https://launchpad.net/ubuntu/+source/tree-puzzle/5.2-10build1/+build/14874520 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux lcy01-amd64-019 4.4.0-124-generic #148-Ubuntu SMP Wed May 2 13:00:18 UTC 2018 x86_64 Buildd toolchain package versions: launchpad-buildd_161 python-lpbuildd_161 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.3 dpkg-dev_1.18.4ubuntu1.4 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 13 May 15:09:12 ntpdate[1836]: adjust time server 10.211.37.1 offset 0.005288 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-14874520 /home/buildd/filecache-default/b7d07d6b68ae68badf26a018a3a0291d50e41e42 Creating target for build PACKAGEBUILD-14874520 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-14874520 Starting target for build PACKAGEBUILD-14874520 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-14874520 'deb http://ftpmaster.internal/ubuntu cosmic main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-security main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-updates main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-14874520 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-14874520 Updating target for build PACKAGEBUILD-14874520 Get:1 http://ftpmaster.internal/ubuntu cosmic InRelease [242 kB] Get:2 http://ftpmaster.internal/ubuntu cosmic-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic-proposed InRelease [92.5 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main amd64 Packages [1016 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main Translation-en [516 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/universe amd64 Packages [8612 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/universe Translation-en [4974 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 Packages [82.1 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic-proposed/main Translation-en [38.9 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic-proposed/universe amd64 Packages [243 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic-proposed/universe Translation-en [136 kB] Fetched 16.1 MB in 4s (3858 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libncursesw5 Use 'sudo apt autoremove' to remove it. The following NEW packages will be installed: libncurses6 libncursesw6 libtinfo6 The following packages will be upgraded: apt base-files base-passwd bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils build-essential cpp cpp-7 dpkg dpkg-dev e2fslibs e2fsprogs fdisk g++ g++-7 gcc gcc-7 gcc-7-base gcc-8-base libapt-pkg5.0 libargon2-0 libasan4 libatomic1 libbinutils libblkid1 libcap-ng0 libcc1-0 libcilkrts5 libcom-err2 libcomerr2 libdpkg-perl libext2fs2 libfdisk1 libgcc-7-dev libgcc1 libgmp10 libgomp1 libgpg-error0 libitm1 liblsan0 libmount1 libmpx2 libncurses5 libncursesw5 libp11-kit0 libperl5.26 libprocps6 libquadmath0 libreadline7 libslang2 libsmartcols1 libsqlite3-0 libss2 libstdc++-7-dev libstdc++6 libtinfo5 libtsan0 libubsan0 libusb-0.1-4 libuuid1 linux-libc-dev mount ncurses-base ncurses-bin perl perl-base perl-modules-5.26 pinentry-curses procps readline-common tzdata util-linux 75 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 48.6 MB of archives. After this operation, 1400 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu cosmic/main amd64 base-files amd64 10.1ubuntu4 [58.0 kB] Get:2 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtinfo6 amd64 6.1+20180210-2ubuntu2 [83.8 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic/main amd64 bash amd64 4.4.18-2ubuntu2 [614 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 bsdutils amd64 1:2.31.1-0.4ubuntu4 [60.1 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main amd64 dpkg amd64 1.19.0.5ubuntu3 [1140 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main amd64 libext2fs2 amd64 1.44.1-2 [157 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/main amd64 e2fsprogs amd64 1.44.1-2 [391 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main amd64 ncurses-bin amd64 6.1+20180210-2ubuntu2 [163 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 perl-modules-5.26 all 5.26.2-3 [2763 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libperl5.26 amd64 5.26.2-3 [3539 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 perl amd64 5.26.2-3 [201 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 perl-base amd64 5.26.2-3 [1390 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic/main amd64 libncursesw6 amd64 6.1+20180210-2ubuntu2 [130 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libuuid1 amd64 2.31.1-0.4ubuntu4 [19.9 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libblkid1 amd64 2.31.1-0.4ubuntu4 [124 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libfdisk1 amd64 2.31.1-0.4ubuntu4 [164 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libmount1 amd64 2.31.1-0.4ubuntu4 [136 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libsmartcols1 amd64 2.31.1-0.4ubuntu4 [83.5 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 fdisk amd64 2.31.1-0.4ubuntu4 [107 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 util-linux amd64 2.31.1-0.4ubuntu4 [902 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main amd64 base-passwd amd64 3.5.45 [47.4 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main amd64 ncurses-base all 6.1+20180210-2ubuntu2 [17.8 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libquadmath0 amd64 8.1.0-3ubuntu1 [133 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libitm1 amd64 8.1.0-3ubuntu1 [28.1 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 gcc-8-base amd64 8.1.0-3ubuntu1 [18.4 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libgcc1 amd64 1:8.1.0-3ubuntu1 [40.7 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libmpx2 amd64 8.1.0-3ubuntu1 [11.7 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 liblsan0 amd64 8.1.0-3ubuntu1 [132 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libtsan0 amd64 8.1.0-3ubuntu1 [287 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libcc1-0 amd64 8.1.0-3ubuntu1 [39.5 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libatomic1 amd64 8.1.0-3ubuntu1 [9052 B] Get:32 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libgomp1 amd64 8.1.0-3ubuntu1 [76.3 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libstdc++6 amd64 8.1.0-3ubuntu1 [398 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic/main amd64 libapt-pkg5.0 amd64 1.7.0~alpha0ubuntu1 [801 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic/main amd64 apt amd64 1.7.0~alpha0ubuntu1 [1166 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 mount amd64 2.31.1-0.4ubuntu4 [106 kB] Get:37 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcap-ng0 amd64 0.7.9-1 [11.3 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcom-err2 amd64 1.44.1-2 [9392 B] Get:39 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgpg-error0 amd64 1.31-1 [56.0 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic/main amd64 libss2 amd64 1.44.1-2 [11.1 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic/main amd64 libncurses5 amd64 6.1+20180210-2ubuntu2 [95.2 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic/main amd64 libncursesw5 amd64 6.1+20180210-2ubuntu2 [117 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtinfo5 amd64 6.1+20180210-2ubuntu2 [79.3 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgmp10 amd64 2:6.1.2+dfsg-3 [240 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main amd64 libp11-kit0 amd64 0.23.10-2 [186 kB] Get:46 http://ftpmaster.internal/ubuntu cosmic/main amd64 libprocps6 amd64 2:3.3.12-3ubuntu2 [31.5 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic/main amd64 libncurses6 amd64 6.1+20180210-2ubuntu2 [100 kB] Get:48 http://ftpmaster.internal/ubuntu cosmic/main amd64 procps amd64 2:3.3.12-3ubuntu2 [225 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic/main amd64 libargon2-0 amd64 0~20161029-2 [19.9 kB] Get:50 http://ftpmaster.internal/ubuntu cosmic/main amd64 readline-common all 7.0-5 [52.2 kB] Get:51 http://ftpmaster.internal/ubuntu cosmic/main amd64 libreadline7 amd64 7.0-5 [123 kB] Get:52 http://ftpmaster.internal/ubuntu cosmic/main amd64 libslang2 amd64 2.3.2-1ubuntu1 [425 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libsqlite3-0 amd64 3.23.1-1 [501 kB] Get:54 http://ftpmaster.internal/ubuntu cosmic/main amd64 tzdata all 2018e-1 [188 kB] Get:55 http://ftpmaster.internal/ubuntu cosmic/main amd64 binutils-x86-64-linux-gnu amd64 2.30-17ubuntu1 [1855 kB] Get:56 http://ftpmaster.internal/ubuntu cosmic/main amd64 binutils-common amd64 2.30-17ubuntu1 [193 kB] Get:57 http://ftpmaster.internal/ubuntu cosmic/main amd64 binutils amd64 2.30-17ubuntu1 [3392 B] Get:58 http://ftpmaster.internal/ubuntu cosmic/main amd64 libbinutils amd64 2.30-17ubuntu1 [502 kB] Get:59 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libasan4 amd64 7.3.0-19ubuntu1 [359 kB] Get:60 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libubsan0 amd64 7.3.0-19ubuntu1 [126 kB] Get:61 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libcilkrts5 amd64 7.3.0-19ubuntu1 [42.5 kB] Get:62 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 g++-7 amd64 7.3.0-19ubuntu1 [7567 kB] Get:63 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 gcc-7 amd64 7.3.0-19ubuntu1 [7444 kB] Get:64 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libstdc++-7-dev amd64 7.3.0-19ubuntu1 [1462 kB] Get:65 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libgcc-7-dev amd64 7.3.0-19ubuntu1 [2378 kB] Get:66 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 cpp-7 amd64 7.3.0-19ubuntu1 [6734 kB] Get:67 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 gcc-7-base amd64 7.3.0-19ubuntu1 [18.8 kB] Get:68 http://ftpmaster.internal/ubuntu cosmic/main amd64 cpp amd64 4:7.3.0-3ubuntu3 [27.5 kB] Get:69 http://ftpmaster.internal/ubuntu cosmic/main amd64 gcc amd64 4:7.3.0-3ubuntu3 [5216 B] Get:70 http://ftpmaster.internal/ubuntu cosmic/main amd64 g++ amd64 4:7.3.0-3ubuntu3 [1592 B] Get:71 http://ftpmaster.internal/ubuntu cosmic/main amd64 dpkg-dev all 1.19.0.5ubuntu3 [608 kB] Get:72 http://ftpmaster.internal/ubuntu cosmic/main amd64 libdpkg-perl all 1.19.0.5ubuntu3 [211 kB] Get:73 http://ftpmaster.internal/ubuntu cosmic/main amd64 build-essential amd64 12.5ubuntu2 [4732 B] Get:74 http://ftpmaster.internal/ubuntu cosmic/main amd64 e2fslibs amd64 1.44.1-2 [2704 B] Get:75 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcomerr2 amd64 1.44.1-2 [2692 B] Get:76 http://ftpmaster.internal/ubuntu cosmic/main amd64 libusb-0.1-4 amd64 2:0.1.12-32 [17.4 kB] Get:77 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 linux-libc-dev amd64 4.15.0-21.22 [1007 kB] Get:78 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 pinentry-curses amd64 1.1.0-1build1 [35.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 48.6 MB in 4s (13.7 MB/s) (Reading database ... 12637 files and directories currently installed.) Preparing to unpack .../base-files_10.1ubuntu4_amd64.deb ... Unpacking base-files (10.1ubuntu4) over (10.1ubuntu2) ... Setting up base-files (10.1ubuntu4) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... Selecting previously unselected package libtinfo6:amd64. (Reading database ... 12637 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.1+20180210-2ubuntu2_amd64.deb ... Unpacking libtinfo6:amd64 (6.1+20180210-2ubuntu2) ... Setting up libtinfo6:amd64 (6.1+20180210-2ubuntu2) ... (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../bash_4.4.18-2ubuntu2_amd64.deb ... Unpacking bash (4.4.18-2ubuntu2) over (4.4.18-2ubuntu1) ... Setting up bash (4.4.18-2ubuntu2) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.31.1-0.4ubuntu4_amd64.deb ... Unpacking bsdutils (1:2.31.1-0.4ubuntu4) over (1:2.31.1-0.4ubuntu3) ... Setting up bsdutils (1:2.31.1-0.4ubuntu4) ... (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.0.5ubuntu3_amd64.deb ... Unpacking dpkg (1.19.0.5ubuntu3) over (1.19.0.5ubuntu2) ... Setting up dpkg (1.19.0.5ubuntu3) ... (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../libext2fs2_1.44.1-2_amd64.deb ... Unpacking libext2fs2:amd64 (1.44.1-2) over (1.44.1-1) ... Setting up libext2fs2:amd64 (1.44.1-2) ... (Reading database ... 12646 files and directories currently installed.) 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Setting up liblsan0:amd64 (8.1.0-3ubuntu1) ... Setting up libargon2-0:amd64 (0~20161029-2) ... Setting up gcc-7-base:amd64 (7.3.0-19ubuntu1) ... Setting up binutils-common:amd64 (2.30-17ubuntu1) ... Setting up libmpx2:amd64 (8.1.0-3ubuntu1) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Setting up libperl5.26:amd64 (5.26.2-3) ... Setting up libsqlite3-0:amd64 (3.23.1-1) ... Setting up pinentry-curses (1.1.0-1build1) ... Setting up libcomerr2:amd64 (1.44.1-2) ... Setting up libslang2:amd64 (2.3.2-1ubuntu1) ... Setting up libncurses6:amd64 (6.1+20180210-2ubuntu2) ... Setting up libusb-0.1-4:amd64 (2:0.1.12-32) ... Setting up libitm1:amd64 (8.1.0-3ubuntu1) ... Setting up libasan4:amd64 (7.3.0-19ubuntu1) ... Setting up libbinutils:amd64 (2.30-17ubuntu1) ... Setting up libcilkrts5:amd64 (7.3.0-19ubuntu1) ... Setting up libubsan0:amd64 (7.3.0-19ubuntu1) ... Setting up libgcc-7-dev:amd64 (7.3.0-19ubuntu1) ... Setting up cpp-7 (7.3.0-19ubuntu1) ... Setting up procps (2:3.3.12-3ubuntu2) ... Setting up libstdc++-7-dev:amd64 (7.3.0-19ubuntu1) ... Setting up perl (5.26.2-3) ... Processing triggers for systemd (237-3ubuntu10) ... Setting up binutils-x86-64-linux-gnu (2.30-17ubuntu1) ... Setting up cpp (4:7.3.0-3ubuntu3) ... Setting up libdpkg-perl (1.19.0.5ubuntu3) ... Setting up binutils (2.30-17ubuntu1) ... Setting up gcc-7 (7.3.0-19ubuntu1) ... Setting up g++-7 (7.3.0-19ubuntu1) ... Setting up gcc (4:7.3.0-3ubuntu3) ... Setting up dpkg-dev (1.19.0.5ubuntu3) ... Setting up g++ (4:7.3.0-3ubuntu3) ... Setting up build-essential (12.5ubuntu2) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-14874520 amd64 cosmic-proposed -c chroot:build-PACKAGEBUILD-14874520 --arch=amd64 --dist=cosmic-proposed --nolog -A tree-puzzle_5.2-10build1.dsc Initiating build PACKAGEBUILD-14874520 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-124-generic #148-Ubuntu SMP Wed May 2 13:00:18 UTC 2018 x86_64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lcy01-amd64-019.buildd +==============================================================================+ | tree-puzzle 5.2-10build1 (amd64) 13 May 2018 15:09 | +==============================================================================+ Package: tree-puzzle Version: 5.2-10build1 Source Version: 5.2-10build1 Distribution: cosmic-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/tree-puzzle-lP24XA/tree-puzzle-5.2' with '<>' I: NOTICE: Log filtering will replace 'build/tree-puzzle-lP24XA' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-14874520/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- tree-puzzle_5.2-10build1.