.ls, gap, com.seqtype, 0, 0, NULL); | ~~~^~~~~~~ | | | unsigned char ** In file included from basemlg.c:11: paml.h:153:31: note: expected ‘char **’ but argument is of type ‘unsigned char **’ 153 | int printsma (FILE*fout, char*spname[], unsigned char*z[], int ns, int l, int lline, int gap, int seqtype, | ~~~~~^~~~~~~~ treesub.c:866:28: warning: passing argument 2 of ‘printsma’ from incompatible pointer type [-Wincompatible-pointer-types] 866 | printsma(fout, com.spname, com.z, com.ns, com.ls, com.ls, gap, com.seqtype, 0, 0, NULL); | ~~~^~~~~~~ | | | unsigned char ** paml.h:153:31: note: expected ‘char **’ but argument is of type ‘unsigned char **’ 153 | int printsma (FILE*fout, char*spname[], unsigned char*z[], int ns, int l, int lline, int gap, int seqtype, | ~~~~~^~~~~~~~ treesub.c: In function ‘printPatterns’: treesub.c:1093:25: warning: passing argument 2 of ‘printsma’ from incompatible pointer type [-Wincompatible-pointer-types] 1093 | printsma(fout, com.spname, com.z, com.ns, com.npatt, com.npatt, gap, com.seqtype, 1, 0, NULL); | ~~~^~~~~~~ | | | unsigned char ** paml.h:153:31: note: expected ‘char **’ but argument is of type ‘unsigned char **’ 153 | int printsma (FILE*fout, char*spname[], unsigned char*z[], int ns, int l, int lline, int gap, int seqtype, | ~~~~~^~~~~~~~ treesub.c: In function ‘AllPatterns’: treesub.c:1361:25: warning: passing argument 2 of ‘printsma’ from incompatible pointer type [-Wincompatible-pointer-types] 1361 | printsma(fout, com.spname, com.z, com.ns, com.ls, com.ls, gap, com.seqtype, 1, 0, NULL); | ~~~^~~~~~~ | | | unsigned char ** paml.h:153:31: note: expected ‘char **’ but argument is of type ‘unsigned char **’ 153 | int printsma (FILE*fout, char*spname[], unsigned char*z[], int ns, int l, int lline, int gap, int seqtype, | ~~~~~^~~~~~~~ In file included from baseml.c:131: treesub.c: In function ‘IdenticalSeqs’: treesub.c:1310:33: warning: passing argument 3 of ‘printSeqs’ from incompatible pointer type [-Wincompatible-pointer-types] 1310 | printSeqs(ftmp, com.z, com.spname, com.ns, com.ls, com.npatt, com.fpatt, NULL, keep, 1); | ~~~^~~~~~~ | | | char ** In file included from baseml.c:11: paml.h:150:63: note: expected ‘unsigned char **’ but argument is of type ‘char **’ 150 | void printSeqs(FILE *fout, unsigned char *z[], unsigned char *spnames[], int ns, int ls, int npatt, double fpatt[], int *pose, char keep[], int format); | ~~~~~~~~~~~~~~~^~~~~~~~~ In file included from codeml.c:238: treesub.c: In function ‘IdenticalSeqs’: treesub.c:1310:33: warning: passing argument 3 of ‘printSeqs’ from incompatible pointer type [-Wincompatible-pointer-types] 1310 | printSeqs(ftmp, com.z, com.spname, com.ns, com.ls, com.npatt, com.fpatt, NULL, keep, 1); | ~~~^~~~~~~ | | | char ** In file included from codeml.c:17: paml.h:150:63: note: expected ‘unsigned char **’ but argument is of type ‘char **’ 150 | void printSeqs(FILE *fout, unsigned char *z[], unsigned char *spnames[], int ns, int ls, int npatt, double fpatt[], int *pose, char keep[], int format); | ~~~~~~~~~~~~~~~^~~~~~~~~ treesub.c: In function ‘ReadSeq’: treesub.c:627:13: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 627 | fgets(line, lline, fseq); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:660:39: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c:949:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeB’: treesub.c:2812:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:2827:17: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2827 | if (popline) fgets(line, 254, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeN’: treesub.c:3091:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadMorphology’: treesub.c:447:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 447 | fscanf(fin, "%s", com.spname[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:450:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 450 | fscanf(fin, "%lf", &data.zmorph[locus][i][j]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:3151:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘readx’: treesub.c: In function ‘ReadSeq’: treesub.c:627:13: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 627 | fgets(line, lline, fseq); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:660:39: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c:949:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:3956:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3956 | fscanf(finitials, "%lf", &xin[i = 0]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeB’: treesub.c:2812:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:2827:17: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2827 | if (popline) fgets(line, 254, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeN’: treesub.c:3091:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:3151:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeSeqs’: treesub.c:8742:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 8742 | fscanf(ftree, "%d%d", &stree.nspecies, &i); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c: In function ‘ReadBlengthGH’: mcmctree.c:840:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 840 | fscanf(fBGH, "%d", &i); | ^~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:861:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 861 | fscanf(fBGH, "%lf", &data.blMLE[locus][i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:868:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 868 | fscanf(fBGH, "%lf", &data.Gradient[locus][i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:870:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 870 | fscanf(fBGH, "%s", line); | ^~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c: In function ‘GenerateBlengthGH’: mcmctree.c:1028:7: warning: ignoring return value of ‘system’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1028 | system(line); | ^~~~~~~~~~~~ treesub.c: In function ‘ReadSeq’: treesub.c:627:13: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 627 | fgets(line, lline, fseq); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:660:39: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c:949:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c: In function ‘Infinitesites’: mcmctree.c:1385:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1385 | fscanf(fin, "%d", &i); | ^~~~~~~~~~~~~~~~~~~~~ mcmctree.c:1396:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1396 | fscanf(fin, "%lf", &FixedDs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeB’: treesub.c:2812:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:2827:17: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2827 | if (popline) fgets(line, 254, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeN’: