RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux bos01-ppc64el-013 4.4.0-66-generic #87-Ubuntu SMP Fri Mar 3 15:30:20 UTC 2017 ppc64le Buildd toolchain package versions: launchpad-buildd_142 python-lpbuildd_142 sbuild_0.67.0-2ubuntu7 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1 dpkg-dev_1.18.4ubuntu1.1 python-debian_0.1.27ubuntu2 qemu-user-static_1:2.5+dfsg-5ubuntu10.9. Syncing the system clock with the buildd NTP service... 17 Mar 11:36:28 ntpdate[1855]: adjust time server 10.211.37.1 offset 0.019354 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-11952261', '/home/buildd/filecache-default/13c837fa8f013503c65d7b6fd85343da86753929'] Unpacking chroot for build PACKAGEBUILD-11952261 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-11952261'] Mounting chroot for build PACKAGEBUILD-11952261 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-11952261', 'deb http://ftpmaster.internal/ubuntu zesty main universe', 'deb http://ftpmaster.internal/ubuntu zesty-security main universe', 'deb http://ftpmaster.internal/ubuntu zesty-updates main universe', 'deb http://ftpmaster.internal/ubuntu zesty-proposed main universe'] Overriding sources.list in build-PACKAGEBUILD-11952261 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-11952261', 'ppc64el'] Updating debian chroot for build PACKAGEBUILD-11952261 Get:1 http://ftpmaster.internal/ubuntu zesty InRelease [246 kB] Get:2 http://ftpmaster.internal/ubuntu zesty-security InRelease [102 kB] Get:3 http://ftpmaster.internal/ubuntu zesty-updates InRelease [102 kB] Get:4 http://ftpmaster.internal/ubuntu zesty-proposed InRelease [244 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main ppc64el Packages [1174 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main Translation-en [582 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/universe ppc64el Packages [7800 kB] Get:8 http://ftpmaster.internal/ubuntu zesty/universe Translation-en [4676 kB] Get:9 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el Packages [52.3 kB] Get:10 http://ftpmaster.internal/ubuntu zesty-proposed/main Translation-en [31.7 kB] Get:11 http://ftpmaster.internal/ubuntu zesty-proposed/universe ppc64el Packages [191 kB] Get:12 http://ftpmaster.internal/ubuntu zesty-proposed/universe Translation-en [94.3 kB] Fetched 15.3 MB in 4s (3085 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.22 perl-modules-5.22 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libidn2-0 libldap-common libperl5.24 libpsl5 libunistring0 perl-modules-5.24 The following packages will be upgraded: adduser advancecomp apt apt-transport-https base-files base-passwd bash binutils bsdutils bzip2 ca-certificates coreutils cpp cpp-6 debianutils diffutils dmsetup e2fslibs e2fsprogs findutils g++ g++-6 gcc gcc-6 gcc-6-base grep init init-system-helpers libapparmor1 libapt-pkg5.0 libasan3 libasn1-8-heimdal libassuan0 libatomic1 libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcc1-0 libcomerr2 libcurl3-gnutls libdevmapper1.02.1 libfdisk1 libgcc-6-dev libgcc1 libgcrypt20 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhogweed4 libhx509-5-heimdal libisl15 libitm1 libk5crypto3 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libksba8 libldap-2.4-2 liblockfile-bin liblockfile1 liblzma5 libmount1 libnettle6 libnpth0 libp11-kit0 libpng16-16 libroken18-heimdal libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libslang2 libsmartcols1 libsqlite3-0 libss2 libssl1.0.0 libstdc++-6-dev libstdc++6 libsystemd0 libtasn1-6 libubsan0 libudev1 libustr-1.0-1 libuuid1 libwind0-heimdal linux-libc-dev make mount multiarch-support openssl perl