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-ZtEA6V/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-ZtEA6V/apt_archive ./ InRelease Get:2 copy:/<>/resolver-ZtEA6V/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-ZtEA6V/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-ZtEA6V/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-ZtEA6V/apt_archive ./ Packages [525 B] Fetched 2858 B in 0s (239 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 856 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-ZtEA6V/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [856 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 856 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 12661 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 10), libopenmpi-dev, libsprng2-dev Filtered Build-Depends: debhelper (>= 10), libopenmpi-dev, libsprng2-dev dpkg-deb: building package 'sbuild-build-depends-tree-puzzle-dummy' in '/<>/resolver-85UqWA/apt_archive/sbuild-build-depends-tree-puzzle-dummy.deb'. Ign:1 copy:/<>/resolver-85UqWA/apt_archive ./ InRelease Get:2 copy:/<>/resolver-85UqWA/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-85UqWA/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-85UqWA/apt_archive ./ Sources [231 B] Get:5 copy:/<>/resolver-85UqWA/apt_archive ./ Packages [547 B] Fetched 2897 B in 0s (210 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install tree-puzzle build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base ibverbs-providers intltool-debian libarchive-zip-perl libbsd0 libcroco3 libedit2 libevent-2.1-6 libevent-core-2.1-6 libevent-pthreads-2.1-6 libfabric1 libfile-stripnondeterminism-perl libglib2.0-0 libgmp-dev libgmpxx4ldbl libgssapi-krb5-2 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu60 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libltdl-dev libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-route-3-200 libnuma-dev libnuma1 libopenmpi-dev libopenmpi3 libpciaccess0 libpipeline1 libpmix2 libpsm-infinipath1 librdmacm1 libsigsegv2 libsprng2 libsprng2-dev libssl1.0.0 libtimedate-perl libtool libxml2 m4 man-db ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make dwz gettext-doc libasprintf-dev libgettextpo-dev groff gmp-doc libgmp10-doc libmpfr-dev krb5-doc krb5-user libhwloc-contrib-plugins libtool-doc openmpi-doc pciutils libsprng2-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser opencl-icd gfortran keychain libpam-ssh monkeysphere ssh-askpass libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales xauth libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base ibverbs-providers intltool-debian libarchive-zip-perl libbsd0 libcroco3 libedit2 libevent-2.1-6 libevent-core-2.1-6 libevent-pthreads-2.1-6 libfabric1 libfile-stripnondeterminism-perl libglib2.0-0 libgmp-dev libgmpxx4ldbl libgssapi-krb5-2 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu60 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libltdl-dev libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-route-3-200 libnuma-dev libnuma1 libopenmpi-dev libopenmpi3 libpciaccess0 libpipeline1 libpmix2 libpsm-infinipath1 librdmacm1 libsigsegv2 libsprng2 libsprng2-dev libssl1.0.0 libtimedate-perl libtool libxml2 m4 man-db ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client po-debconf sbuild-build-depends-tree-puzzle-dummy 0 upgraded, 67 newly installed, 0 to remove and 0 not upgraded. Need to get 24.8 MB of archives. After this operation, 95.6 MB of additional disk space will be used. Get:1 copy:/<>/resolver-85UqWA/apt_archive ./ sbuild-build-depends-tree-puzzle-dummy 0.invalid.0 [876 B] Get:2 http://ftpmaster.internal/ubuntu cosmic/main amd64 libbsd0 amd64 0.8.7-1 [41.5 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic/main amd64 bsdmainutils amd64 11.1.2ubuntu2 [181 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic/main amd64 groff-base amd64 1.22.3-10 [1153 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpipeline1 amd64 1.5.0-1 [25.3 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main amd64 man-db amd64 2.8.3-2 [1019 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/main amd64 libmagic-mgc amd64 1:5.33-2 [193 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main amd64 libmagic1 amd64 1:5.33-2 [69.8 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic/main amd64 file amd64 1:5.33-2 [22.9 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic/main amd64 libglib2.0-0 amd64 2.56.1-2ubuntu1 [1167 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic/main amd64 libicu60 amd64 60.2-3ubuntu3 [8054 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxml2 amd64 2.9.4+dfsg1-6.1ubuntu1 [662 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic/main amd64 gettext-base amd64 0.19.8.1-6build1 [50.0 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic/main amd64 libedit2 amd64 3.1-20170329-1build1 [76.7 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic/main amd64 libkrb5support0 amd64 1.16-2build1 [31.1 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic/main amd64 libk5crypto3 amd64 1.16-2build1 [85.6 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic/main amd64 libkeyutils1 amd64 1.5.9-9.2ubuntu3 [8704 B] Get:18 http://ftpmaster.internal/ubuntu cosmic/main amd64 libkrb5-3 amd64 1.16-2build1 [279 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgssapi-krb5-2 amd64 1.16-2build1 [122 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic/main amd64 libnuma1 amd64 2.0.11-2.2 [22.2 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main amd64 libssl1.0.0 amd64 1.0.2n-1ubuntu5 [1087 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main amd64 openssh-client amd64 1:7.7p1-2 [625 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsigsegv2 amd64 2.12-2 [13.9 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main amd64 m4 amd64 1.4.18-1 [197 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main amd64 autoconf all 2.69-11 [322 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main amd64 autotools-dev all 20180224.1 [39.6 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic/main amd64 automake all 1:1.15.1-3ubuntu2 [509 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic/main amd64 autopoint all 0.19.8.1-6build1 [412 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libtool all 2.4.6-2.1 [195 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic/main amd64 dh-autoreconf all 17 [15.8 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic/main amd64 libarchive-zip-perl all 1.60-1 [83.9 kB] Get:32 http://ftpmaster.internal/ubuntu cosmic/main amd64 libfile-stripnondeterminism-perl all 0.041-1 [15.3 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtimedate-perl all 2.3000-2 [37.5 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic/main amd64 dh-strip-nondeterminism all 0.041-1 [5188 B] Get:35 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcroco3 amd64 0.6.12-2 [81.3 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic/main amd64 gettext amd64 0.19.8.1-6build1 [895 kB] Get:37 http://ftpmaster.internal/ubuntu cosmic/main amd64 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main amd64 po-debconf all 1.0.20 [232 kB] Get:39 http://ftpmaster.internal/ubuntu cosmic/main amd64 debhelper all 11.2.1ubuntu1 [906 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic/main amd64 libnl-3-200 amd64 3.2.29-0ubuntu3 [52.8 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic/main amd64 libnl-route-3-200 amd64 3.2.29-0ubuntu3 [146 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libibverbs1 amd64 18.0-1 [48.4 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 ibverbs-providers amd64 18.0-1 [171 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic/main amd64 libevent-2.1-6 amd64 2.1.8-stable-4build1 [133 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main amd64 libevent-core-2.1-6 amd64 2.1.8-stable-4build1 [85.9 kB] Get:46 http://ftpmaster.internal/ubuntu cosmic/main amd64 libevent-pthreads-2.1-6 amd64 2.1.8-stable-4build1 [5228 B] Get:47 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-5 [174 kB] Get:48 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 librdmacm1 amd64 18.0-1 [64.4 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libfabric1 amd64 1.5.3-1 [302 kB] Get:50 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgmpxx4ldbl amd64 2:6.1.2+dfsg-3 [8980 B] Get:51 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgmp-dev amd64 2:6.1.2+dfsg-3 [316 kB] Get:52 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libltdl7 amd64 2.4.6-2.1 [38.8 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libltdl-dev amd64 2.4.6-2.1 [161 kB] Get:54 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libhwloc5 amd64 1.11.10-1 [106 kB] Get:55 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpciaccess0 amd64 0.14-1 [17.9 kB] Get:56 http://ftpmaster.internal/ubuntu cosmic/main amd64 ocl-icd-libopencl1 amd64 2.2.11-1ubuntu1 [30.3 kB] Get:57 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libhwloc-plugins amd64 1.11.10-1 [12.5 kB] Get:58 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libpmix2 amd64 2.1.1~rc1-4 [339 kB] Get:59 http://ftpmaster.internal/ubuntu cosmic-proposed/universe amd64 libopenmpi3 amd64 3.0.1.real-4 [2069 kB] Get:60 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libsprng2 amd64 2.0a-11 [77.5 kB] Get:61 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libsprng2-dev amd64 2.0a-11 [78.0 kB] Get:62 http://ftpmaster.internal/ubuntu cosmic-proposed/universe amd64 openmpi-common all 3.0.1.real-4 [143 kB] Get:63 http://ftpmaster.internal/ubuntu cosmic-proposed/universe amd64 openmpi-bin amd64 3.0.1.real-4 [95.3 kB] Get:64 http://ftpmaster.internal/ubuntu cosmic/main amd64 libnuma-dev amd64 2.0.11-2.2 [32.3 kB] Get:65 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libhwloc-dev amd64 1.11.10-1 [168 kB] Get:66 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libibverbs-dev amd64 18.0-1 [114 kB] Get:67 http://ftpmaster.internal/ubuntu cosmic-proposed/universe amd64 libopenmpi-dev amd64 3.0.1.real-4 [828 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 24.8 MB in 2s (12.6 MB/s) Selecting previously unselected package libbsd0:amd64. 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Setting up libssl1.0.0:amd64 (1.0.2n-1ubuntu5) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libsprng2 (2.0a-11) ... Setting up libnuma1:amd64 (2.0.11-2.2) ... Setting up groff-base (1.22.3-10) ... Setting up libglib2.0-0:amd64 (2.56.1-2ubuntu1) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-6build1) ... Setting up libpipeline1:amd64 (1.5.0-1) ... Setting up m4 (1.4.18-1) ... Setting up libbsd0:amd64 (0.8.7-1) ... Setting up libkrb5support0:amd64 (1.16-2build1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-6.1ubuntu1) ... Setting up libmagic-mgc (1:5.33-2) ... Setting up libmagic1:amd64 (1:5.33-2) ... Setting up libcroco3:amd64 (0.6.12-2) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-5) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libevent-pthreads-2.1-6:amd64 (2.1.8-stable-4build1) ... Setting up openmpi-common (3.0.1.real-4) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Setting up autotools-dev (20180224.1) ... Setting up libltdl7:amd64 (2.4.6-2.1) ... Setting up libpciaccess0:amd64 (0.14-1) ... Setting up libnuma-dev:amd64 (2.0.11-2.2) ... Setting up ocl-icd-libopencl1:amd64 (2.2.11-1ubuntu1) ... Setting up libkeyutils1:amd64 (1.5.9-9.2ubuntu3) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgmpxx4ldbl:amd64 (2:6.1.2+dfsg-3) ... Setting up libnl-3-200:amd64 (3.2.29-0ubuntu3) ... Setting up autopoint (0.19.8.1-6build1) ... Setting up libfile-stripnondeterminism-perl (0.041-1) ... Setting up libgmp-dev:amd64 (2:6.1.2+dfsg-3) ... Setting up libk5crypto3:amd64 (1.16-2build1) ... Setting up libltdl-dev:amd64 (2.4.6-2.1) ... Setting up gettext (0.19.8.1-6build1) ... Setting up libnl-route-3-200:amd64 (3.2.29-0ubuntu3) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.33-2) ... Setting up libhwloc5:amd64 (1.11.10-1) ... Setting up libhwloc-plugins (1.11.10-1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libsprng2-dev (2.0a-11) ... Setting up automake (1:1.15.1-3ubuntu2) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.8.3-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libkrb5-3:amd64 (1.16-2build1) ... Setting up libtool (2.4.6-2.1) ... Setting up libibverbs1:amd64 (18.0-1) ... Setting up po-debconf (1.0.20) ... Setting up libhwloc-dev:amd64 (1.11.10-1) ... Setting up libpmix2:amd64 (2.1.1~rc1-4) ... Setting up librdmacm1:amd64 (18.0-1) ... Setting up libgssapi-krb5-2:amd64 (1.16-2build1) ... Setting up ibverbs-providers:amd64 (18.0-1) ... Setting up openssh-client (1:7.7p1-2) ... Setting up libibverbs-dev:amd64 (18.0-1) ... Setting up libfabric1 (1.5.3-1) ... Setting up libopenmpi3:amd64 (3.0.1.real-4) ... Setting up openmpi-bin (3.0.1.real-4) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: error: no