treesub.c:3091:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:3151:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c: In function ‘DescriptiveStatisticsSimpleMCMCTREE’: mcmctree.c:3824:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3824 | fscanf(fin, "%lf", &dat[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘readx’: treesub.c:3956:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3956 | fscanf(finitials, "%lf", &xin[i = 0]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘Perturbation’: treesub.c:4565:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4565 | fscanf(ftree, "%d%d", &i, &ntree); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘StarDecomposition’: treesub.c:4867:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4867 | fscanf(ftree, "%d%d", &i, &ntree); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘rell’: treesub.c:5728:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5728 | fscanf(flnf, "%d%d%d", &ntree0, &ls0, &npatt0); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:5752:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5752 | fscanf(flnf, "%d", &j); | ^~~~~~~~~~~~~~~~~~~~~~ treesub.c:5758:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5758 | fscanf(flnf, "%d%d%lf", &j, &k, &y); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:5763:10: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5763 | fgets(line, lline, flnf); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeSeqs’: treesub.c: In function ‘ReadSeq’: treesub.c:627:13: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 627 | fgets(line, lline, fseq); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:660:39: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c:949:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:8742:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 8742 | fscanf(ftree, "%d%d", &stree.nspecies, &i); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘AdHocRateSmoothing’: treesub.c:9574:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9574 | fscanf(finStep1, "%lf", &x[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:9672:36: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9672 | for (i = 0; i < com.np; i++) fscanf(finStep2, "%lf", &x[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeB’: treesub.c:2812:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:2827:17: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2827 | if (popline) fgets(line, 254, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c:9765:13: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9765 | scanf("%lf", &Rj[j]); | ^~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeN’: treesub.c:3091:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:3151:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘DatingHeteroData’: treesub.c:9884:10: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9884 | scanf("%lf%d? ", &nu_AHRS, &nbrate); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘readx’: treesub.c:3956:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3956 | fscanf(finitials, "%lf", &xin[i = 0]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘Perturbation’: treesub.c:4565:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4565 | fscanf(ftree, "%d%d", &i, &ntree); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘StarDecomposition’: treesub.c:4867:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4867 | fscanf(ftree, "%d%d", &i, &ntree); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘rell’: treesub.c:5728:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5728 | fscanf(flnf, "%d%d%d", &ntree0, &ls0, &npatt0); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:5752:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5752 | fscanf(flnf, "%d", &j); | ^~~~~~~~~~~~~~~~~~~~~~ treesub.c:5758:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5758 | fscanf(flnf, "%d%d%lf", &j, &k, &y); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:5763:10: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5763 | fgets(line, lline, flnf); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeSeqs’: treesub.c:8742:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 8742 | fscanf(ftree, "%d%d", &stree.nspecies, &i); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘AdHocRateSmoothing’: treesub.c:9574:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9574 | fscanf(finStep1, "%lf", &x[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:9672:36: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9672 | for (i = 0; i < com.np; i++) fscanf(finStep2, "%lf", &x[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:9765:13: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9765 | scanf("%lf", &Rj[j]); | ^~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘DatingHeteroData’: treesub.c:9884:10: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9884 | scanf("%lf%d? ", &nu_AHRS, &nbrate); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codeml.c: In function ‘GetDaa’: codeml.c:3911:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3911 | fscanf(fdaa, "%lf", &daa[i*naa + j]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codeml.c: In function ‘GetOmegaAA’: codeml.c:4036:16: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4036 | if (fin) fscanf(fin, "%d", &com.nOmegaType); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codeml.c:4052:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4052 | fscanf(fin, "%d", &j); | ^~~~~~~~~~~~~~~~~~~~~ codeml.c:4056:13: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4056 | fgets(line, nline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ codeml.c: In function ‘PairwiseCodon’: codeml.c:4318:13: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4318 | scanf("%d%d", &is, &js); | ^~~~~~~~~~~~~~~~~~~~~~~ codeml.c: In function ‘lfunNSsites_rate’: codeml.c:5238:10: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5238 | scanf("%d", &continuous); | ^~~~~~~~~~~~~~~~~~~~~~~~ codeml.c:5251:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5251 | fscanf(fsites, "%d%s", &it, sitelabel); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘gfopen’: tools.c:1148:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1148 | scanf("%s", filename); | ^~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘scanfile’: tools.c:5356:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5356 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘DescriptiveStatistics’: tools.c:5678:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5678 | fscanf(fin, "%lf", &data[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c:5689:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:3861:54: warning: ‘%.6g’ directive writing between 1 and 13 bytes into a region of size between 7 and 19 [-Wformat-overflow=] 3861 | sprintf(nodes[j].annotation, "[&95%%HPD={%.6g, %.6g}]", xHPD025[jj], xHPD975[jj]); | ^~~~ mcmctree.c:3861:36: note: assuming directive output of 12 bytes 3861 | sprintf(nodes[j].annotation, "[&95%%HPD={%.6g, %.6g}]", xHPD025[jj], xHPD975[jj]); | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:906, from paml.h:7: In function ‘sprintf’, inlined from ‘DescriptiveStatisticsSimpleMCMCTREE’ at mcmctree.c:3861:7: /usr/include/s390x-linux-gnu/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 17 and 41 bytes into a destination of size 32 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ tools.c: In function ‘gfopen’: tools.c:1148:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1148 | scanf("%s", filename); | ^~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘scanfile’: tools.c:5356:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5356 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘DescriptiveStatistics’: tools.c:5678:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5678 | fscanf(fin, "%lf", &data[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c:5689:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘gfopen’: tools.c:1148:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1148 | scanf("%s", filename); | ^~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘scanfile’: tools.c:5356:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5356 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘DescriptiveStatistics’: tools.c:5678:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5678 | fscanf(fin, "%lf", &data[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c:5689:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -o pamp pamp.c tools.c -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -lm In file included from pamp.c:66: treesub.c: In function ‘IdenticalSeqs’: treesub.c:1310:33: warning: passing argument 3 of ‘printSeqs’ from incompatible pointer type [-Wincompatible-pointer-types] 1310 | printSeqs(ftmp, com.z, com.spname, com.ns, com.ls, com.npatt, com.fpatt, NULL, keep, 1); | ~~~^~~~~~~ | | | char ** In file included from pamp.c:8: paml.h:150:63: note: expected ‘unsigned char **’ but argument is of type ‘char **’ 150 | void printSeqs(FILE *fout, unsigned char *z[], unsigned char *spnames[], int ns, int ls, int npatt, double fpatt[], int *pose, char keep[], int format); | ~~~~~~~~~~~~~~~^~~~~~~~~ treesub.c: In function ‘ReadSeq’: treesub.c:627:13: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 627 | fgets(line, lline, fseq); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:660:39: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c:949:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeB’: treesub.c:2812:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:2827:17: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2827 | if (popline) fgets(line, 254, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeN’: treesub.c:3091:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:3151:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ pamp.c: In function ‘main’: pamp.c:115:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 115 | fscanf(ftree, "%d%d", &i, &ntree); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -o infinitesites -D INFINITESITES mcmctree.c tools.c -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -lm In file included from mcmctree.c:192: treesub.c: In function ‘IdenticalSeqs’: treesub.c:1310:33: warning: passing argument 3 of ‘printSeqs’ from incompatible pointer type [-Wincompatible-pointer-types] 1310 | printSeqs(ftmp, com.z, com.spname, com.ns, com.ls, com.npatt, com.fpatt, NULL, keep, 1); | ~~~^~~~~~~ | | | char ** In file included from mcmctree.c:22: paml.h:150:63: note: expected ‘unsigned char **’ but argument is of type ‘char **’ 150 | void printSeqs(FILE *fout, unsigned char *z[], unsigned char *spnames[], int ns, int ls, int npatt, double fpatt[], int *pose, char keep[], int format); | ~~~~~~~~~~~~~~~^~~~~~~~~ treesub.c: In function ‘ReadMorphology’: treesub.c:447:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 447 | fscanf(fin, "%s", com.spname[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:450:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 450 | fscanf(fin, "%lf", &data.zmorph[locus][i][j]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadSeq’: treesub.c:627:13: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 627 | fgets(line, lline, fseq); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:660:39: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c:949:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeB’: treesub.c:2812:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:2827:17: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2827 | if (popline) fgets(line, 254, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeN’: treesub.c:3091:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:3151:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeSeqs’: treesub.c:8742:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 8742 | fscanf(ftree, "%d%d", &stree.nspecies, &i); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c: In function ‘ReadBlengthGH’: mcmctree.c:840:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 840 | fscanf(fBGH, "%d", &i); | ^~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:861:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 861 | fscanf(fBGH, "%lf", &data.blMLE[locus][i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:868:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 868 | fscanf(fBGH, "%lf", &data.Gradient[locus][i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:870:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 870 | fscanf(fBGH, "%s", line); | ^~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c: In function ‘GenerateBlengthGH’: mcmctree.c:1028:7: warning: ignoring return value of ‘system’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1028 | system(line); | ^~~~~~~~~~~~ mcmctree.c: In function ‘Infinitesites’: mcmctree.c:1385:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1385 | fscanf(fin, "%d", &i); | ^~~~~~~~~~~~~~~~~~~~~ mcmctree.c:1396:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1396 | fscanf(fin, "%lf", &FixedDs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c: In function ‘DescriptiveStatisticsSimpleMCMCTREE’: mcmctree.c:3824:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3824 | fscanf(fin, "%lf", &dat[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -o evolver evolver.c tools.c -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -lm In file included from evolver.c:66: treesub.c: In function ‘ReadTreeB’: treesub.c:2812:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:2827:17: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2827 | if (popline) fgets(line, 254, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘ReadTreeN’: treesub.c:3091:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:3151:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘GetNSfromTreeFile’: treesub.c:4159:16: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4159 | fscanf(ftree, "%lf", &y); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function ‘CladeSupport’: treesub.c:4369:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4369 | fscanf(fM, "%d%d", &i, &ntreeM); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:4397:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4397 | fgets(line, lline, ft); | ^~~~~~~~~~~~~~~~~~~~~~ treesub.c:4419:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 4419 | fscanf(fM, "%d%d", &s, &ntreeM); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘gfopen’: tools.c:1148:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1148 | scanf("%s", filename); | ^~~~~~~~~~~~~~~~~~~~~ evolver.c: In function ‘main’: evolver.c:155:10: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 155 | scanf("%d", &option); | ^~~~~~~~~~~~~~~~~~~~ evolver.c:161:13: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 161 | scanf("%d", &com.ns); | ^~~~~~~~~~~~~~~~~~~~ evolver.c:168:13: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 168 | scanf("%d%d", &ntree, &i); | ^~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:171:13: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 171 | scanf("%d", &BD); | ^~~~~~~~~~~~~~~~ evolver.c:191:16: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 191 | scanf("%lf%lf%lf%lf", &birth, &death, &sample, &mut); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:213:13: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 213 | scanf("%s%s", treefile, mastertreefile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c: In function ‘between_f_and_x’: evolver.c:243:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 243 | scanf("%d", &fromf); | ^~~~~~~~~~~~~~~~~~~ evolver.c:245:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 245 | scanf("%d", &n); if (n > 100) error2("too many classes"); | ^~~~~~~~~~~~~~~ evolver.c:247:21: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 247 | FOR(i, n - 1) scanf("%lf", &x[i]); | ^~~~~~~~~~~~~~~~~~~ evolver.c: In function ‘LabelClades’: evolver.c:269:4: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 269 | scanf("%s", treef); | ^~~~~~~~~~~~~~~~~~ evolver.c:271:4: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 271 | scanf("%d", &unrooted); | ^~~~~~~~~~~~~~~~~~~~~~ evolver.c:274:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 274 | fscanf(ftree, "%d%d", &com.ns, &j); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:291:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 291 | scanf("%s", key); | ^~~~~~~~~~~~~~~~ evolver.c: In function ‘TreeDistanceDistribution’: evolver.c:390:4: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 390 | scanf("%s", treef); | ^~~~~~~~~~~~~~~~~~ evolver.c:393:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 393 | fscanf(ftree, "%d%d", &com.ns, &ntree); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c: In function ‘TreeDistances’: evolver.c:446:4: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 446 | scanf("%s", treef); | ^~~~~~~~~~~~~~~~~~ evolver.c:449:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 449 | fscanf(ftree, "%d%d", &com.ns, &ntree); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:458:4: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 458 | scanf("%d", &k); | ^~~~~~~~~~~~~~~ tools.c: In function ‘scanfile’: tools.c:5356:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5356 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c: In function ‘GetDaa’: evolver.c:638:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 638 | fscanf(fdaa, "%lf", &daa[i*n + j]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘DescriptiveStatistics’: tools.c:5678:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5678 | fscanf(fin, "%lf", &data[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c:5689:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c: In function ‘Simulate’: evolver.c:809:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 809 | fscanf(fin, "%d", &format); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:810:4: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 810 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:814:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 814 | fscanf(fin, "%d", &i); | ^~~~~~~~~~~~~~~~~~~~~ evolver.c:815:4: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 815 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:817:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 817 | fscanf(fin, "%d%d%d", &com.ns, &com.ls, &nr); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:818:4: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 818 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:830:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 830 | fscanf(fin, "%lf", &tlength); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:830:39: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 830 | fscanf(fin, "%lf", &tlength); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:854:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 854 | fscanf(fin, "%lf%lf%lf%lf", &birth, &death, &sample, &mut); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:855:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 855 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:860:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 860 | fscanf(fin, "%d", &com.model); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:861:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 861 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:868:21: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 868 | FOR(i, nrate) fscanf(fin, "%lf", &Qrates[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:869:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 869 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:882:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 882 | fscanf(fin, "%d", &com.ncatG); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:882:43: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 882 | fscanf(fin, "%d", &com.ncatG); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:884:28: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 884 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:884:64: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 884 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:885:28: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 885 