perl-base pinentry-curses pkg-create-dbgsym sed systemd systemd-sysv tar tzdata ubuntu-keyring util-linux xz-utils zlib1g 115 upgraded, 6 newly installed, 0 to remove and 0 not upgraded. Need to get 55.8 MB of archives. After this operation, 46.9 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu zesty/main ppc64el perl-modules-5.24 all 5.24.1-1 [2662 kB] Get:2 http://ftpmaster.internal/ubuntu zesty/main ppc64el libperl5.24 ppc64el 5.24.1-1 [3282 kB] Get:3 http://ftpmaster.internal/ubuntu zesty/main ppc64el perl ppc64el 5.24.1-1 [219 kB] Get:4 http://ftpmaster.internal/ubuntu zesty/main ppc64el perl-base ppc64el 5.24.1-1 [1227 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main ppc64el libc6-dev ppc64el 2.24-7ubuntu2 [2237 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main ppc64el libc-dev-bin ppc64el 2.24-7ubuntu2 [64.3 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/main ppc64el linux-libc-dev ppc64el 4.10.0-13.15 [887 kB] Get:8 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libgomp1 ppc64el 6.3.0-9ubuntu1 [67.0 kB] Get:9 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libitm1 ppc64el 6.3.0-9ubuntu1 [28.2 kB] Get:10 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el gcc-6-base ppc64el 6.3.0-9ubuntu1 [17.7 kB] Get:11 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libgcc1 ppc64el 1:6.3.0-9ubuntu1 [27.3 kB] Get:12 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libcc1-0 ppc64el 6.3.0-9ubuntu1 [30.6 kB] Get:13 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el binutils ppc64el 2.28-2ubuntu1 [2331 kB] Get:14 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libatomic1 ppc64el 6.3.0-9ubuntu1 [8248 B] Get:15 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libasan3 ppc64el 6.3.0-9ubuntu1 [280 kB] Get:16 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libubsan0 ppc64el 6.3.0-9ubuntu1 [104 kB] Get:17 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el g++-6 ppc64el 6.3.0-9ubuntu1 [6433 kB] Get:18 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libstdc++-6-dev ppc64el 6.3.0-9ubuntu1 [1459 kB] Get:19 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libgcc-6-dev ppc64el 6.3.0-9ubuntu1 [656 kB] Get:20 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el gcc-6 ppc64el 6.3.0-9ubuntu1 [6232 kB] Get:21 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el cpp-6 ppc64el 6.3.0-9ubuntu1 [5676 kB] Get:22 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libstdc++6 ppc64el 6.3.0-9ubuntu1 [419 kB] Get:23 http://ftpmaster.internal/ubuntu zesty/main ppc64el zlib1g ppc64el 1:1.2.11.dfsg-0ubuntu1 [54.7 kB] Get:24 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libgmp10 ppc64el 2:6.1.2+dfsg-1 [225 kB] Get:25 http://ftpmaster.internal/ubuntu zesty/main ppc64el libisl15 ppc64el 0.18-1 [533 kB] Get:26 http://ftpmaster.internal/ubuntu zesty/main ppc64el libc6 ppc64el 2.24-7ubuntu2 [2444 kB] Get:27 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el bzip2 ppc64el 1.0.6-8.1 [35.4 kB] Get:28 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libbz2-1.0 ppc64el 1.0.6-8.1 [40.3 kB] Get:29 http://ftpmaster.internal/ubuntu zesty/main ppc64el init-system-helpers all 1.47 [37.8 kB] Get:30 http://ftpmaster.internal/ubuntu zesty/main ppc64el base-files ppc64el 9.6ubuntu12 [59.0 kB] Get:31 http://ftpmaster.internal/ubuntu zesty/main ppc64el debianutils ppc64el 4.8.1 [86.0 kB] Get:32 http://ftpmaster.internal/ubuntu zesty/main ppc64el bash ppc64el 4.4-2ubuntu1 [644 kB] Get:33 http://ftpmaster.internal/ubuntu zesty/main ppc64el bsdutils ppc64el 1:2.29-1ubuntu2 [54.9 kB] Get:34 http://ftpmaster.internal/ubuntu