alternatives for mpi update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libopenmpi-dev:amd64 (3.0.1.real-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Setting up dh-autoreconf (17) ... Setting up dh-strip-nondeterminism (0.041-1) ... Setting up debhelper (11.2.1ubuntu1) ... Setting up sbuild-build-depends-tree-puzzle-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-124-generic amd64 (x86_64) Toolchain package versions: binutils_2.30-17ubuntu1 dpkg-dev_1.19.0.5ubuntu3 g++-7_7.3.0-19ubuntu1 gcc-7_7.3.0-19ubuntu1 libc6-dev_2.27-3ubuntu1 libstdc++-7-dev_7.3.0-19ubuntu1 libstdc++6_8.1.0-3ubuntu1 linux-libc-dev_4.15.0-21.22 Package versions: adduser_3.116ubuntu1 advancecomp_2.1-1 apt_1.7.0~alpha0ubuntu1 autoconf_2.69-11 automake_1:1.15.1-3ubuntu2 autopoint_0.19.8.1-6build1 autotools-dev_20180224.1 base-files_10.1ubuntu4 base-passwd_3.5.45 bash_4.4.18-2ubuntu2 binutils_2.30-17ubuntu1 binutils-common_2.30-17ubuntu1 binutils-x86-64-linux-gnu_2.30-17ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.31.1-0.4ubuntu4 build-essential_12.5ubuntu2 bzip2_1.0.6-8.1 ca-certificates_20180409 coreutils_8.28-1ubuntu1 cpp_4:7.3.0-3ubuntu3 cpp-7_7.3.0-19ubuntu1 dash_0.5.8-2.10 debconf_1.5.66 debhelper_11.2.1ubuntu1 debianutils_4.8.4 dh-autoreconf_17 dh-strip-nondeterminism_0.041-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu3 dpkg_1.19.0.5ubuntu3 dpkg-dev_1.19.0.5ubuntu3 e2fslibs_1.44.1-2 e2fsprogs_1.44.1-2 fakeroot_1.22-2ubuntu1 fdisk_2.31.1-0.4ubuntu4 file_1:5.33-2 findutils_4.6.0+git+20170828-2 g++_4:7.3.0-3ubuntu3 g++-7_7.3.0-19ubuntu1 gcc_4:7.3.0-3ubuntu3 gcc-7_7.3.0-19ubuntu1 gcc-7-base_7.3.0-19ubuntu1 gcc-8-base_8.1.0-3ubuntu1 gettext_0.19.8.1-6build1 gettext-base_0.19.8.1-6build1 gpg_2.2.4-1ubuntu1 gpg-agent_2.2.4-1ubuntu1 gpgconf_2.2.4-1ubuntu1 gpgv_2.2.4-1ubuntu1 grep_3.1-2 groff-base_1.22.3-10 gzip_1.6-5ubuntu1 hostname_3.20 ibverbs-providers_18.0-1 init_1.51 init-system-helpers_1.51 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libapparmor1_2.12-4ubuntu5 libapt-pkg5.0_1.7.0~alpha0ubuntu1 libarchive-zip-perl_1.60-1 libargon2-0_0~20161029-2 libasan4_7.3.0-19ubuntu1 libassuan0_2.5.1-2 libatomic1_8.1.0-3ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.2-1ubuntu1 libaudit1_1:2.8.2-1ubuntu1 libbinutils_2.30-17ubuntu1 libblkid1_2.31.1-0.4ubuntu4 libbsd0_0.8.7-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.27-3ubuntu1 libc-dev-bin_2.27-3ubuntu1 libc6_2.27-3ubuntu1 libc6-dev_2.27-3ubuntu1 libcap-ng0_0.7.9-1 libcap2_1:2.25-1.2 libcc1-0_8.1.0-3ubuntu1 libcilkrts5_7.3.0-19ubuntu1 libcom-err2_1.44.1-2 libcomerr2_1.44.1-2 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.2-1ubuntu1 libdb5.3_5.3.28-13.1ubuntu1 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu3 libdpkg-perl_1.19.0.5ubuntu3 libedit2_3.1-20170329-1build1 libevent-2.1-6_2.1.8-stable-4build1 libevent-core-2.1-6_2.1.8-stable-4build1 libevent-pthreads-2.1-6_2.1.8-stable-4build1 libext2fs2_1.44.1-2 libfabric1_1.5.3-1 libfakeroot_1.22-2ubuntu1 libfdisk1_2.31.1-0.4ubuntu4 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.041-1 libgcc-7-dev_7.3.0-19ubuntu1 libgcc1_1:8.1.0-3ubuntu1 libgcrypt20_1.8.1-4ubuntu1 libgdbm-compat4_1.14.1-6 libgdbm5_1.14.1-6 libglib2.0-0_2.56.1-2ubuntu1 libgmp-dev_2:6.1.2+dfsg-3 libgmp10_2:6.1.2+dfsg-3 libgmpxx4ldbl_2:6.1.2+dfsg-3 libgnutls30_3.5.18-1ubuntu1 libgomp1_8.1.0-3ubuntu1 libgpg-error0_1.31-1 libgssapi-krb5-2_1.16-2build1 libhogweed4_3.4-1 libhwloc-dev_1.11.10-1 libhwloc-plugins_1.11.10-1 libhwloc5_1.11.10-1 libibverbs-dev_18.0-1 libibverbs1_18.0-1 libicu60_60.2-3ubuntu3 libidn11_1.33-2.1ubuntu1 libidn2-0_2.0.4-1.1build2 libip4tc0_1.6.1-2ubuntu2 libisl19_0.19-1 libitm1_8.1.0-3ubuntu1 libjson-c3_0.12.1-1.3 libk5crypto3_1.16-2build1 libkeyutils1_1.5.9-9.2ubuntu3 libkmod2_24-1ubuntu3 libkrb5-3_1.16-2build1 libkrb5support0_1.16-2build1 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 liblsan0_8.1.0-3ubuntu1 libltdl-dev_2.4.6-2.1 libltdl7_2.4.6-2.1 liblz4-1_0.0~r131-2ubuntu3 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.33-2 libmagic1_1:5.33-2 libmount1_2.31.1-0.4ubuntu4 libmpc3_1.1.0-1 libmpfr6_4.0.1-1 libmpx2_8.1.0-3ubuntu1 libncurses5_6.1+20180210-2ubuntu2 libncurses6_6.1+20180210-2ubuntu2 libncursesw5_6.1+20180210-2ubuntu2 libncursesw6_6.1+20180210-2ubuntu2 libnettle6_3.4-1 libnl-3-200_3.2.29-0ubuntu3 libnl-route-3-200_3.2.29-0ubuntu3 libnpth0_1.5-3 libnuma-dev_2.0.11-2.2 libnuma1_2.0.11-2.2 libopenmpi-dev_3.0.1.real-4 libopenmpi3_3.0.1.real-4 libp11-kit0_0.23.10-2 libpam-modules_1.1.8-3.6ubuntu2 libpam-modules-bin_1.1.8-3.6ubuntu2 libpam-runtime_1.1.8-3.6ubuntu2 libpam0g_1.1.8-3.6ubuntu2 libpciaccess0_0.14-1 libpcre3_2:8.39-9 libperl5.26_5.26.2-3 libpipeline1_1.5.0-1 libpmix2_2.1.1~rc1-4 libpng16-16_1.6.34-1 libprocps6_2:3.3.12-3ubuntu2 libpsm-infinipath1_3.3+20.604758e7-5 libquadmath0_8.1.0-3ubuntu1 librdmacm1_18.0-1 libreadline7_7.0-5 libseccomp2_2.3.1-2.1ubuntu4 libselinux1_2.7-2build2 libsemanage-common_2.7-2build2 libsemanage1_2.7-2build2 libsepol1_2.7-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsmartcols1_2.31.1-0.4ubuntu4 libsprng2_2.0a-11 libsprng2-dev_2.0a-11 libsqlite3-0_3.23.1-1 libss2_1.44.1-2 libssl1.0.0_1.0.2n-1ubuntu5 libssl1.1_1.1.0g-2ubuntu4 libstdc++-7-dev_7.3.0-19ubuntu1 libstdc++6_8.1.0-3ubuntu1 libsystemd0_237-3ubuntu10 libtasn1-6_4.13-2 libtimedate-perl_2.3000-2 libtinfo5_6.1+20180210-2ubuntu2 libtinfo6_6.1+20180210-2ubuntu2 libtool_2.4.6-2.1 libtsan0_8.1.0-3ubuntu1 libubsan0_7.3.0-19ubuntu1 libudev1_237-3ubuntu10 libunistring2_0.9.9-0ubuntu1 libusb-0.1-4_2:0.1.12-32 libuuid1_2.31.1-0.4ubuntu4 libxml2_2.9.4+dfsg1-6.1ubuntu1 libzstd1_1.3.3+dfsg-2ubuntu1 linux-libc-dev_4.15.0-21.22 lockfile-progs_0.1.17build1 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-1 make_4.1-9.1ubuntu1 man-db_2.8.3-2 mawk_1.3.3-17ubuntu3 mount_2.31.1-0.4ubuntu4 multiarch-support_2.27-3ubuntu1 ncurses-base_6.1+20180210-2ubuntu2 ncurses-bin_6.1+20180210-2ubuntu2 ocl-icd-libopencl1_2.2.11-1ubuntu1 openmpi-bin_3.0.1.real-4 openmpi-common_3.0.1.real-4 openssh-client_1:7.7p1-2 openssl_1.1.0g-2ubuntu4 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-2ubuntu1 perl_5.26.2-3 perl-base_5.26.2-3 perl-modules-5.26_5.26.2-3 pinentry-curses_1.1.0-1build1 pkgbinarymangler_138 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.12-3ubuntu2 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-tree-puzzle-dummy_0.invalid.0 sed_4.4-2 sensible-utils_0.0.12 systemd_237-3ubuntu10 systemd-sysv_237-3ubuntu10 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu1 tar_1.29b-2 tzdata_2018e-1 ubuntu-keyring_2018.02.28 util-linux_2.31.1-0.4ubuntu4 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sun May 13 15:06:53 2018 UTC gpgv: using RSA key D56571B88A8BBAF140BF63D6BD7EAA60778FA6F5 gpgv: issuer "doko@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./tree-puzzle_5.2-10build1.dsc dpkg-source: info: extracting tree-puzzle in tree-puzzle-5.2 dpkg-source: info: unpacking tree-puzzle_5.2.orig.tar.gz dpkg-source: info: unpacking tree-puzzle_5.2-10build1.debian.tar.xz dpkg-source: info: applying 20_no_copy_of_sprng.patch dpkg-source: info: applying tests-need-bash.patch Check disc 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-14874520 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-14874520 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-14874520 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package tree-puzzle dpkg-buildpackage: info: source version 5.2-10build1 dpkg-buildpackage: info: source distribution cosmic dpkg-source --before-build tree-puzzle-5.2 dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --no-parallel dh_clean -O--no-parallel debian/rules build dh build --no-parallel dh_update_autotools_config -O--no-parallel dh_autoreconf -O--no-parallel configure.ac:27: warning: underquoted definition of AC_TEST_MPICC configure.ac:27: run info Automake 'Extending aclocal' configure.ac:27: or see http://www.gnu.org/software/automake/manual/automake.html#Extending-aclocal configure.ac:11: warning: AM_INIT_AUTOMAKE: two- and three-arguments forms are deprecated. For more info, see: configure.ac:11: http://www.gnu.org/software/automake/manual/automake.html#Modernize-AM_005fINIT_005fAUTOMAKE-invocation configure.ac:17: installing './compile' src/Makefile.am:45: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS') parallel-tests: installing './test-driver' dh_auto_configure -O--no-parallel ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/x86_64-linux-gnu --libexecdir=\${prefix}/lib/x86_64-linux-gnu --disable-maintainer-mode --disable-dependency-tracking configure: WARNING: unrecognized options: --disable-maintainer-mode checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking target system type... x86_64-pc-linux-gnu checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking for style of include used by make... GNU checking dependency style of gcc... none checking whether gcc and cc understand -c and -o together... yes checking whether make sets $(MAKE)... (cached) yes checking for mpcc... no checking for hcc... no checking for mpicc... /usr/bin/mpicc checking for mpicc_lam... no checking for mpicc_mpich... no checking for cc... /usr/bin/cc checking whether /usr/bin/mpicc works as MPI compiler... yes checking whether /usr/bin/mpicc handles quotes correctly... yes checking whether gcc handles quotes correctly... yes checking for main in -lm... yes checking for main in -lsprng... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating doc/Makefile config.status: creating data/Makefile config.status: creating tests/Makefile config.status: creating src/config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -O--no-parallel make -j1 make[1]: Entering directory '/<>' Making all in src make[2]: Entering directory '/<>/src' make all-am make[3]: Entering directory '/<>/src' gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./gamma.c && mv gamma.o sgamma.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./ml1.c && mv ml1.o sml1.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./ml2.c && mv ml2.o sml2.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./mlparam.c && mv mlparam.o smlparam.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./model1.c && mv model1.o smodel1.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./model2.c && mv model2.o smodel2.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./puzzle1.c && mv puzzle1.o spuzzle1.o ./puzzle1.c: In function ‘readallquarts’: ./puzzle1.c:294:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "TREE-PUZZLE\n"); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:295:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "%s\n\n", dummyversion); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:297:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "species: %d\n", &dummynspec); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:298:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "quartets: %lu\n", &dummynquart); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:299:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "bytes: %lu\n\n", &dummyblocklen); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:322:6: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "%s\n", dummyname); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:335:3: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result] fread(&(quartetinfo[0]), sizeof(char), blocklen, ifp); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c: In function ‘setoptions’: ./puzzle1.c:718:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%d", &locroot); ^~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:776:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &fracinv); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:795:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &Geta); ^~~~~~~~~~~~~~~~~~~ ./puzzle1.c:813:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%d", &numcats); ^~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:915:9: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%d", &numclust); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1115:9: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &(Freqtpm[i])); ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1149:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lu", &Numtrial); ^~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1164:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lu", &lmqts); ^~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1181:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%d", &outgroup); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1449:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &TSparam); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1478:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &YRparam); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1502:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &tstvf84); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1515:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_ACrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1524:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_AGrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1533:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_ATrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1542:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_CGrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1551:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_CTrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1560:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_GTrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./puzzle2.c && mv puzzle2.o spuzzle2.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./pstep.c && mv pstep.o spstep.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./util.c && mv util.o sutil.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./consensus.c && mv consensus.o sconsensus.