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.rK[i]); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:885:64: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 885 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.rK[i]); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:891:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 891 | fscanf(fin, "%d", &com.ncatG); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:891:43: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 891 | fscanf(fin, "%d", &com.ncatG); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:893:28: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 893 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:893:64: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 893 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:924:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 924 | fscanf(fin, "%lf", &com.omega); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:925:10: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 925 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:931:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 931 | fscanf(fin, "%lf", &com.kappa); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:931:41: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 931 | fscanf(fin, "%lf", &com.kappa); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:936:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 936 | fscanf(fin, "%lf%d", &com.alpha, &com.ncatG); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:937:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 937 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:953:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 953 | fscanf(fin, "%d", &com.model); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:955:29: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 955 | if (com.model >= 2) { fscanf(fin, "%s", com.daafile); GetDaa(NULL, com.daa); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:956:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 956 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:963:39: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 963 | for (k = 0; k < com.ncode; k++) fscanf(fin, "%lf", &com.pi[k]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:970:7: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 970 | fscanf(fin, "%d", &com.icode); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:970:40: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 970 | fscanf(fin, "%d", &com.icode); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c: In function ‘CladeMrBayesProbabilities’: evolver.c:1268:4: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1268 | fscanf(ftree, "%d%d", &i, &k); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:3861:54: warning: ‘%.6g’ directive writing between 1 and 13 bytes into a region of size between 7 and 19 [-Wformat-overflow=] 3861 | sprintf(nodes[j].annotation, "[&95%%HPD={%.6g, %.6g}]", xHPD025[jj], xHPD975[jj]); | ^~~~ mcmctree.c:3861:36: note: assuming directive output of 12 bytes 3861 | sprintf(nodes[j].annotation, "[&95%%HPD={%.6g, %.6g}]", xHPD025[jj], xHPD975[jj]); | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:906, from paml.h:7: In function ‘sprintf’, inlined from ‘DescriptiveStatisticsSimpleMCMCTREE’ at mcmctree.c:3861:7: /usr/include/s390x-linux-gnu/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 17 and 41 bytes into a destination of size 32 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ tools.c: In function ‘gfopen’: tools.c:1148:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1148 | scanf("%s", filename); | ^~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘scanfile’: tools.c:5356:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5356 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘DescriptiveStatistics’: tools.c:5678:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5678 | fscanf(fin, "%lf", &data[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c:5689:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘gfopen’: tools.c:1148:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1148 | scanf("%s", filename); | ^~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘scanfile’: tools.c:5356:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5356 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘DescriptiveStatistics’: tools.c:5678:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5678 | fscanf(fin, "%lf", &data[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c:5689:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘gfopen’: tools.c:1148:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1148 | scanf("%s", filename); | ^~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘scanfile’: tools.c:5356:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5356 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘DescriptiveStatistics’: tools.c:5678:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5678 | fscanf(fin, "%lf", &data[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c:5689:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -o yn00 yn00.c tools.c -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -lm In file included from yn00.c:70: treesub.c: In function ‘IdenticalSeqs’: treesub.c:1310:33: warning: passing argument 3 of ‘printSeqs’ from incompatible pointer type [-Wincompatible-pointer-types] 1310 | printSeqs(ftmp, com.z, com.spname, com.ns, com.ls, com.npatt, com.fpatt, NULL, keep, 1); | ~~~^~~~~~~ | | | char ** In file included from yn00.c:13: paml.h:150:63: note: expected ‘unsigned char **’ but argument is of type ‘char **’ 150 | void printSeqs(FILE *fout, unsigned char *z[], unsigned char *spnames[], int ns, int ls, int npatt, double fpatt[], int *pose, char keep[], int format); | ~~~~~~~~~~~~~~~^~~~~~~~~ treesub.c: In function ‘ReadSeq’: treesub.c:627:13: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 627 | fgets(line, lline, fseq); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:660:39: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); | ^~~~~~~~~~~~~~~~~~~~~~~ treesub.c:949:13: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -O3 -o chi2 chi2.c -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -lm chi2.c: In function ‘main’: chi2.c:54:10: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 54 | scanf ("%d%lf", &df, &chi2); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘gfopen’: tools.c:1148:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1148 | scanf("%s", filename); | ^~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘scanfile’: tools.c:5356:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5356 | fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ tools.c: In function ‘DescriptiveStatistics’: tools.c:5678:10: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5678 | fscanf(fin, "%lf", &data[j*n + i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools.c:5689:7: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[1]: Leaving directory '/<>/src' dh_auto_test -a -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -a -O--sourcedirectory=src dh_prep -a -O--sourcedirectory=src dh_auto_install -a -O--sourcedirectory=src debian/rules override_dh_install-arch make[1]: Entering directory '/<>' dh_install -a for datfile in debian/paml//usr/lib/paml/data/*.ctl ; do \ for item in seqfile treefile ; do \ sed -i -e "s?\(${item} =\).*[^a-z^A-Z^0-9^.^ ]\+\([a-zA-Z0-9]\+\.[a-z]\+\)?\1 /usr/lib/paml/data/\2?" \ -e "s?\(${item} =\) \([a-zA-Z0-9]\+\.[a-z]\+\)?\1 /usr/lib/paml/data/\2?" \ ${datfile} ; \ done ; \ done sed -i 's?\(aaRatefile = \)\(dat/jones.dat\)?\1/usr/lib/paml/data/\2?' debian/paml//usr/lib/paml/data/codeml.ctl make[1]: Leaving directory '/<>' dh_installdocs -a -O--sourcedirectory=src dh_installchangelogs -a -O--sourcedirectory=src debian/rules override_dh_installexamples make[1]: Entering directory '/<>' dh_installexamples for d in `find debian -name examples -a -type d`; do \ find $d \! -type d | xargs -r chmod -x ; \ done make[1]: Leaving directory '/<>' dh_installsystemduser -a -O--sourcedirectory=src dh_perl -a -O--sourcedirectory=src debian/rules override_dh_link-arch make[1]: Entering directory '/<>' dh_link -a mkdir -p debian/paml/etc/paml/ for datfile in debian/paml//usr/lib/paml/data/*.ctl ; do \ ln -s /usr/lib/paml/data/`basename ${datfile}` debian/paml/etc/paml ; \ done make[1]: Leaving directory '/<>' dh_strip_nondeterminism -a -O--sourcedirectory=src dh_compress -a -O--sourcedirectory=src debian/rules override_dh_fixperms-arch make[1]: Entering directory '/<>' dh_fixperms -a find debian/*/usr/lib/paml/data -type f -exec chmod -x \{\} \; make[1]: Leaving directory '/<>' dh_missing -a -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src dh_strip -a -O--sourcedirectory=src debugedit: debian/paml/usr/lib/paml/bin/basemlg: Unknown DWARF DW_FORM_0x1f21 19f76794e7873c9e34d0a4542ba9965925751662 debugedit: debian/paml/usr/lib/paml/bin/evolver: Unknown DWARF DW_FORM_0x1f20 78a902de7eb9d24039c0a067eb5772aa043e05db debugedit: debian/paml/usr/lib/paml/bin/mcmctree: Unknown DWARF DW_FORM_0x1f20 bb17e5705857218137ad0695247b3f44f0e4ea7a debugedit: debian/paml/usr/lib/paml/bin/chi2: Unknown DWARF DW_FORM_0x1f20 7e4254c4544ea6c437d4dd3aa5fb6588a3d3fbda debugedit: debian/paml/usr/lib/paml/bin/baseml: Unknown DWARF DW_FORM_0x1f21 c30799c1415be9b9be2f8cb95d5a8e634c1c61f3 debugedit: debian/paml/usr/lib/paml/bin/yn00: Unknown DWARF DW_FORM_0x1f20 5b7adb11f961e7224bd3bde66f5a5870afc59bc6 debugedit: debian/paml/usr/lib/paml/bin/pamp: Unknown DWARF DW_FORM_0x1f20 77cbe5049f95096492e5e0f3b222e37e9c1cd73c debugedit: debian/paml/usr/lib/paml/bin/codeml: Unknown DWARF DW_FORM_0x1f20 363062b6f8f787f0d43cd09bcac5ac37cd5db9db dh_makeshlibs -a -O--sourcedirectory=src dh_shlibdeps -a -O--sourcedirectory=src dh_installdeb -a -O--sourcedirectory=src dh_gencontrol -a -O--sourcedirectory=src dh_md5sums -a -O--sourcedirectory=src dh_builddeb -a -O--sourcedirectory=src INFO: pkgstriptranslations version 149 INFO: pkgstriptranslations version 149 pkgstriptranslations: processing paml (in debian/paml); do_strip: , oemstrip: pkgstriptranslations: processing paml-dbgsym (in debian/.debhelper/paml/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/paml/DEBIAN/control, package paml, directory debian/paml pkgstripfiles: processing control file: debian/.debhelper/paml/dbgsym-root/DEBIAN/control, package paml-dbgsym, directory debian/.debhelper/paml/dbgsym-root dpkg-deb: building package 'paml-dbgsym' in 'debian/.debhelper/scratch-space/build-paml/paml-dbgsym_4.9j+dfsg-4_s390x.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package paml ... pkgstripfiles: No PNG files. dpkg-deb: building package 'paml' in '../paml_4.9j+dfsg-4_s390x.deb'. Renaming paml-dbgsym_4.9j+dfsg-4_s390x.deb to paml-dbgsym_4.9j+dfsg-4_s390x.ddeb dpkg-genbuildinfo --build=any -O../paml_4.9j+dfsg-4_s390x.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../paml_4.9j+dfsg-4_s390x.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2022-12-24T23:19:53Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ paml_4.9j+dfsg-4_s390x.changes: ------------------------------- Format: 1.8 Date: Sat, 24 Dec 2022 13:14:11 +0100 Source: paml Binary: paml Built-For-Profiles: noudeb Architecture: s390x Version: 4.9j+dfsg-4 Distribution: lunar-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Étienne Mollier Description: paml - Phylogenetic Analysis by Maximum Likelihood (PAML) Closes: 1026913 Changes: paml (4.9j+dfsg-4) unstable; urgency=medium . * Team upload. * hardening.patch: fortify source and fix crossbuilds. * add_clean_target.patch: refresh. * d/t/run-unit-test: only run Test 4 on !amd64. (Closes: #1026913) * Standards-Version: 4.6.2 (routine-update) * paml-doc: Add Multi-Arch: foreign. * debhelper-compat 13 (routine-update) * watch file standard 4 (routine-update) Checksums-Sha1: 4455f776ba2684eab11dcbc1fab9296a4d0a96f8 1013030 paml-dbgsym_4.9j+dfsg-4_s390x.ddeb 309721fbc22b4e6ae8571be29f85596b8c706459 5599 paml_4.9j+dfsg-4_s390x.buildinfo 2cc2fa47da568486a53d4da0adb3d58453e16403 693030 paml_4.9j+dfsg-4_s390x.deb Checksums-Sha256: 7aab3964fe01ae3a746caf43bf2731d963a6534b4116d40f043b9f08bf2ec6a0 1013030 paml-dbgsym_4.9j+dfsg-4_s390x.ddeb 65f9b35baf316faea358c11305f0edd80034169dfa7e0353d87fbb6e4ddf40b7 5599 paml_4.9j+dfsg-4_s390x.buildinfo f3fd32c2cd57d976525306099f3b69a6b96f104cf2852748000e90ecbe43dfba 693030 paml_4.9j+dfsg-4_s390x.deb Files: ba29bd61dd4074b56ff27da88a0813b4 1013030 debug optional paml-dbgsym_4.9j+dfsg-4_s390x.ddeb ce96776b4ac86e01a89bd98a51aeb89a 5599 science optional paml_4.9j+dfsg-4_s390x.buildinfo 95a2dabf9edc158d60f56e9c5a9443e0 693030 science optional paml_4.9j+dfsg-4_s390x.deb /<>/paml_4.9j+dfsg-4_s390x.changes.new could not be renamed to /<>/paml_4.9j+dfsg-4_s390x.