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./treesort.c && mv treesort.o streesort.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./treetest.c && mv treetest.o streetest.o gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now sgamma.o sml1.o sml2.o smlparam.o smodel1.o smodel2.o spuzzle1.o spuzzle2.o spstep.o sutil.o sconsensus.o streesort.o streetest.o -lsprng -lm -o puzzle /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./gamma.c && mv gamma.o pgamma.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./ml1.c && mv ml1.o pml1.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./ml2.c && mv ml2.o pml2.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./mlparam.c && mv mlparam.o pmlparam.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./model1.c && mv model1.o pmodel1.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./model2.c && mv model2.o pmodel2.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./puzzle1.c && mv puzzle1.o ppuzzle1.o ./puzzle1.c: In function ‘readallquarts’: ./puzzle1.c:294:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "TREE-PUZZLE\n"); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:295:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "%s\n\n", dummyversion); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:297:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "species: %d\n", &dummynspec); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:298:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "quartets: %lu\n", &dummynquart); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:299:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "bytes: %lu\n\n", &dummyblocklen); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:322:6: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(ifp, "%s\n", dummyname); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:335:3: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result] fread(&(quartetinfo[0]), sizeof(char), blocklen, ifp); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c: In function ‘setoptions’: ./puzzle1.c:718:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%d", &locroot); ^~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:776:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &fracinv); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:795:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &Geta); ^~~~~~~~~~~~~~~~~~~ ./puzzle1.c:813:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%d", &numcats); ^~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:915:9: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%d", &numclust); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1115:9: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &(Freqtpm[i])); ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1149:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lu", &Numtrial); ^~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1164:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lu", &lmqts); ^~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1181:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%d", &outgroup); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1449:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &TSparam); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1478:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &YRparam); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1502:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", &tstvf84); ^~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1515:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_ACrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1524:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_AGrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1533:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_ATrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1542:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_CGrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1551:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_CTrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ ./puzzle1.c:1560:8: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", >R_GTrate); ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./puzzle2.c && mv puzzle2.o ppuzzle2.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./pstep.c && mv pstep.o ppstep.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./sched.c && mv sched.o psched.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./util.c && mv util.o putil.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./consensus.c && mv consensus.o pconsensus.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./treesort.c && mv treesort.o ptreesort.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./treetest.c && mv treetest.o ptreetest.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ./ppuzzle.c ./ppuzzle.c: In function ‘PP_Update_EEI’: ./ppuzzle.c:300:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Eval[0]), &(Dtypeaddr[0])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:302:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Evec[0][0]), &(Dtypeaddr[1])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:304:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Ievc[0][0]), &(Dtypeaddr[2])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:306:2: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(3, Dtypelens, Dtypeaddr, Dtypes, &PP_Data); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_Final_Update’: ./ppuzzle.c:344:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(DMVector[0]), &(Dtypeaddr[0])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:346:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Rates[0]), &(Dtypeaddr[1])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:348:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(fracinv), &(Dtypeaddr[2])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:350:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Eval[0]), &(Dtypeaddr[3])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:352:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Evec[0][0]), &(Dtypeaddr[4])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:354:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Ievc[0][0]), &(Dtypeaddr[5])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:356:2: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(6, Dtypelens, Dtypeaddr, Dtypes, &PP_Data); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_SendSizes’: ./ppuzzle.c:722:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ints, Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:723:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(doubles, (Dtypeaddr+1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:725:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, Dtypelens, Dtypeaddr, Dtypes, &PP_Sizes); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_RecvSizes’: ./ppuzzle.c:800:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ints, Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:801:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(doubles, (Dtypeaddr+1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:803:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, Dtypelens, Dtypeaddr, Dtypes, &PP_Sizes); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_RecvData’: ./ppuzzle.c:892:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Seqpat[0][0]), &(Dtypeaddr[0])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:894:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Alias[0]), &(Dtypeaddr[1])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:896:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Weight[0]), &(Dtypeaddr[2])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:898:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(constpat[0]), &(Dtypeaddr[3])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:900:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Rates[0]), &(Dtypeaddr[4])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:902:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Eval[0]), &(Dtypeaddr[5])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:904:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Freqtpm[0]), &(Dtypeaddr[6])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:906:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Evec[0][0]), &(Dtypeaddr[7])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:908:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Ievc[0][0]), &(Dtypeaddr[8])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:910:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(iexp[0][0]), &(Dtypeaddr[9])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:912:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Distanmat[0][0]), &(Dtypeaddr[10])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:914:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(ltprobr[0][0][0]), &(Dtypeaddr[11])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:916:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(12, Dtypelens, Dtypeaddr, Dtypes, &PP_Data); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_SendData’: ./ppuzzle.c:987:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Seqpat[0][0]), &(Dtypeaddr[0])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:989:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Alias[0]), &(Dtypeaddr[1])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:991:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Weight[0]), &(Dtypeaddr[2])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:993:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(constpat[0]), &(Dtypeaddr[3])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:995:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Rates[0]), &(Dtypeaddr[4])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:997:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Eval[0]), &(Dtypeaddr[5])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:999:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Freqtpm[0]), &(Dtypeaddr[6])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1001:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Evec[0][0]), &(Dtypeaddr[7])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1003:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Ievc[0][0]), &(Dtypeaddr[8])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1005:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(iexp[0][0]), &(Dtypeaddr [9])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1007:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(Distanmat[0][0]), &(Dtypeaddr[10])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1009:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(ltprobr[0][0][0]), &(Dtypeaddr[11])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1011:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(12, Dtypelens, Dtypeaddr, Dtypes, &PP_Data); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_SendQuart’: ./ppuzzle.c:1153:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ints, Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1154:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(doubles, (Dtypeaddr+1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1156:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, Dtypelens, Dtypeaddr, Dtypes, &PP_Quart); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_RecvQuart’: ./ppuzzle.c:1204:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ints, Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1205:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(doubles, (Dtypeaddr+1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1207:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, Dtypelens, Dtypeaddr, Dtypes, &PP_Quart); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_SendQuartBlock’: ./ppuzzle.c:1371:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ulis, Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1372:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ints, (Dtypeaddr+1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1374:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, Dtypelens, Dtypeaddr, Dtypes, &PP_QBlockSpecs); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c:1387:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(trueaddr, DtypeaddrRes); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1390:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(bq, (DtypeaddrRes + 1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1392:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, DtypelensRes, DtypeaddrRes, DtypesRes, &PP_QBlockRes); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_RecvQuartBlock’: ./ppuzzle.c:1458:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ulis, Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1459:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ints, (Dtypeaddr+1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1461:2: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, Dtypelens, Dtypeaddr, Dtypes, &PP_QBlockSpecs); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c:1489:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(trueaddr, DtypeaddrRes); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1494:2: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(bq, (DtypeaddrRes+1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1495:2: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, DtypelensRes, DtypeaddrRes, DtypesRes, &PP_QBlockRes); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_SendAllQuarts’: ./ppuzzle.c:1640:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(quartetinfo[0]), Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1641:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(1, Dtypelens, Dtypeaddr, Dtypes, &PP_AllQuarts); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_RecvAllQuarts’: ./ppuzzle.c:1689:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(quartetinfo[0]), Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1690:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(1, Dtypelens, Dtypeaddr, Dtypes, &PP_AllQuarts); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_SendSplitsBlock’: ./ppuzzle.c:1751:5: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(biparts[n][0][0]), &(Dtypeaddr[n])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1757:5: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address((*pstptr).tree, &(Dtypeaddr[(int)blocksize + n])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1767:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(pstnumarr[0]), &(Dtypeaddr[((int)blocksize + pstnum)])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1769:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(((int)blocksize + pstnum + 1), Dtypelens, Dtypeaddr, Dtypes, &PP_Biparts); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_RecvSplitsBlock’: ./ppuzzle.c:1846:5: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&((*bip)[n][0][0]), &(Dtypeaddr[n])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1852:5: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(pstarr[n][0]), &(Dtypeaddr[(int)*blocksize + n])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1857:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&(pstnumarr[0]), &(Dtypeaddr[(int)*blocksize + pstlistnum])); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:1859:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(((int)*blocksize + pstlistnum + 1), Dtypelens, Dtypeaddr, Dtypes, &PP_Biparts); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_SendDone’: ./ppuzzle.c:2056:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ints, Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:2057:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(doubles, (Dtypeaddr+1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:2059:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, Dtypelens, Dtypeaddr, Dtypes, &PP_Stats); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ ./ppuzzle.c: In function ‘PP_RecvDone’: ./ppuzzle.c:2176:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(ints, Dtypeaddr); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:2177:3: warning: ‘MPI_Address’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(doubles, (Dtypeaddr+1)); ^~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1201:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ ./ppuzzle.c:2179:3: warning: ‘MPI_Type_struct’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(2, Dtypelens, Dtypeaddr, Dtypes, &PP_Stats); ^~~~~~~~~~~~~~~ In file included from ./ppuzzle.c:25:0: /usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:1818:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ /usr/bin/mpicc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now pgamma.o pml1.o pml2.o pmlparam.o pmodel1.o pmodel2.o ppuzzle1.o ppuzzle2.o ppstep.o psched.o putil.o pconsensus.o ptreesort.o ptreetest.o ppuzzle.o -lsprng -lm -o ppuzzle make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' Making all in doc make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/<>/doc' make[2]: Leaving directory '/<>/doc' Making all in data make[2]: Entering directory '/<>/data' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/<>/data' Making all in tests make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/<>/tests' make[2]: Entering directory '/<>' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' # unfortunately most tests are failing for the moment # the issue is documented in # debian/patches/patch_test_results.patch # and needs to be discussed with upstream dh_auto_test || true make -j1 check VERBOSE=1 make[2]: Entering directory '/<>' Making check in src make[3]: Entering directory '/<>/src' make[3]: Leaving directory '/<>/src' Making check in doc make[3]: Entering directory '/<>/doc' make[4]: Entering directory '/<>/doc' make[4]: Nothing to be done for 'check-am'. make[4]: Leaving directory '/<>/doc' make[3]: Leaving directory '/<>/doc' Making check in data make[3]: Entering directory '/<>/data' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/data' Making check in tests make[3]: Entering directory '/<>/tests' make check-TESTS make[4]: Entering directory '/<>/tests' make[5]: Entering directory '/<>/tests' SKIP: build-puzzle FAIL: qp-pure-bin.test FAIL: qp-pure-nucl.test FAIL: qp-tn-nucl.test FAIL: qp-hky-clock-nucl.test FAIL: qp-hky-rhet-nucl.test FAIL: qp-hky-rhet-clock-nucl.test FAIL: qp-pure-prot.test FAIL: qp-mtrev-prot.test FAIL: qp-vt-prot.test FAIL: qp-wag-prot.test FAIL: qp-clock.test FAIL: qp-jtt-prot.test FAIL: qp-jtt-rhet-prot.test FAIL: qp-jtt-rhet-clock-prot.test FAIL: lm-pure-prot.test FAIL: ut-pure-prot.test PASS: cons-pure-prot.test SKIP: build-remark ============================ : tests/test-suite.log ============================ # TOTAL: 19 # PASS: 1 # SKIP: 2 # XFAIL: 0 # FAIL: 16 # XPASS: 0 # ERROR: 0 .. contents:: :depth: 2 SKIP: build-puzzle ================== SKIP build-puzzle (exit status: 77) FAIL: qp-pure-bin ================= Testing: binary data, quartet puzzling (qp-pure-bin) 171d170 < *...* : 1000 172a172 > *...* : 1000 FAIL qp-pure-bin.test (exit status: 1) FAIL: qp-pure-nucl ================== Testing: nucleotide data, default model, quartet puzzling (qp-pure-nucl) 101c101 < Thylacinus 0.00000 0.25 0.22032 0.24509 0.26007 0.24938 0.22246 --- > Thylacinus 0.00000 0.25562 0.22032 0.24509 0.26007 0.24938 0.22246 103c103 < Sarcophilu 0.25 0.00000 0.13169 0.26969 0.28414 0.32680 0.26008 --- > Sarcophilu 0.25562 0.00000 0.13169 0.26969 0.28414 0.32680 0.26008 109c109 < Trichosuru 0.26007 0.28414 0.24821 0.29531 0.00000 0.21136 0.28 --- > Trichosuru 0.26007 0.28414 0.24821 0.29531 0.00000 0.21136 0.28562 113c113 < Philander 0.22246 0.26008 0.17801 0.23041 0.28 0.29036 0.00000 --- > Philander 0.22246 0.26008 0.17801 0.23041 0.28562 0.29036 0.00000 185c185 < :-----96: --- > :-----97: 189c189 < : :-99: --- > : :-98: 192,193c192,193 < :-70: :---Philander < : :-66: --- > :-71: :---Philander > : :-65: 203,204c203,204 < (Thylacinus,(Trichosuru,Phalanger)96,((Sarcophilu,Dasyurus)99, < (Philander,Bos)66,Echymipera)70); --- > (Thylacinus,(Trichosuru,Phalanger)97,((Sarcophilu,Dasyurus)98, > (Philander,Bos)65,Echymipera)71); 214,217c214,217 < *..***** : 987 < ****..** : 961 < *...**.. : 698 < ******.. : 658 --- > *..***** : 981 > ****..** : 971 > *...**.. : 713 > ******.. : 649 223c223 < *...**** : 389 --- > *...**** : 426 228c228 < ***.**.. : 367 --- > ***.**.. : 347 230,239c230,240 < *...**.* : 124 < *..***.. : 108 < *..*..** : 105 < *.....** : 66 < ****..*. : 49 < ****.... : 39 < ***..... : 38 < *....*.. : 36 < *..***.* : 31 < ***.***. : 28 --- > *...**.* : 131 > *..***.. : 87 > *..*..** : 81 > *.....** : 72 > ****..*. : 55 > ***.***. : 37 > ****.... : 36 > *..***.* : 36 > ***..... : 31 > *.....*. : 28 > *...***. : 27 241,243c242 < *...***. : 26 < *..*..*. : 24 < *.....*. : 22 --- > *....*.. : 26 245,247c244,247 < ***...** : 16 < **..**** : 10 < *..****. : 9 --- > **..**** : 16 > ***...** : 14 > *..*..*. : 13 > *..****. : 12 249c249 < (7 other less frequent bipartitions not shown) --- > (6 other less frequent bipartitions not shown) 278c278 < Dasyurus 3 0.00 0.01273 11 0.04220 0.02513 --- > Dasyurus 3 0.00572 0.01273 11 0.04220 0.02513 289,291c289,291 < (Thylacinus:0.11024,(Trichosuru:0.10654,Phalanger:0.12258)96:0.05953, < ((Sarcophilu:0.13180,Dasyurus:0.00)99:0.08585,(Philander:0.08995, < Bos:0.13479)66:0.04220,Echymipera:0.13997)70:0.05457); --- > (Thylacinus:0.11024,(Trichosuru:0.10654,Phalanger:0.12258)97:0.05953, > ((Sarcophilu:0.13180,Dasyurus:0.00572)98:0.08585,(Philander:0.08995, > Bos:0.13479)65:0.04220,Echymipera:0.13997)71:0.05457); FAIL qp-pure-nucl.test (exit status: 1) FAIL: qp-tn-nucl ================ Testing: nucleotide data, TN, quartet puzzling (qp-tn-nucl) 24,25c24,25 < Transition/transversion parameter (estimated from data set): 1.25 (S.E. 0.40) < Y/R transition parameter (estimated from data set): 2.26 (S.E. 0.89) --- > Transition/transversion parameter (estimated from data set): 1.24 (S.E. 0.61) > Y/R transition parameter (estimated from data set): 2.27 (S.E. 0.65) 30c30 < A-G rate: 1.54307 --- > A-G rate: 1.52641 33c33 < C-T rate: 3.45671 --- > C-T rate: 3.42338 43,44c43,44 < Expected transition/transversion ratio: 1.58 < Expected pyrimidine transition/purine transition ratio: 6.68 --- > Expected transition/transversion ratio: 1.57 > Expected pyrimidine transition/purine transition ratio: 6.69 102,116c102,116 < Thylacinus 0.00000 0.25985 0.22390 0.25044 0.26641 0.22 0.22626 < 0.24180 < Sarcophilu 0.25985 0.00000 0.13242 0.27396 0.28989 0.33153 0.26303 < 0.30195 < Dasyurus 0.22390 0.13242 0.00000 0.20339 0.25292 0.25452 0.17982 < 0.24252 < Echymipera 0.25044 0.27396 0.20339 0.00000 0.30315 0.34463 0.23492 < 0.27794 < Trichosuru 0.26641 0.28989 0.25292 0.30315 0.00000 0.21427 0.29184 < 0.27804 < Phalanger 0.22 0.33153 0.25452 0.34463 0.21427 0.00000 0.29454 < 0.33617 < Philander 0.22626 0.26303 0.17982 0.23492 0.29184 0.29454 0.00000 < 0.22765 < Bos 0.24180 0.30195 0.24252 0.27794 0.27804 0.33617 0.22765 --- > Thylacinus 0.00000 0.25968 0.22378 0.25026 0.26619 0.25302 0.22610 > 0.24162 > Sarcophilu 0.25968 0.00000 0.13240 0.27376 0.28965 0.33121 0.26282 > 0.30169 > Dasyurus 0.22378 0.13240 0.00000 0.20328 0.25274 0.25432 0.17972 > 0.24235 > Echymipera 0.25026 0.27376 0.20328 0.00000 0.30289 0.34430 0.23479 > 0.27773 > Trichosuru 0.26619 0.28965 0.25274 0.30289 0.00000 0.21414 0.29157 > 0.27782 > Phalanger 0.25302 0.33121 0.25432 0.34430 0.21414 0.00000 0.29425 > 0.33582 > Philander 0.22610 0.26282 0.17972 0.23479 0.29157 0.29425 0.00000 > 0.22749 > Bos 0.24162 0.30169 0.24235 0.27773 0.27782 0.33582 0.22749 119,121c119,121 < Average distance (over all possible pairs of sequences): 0.25896 < minimum : 0.13242, maximum : 0.34463 < variance : 0.00217, std.dev. : 0.04660 --- > Average distance (over all possible pairs of sequences): 0.25876 > minimum : 0.13240, maximum : 0.34430 > variance : 0.00217, std.dev. : 0.04653 186c186 < :-----93: --- > :-----94: 193,194c193,194 < :-67: :---Philander < : :-66: --- > :-63: :---Philander > : :-67: 204,205c204,205 < (Thylacinus,(Trichosuru,Phalanger)93,((Sarcophilu,Dasyurus)98, < (Philander,Bos)66,Echymipera)67); --- > (Thylacinus,(Trichosuru,Phalanger)94,((Sarcophilu,Dasyurus)98, > (Philander,Bos)67,Echymipera)63); 215,218c215,218 < *..***** : 981 < ****..** : 929 < *...**.. : 667 < ******.. : 655 --- > *..***** : 979 > ****..** : 935 > ******.. : 666 > *...**.. : 629 224c224 < *...**** : 399 --- > *...**** : 422 229,248c229,248 < ***.**.. : 267 < *..***.. : 153 < *...**.* : 142 < ***.**.* : 113 < *..*..** : 98 < ****..*. : 91 < *.....** : 71 < *....*.. : 69 < ****.... : 61 < *..*.... : 49 < ***.***. : 34 < *..***.* : 34 < ***..... : 32 < ***...** : 26 < *..*..*. : 25 < *.....*. : 24 < *......* : 21 < **..**** : 18 < *...***. : 15 < *..****. : 14 --- > ***.**.. : 271 > *..***.. : 132 > *...**.* : 122 > ***.**.* : 112 > *..*..** : 94 > *.....** : 88 > ****.... : 83 > ****..*. : 79 > *..*.... : 65 > *....*.. : 56 > *..***.* : 49 > ***.***. : 40 > ***..... : 36 > **..**** : 21 > *..*..*. : 21 > *.....*. : 20 > *......* : 19 > *...***. : 17 > ***...** : 13 > ****.**. : 7 250c250 < (3 other less frequent bipartitions not shown) --- > (9 other less frequent bipartitions not shown) 277,284c277,284 < Thylacinus 1 0.11477 0.03960 9 0.05938 0.03457 < Sarcophilu 2 0.12894 0.03728 10 0.08150 0.03444 < Dasyurus 3 0.00944 0.01286 11 0.04414 0.02611 < Echymipera 4 0.14315 0.04219 12 0.05430 0.03074 < Trichosuru 5 0.10852 0.03853 < Phalanger 6 0.12336 0.04131 < Philander 7 0.09011 0.03480 7 iterations until convergence < Bos 8 0.13730 0.04197 log L: -600.80 --- > Thylacinus 1 0.11472 0.03957 9 0.05924 0.03453 > Sarcophilu 2 0.12889 0.03726 10 0.08141 0.03441 > Dasyurus 3 0.00946 0.01286 11 0.04411 0.02610 > Echymipera 4 0.14312 0.04216 12 0.05429 0.03071 > Trichosuru 5 0.10849 0.03850 > Phalanger 6 0.12332 0.04128 > Philander 7 0.09008 0.03478 7 iterations until convergence > Bos 8 0.13724 0.04194 log L: -600.80 290,292c290,292 < (Thylacinus:0.11477,(Trichosuru:0.10852,Phalanger:0.12336)93:0.05938, < ((Sarcophilu:0.12894,Dasyurus:0.00944)98:0.08150,(Philander:0.09011, < Bos:0.13730)66:0.04414,Echymipera:0.14315)67:0.05430); --- > (Thylacinus:0.11472,(Trichosuru:0.10849,Phalanger:0.12332)94:0.05924, > ((Sarcophilu:0.12889,Dasyurus:0.00946)98:0.08141,(Philander:0.09008, > Bos:0.13724)67:0.04411,Echymipera:0.14312)63:0.05429); FAIL qp-tn-nucl.test (exit status: 1) FAIL: qp-hky-clock-nucl ======================= Testing: nucleotide data, HKY, clock, quartet puzzling (qp-hky-clock-nucl) 101c101 < Thylacinus 0.00000 0.25 0.22032 0.24509 0.26007 0.24938 0.22246 --- > Thylacinus 0.00000 0.25562 0.22032 0.24509 0.26007 0.24938 0.22246 103c103 < Sarcophilu 0.25 0.00000 0.13169 0.26969 0.28414 0.32680 0.26008 --- > Sarcophilu 0.25562 0.00000 0.13169 0.26969 0.28414 0.32680 0.26008 109c109 < Trichosuru 0.26007 0.28414 0.24821 0.29531 0.00000 0.21136 0.28 --- > Trichosuru 0.26007 0.28414 0.24821 0.29531 0.00000 0.21136 0.28562 113c113 < Philander 0.22246 0.26008 0.17801 0.23041 0.28 0.29036 0.00000 --- > Philander 0.22246 0.26008 0.17801 0.23041 0.28562 0.29036 0.00000 185c185 < :-----96: --- > :-----97: 189c189 < : :-99: --- > : :-98: 192,193c192,193 < :-70: :---Philander < : :-66: --- > :-71: :---Philander > : :-65: 203,204c203,204 < (Thylacinus,(Trichosuru,Phalanger)96,((Sarcophilu,Dasyurus)99, < (Philander,Bos)66,Echymipera)70); --- > (Thylacinus,(Trichosuru,Phalanger)97,((Sarcophilu,Dasyurus)98, > (Philander,Bos)65,Echymipera)71); 214,217c214,217 < *..***** : 987 < ****..** : 961 < *...**.. : 698 < ******.. : 658 --- > *..***** : 981 > ****..** : 971 > *...**.. : 713 > ******.. : 649 223c223 < *...**** : 389 --- > *...**** : 426 228c228 < ***.**.. : 367 --- > ***.**.. : 347 230,239c230,240 < *...**.* : 124 < *..***.. : 108 < *..*..** : 105 < *.....** : 66 < ****..*. : 49 < ****.... : 39 < ***..... : 38 < *....*.. : 36 < *..***.* : 31 < ***.***. : 28 --- > *...**.* : 131 > *..***.. : 87 > *..*..** : 81 > *.....** : 72 > ****..*. : 55 > ***.***. : 37 > ****.... : 36 > *..***.* : 36 > ***..... : 31 > *.....*. : 28 > *...***. : 27 241,243c242 < *...***. : 26 < *..*..*. : 24 < *.....*. : 22 --- > *....*.. : 26 245,247c244,247 < ***...** : 16 < **..**** : 10 < *..****. : 9 --- > **..**** : 16 > ***...** : 14 > *..*..*. : 13 > *..****. : 12 249c249 < (7 other less frequent bipartitions not shown) --- > (6 other less frequent bipartitions not shown) 278c278 < Dasyurus 3 0.00 0.01273 11 0.04220 0.02513 --- > Dasyurus 3 0.00572 0.01273 11 0.04220 0.02513 289,291c289,291 < (Thylacinus:0.11024,(Trichosuru:0.10654,Phalanger:0.12258)96:0.05953, < ((Sarcophilu:0.13180,Dasyurus:0.00)99:0.08585,(Philander:0.08995, < Bos:0.13479)66:0.04220,Echymipera:0.13997)70:0.05457); --- > (Thylacinus:0.11024,(Trichosuru:0.10654,Phalanger:0.12258)97:0.05953, > ((Sarcophilu:0.13180,Dasyurus:0.00572)98:0.08585,(Philander:0.08995, > Bos:0.13479)65:0.04220,Echymipera:0.13997)71:0.05457); 346,348c346,348 < (Thylacinus:0.14705,((Trichosuru:0.10199,Phalanger:0.10199)96:0.04504 < ,((Sarcophilu:0.06189,Dasyurus:0.06189)99:0.06663,(Philander:0.09549, < Bos:0.09549)66:0.03304,Echymipera:0.12852)70:0.01851):0.00001); --- > (Thylacinus:0.14705,((Trichosuru:0.10199,Phalanger:0.10199)97:0.04504 > ,((Sarcophilu:0.06189,Dasyurus:0.06189)98:0.06663,(Philander:0.09549, > Bos:0.09549)65:0.03304,Echymipera:0.12852)71:0.01851):0.00001); FAIL qp-hky-clock-nucl.test (exit status: 1) FAIL: qp-hky-rhet-nucl ====================== Testing: nucleotide data, HKY, rate heterogeneity, quartet puzzling (qp-hky-rhet-nucl) 29c29 < A-G rate: 5.84985 --- > A-G rate: 5.85063 32c32 < C-T rate: 5.84985 --- > C-T rate: 5.85063 101,115c101,115 < Thylacinus 0.00000 0.52933 0.37896 0.29 0.58913 0.56142 0.43926 < 0.83 < Sarcophilu 0.52933 0.00000 0.17836 0.62 0.69881 0.93587 0.62317 < 0.78583 < Dasyurus 0.37896 0.17836 0.00000 0.39027 0.53423 0.60360 0.31916 < 0.11 < Echymipera 0.29 0.62 0.39027 0.00000 0.70218 0.94266 0.42011 < 0.66053 < Trichosuru 0.58913 0.69881 0.53423 0.70218 0.00000 0.39412 0.70006 < 0.62687 < Phalanger 0.56142 0.93587 0.60360 0.94266 0.39412 0.00000 0.78644 < 0.98902 < Philander 0.43926 0.62317 0.31916 0.42011 0.70006 0.78644 0.00000 < 0.49257 < Bos 0.83 0.78583 0.11 0.66053 0.62687 0.98902 0.49257 --- > Thylacinus 0.00000 0.52940 0.37900 0.52236 0.58922 0.56150 0.43932 > 0.55291 > Sarcophilu 0.52940 0.00000 0.17837 0.62532 0.69892 0.93602 0.62327 > 0.78596 > Dasyurus 0.37900 0.17837 0.00000 0.39032 0.53431 0.60369 0.31919 > 0.56220 > Echymipera 0.52236 0.62532 0.39032 0.00000 0.70229 0.94283 0.42016 > 0.66063 > Trichosuru 0.58922 0.69892 0.53431 0.70229 0.00000 0.39416 0.70017 > 0.62697 > Phalanger 0.56150 0.93602 0.60369 0.94283 0.39416 0.00000 0.78658 > 0.98921 > Philander 0.43932 0.62327 0.31919 0.42016 0.70017 0.78658 0.00000 > 0.49264 > Bos 0.55291 0.78596 0.56220 0.66063 0.62697 0.98921 0.49264 118,120c118,120 < Average distance (over all possible pairs of sequences): 0.59087 < minimum : 0.17836, maximum : 0.98902 < variance : 0.03580, std.dev. : 0.18920 --- > Average distance (over all possible pairs of sequences): 0.59096 > minimum : 0.17837, maximum : 0.98921 > variance : 0.03581, std.dev. : 0.18924 135,139c135,139 < 4 0.1072 0.1250 < 5 0.3141 0.1250 < 6 0.7769 0.1250 < 7 1.8181 0.1250 < 8 4.9544 0.1250 --- > 4 0.1071 0.1250 > 5 0.3140 0.1250 > 6 0.7768 0.1250 > 7 1.8180 0.1250 > 8 4.9547 0.1250 210c210 < :-92: --- > :-90: 214c214 < :-86: --- > :-87: 228c228 < (Thylacinus,(Sarcophilu,Dasyurus)92,(Trichosuru,Phalanger)86, --- > (Thylacinus,(Sarcophilu,Dasyurus)90,(Trichosuru,Phalanger)87, 239,240c239,240 < *..***** : 924 < ****..** : 855 --- > *..***** : 904 > ****..** : 872 246,248c246,247 < *...**.. : 387 < ******.. : 339 < *...**** : 213 --- > *...**.. : 377 > ******.. : 357 253,272c252,271 < ***.**.* : 209 < ***.**.. : 203 < ***.***. : 171 < *..*..** : 138 < *......* : 114 < *...**.* : 112 < *..***.. : 98 < *.....** : 96 < *..***.* : 94 < *..*.... : 93 < ***..... : 88 < *..****. : 78 < *...***. : 77 < ****..*. : 72 < ***...** : 66 < *....*.. : 62 < *.....*. : 61 < ****.... : 61 < ****...* : 45 < *..*..*. : 42 --- > ***.**.* : 220 > ***.**.. : 218 > *...**** : 205 > ***.***. : 145 > *......* : 135 > *..*..** : 129 > *...**.* : 124 > *.....** : 106 > *..*.... : 102 > *..***.* : 92 > *..***.. : 91 > ***..... : 86 > *.....*. : 71 > ***...** : 70 > *..****. : 67 > ****..*. : 67 > *....*.. : 64 > *...***. : 54 > ****.... : 52 > *..*...* : 47 274c273 < (47 other less frequent bipartitions not shown) --- > (49 other less frequent bipartitions not shown) 301,308c300,307 < Thylacinus 1 0.23361 0.10247 9 0.19925 0.09575 < Sarcophilu 2 0.18904 0.06712 10 0.22287 0.13091 < Dasyurus 3 0.00001 0.00179 < Echymipera 4 0.27838 0.11689 < Trichosuru 5 0.17820 0.10158 < Phalanger 6 0.27516 0.12610 < Philander 7 0.22531 0.10268 10 iterations until convergence < Bos 8 0.38 0.14564 log L: -570.33 --- > Thylacinus 1 0.23363 0.10248 9 0.19927 0.09576 > Sarcophilu 2 0.18905 0.06712 10 0.22291 0.13093 > Dasyurus 3 0.00001 0.00200 > Echymipera 4 0.27841 0.11691 > Trichosuru 5 0.17822 0.10160 > Phalanger 6 0.27519 0.12613 > Philander 7 0.22533 0.10269 10 iterations until convergence > Bos 8 0.38507 0.14566 log L: -570.33 316,318c315,317 < (Thylacinus:0.23361,(Sarcophilu:0.18904,Dasyurus:0.00001)92:0.19925, < (Trichosuru:0.17820,Phalanger:0.27516)86:0.22287,Echymipera:0.27838, < Philander:0.22531,Bos:0.38); --- > (Thylacinus:0.23363,(Sarcophilu:0.18905,Dasyurus:0.00001)90:0.19927, > (Trichosuru:0.17822,Phalanger:0.27519)87:0.22291,Echymipera:0.27841, > Philander:0.22533,Bos:0.38507); FAIL qp-hky-rhet-nucl.test (exit status: 1) FAIL: qp-hky-rhet-clock-nucl ============================ Testing: nucleotide data, HKY, clock, rate heterogeneity, quartet puzzling (qp-hky-rhet-clock-nucl) 29c29 < A-G rate: 5.84985 --- > A-G rate: 5.85063 32c32 < C-T rate: 5.84985 --- > C-T rate: 5.85063 101,115c101,115 < Thylacinus 0.00000 0.52933 0.37896 0.29 0.58913 0.56142 0.43926 < 0.83 < Sarcophilu 0.52933 0.00000 0.17836 0.62 0.69881 0.93587 0.62317 < 0.78583 < Dasyurus 0.37896 0.17836 0.00000 0.39027 0.53423 0.60360 0.31916 < 0.11 < Echymipera 0.29 0.62 0.39027 0.00000 0.70218 0.94266 0.42011 < 0.66053 < Trichosuru 0.58913 0.69881 0.53423 0.70218 0.00000 0.39412 0.70006 < 0.62687 < Phalanger 0.56142 0.93587 0.60360 0.94266 0.39412 0.00000 0.78644 < 0.98902 < Philander 0.43926 0.62317 0.31916 0.42011 0.70006 0.78644 0.00000 < 0.49257 < Bos 0.83 0.78583 0.11 0.66053 0.62687 0.98902 0.49257 --- > Thylacinus 0.00000 0.52940 0.37900 0.52236 0.58922 0.56150 0.43932 > 0.55291 > Sarcophilu 0.52940 0.00000 0.17837 0.62532 0.69892 0.93602 0.62327 > 0.78596 > Dasyurus 0.37900 0.17837 0.00000 0.39032 0.53431 0.60369 0.31919 > 0.56220 > Echymipera 0.52236 0.62532 0.39032 0.00000 0.70229 0.94283 0.42016 > 0.66063 > Trichosuru 0.58922 0.69892 0.53431 0.70229 0.00000 0.39416 0.70017 > 0.62697 > Phalanger 0.56150 0.93602 0.60369 0.94283 0.39416 0.00000 0.78658 > 0.98921 > Philander 0.43932 0.62327 0.31919 0.42016 0.70017 0.78658 0.00000 > 0.49264 > Bos 0.55291 0.78596 0.56220 0.66063 0.62697 0.98921 0.49264 118,120c118,120 < Average distance (over all possible pairs of sequences): 0.59087 < minimum : 0.17836, maximum : 0.98902 < variance : 0.03580, std.dev. : 0.18920 --- > Average distance (over all possible pairs of sequences): 0.59096 > minimum : 0.17837, maximum : 0.98921 > variance : 0.03581, std.dev. : 0.18924 135,139c135,139 < 4 0.1072 0.1250 < 5 0.3141 0.1250 < 6 0.7769 0.1250 < 7 1.8181 0.1250 < 8 4.9544 0.1250 --- > 4 0.1071 0.1250 > 5 0.3140 0.1250 > 6 0.7768 0.1250 > 7 1.8180 0.1250 > 8 4.9547 0.1250 210c210 < :-92: --- > :-90: 214c214 < :-86: --- > :-87: 228c228 < (Thylacinus,(Sarcophilu,Dasyurus)92,(Trichosuru,Phalanger)86, --- > (Thylacinus,(Sarcophilu,Dasyurus)90,(Trichosuru,Phalanger)87, 239,240c239,240 < *..***** : 924 < ****..** : 855 --- > *..***** : 904 > ****..** : 872 246,248c246,247 < *...**.. : 387 < ******.. : 339 < *...**** : 213 --- > *...**.. : 377 > ******.. : 357 253,272c252,271 < ***.**.* : 209 < ***.**.. : 203 < ***.***. : 171 < *..*..** : 138 < *......* : 114 < *...**.* : 112 < *..***.. : 98 < *.....** : 96 < *..***.* : 94 < *..*.... : 93 < ***..... : 88 < *..****. : 78 < *...***. : 77 < ****..*. : 72 < ***...** : 66 < *....*.. : 62 < *.....*. : 61 < ****.... : 61 < ****...* : 45 < *..*..*. : 42 --- > ***.**.* : 220 > ***.**.. : 218 > *...**** : 205 > ***.***. : 145 > *......* : 135 > *..*..** : 129 > *...**.* : 124 > *.....** : 106 > *..*.... : 102 > *..***.* : 92 > *..***.. : 91 > ***..... : 86 > *.....*. : 71 > ***...** : 70 > *..****. : 67 > ****..*. : 67 > *....*.. : 64 > *...***. : 54 > ****.... : 52 > *..*...* : 47 274c273 < (47 other less frequent bipartitions not shown) --- > (49 other less frequent bipartitions not shown) 301,308c300,307 < Thylacinus 1 0.23361 0.10247 9 0.19925 0.09575 < Sarcophilu 2 0.18904 0.06712 10 0.22287 0.13091 < Dasyurus 3 0.00001 0.00179 < Echymipera 4 0.27838 0.11689 < Trichosuru 5 0.17820 0.10158 < Phalanger 6 0.27516 0.12610 < Philander 7 0.22531 0.10268 10 iterations until convergence < Bos 8 0.38 0.14564 log L: -570.33 --- > Thylacinus 1 0.23363 0.10248 9 0.19927 0.09576 > Sarcophilu 2 0.18905 0.06712 10 0.22291 0.13093 > Dasyurus 3 0.00001 0.00200 > Echymipera 4 0.27841 0.11691 > Trichosuru 5 0.17822 0.10160 > Phalanger 6 0.27519 0.12613 > Philander 7 0.22533 0.10269 10 iterations until convergence > Bos 8 0.38507 0.14566 log L: -570.33 316,318c315,317 < (Thylacinus:0.23361,(Sarcophilu:0.18904,Dasyurus:0.00001)92:0.19925, < (Trichosuru:0.17820,Phalanger:0.27516)86:0.22287,Echymipera:0.27838, < Philander:0.22531,Bos:0.38); --- > (Thylacinus:0.23363,(Sarcophilu:0.18905,Dasyurus:0.00001)90:0.19927, > (Trichosuru:0.17822,Phalanger:0.27519)87:0.22291,Echymipera:0.27841, > Philander:0.22533,Bos:0.38507); 352,359c351,358 < Thylacinus 1 0.29773 0.785 9 0.20354 0.979 < Sarcophilu 2 0.09419 2.007 10 0.22843 0.976 < Dasyurus 3 0.09419 0.000 < Echymipera 4 0.29773 0.935 < Trichosuru 5 0.23469 0.759 < Phalanger 6 0.23469 1.172 < Philander 7 0.29773 0.757 16 iterations until convergence < Bos 8 0.29773 1.293 log L: -573.89 --- > Thylacinus 1 0.29776 0.785 9 0.20356 0.979 > Sarcophilu 2 0.09420 2.007 10 0.22846 0.976 > Dasyurus 3 0.09420 0.000 > Echymipera 4 0.29776 0.935 > Trichosuru 5 0.23472 0.759 > Phalanger 6 0.23472 1.172 > Philander 7 0.29776 0.757 16 iterations until convergence > Bos 8 0.29776 1.293 log L: -573.89 362,365c361,364 < 0.23469 0.07630 10 5 6 < 0.09419 0.03153 9 2 3 < 0.29773 0.05400 10 4 7 8 1 9 < 0.38042 0.07030 of root at branch 10 --- > 0.23472 0.07631 10 5 6 > 0.09420 0.03153 9 2 3 > 0.29776 0.05401 10 4 7 8 1 9 > 0.38047 0.07031 of root at branch 10 371,373c370,372 < ((Trichosuru:0.23469,Phalanger:0.23469)86:0.14574,(Echymipera:0.29773, < Philander:0.29773,Bos:0.29773,Thylacinus:0.29773,(Sarcophilu:0.09419, < Dasyurus:0.09419)92:0.20354):0.08269); --- > ((Trichosuru:0.23472,Phalanger:0.23472)87:0.14575,(Echymipera:0.29776, > Philander:0.29776,Bos:0.29776,Thylacinus:0.29776,(Sarcophilu:0.09420, > Dasyurus:0.09420)90:0.20356):0.08271); FAIL qp-hky-rhet-clock-nucl.test (exit status: 1) FAIL: qp-pure-prot ================== Testing: protein data, default model, quartet puzzling (qp-pure-prot) 177,185c177,185 < :---GLB5_PETMA < :-56: < :100: :---LGB2_LUPLU < : : < :100: :-------MYG_PHYCA < : : < : : :---HBA_HUMAN < : :----100: < : :---HBA_HORSE --- > :---HBA_HUMAN > :----100: > : :---HBA_HORSE > :100: > : : :---GLB5_PETMA > : : :-54: > : :100: :---LGB2_LUPLU > : : > : :-------MYG_PHYCA 194,195c194,195 < (HBB_HUMAN,(((GLB5_PETMA,LGB2_LUPLU)56,MYG_PHYCA)100,(HBA_HUMAN, < HBA_HORSE)100)100,HBB_HORSE); --- > (HBB_HUMAN,((HBA_HUMAN,HBA_HORSE)100,((GLB5_PETMA,LGB2_LUPLU)54, > MYG_PHYCA)100)100,HBB_HORSE); 205,206d204 < ****... : 1000 < **..*** : 1000 208c206,208 < *****.. : 563 --- > **..*** : 1000 > ****... : 1000 > *****.. : 544 219,220c219,220 < ****..* : 221 < ****.*. : 216 --- > ****.*. : 234 > ****..* : 222 229,233c229,231 < :------6 GLB5_PETMA < :---8 < : :----------------7 LGB2_LUPLU < :-----9 < : :-------------5 MYG_PHYCA --- > :-3 HBA_HUMAN > :----8 > : :-4 HBA_HORSE 235,237c233,237 < : : :-3 HBA_HUMAN < : :---10 < : :-4 HBA_HORSE --- > : : :------6 GLB5_PETMA > : : :---9 > : : : :----------------7 LGB2_LUPLU > : :----10 > : :-------------5 MYG_PHYCA 245,251c245,251 < HBB_HUMAN 1 0.04915 0.03158 8 0.18155 0.13087 < HBB_HORSE 2 0.12604 0.03871 9 0.34694 0.12 < HBA_HUMAN 3 0.02555 0.02185 10 0.28345 0.08777 < HBA_HORSE 4 0.09 0.03153 11 0.60239 0.11261 < MYG_PHYCA 5 1.33162 0.21116 < GLB5_PETMA 6 0.57465 0.13843 10 iterations until convergence < LGB2_LUPLU 7 1.71330 0.27644 log L: -1699.00 --- > HBB_HUMAN 1 0.04915 0.03158 8 0.28345 0.08777 > HBB_HORSE 2 0.12603 0.03871 9 0.18154 0.13086 > HBA_HUMAN 3 0.02555 0.02185 10 0.34694 0.12552 > HBA_HORSE 4 0.09542 0.03153 11 0.60239 0.11261 > MYG_PHYCA 5 1.33166 0.21117 > GLB5_PETMA 6 0.57466 0.13843 10 iterations until convergence > LGB2_LUPLU 7 1.71333 0.27645 log L: -1699.00 257,259c257,259 < (HBB_HUMAN:0.04915,(((GLB5_PETMA:0.57465,LGB2_LUPLU:1.71330)56:0.18155, < MYG_PHYCA:1.33162)100:0.34694,(HBA_HUMAN:0.02555,HBA_HORSE:0.09) < 100:0.28345)100:0.60239,HBB_HORSE:0.12604); --- > (HBB_HUMAN:0.04915,((HBA_HUMAN:0.02555,HBA_HORSE:0.09542)100:0.28345, > ((GLB5_PETMA:0.57466,LGB2_LUPLU:1.71333)54:0.18154,MYG_PHYCA:1.33166) > 100:0.34694)100:0.60239,HBB_HORSE:0.12603); FAIL qp-pure-prot.test (exit status: 1) FAIL: qp-mtrev-prot =================== Testing: protein data, mtREV, quartet puzzling (qp-mtrev-prot) 107c107 < HBA_HORSE 1.16856 1.20524 0.13144 0.00000 2.44163 1.55 3.05140 --- > HBA_HORSE 1.16856 1.20524 0.13144 0.00000 2.44163 1.55582 3.05140 109c109 < GLB5_PETMA 2.15305 2.18071 1.43785 1.55 2.62256 0.00000 2.97722 --- > GLB5_PETMA 2.15305 2.18071 1.43785 1.55582 2.62256 0.00000 2.97722 183c183 < : :-96:---GLB5_PETMA --- > : :-97:---GLB5_PETMA 194c194 < (HBB_HUMAN,((HBA_HUMAN,HBA_HORSE)100,(MYG_PHYCA,GLB5_PETMA,LGB2_LUPLU)96)100, --- > (HBB_HUMAN,((HBA_HUMAN,HBA_HORSE)100,(MYG_PHYCA,GLB5_PETMA,LGB2_LUPLU)97)100, 205d204 < **..