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: paml Binary: paml paml-dbgsym Architecture: s390x Version: 4.9j+dfsg-4 Checksums-Md5: ba29bd61dd4074b56ff27da88a0813b4 1013030 paml-dbgsym_4.9j+dfsg-4_s390x.ddeb 95a2dabf9edc158d60f56e9c5a9443e0 693030 paml_4.9j+dfsg-4_s390x.deb Checksums-Sha1: 4455f776ba2684eab11dcbc1fab9296a4d0a96f8 1013030 paml-dbgsym_4.9j+dfsg-4_s390x.ddeb 2cc2fa47da568486a53d4da0adb3d58453e16403 693030 paml_4.9j+dfsg-4_s390x.deb Checksums-Sha256: 7aab3964fe01ae3a746caf43bf2731d963a6534b4116d40f043b9f08bf2ec6a0 1013030 paml-dbgsym_4.9j+dfsg-4_s390x.ddeb f3fd32c2cd57d976525306099f3b69a6b96f104cf2852748000e90ecbe43dfba 693030 paml_4.9j+dfsg-4_s390x.deb Build-Origin: Ubuntu Build-Architecture: s390x Build-Date: Sat, 24 Dec 2022 23:19:53 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1.3), autopoint (= 0.21-10), autotools-dev (= 20220109.1), base-files (= 12.3ubuntu1), base-passwd (= 3.6.1), bash (= 5.2-1ubuntu2), binutils (= 2.39.50.20221224-1ubuntu1), binutils-common (= 2.39.50.20221224-1ubuntu1), binutils-s390x-linux-gnu (= 2.39.50.20221224-1ubuntu1), bsdextrautils (= 2.38.1-4ubuntu1), bsdutils (= 1:2.38.1-4ubuntu1), build-essential (= 12.9ubuntu3), bzip2 (= 1.0.8-5build1), coreutils (= 9.1-1ubuntu1), cpp (= 4:12.2.0-1ubuntu1), cpp-12 (= 12.2.0-10ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-9ubuntu1), debconf (= 1.5.80), debhelper (= 13.10.1ubuntu1), debianutils (= 5.7-0.4), debugedit (= 1:5.0-5), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.0-2), diffutils (= 1:3.8-3), dpkg (= 1.21.13ubuntu1), dpkg-dev (= 1.21.13ubuntu1), dwz (= 0.14+20220924-2), file (= 1:5.41-4), findutils (= 4.9.0-3ubuntu1), g++ (= 4:12.2.0-1ubuntu1), g++-12 (= 12.2.0-10ubuntu1), gcc (= 4:12.2.0-1ubuntu1), gcc-12 (= 12.2.0-10ubuntu1), gcc-12-base (= 12.2.0-10ubuntu1), gettext (= 0.21-10), gettext-base (= 0.21-10), grep (= 3.8-3), groff-base (= 1.22.4-9), gzip (= 1.12-1ubuntu1), hostname (= 3.23ubuntu2), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-2), libarchive-zip-perl (= 1.68-1), libasan8 (= 12.2.0-10ubuntu1), libatomic1 (= 12.2.0-10ubuntu1), libattr1 (= 1:2.5.1-3), libaudit-common (= 1:3.0.7-1ubuntu3), libaudit1 (= 1:3.0.7-1ubuntu3), libbinutils (= 2.39.50.20221224-1ubuntu1), libblkid1 (= 2.38.1-4ubuntu1), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.36-0ubuntu4), libc-dev-bin (= 2.36-0ubuntu4), libc6 (= 2.36-0ubuntu4), libc6-dev (= 2.36-0ubuntu4), libcap-ng0 (= 0.8.3-1build1), libcap2 (= 1:2.66-3), libcc1-0 (= 12.2.0-10ubuntu1), libcom-err2 (= 1.46.6~rc1-1ubuntu1), libcrypt-dev (= 1:4.4.33-1), libcrypt1 (= 1:4.4.33-1), libctf-nobfd0 (= 2.39.50.20221224-1ubuntu1), libctf0 (= 2.39.50.20221224-1ubuntu1), libdb5.3 (= 5.3.28+dfsg1-0.10), libdebconfclient0 (= 0.264ubuntu1), libdebhelper-perl (= 13.10.1ubuntu1), libdpkg-perl (= 1.21.13ubuntu1), libdw1 (= 0.188-2), libelf1 (= 0.188-2), libfile-stripnondeterminism-perl (= 1.13.0-2), libgcc-12-dev (= 12.2.0-10ubuntu1), libgcc-s1 (= 12.2.0-10ubuntu1), libgcrypt20 (= 1.10.1-2ubuntu1), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgmp10 (= 2:6.2.1+dfsg1-1.1ubuntu1), libgomp1 (= 12.2.0-10ubuntu1), libgpg-error0 (= 1.46-1), libgssapi-krb5-2 (= 1.20.1-1build1), libicu71 (= 71.1-3ubuntu1), libisl23 (= 0.25-1), libitm1 (= 12.2.0-10ubuntu1), libjansson4 (= 2.14-2), libk5crypto3 (= 1.20.1-1build1), libkeyutils1 (= 1.6.3-2), libkrb5-3 (= 1.20.1-1build1), libkrb5support0 (= 1.20.1-1build1), liblz4-1 (= 1.9.4-1), liblzma5 (= 5.4.0-0.1), libmagic-mgc (= 1:5.41-4), libmagic1 (= 1:5.41-4), libmd0 (= 1.0.4-2), libmount1 (= 2.38.1-4ubuntu1), libmpc3 (= 1.2.1-2build1), libmpfr6 (= 4.1.0-3build3), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libpam-modules (= 1.5.2-5ubuntu1), libpam-modules-bin (= 1.5.2-5ubuntu1), libpam-runtime (= 1.5.2-5ubuntu1), libpam0g (= 1.5.2-5ubuntu1), libpcre2-8-0 (= 10.40-1ubuntu1), libperl5.36 (= 5.36.0-6), libpipeline1 (= 1.5.7-1), libseccomp2 (= 2.5.4-1ubuntu2), libselinux1 (= 3.4-1build1), libsmartcols1 (= 2.38.1-4ubuntu1), libssl3 (= 3.0.5-2ubuntu2), libstdc++-12-dev (= 12.2.0-10ubuntu1), libstdc++6 (= 12.2.0-10ubuntu1), libsub-override-perl (= 0.09-4), libsystemd0 (= 252.1-1ubuntu1), libtinfo6 (= 6.3+20220423-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtool (= 2.4.7-5), libubsan1 (= 12.2.0-10ubuntu1), libuchardet0 (= 0.0.7-1build2), libudev1 (= 252.1-1ubuntu1), libunistring2 (= 1.0-2), libuuid1 (= 2.38.1-4ubuntu1), libxml2 (= 2.9.14+dfsg-1.1), libzstd1 (= 1.5.2+dfsg-1), linux-libc-dev (= 5.19.0-23.24), login (= 1:4.13+dfsg1-1ubuntu1), lto-disabled-list (= 36), m4 (= 1.4.19-1), make (= 4.3-4.1build1), man-db (= 2.11.1-1), mawk (= 1.3.4.20200120-3.1), ncurses-base (= 6.3+20220423-2), ncurses-bin (= 6.3+20220423-2), patch (= 2.7.6-7build2), perl (= 5.36.0-6), perl-base (= 5.36.0-6), perl-modules-5.36 (= 5.36.0-6), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.8-1ubuntu2), sensible-utils (= 0.0.17), sysvinit-utils (= 3.05-7ubuntu1), tar (= 1.34+dfsg-1.1), usrmerge (= 33ubuntu1), util-linux (= 2.38.1-4ubuntu1), util-linux-extra (= 2.38.1-4ubuntu1), xz-utils (= 5.4.0-0.1), zlib1g (= 1:1.2.13.dfsg-1ubuntu3) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1671884051" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ paml_4.9j+dfsg-4_s390x.deb -------------------------- new Debian package, version 2.0. size 693030 bytes: control archive=2318 bytes. 770 bytes, 16 lines control 4016 bytes, 62 lines md5sums Package: paml Version: 4.9j+dfsg-4 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1866 Depends: libc6 (>= 2.34) Section: science Priority: optional Homepage: http://abacus.gene.ucl.ac.uk/software/paml.html Description: Phylogenetic Analysis by Maximum Likelihood (PAML) PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. PAML is not good for tree making. It may be used to estimate parameters and test hypotheses to study the evolutionary process, when you have reconstructed trees using other programs such as PAUP*, PHYLIP, MOLPHY, PhyML, RaxML, etc. drwxr-xr-x root/root 0 2022-12-24 12:14 ./ drwxr-xr-x root/root 0 2022-12-24 12:14 ./etc/ drwxr-xr-x root/root 0 2022-12-24 12:14 ./etc/paml/ lrwxrwxrwx root/root 0 2022-12-24 12:14 ./etc/paml/aaml.ctl -> /usr/lib/paml/data/aaml.ctl lrwxrwxrwx root/root 0 2022-12-24 12:14 ./etc/paml/baseml.ctl -> /usr/lib/paml/data/baseml.ctl lrwxrwxrwx root/root 0 2022-12-24 12:14 ./etc/paml/codeml.ctl -> /usr/lib/paml/data/codeml.ctl lrwxrwxrwx root/root 0 2022-12-24 12:14 ./etc/paml/codonml.ctl -> /usr/lib/paml/data/codonml.ctl lrwxrwxrwx root/root 0 2022-12-24 12:14 ./etc/paml/mcmctree.ctl -> /usr/lib/paml/data/mcmctree.ctl lrwxrwxrwx root/root 0 2022-12-24 12:14 ./etc/paml/pamp.ctl -> /usr/lib/paml/data/pamp.ctl lrwxrwxrwx root/root 0 2022-12-24 12:14 ./etc/paml/yn00.ctl -> /usr/lib/paml/data/yn00.ctl drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/ drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/bin/ lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/bin/baseml -> ../lib/debian-med/bin/baseml lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/bin/basemlg -> ../lib/debian-med/bin/basemlg lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/bin/chi2 -> ../lib/debian-med/bin/chi2 lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/bin/codeml -> ../lib/debian-med/bin/codeml lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/bin/mcmctree -> ../lib/debian-med/bin/mcmctree lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/bin/paml-evolver -> ../lib/debian-med/bin/evolver lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/bin/pamp -> ../lib/debian-med/bin/pamp lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/bin/yn00 -> ../lib/debian-med/bin/yn00 drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/lib/ drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/lib/debian-med/ drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/lib/debian-med/bin/ -rwxr-xr-x root/root 190 2022-12-24 12:14 ./usr/lib/debian-med/bin/baseml lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/lib/debian-med/bin/basemlg -> baseml lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/lib/debian-med/bin/chi2 -> ../../paml/bin/chi2 lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/lib/debian-med/bin/codeml -> baseml lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/lib/debian-med/bin/evolver -> ../../paml/bin/evolver lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/lib/debian-med/bin/mcmctree -> baseml lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/lib/debian-med/bin/pamp -> baseml lrwxrwxrwx root/root 0 2022-12-24 12:14 ./usr/lib/debian-med/bin/yn00 -> baseml drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/lib/paml/ drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/lib/paml/bin/ -rwxr-xr-x root/root 342760 2022-12-24 12:14 ./usr/lib/paml/bin/baseml -rwxr-xr-x root/root 125360 2022-12-24 12:14 ./usr/lib/paml/bin/basemlg -rwxr-xr-x root/root 10320 2022-12-24 12:14 ./usr/lib/paml/bin/chi2 -rwxr-xr-x root/root 653920 2022-12-24 12:14 ./usr/lib/paml/bin/codeml -rwxr-xr-x root/root 116968 2022-12-24 12:14 ./usr/lib/paml/bin/evolver -rwxr-xr-x root/root 199296 2022-12-24 12:14 ./usr/lib/paml/bin/mcmctree -rwxr-xr-x root/root 104824 2022-12-24 12:14 ./usr/lib/paml/bin/pamp -rwxr-xr-x root/root 95648 2022-12-24 12:14 ./usr/lib/paml/bin/yn00 drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/lib/paml/data/ -rw-r--r-- root/root 56 2019-10-18 14:02 ./usr/lib/paml/data/3s.trees -rw-r--r-- root/root 97 2019-10-18 14:02 ./usr/lib/paml/data/4s.trees -rw-r--r-- root/root 299 2019-10-18 14:02 ./usr/lib/paml/data/5s.trees -rw-r--r-- root/root 124 2019-10-18 14:02 ./usr/lib/paml/data/6s.trees -rw-r--r-- root/root 161 2019-10-18 14:02 ./usr/lib/paml/data/9s.trees -rw-r--r-- root/root 1403 2019-10-18 14:02 ./usr/lib/paml/data/MCaa.dat -rw-r--r-- root/root 1781 2019-10-18 14:02 ./usr/lib/paml/data/MCbase.dat -rw-r--r-- root/root 2033 2019-10-18 14:02 ./usr/lib/paml/data/MCbaseRandomTree.dat -rw-r--r-- root/root 4276 2019-10-18 14:02 ./usr/lib/paml/data/MCcodon.dat -rw-r--r-- root/root 493 2022-12-24 12:14 ./usr/lib/paml/data/aaml.ctl -rw-r--r-- root/root 6186 2019-10-18 14:02 ./usr/lib/paml/data/abglobin.nuc -rw-r--r-- root/root 1794 2022-12-24 12:14 ./usr/lib/paml/data/baseml.ctl -rw-r--r-- root/root 5830 2019-10-18 14:02 ./usr/lib/paml/data/brown.nuc -rw-r--r-- root/root 278 2019-10-18 14:02 ./usr/lib/paml/data/brown.rooted.trees -rw-r--r-- root/root 100 2019-10-18 14:02 ./usr/lib/paml/data/brown.trees -rw-r--r-- root/root 2999 2022-12-24 12:14 ./usr/lib/paml/data/codeml.ctl -rw-r--r-- root/root 660 2022-12-24 12:14 ./usr/lib/paml/data/codonml.ctl drwxr-xr-x root/root 0 2019-10-18 13:55 ./usr/lib/paml/data/dat/ -rw-r--r-- root/root 1850 2019-10-18 14:02 ./usr/lib/paml/data/dat/MtZoa.dat -rw-r--r-- root/root 10073 2019-10-18 14:02 ./usr/lib/paml/data/dat/cpREV10.dat -rw-r--r-- root/root 1874 2019-10-18 14:02 ./usr/lib/paml/data/dat/cpREV64.dat -rw-r--r-- root/root 2972 2019-10-18 14:02 ./usr/lib/paml/data/dat/dayhoff-dcmut.dat -rw-r--r-- root/root 5284 2019-10-18 14:02 ./usr/lib/paml/data/dat/dayhoff.dat -rw-r--r-- root/root 1536 2019-10-18 14:02 ./usr/lib/paml/data/dat/g1974a.dat -rw-r--r-- root/root 1372 2019-10-18 14:02 ./usr/lib/paml/data/dat/g1974c.dat -rw-r--r-- root/root 1130 2019-10-18 14:02 ./usr/lib/paml/data/dat/g1974p.dat -rw-r--r-- root/root 1359 2019-10-18 14:02 ./usr/lib/paml/data/dat/g1974v.dat -rw-r--r-- root/root 1681 2019-10-18 14:02 ./usr/lib/paml/data/dat/grantham.dat -rw-r--r-- root/root 2960 2019-10-18 14:02 ./usr/lib/paml/data/dat/jones-dcmut.dat -rw-r--r-- root/root 12131 2019-10-18 14:02 ./usr/lib/paml/data/dat/jones.dat -rw-r--r-- root/root 2713 2019-10-18 14:02 ./usr/lib/paml/data/dat/lg.dat -rw-r--r-- root/root 1258 2019-10-18 14:02 ./usr/lib/paml/data/dat/miyata.dat -rw-r--r-- root/root 4886 2019-10-18 14:02 ./usr/lib/paml/data/dat/mtArt.dat -rw-r--r-- root/root 2370 2019-10-18 14:02 ./usr/lib/paml/data/dat/mtREV24.dat -rw-r--r-- root/root 3844 2019-10-18 14:02 ./usr/lib/paml/data/dat/mtmam.dat -rw-r--r-- root/root 3337 2019-10-18 14:02 ./usr/lib/paml/data/dat/wag.dat -rw-r--r-- root/root 4124 2019-10-18 14:02 ./usr/lib/paml/data/lysozymeSmall.nuc -rw-r--r-- root/root 769 2019-10-18 14:02 ./usr/lib/paml/data/lysozymeSmall.trees -rw-r--r-- root/root 1299 2022-12-24 12:14 ./usr/lib/paml/data/mcmctree.ctl -rw-r--r-- root/root 338 2019-10-18 14:02 ./usr/lib/paml/data/mtCDNApri.trees -rw-r--r-- root/root 70466 2019-10-18 14:02 ./usr/lib/paml/data/mtCDNApri123.txt -rw-r--r-- root/root 11708 2019-10-18 14:02 ./usr/lib/paml/data/mtprim9.nuc -rw-r--r-- root/root 374 2022-12-24 12:14 ./usr/lib/paml/data/pamp.ctl -rw-r--r-- root/root 1008 2019-10-18 14:02 ./usr/lib/paml/data/stewart.aa -rw-r--r-- root/root 143 2019-10-18 14:02 ./usr/lib/paml/data/stewart.trees -rw-r--r-- root/root 719 2022-12-24 12:14 ./usr/lib/paml/data/yn00.ctl drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/share/ drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/share/doc/ drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/share/doc/paml/ -rw-r--r-- root/root 675 2019-10-18 14:02 ./usr/share/doc/paml/GeneticCode.txt.gz -rw-r--r-- root/root 898 2022-12-24 12:14 ./usr/share/doc/paml/README.Debian -rw-r--r-- root/root 278 2022-12-24 12:14 ./usr/share/doc/paml/README.test -rw-r--r-- root/root 1419 2019-10-18 14:02 ./usr/share/doc/paml/README.txt -rw-r--r-- root/root 746 2022-12-24 12:14 ./usr/share/doc/paml/changelog.Debian.gz -rw-r--r-- root/root 827 2022-12-24 12:14 ./usr/share/doc/paml/copyright drwxr-xr-x root/root 0 2022-12-24 12:14 ./usr/share/doc/paml/profile.d/ -rw-r--r-- root/root 147 2022-12-24 12:14 ./usr/share/doc/paml/profile.d/paml -rw-r--r-- root/root 1665 2022-12-24 12:14 ./usr/share/doc/paml/run-unit-test +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: s390x Build Type: any Build-Space: 18680 Build-Time: 60 Distribution: lunar-proposed Host Architecture: s390x Install-Time: 7 Job: paml_4.9j+dfsg-4.dsc Machine Architecture: s390x Package: paml Package-Time: 67 Source-Version: 4.9j+dfsg-4 Space: 18680 Status: successful Version: 4.9j+dfsg-4 -------------------------------------------------------------------------------- Finished at 2022-12-24T23:19:53Z Build needed 00:01:07, 18680k disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-25421401 Scanning for processes to kill in build PACKAGEBUILD-25421401