*** : 1000 207c206,207 < ****... : 959 --- > **..*** : 1000 > ****... : 971 213c213 < *****.. : 444 --- > ****.*. : 462 218,221c218,222 < ****.*. : 442 < ****..* : 113 < **..*.. : 24 < **..*.* : 18 --- > *****.. : 436 > ****..* : 100 > **..*.* : 15 > **..*.. : 14 > **....* : 2 259c260 < (MYG_PHYCA:1.58550,GLB5_PETMA:0.88663,LGB2_LUPLU:2.13259)96:0.34149) --- > (MYG_PHYCA:1.58550,GLB5_PETMA:0.88663,LGB2_LUPLU:2.13259)97:0.34149) FAIL qp-mtrev-prot.test (exit status: 1) FAIL: qp-vt-prot ================ Testing: protein data, VT, quartet puzzling (qp-vt-prot) 206d205 < **..*** : 1000 207a207 > **..*** : 1000 213c213 < ****..* : 365 --- > *****.. : 347 218,219c218,219 < *****.. : 324 < ****.*. : 311 --- > ****..* : 331 > ****.*. : 322 246c246 < HBA_HUMAN 3 0.03150 0.02213 10 0.96 0.10035 --- > HBA_HUMAN 3 0.03150 0.02213 10 0.54296 0.10035 257c257 < 100:0.42025,(HBA_HUMAN:0.03150,HBA_HORSE:0.08803)100:0.25241)100:0.96, --- > 100:0.42025,(HBA_HUMAN:0.03150,HBA_HORSE:0.08803)100:0.25241)100:0.54296, FAIL qp-vt-prot.test (exit status: 1) FAIL: qp-wag-prot ================= Testing: protein data, WAG, quartet puzzling (qp-wag-prot) 206d205 < **..*** : 1000 207a207 > **..*** : 1000 213c213 < ****..* : 365 --- > *****.. : 347 218,219c218,219 < *****.. : 324 < ****.*. : 311 --- > ****..* : 331 > ****.*. : 322 244c244 < HBB_HUMAN 1 0.08 0.03102 8 0.44299 0.11946 --- > HBB_HUMAN 1 0.05028 0.03102 8 0.44299 0.11946 246c246 < HBA_HUMAN 3 0.02934 0.02190 10 0.57110 0.10504 --- > HBA_HUMAN 3 0.02934 0.02189 10 0.57110 0.10504 256c256 < (HBB_HUMAN:0.08,((MYG_PHYCA:1.11230,GLB5_PETMA:0.59340,LGB2_LUPLU:1.46501) --- > (HBB_HUMAN:0.05028,((MYG_PHYCA:1.11230,GLB5_PETMA:0.59340,LGB2_LUPLU:1.46501) FAIL qp-wag-prot.test (exit status: 1) FAIL: qp-clock ============== Testing: default data, default model, clock, quartet puzzling (qp-clock) 101c101 < Thylacinus 0.00000 0.25 0.22032 0.24509 0.26007 0.24938 0.22246 --- > Thylacinus 0.00000 0.25562 0.22032 0.24509 0.26007 0.24938 0.22246 103c103 < Sarcophilu 0.25 0.00000 0.13169 0.26969 0.28414 0.32680 0.26008 --- > Sarcophilu 0.25562 0.00000 0.13169 0.26969 0.28414 0.32680 0.26008 109c109 < Trichosuru 0.26007 0.28414 0.24821 0.29531 0.00000 0.21136 0.28 --- > Trichosuru 0.26007 0.28414 0.24821 0.29531 0.00000 0.21136 0.28562 113c113 < Philander 0.22246 0.26008 0.17801 0.23041 0.28 0.29036 0.00000 --- > Philander 0.22246 0.26008 0.17801 0.23041 0.28562 0.29036 0.00000 185c185 < :-----96: --- > :-----97: 189c189 < : :-99: --- > : :-98: 192,193c192,193 < :-70: :---Philander < : :-66: --- > :-71: :---Philander > : :-65: 203,204c203,204 < (Thylacinus,(Trichosuru,Phalanger)96,((Sarcophilu,Dasyurus)99, < (Philander,Bos)66,Echymipera)70); --- > (Thylacinus,(Trichosuru,Phalanger)97,((Sarcophilu,Dasyurus)98, > (Philander,Bos)65,Echymipera)71); 214,217c214,217 < *..***** : 987 < ****..** : 961 < *...**.. : 698 < ******.. : 658 --- > *..***** : 981 > ****..** : 971 > *...**.. : 713 > ******.. : 649 223c223 < *...**** : 389 --- > *...**** : 426 228c228 < ***.**.. : 367 --- > ***.**.. : 347 230,239c230,240 < *...**.* : 124 < *..***.. : 108 < *..*..** : 105 < *.....** : 66 < ****..*. : 49 < ****.... : 39 < ***..... : 38 < *....*.. : 36 < *..***.* : 31 < ***.***. : 28 --- > *...**.* : 131 > *..***.. : 87 > *..*..** : 81 > *.....** : 72 > ****..*. : 55 > ***.***. : 37 > ****.... : 36 > *..***.* : 36 > ***..... : 31 > *.....*. : 28 > *...***. : 27 241,243c242 < *...***. : 26 < *..*..*. : 24 < *.....*. : 22 --- > *....*.. : 26 245,247c244,247 < ***...** : 16 < **..**** : 10 < *..****. : 9 --- > **..**** : 16 > ***...** : 14 > *..*..*. : 13 > *..****. : 12 249c249 < (7 other less frequent bipartitions not shown) --- > (6 other less frequent bipartitions not shown) 278c278 < Dasyurus 3 0.00 0.01273 11 0.04220 0.02513 --- > Dasyurus 3 0.00572 0.01273 11 0.04220 0.02513 289,291c289,291 < (Thylacinus:0.11024,(Trichosuru:0.10654,Phalanger:0.12258)96:0.05953, < ((Sarcophilu:0.13180,Dasyurus:0.00)99:0.08585,(Philander:0.08995, < Bos:0.13479)66:0.04220,Echymipera:0.13997)70:0.05457); --- > (Thylacinus:0.11024,(Trichosuru:0.10654,Phalanger:0.12258)97:0.05953, > ((Sarcophilu:0.13180,Dasyurus:0.00572)98:0.08585,(Philander:0.08995, > Bos:0.13479)65:0.04220,Echymipera:0.13997)71:0.05457); 346,348c346,348 < (Thylacinus:0.14705,((Trichosuru:0.10199,Phalanger:0.10199)96:0.04504 < ,((Sarcophilu:0.06189,Dasyurus:0.06189)99:0.06663,(Philander:0.09549, < Bos:0.09549)66:0.03304,Echymipera:0.12852)70:0.01851):0.00001); --- > (Thylacinus:0.14705,((Trichosuru:0.10199,Phalanger:0.10199)97:0.04504 > ,((Sarcophilu:0.06189,Dasyurus:0.06189)98:0.06663,(Philander:0.09549, > Bos:0.09549)65:0.03304,Echymipera:0.12852)71:0.01851):0.00001); FAIL qp-clock.test (exit status: 1) FAIL: qp-jtt-prot ================= Testing: protein data, JTT, quartet puzzling (qp-jtt-prot) 106,107c106,107 < HBA_HUMAN 0.93732 0.97297 0.00000 0.12200 1.93956 1.26 2.51688 < HBA_HORSE 0.96340 0.97742 0.12200 0.00000 1.99570 1.34817 2.47 --- > HBA_HUMAN 0.93732 0.97297 0.00000 0.12200 1.93956 1.25126 2.51688 > HBA_HORSE 0.96340 0.97742 0.12200 0.00000 1.99570 1.34817 2.47562 109,110c109,110 < GLB5_PETMA 1.74159 1.75271 1.26 1.34817 2.04426 0.00000 2.23399 < LGB2_LUPLU 2.60857 2.65715 2.51688 2.47 2.69086 2.23399 0.00000 --- > GLB5_PETMA 1.74159 1.75271 1.25126 1.34817 2.04426 0.00000 2.23399 > LGB2_LUPLU 2.60857 2.65715 2.51688 2.47562 2.69086 2.23399 0.00000 206d205 < **..*** : 1000 207a207 > **..*** : 1000 213c213 < *****.. : 396 --- > *****.. : 393 218,219c218,219 < ****.*. : 375 < ****..* : 229 --- > ****.*. : 380 > ****..* : 227 245c245 < HBB_HORSE 2 0.12734 0.03889 9 0.25371 0.08 --- > HBB_HORSE 2 0.12734 0.03889 9 0.25371 0.08572 FAIL qp-jtt-prot.test (exit status: 1) FAIL: qp-jtt-rhet-prot ====================== Testing: protein data, JTT, rate heterogeneity, quartet puzzling (qp-jtt-rhet-prot) 232d231 < **..*** : 1000 233a233 > **..*** : 1000 239c239 < *****.. : 396 --- > *****.. : 393 244,245c244,245 < ****.*. : 375 < ****..* : 229 --- > ****.*. : 380 > ****..* : 227 270c270 < HBB_HUMAN 1 0.04933 0.03410 8 0.50700 0.17282 --- > HBB_HUMAN 1 0.04933 0.03409 8 0.50700 0.17281 FAIL qp-jtt-rhet-prot.test (exit status: 1) FAIL: qp-jtt-rhet-clock-prot ============================ Testing: protein data, JTT, clock, rate heterogeneity, quartet puzzling (qp-jtt-rhet-clock-prot) 232d231 < **..*** : 1000 233a233 > **..*** : 1000 239c239 < *****.. : 396 --- > *****.. : 393 244,245c244,245 < ****.*. : 375 < ****..* : 229 --- > ****.*. : 380 > ****..* : 227 270c270 < HBB_HUMAN 1 0.04933 0.03410 8 0.50700 0.17282 --- > HBB_HUMAN 1 0.04933 0.03409 8 0.50700 0.17281 316c316 < HBB_HUMAN 1 0.08775 0. 8 0.58020 0.874 --- > HBB_HUMAN 1 0.08775 0.562 8 0.58020 0.874 FAIL qp-jtt-rhet-clock-prot.test (exit status: 1) FAIL: lm-pure-prot ================== Testing: protein data, default model, likelihood mapping (lm-pure-prot) 148c148 < Number of quartets in region 1: 17 (= 48.6%) --- > Number of quartets in region 1: 14 (= 40.0%) 150c150 < Number of quartets in region 3: 7 (= 20.0%) --- > Number of quartets in region 3: 10 (= 28.6%) 165,167c165,167 < Number of quartets in region 1: 16 (= 45.7%) left: 7 right: 9 < Number of quartets in region 2: 9 (= 25.7%) bottom: 3 top: 6 < Number of quartets in region 3: 7 (= 20.0%) bottom: 2 top: 5 --- > Number of quartets in region 1: 12 (= 34.3%) left: 3 right: 9 > Number of quartets in region 2: 11 (= 31.4%) bottom: 3 top: 8 > Number of quartets in region 3: 9 (= 25.7%) bottom: 4 top: 5 FAIL lm-pure-prot.test (exit status: 1) FAIL: ut-pure-prot ================== Testing: protein data, default model, user tree evaluation (ut-pure-prot) 151c151 < HBB_HORSE 2 0.12686 0.03876 9 0.00001 0.00100 --- > HBB_HORSE 2 0.12686 0.03876 9 0.00001 0.00141 192,193c192,193 < HBB_HORSE 2 0.12604 0.03871 9 0.18149 0.13086 < HBA_HUMAN 3 0.02555 0.02185 10 0.34695 0.12 --- > HBB_HORSE 2 0.12604 0.03871 9 0.18149 0.13088 > HBA_HUMAN 3 0.02555 0.02185 10 0.34695 0.12552 196c196 < GLB5_PETMA 6 0.57473 0.13844 9 iterations until convergence --- > GLB5_PETMA 6 0.57473 0.13845 9 iterations until convergence 289,292c289,292 < 1 -1699.50 0.49 1.0266 0.3220 + 0.4870 + 0.1918 + + < 2 -1699.00 0.00 <---- best 1.0000 + 1.0000 + 0.3601 + best < 3 -1699.32 0.32 1.3440 0.3930 + 0.4610 + 0.2563 + + < 4 -1699.50 0.49 1.0267 0.2960 + 0.4870 + 0.1918 + + --- > 1 -1699.50 0.49 1.0266 0.3020 + 0.4700 + 0.1881 + + > 2 -1699.00 0.00 <---- best 1.0000 + 1.0000 + 0.3650 + best > 3 -1699.32 0.32 1.3440 0.4030 + 0.4690 + 0.2588 + + > 4 -1699.50 0.49 1.0267 0.3070 + 0.4700 + 0.1881 + + FAIL ut-pure-prot.test (exit status: 1) SKIP: build-remark ================== *** *** !!! Important remark !!! *** *** Please note that only the output file *.puzzle is checked *** for identity. The overall precision reached in the program *** is heavily dependent on the compiler as well as the optimization *** level (-O) used to compile the executable. *** Hence, even if tests are marked as failed this might just be *** due to differences in less significant digits caused by rounding *** errors from less acurate computations for the sake of faster *** running times. (If you want to be sure about this please refer *** to your compiler's manual!) *** *** Please check the output file differences which are printed during the tests. *** The template files which the results are checked against have been *** generated with TREE-PUZZLE 5.2 compiled with GCC version 3.3-20030226 *** and default compiler flags '-g -O2' and using the SPRNG random number *** generator. *** SKIP build-remark (exit status: 77) ============================================================================ Testsuite summary for ============================================================================ # TOTAL: 19 # PASS: 1 # SKIP: 2 # XFAIL: 0 # FAIL: 16 # XPASS: 0 # ERROR: 0 ============================================================================ See tests/test-suite.log ============================================================================ Makefile:563: recipe for target 'test-suite.log' failed make[5]: *** [test-suite.log] Error 1 make[5]: Leaving directory '/<>/tests' Makefile:669: recipe for target 'check-TESTS' failed make[4]: *** [check-TESTS] Error 2 make[4]: Leaving directory '/<>/tests' Makefile:749: recipe for target 'check-am' failed make[3]: *** [check-am] Error 2 make[3]: Leaving directory '/<>/tests' Makefile:380: recipe for target 'check-recursive' failed make[2]: *** [check-recursive] Error 1 make[2]: Leaving directory '/<>' dh_auto_test: make -j1 check VERBOSE=1 returned exit code 2 make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --no-parallel dh_testroot -O--no-parallel dh_prep -O--no-parallel dh_installdirs -O--no-parallel dh_auto_install -O--no-parallel make -j1 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>' Making install in src make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c puzzle ppuzzle '/<>/debian/tmp/usr/bin' make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' Making install in doc make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc' make[4]: Entering directory '/<>/doc' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/doc' make[3]: Leaving directory '/<>/doc' make[2]: Leaving directory '/<>/doc' Making install in data make[2]: Entering directory '/<>/data' make[3]: Entering directory '/<>/data' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/<>/data' make[2]: Leaving directory '/<>/data' Making install in tests make[2]: Entering directory '/<>/tests' make[3]: Entering directory '/<>/tests' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/<>/tests' make[2]: Leaving directory '/<>/tests' make[2]: Entering directory '/<>' make[3]: Entering directory '/<>' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_install-arch make[1]: Entering directory '/<>' dh_install -a # The binary has to be renamed because of the generic name mv `pwd`/debian/tmp/usr/bin/puzzle `pwd`/debian/tree-puzzle/usr/bin/tree-puzzle mv `pwd`/debian/tmp/usr/bin/ppuzzle `pwd`/debian/tree-ppuzzle/usr/bin/tree-ppuzzle make[1]: Leaving directory '/<>' dh_install -O--no-parallel -Ntree-puzzle -Ntree-ppuzzle dh_installdocs -O--no-parallel dh_installchangelogs -O--no-parallel dh_installexamples -O--no-parallel dh_installman -O--no-parallel dh_installmenu -O--no-parallel dh_perl -O--no-parallel dh_link -O--no-parallel dh_strip_nondeterminism -O--no-parallel debian/rules override_dh_compress make[1]: Entering directory '/<>' dh_compress --exclude=.pdf --exclude .phy --exclude trees --exclude .b make[1]: Leaving directory '/<>' dh_fixperms -O--no-parallel dh_missing -O--no-parallel dh_strip -O--no-parallel dh_makeshlibs -O--no-parallel dh_shlibdeps -O--no-parallel dh_installdeb -O--no-parallel dh_gencontrol -O--no-parallel dh_md5sums -O--no-parallel dh_builddeb -O--no-parallel INFO: pkgstriptranslations version 138 INFO: pkgstriptranslations version 138 INFO: pkgstriptranslations version 138 pkgstriptranslations: processing tree-puzzle (in debian/tree-puzzle); do_strip: , oemstrip: pkgstriptranslations: processing tree-ppuzzle (in debian/tree-ppuzzle); do_strip: , oemstrip: pkgstriptranslations: processing tree-puzzle-doc (in debian/tree-puzzle-doc); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/tree-puzzle/DEBIAN/control, package tree-puzzle, directory debian/tree-puzzle pkgstripfiles: processing control file: debian/tree-puzzle-doc/DEBIAN/control, package tree-puzzle-doc, directory debian/tree-puzzle-doc pkgstripfiles: Truncating usr/share/doc/tree-puzzle/changelog.Debian.gz to topmost ten records INFO: pkgstripfiles: waiting for lock (tree-puzzle-doc) ... pkgstripfiles: Running PNG optimization (using 4 cpus) for package tree-puzzle ... pkgstripfiles: No PNG files. dpkg-deb: building package 'tree-puzzle' in '../tree-puzzle_5.2-10build1_amd64.deb'. INFO: pkgstriptranslations version 138 pkgstriptranslations: processing tree-puzzle-dbgsym (in debian/.debhelper/tree-puzzle/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " INFO: pkgstripfiles: waiting for lock (tree-puzzle-doc) ... pkgstripfiles: processing control file: debian/.debhelper/tree-puzzle/dbgsym-root/DEBIAN/control, package tree-puzzle-dbgsym, directory debian/.debhelper/tree-puzzle/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package tree-puzzle-dbgsym ... pkgstripfiles: No PNG files. dpkg-deb: building package 'tree-puzzle-dbgsym' in 'debian/.debhelper/scratch-space/build-tree-puzzle/tree-puzzle-dbgsym_5.2-10build1_amd64.deb'. Renaming tree-puzzle-dbgsym_5.2-10build1_amd64.deb to tree-puzzle-dbgsym_5.2-10build1_amd64.ddeb INFO: pkgstripfiles: waiting for lock (tree-puzzle-doc) ... INFO: pkgstripfiles: waiting for lock (tree-puzzle-doc) ... INFO: pkgstripfiles: waiting for lock (tree-puzzle-doc) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/tree-ppuzzle/DEBIAN/control, package tree-ppuzzle, directory debian/tree-ppuzzle pkgstripfiles: Truncating usr/share/doc/tree-ppuzzle/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package tree-ppuzzle ... pkgstripfiles: No PNG files. dpkg-deb: building package 'tree-ppuzzle' in '../tree-ppuzzle_5.2-10build1_amd64.deb'. pkgstripfiles: Truncating usr/share/doc/tree-puzzle-doc/changelog.Debian.gz to topmost ten records pkgstripfiles: Disabled PNG optimization for -doc package tree-puzzle-doc (to save build time) dpkg-deb: building package 'tree-puzzle-doc' in '../tree-puzzle-doc_5.2-10build1_all.deb'. INFO: pkgstriptranslations version 138 pkgstriptranslations: processing tree-ppuzzle-dbgsym (in debian/.debhelper/tree-ppuzzle/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/tree-ppuzzle/dbgsym-root/DEBIAN/control, package tree-ppuzzle-dbgsym, directory debian/.debhelper/tree-ppuzzle/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package tree-ppuzzle-dbgsym ... pkgstripfiles: No PNG files. dpkg-deb: building package 'tree-ppuzzle-dbgsym' in 'debian/.debhelper/scratch-space/build-tree-ppuzzle/tree-ppuzzle-dbgsym_5.2-10build1_amd64.deb'. Renaming tree-ppuzzle-dbgsym_5.2-10build1_amd64.deb to tree-ppuzzle-dbgsym_5.2-10build1_amd64.ddeb dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../tree-puzzle_5.2-10build1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build tree-puzzle-5.2 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20180513-1510 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ tree-puzzle_5.2-10build1_amd64.changes: --------------------------------------- Format: 1.8 Date: Sun, 13 May 2018 15:06:08 +0000 Source: tree-puzzle Binary: tree-puzzle tree-ppuzzle tree-puzzle-doc Architecture: amd64 all Version: 5.2-10build1 Distribution: cosmic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Matthias Klose Description: tree-ppuzzle - Parallelized reconstruction of phylogenetic trees by maximum like tree-puzzle - Reconstruction of phylogenetic trees by maximum likelihood tree-puzzle-doc - Reconstruction of phylogenetic trees by maximum likelihood (doc) Changes: tree-puzzle (5.2-10build1) cosmic; urgency=medium . * No-change rebuild for dune openmpi soname change. Checksums-Sha1: 6156e33e14e60a7c9132b3173c3a8e64ce165e2b 242640 tree-ppuzzle-dbgsym_5.2-10build1_amd64.ddeb cc5874b72d9180edee91ed54a0f60cfd9ea8eeff 146332 tree-ppuzzle_5.2-10build1_amd64.deb de5f7440c5be6ebad59649f824e14d23c8b9c838 200968 tree-puzzle-dbgsym_5.2-10build1_amd64.ddeb fc95ea978d193219b5c322f8aa3d9d7c610a9e6e 389072 tree-puzzle-doc_5.2-10build1_all.deb 8f1409050d153961c35b60d3dcbc2af8e5ba746a 7362 tree-puzzle_5.2-10build1_amd64.buildinfo e6b7f9c9fcea1f855815873e803ce660e0a68320 129748 tree-puzzle_5.2-10build1_amd64.deb Checksums-Sha256: 6db7ef8ea81b63d44daaa5af09f091f9069373ab25bee9482d69a23289b8cd80 242640 tree-ppuzzle-dbgsym_5.2-10build1_amd64.ddeb 0bb90db270ae1cf775c0c2f4e6e4cee1ef64913b9fbfd28919b93cebdb1173e8 146332 tree-ppuzzle_5.2-10build1_amd64.deb 8824ce9058917b5059a26f27e191a91b0e3e4aa7e528b93a7a46062a2fac080d 200968 tree-puzzle-dbgsym_5.2-10build1_amd64.ddeb cd449a3476d21dc5cd0c49c75d1de7f6110814ec4e0f4e18ce2855487879f186 389072 tree-puzzle-doc_5.2-10build1_all.deb 521187e2cf80943ec3302c37188bfb4879fed2e633276115008e00404d296bd8 7362 tree-puzzle_5.2-10build1_amd64.buildinfo 86db2dd330ac0aede3aee5a5c0fa7666bc30e9b710c675fc78ec7892107c31d5 129748 tree-puzzle_5.2-10build1_amd64.deb Files: e556b2a036100dcc1d710f5b05ef4e45 242640 debug optional tree-ppuzzle-dbgsym_5.2-10build1_amd64.ddeb c36f853ba096ca6993327f73b4aebd83 146332 science optional tree-ppuzzle_5.2-10build1_amd64.deb de6792c75e8a11253deda0f2e5a179b3 200968 debug optional tree-puzzle-dbgsym_5.2-10build1_amd64.ddeb e848816f0fc75e27323f01aa7dc77a0f 389072 doc optional tree-puzzle-doc_5.2-10build1_all.deb 0d802f22cac6dc5234a5be2b0d21358a 7362 science optional tree-puzzle_5.2-10build1_amd64.buildinfo efba0b30612ddad2f4c90c9b6d996cc9 129748 science optional tree-puzzle_5.2-10build1_amd64.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ tree-ppuzzle_5.2-10build1_amd64.deb ----------------------------------- new debian package, version 2.0. size 146332 bytes: control archive=1452 bytes. 1266 bytes, 26 lines control 621 bytes, 9 lines md5sums 199 bytes, 7 lines * postinst #!/bin/sh 174 bytes, 5 lines * postrm #!/bin/sh Package: tree-ppuzzle Source: tree-puzzle Version: 5.2-10build1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 349 Depends: libc6 (>= 2.7), libopenmpi3, libsprng2, openmpi-bin Recommends: tree-puzzle-doc Suggests: phylip, treetool Section: science Priority: optional Homepage: http://www.tree-puzzle.de Description: Parallelized reconstruction of phylogenetic trees by maximum likelihood TREE-PUZZLE (the new name for PUZZLE) is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large data sets and automatically assigns estimations of support to each internal branch. TREE-PUZZLE also computes pairwise maximum likelihood distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the clock-assumption. In addition, TREE-PUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without computing an overall tree and to visualize the phylogenetic content of a sequence alignment. . This is the parallelized version of tree-puzzle. drwxr-xr-x root/root 0 2018-05-13 15:06 ./ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/bin/ -rwxr-xr-x root/root 329720 2018-05-13 15:06 ./usr/bin/tree-ppuzzle drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/doc/tree-ppuzzle/ -rw-r--r-- root/root 1063 2002-08-05 00:45 ./usr/share/doc/tree-ppuzzle/AUTHORS -rw-r--r-- root/root 1558 2004-07-01 02:39 ./usr/share/doc/tree-ppuzzle/README -rw-r--r-- root/root 411 2017-10-13 05:48 ./usr/share/doc/tree-ppuzzle/README.Debian -rw-r--r-- root/root 1664 2018-05-13 15:06 ./usr/share/doc/tree-ppuzzle/changelog.Debian.gz -rw-r--r-- root/root 1289 2017-10-13 05:48 ./usr/share/doc/tree-ppuzzle/copyright drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/man/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/man/man1/ -rw-r--r-- root/root 804 2018-05-13 15:06 ./usr/share/man/man1/tree-ppuzzle.1.gz drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/menu/ -rw-r--r-- root/root 276 2017-10-13 05:48 ./usr/share/menu/tree-ppuzzle drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/pixmaps/ -rw-r--r-- root/root 1292 2017-10-13 05:48 ./usr/share/pixmaps/tree-ppuzzle.xpm tree-puzzle-doc_5.2-10build1_all.deb ------------------------------------ new debian package, version 2.0. size 389072 bytes: control archive=1392 bytes. 1180 bytes, 24 lines control 1323 bytes, 16 lines md5sums Package: tree-puzzle-doc Source: tree-puzzle Version: 5.2-10build1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 560 Recommends: tree-puzzle | tree-ppuzzle Section: doc Priority: optional Homepage: http://www.tree-puzzle.de Description: Reconstruction of phylogenetic trees by maximum likelihood (doc) TREE-PUZZLE (the new name for PUZZLE) is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large data sets and automatically assigns estimations of support to each internal branch. TREE-PUZZLE also computes pairwise maximum likelihood distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the clock-assumption. In addition, TREE-PUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without computing an overall tree and to visualize the phylogenetic content of a sequence alignment. . This is the documentation package for tree-puzzle drwxr-xr-x root/root 0 2018-05-13 15:06 ./ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/doc-base/ -rw-r--r-- root/root 308 2017-10-13 05:48 ./usr/share/doc-base/tree-puzzle drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/doc/tree-puzzle-doc/ -rw-r--r-- root/root 1664 2018-05-13 15:06 ./usr/share/doc/tree-puzzle-doc/changelog.Debian.gz -rw-r--r-- root/root 1289 2017-10-13 05:48 ./usr/share/doc/tree-puzzle-doc/copyright drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/doc/tree-puzzle-doc/examples/ -rw-r--r-- root/root 2593 2002-11-01 22:23 ./usr/share/doc/tree-puzzle-doc/examples/EF.3trees -rw-r--r-- root/root 20795 2002-11-01 22:23 ./usr/share/doc/tree-puzzle-doc/examples/EF.phy -rw-r--r-- root/root 2425 2002-03-21 21:42 ./usr/share/doc/tree-puzzle-doc/examples/atp6.a -rw-r--r-- root/root 1444 2002-03-21 21:43 ./usr/share/doc/tree-puzzle-doc/examples/globin.a -rw-r--r-- root/root 8500 2003-03-31 14:07 ./usr/share/doc/tree-puzzle-doc/examples/globin.ctrees -rw-r--r-- root/root 336 2003-03-31 14:05 ./usr/share/doc/tree-puzzle-doc/examples/globin.trees -rw-r--r-- root/root 368 2003-04-01 20:39 ./usr/share/doc/tree-puzzle-doc/examples/marswolf.ctrees -rw-r--r-- root/root 1439 2002-03-21 21:43 ./usr/share/doc/tree-puzzle-doc/examples/marswolf.n -rw-r--r-- root/root 9200 2003-04-01 20:40 ./usr/share/doc/tree-puzzle-doc/examples/marswolf.trees -rw-r--r-- root/root 5889 2002-03-21 21:44 ./usr/share/doc/tree-puzzle-doc/examples/primates.b -rw-r--r-- root/root 5000 2003-04-01 20:44 ./usr/share/doc/tree-puzzle-doc/examples/primates.ctrees -rw-r--r-- root/root 100 2003-04-01 20:43 ./usr/share/doc/tree-puzzle-doc/examples/primates.trees -rw-r--r-- root/root 493686 2004-07-14 20:10 ./usr/share/doc/tree-puzzle-doc/tree-puzzle.pdf tree-puzzle_5.2-10build1_amd64.deb ---------------------------------- new debian package, version 2.0. size 129748 bytes: control archive=1404 bytes. 1153 bytes, 23 lines control 612 bytes, 9 lines md5sums 199 bytes, 7 lines * postinst #!/bin/sh 174 bytes, 5 lines * postrm #!/bin/sh Package: tree-puzzle Version: 5.2-10build1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 309 Depends: libc6 (>= 2.7), libsprng2 Recommends: tree-puzzle-doc Suggests: phylip, treetool Section: science Priority: optional Homepage: http://www.tree-puzzle.de Description: Reconstruction of phylogenetic trees by maximum likelihood TREE-PUZZLE (the new name for PUZZLE) is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large data sets and automatically assigns estimations of support to each internal branch. TREE-PUZZLE also computes pairwise maximum likelihood distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the clock-assumption. In addition, TREE-PUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without computing an overall tree and to visualize the phylogenetic content of a sequence alignment. drwxr-xr-x root/root 0 2018-05-13 15:06 ./ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/bin/ -rwxr-xr-x root/root 288760 2018-05-13 15:06 ./usr/bin/tree-puzzle drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/doc/tree-puzzle/ -rw-r--r-- root/root 1063 2002-08-05 00:45 ./usr/share/doc/tree-puzzle/AUTHORS -rw-r--r-- root/root 1558 2004-07-01 02:39 ./usr/share/doc/tree-puzzle/README -rw-r--r-- root/root 411 2017-10-13 05:48 ./usr/share/doc/tree-puzzle/README.Debian -rw-r--r-- root/root 1664 2018-05-13 15:06 ./usr/share/doc/tree-puzzle/changelog.Debian.gz -rw-r--r-- root/root 1289 2017-10-13 05:48 ./usr/share/doc/tree-puzzle/copyright drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/man/ drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/man/man1/ -rw-r--r-- root/root 798 2018-05-13 15:06 ./usr/share/man/man1/tree-puzzle.1.gz drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/menu/ -rw-r--r-- root/root 245 2017-10-13 05:48 ./usr/share/menu/tree-puzzle drwxr-xr-x root/root 0 2018-05-13 15:06 ./usr/share/pixmaps/ -rw-r--r-- root/root 1286 2017-10-13 05:48 ./usr/share/pixmaps/tree-puzzle.xpm +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build-Space: 15564 Build-Time: 46 Distribution: cosmic-proposed Host Architecture: amd64 Install-Time: 13 Job: tree-puzzle_5.2-10build1.dsc Machine Architecture: amd64 Package: tree-puzzle Package-Time: 61 Source-Version: 5.2-10build1 Space: 15564 Status: successful Version: 5.2-10build1 -------------------------------------------------------------------------------- Finished at 20180513-1510 Build needed 00:01:01, 15564k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-14874520 Scanning for processes to kill in build PACKAGEBUILD-14874520 RUN: /usr/share/launchpad-buildd/slavebin/in-target umount-chroot --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-14874520 Stopping target for build PACKAGEBUILD-14874520 RUN: /usr/share/launchpad-buildd/slavebin/in-target remove-build --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-14874520 Removing build PACKAGEBUILD-14874520