zesty/main ppc64el coreutils ppc64el 8.26-3ubuntu3 [1209 kB] Get:35 http://ftpmaster.internal/ubuntu zesty/main ppc64el diffutils ppc64el 1:3.5-3 [171 kB] Get:36 http://ftpmaster.internal/ubuntu zesty/main ppc64el e2fslibs ppc64el 1.43.4-2 [159 kB] Get:37 http://ftpmaster.internal/ubuntu zesty/main ppc64el e2fsprogs ppc64el 1.43.4-2 [482 kB] Get:38 http://ftpmaster.internal/ubuntu zesty/main ppc64el findutils ppc64el 4.6.0+git+20161106-2 [289 kB] Get:39 http://ftpmaster.internal/ubuntu zesty/main ppc64el grep ppc64el 2.27-2 [145 kB] Get:40 http://ftpmaster.internal/ubuntu zesty/main ppc64el libuuid1 ppc64el 2.29-1ubuntu2 [15.1 kB] Get:41 http://ftpmaster.internal/ubuntu zesty/main ppc64el libblkid1 ppc64el 2.29-1ubuntu2 [102 kB] Get:42 http://ftpmaster.internal/ubuntu zesty/main ppc64el libfdisk1 ppc64el 2.29-1ubuntu2 [132 kB] Get:43 http://ftpmaster.internal/ubuntu zesty/main ppc64el libselinux1 ppc64el 2.6-3 [67.3 kB] Get:44 http://ftpmaster.internal/ubuntu zesty/main ppc64el util-linux ppc64el 2.29-1ubuntu2 [881 kB] Get:45 http://ftpmaster.internal/ubuntu zesty/main ppc64el mount ppc64el 2.29-1ubuntu2 [126 kB] Get:46 http://ftpmaster.internal/ubuntu zesty/main ppc64el sed ppc64el 4.4-1 [192 kB] Get:47 http://ftpmaster.internal/ubuntu zesty/main ppc64el tar ppc64el 1.29b-1.1 [241 kB] Get:48 http://ftpmaster.internal/ubuntu zesty/main ppc64el base-passwd ppc64el 3.5.43 [49.3 kB] Get:49 http://ftpmaster.internal/ubuntu zesty/main ppc64el libc-bin ppc64el 2.24-7ubuntu2 [582 kB] Get:50 http://ftpmaster.internal/ubuntu zesty/main ppc64el liblzma5 ppc64el 5.2.2-1.2 [101 kB] Get:51 http://ftpmaster.internal/ubuntu zesty/main ppc64el libapt-pkg5.0 ppc64el 1.4~rc2 [823 kB] Get:52 http://ftpmaster.internal/ubuntu zesty/main ppc64el adduser all 3.113+nmu3ubuntu5 [161 kB] Get:53 http://ftpmaster.internal/ubuntu zesty/main ppc64el ubuntu-keyring all 2016.10.27 [16.6 kB] Get:54 http://ftpmaster.internal/ubuntu zesty/main ppc64el apt ppc64el 1.4~rc2 [1131 kB] Get:55 http://ftpmaster.internal/ubuntu zesty/main ppc64el libapparmor1 ppc64el 2.11.0-2ubuntu2 [30.4 kB] Get:56 http://ftpmaster.internal/ubuntu zesty/main ppc64el libgpg-error0 ppc64el 1.26-2 [36.7 kB] Get:57 http://ftpmaster.internal/ubuntu zesty/main ppc64el libgcrypt20 ppc64el 1.7.6-1 [418 kB] Get:58 http://ftpmaster.internal/ubuntu zesty/main ppc64el libmount1 ppc64el 2.29-1ubuntu2 [107 kB] Get:59 http://ftpmaster.internal/ubuntu zesty/main ppc64el libseccomp2 ppc64el 2.3.1-2.1ubuntu1 [43.6 kB] Get:60 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el systemd ppc64el 232-19 [2185 kB] Get:61 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libsystemd0 ppc64el 232-19 [202 kB] Get:62 http://ftpmaster.internal/ubuntu zesty/main ppc64el init ppc64el 1.47 [5834 B] Get:63 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el systemd-sysv ppc64el 232-19 [12.3 kB] Get:64 http://ftpmaster.internal/ubuntu zesty/main ppc64el liblockfile-bin ppc64el 1.14-1 [10.8 kB] Get:65 http://ftpmaster.internal/ubuntu zesty/main ppc64el liblockfile1 ppc64el 1.14-1 [6140 B] Get:66 http://ftpmaster.internal/ubuntu zesty/main ppc64el libunistring0 ppc64el 0.9.3-5.2ubuntu1 [269 kB] Get:67 http://ftpmaster.internal/ubuntu zesty/main ppc64el libcomerr2 ppc64el 1.43.4-2 [9426 B] Get:68 http://ftpmaster.internal/ubuntu zesty/main ppc64el libsepol1 ppc64el 2.6-2 [205 kB] Get:69 http://ftpmaster.internal/ubuntu zesty/main ppc64el libustr-1.0-1 ppc64el 1.0.4-6 [55.2 kB] Get:70 http://ftpmaster.internal/ubuntu zesty/main ppc64el libsemanage-common all 2.6-2 [6794 B] Get:71 http://ftpmaster.internal/ubuntu zesty/main ppc64el libsemanage1 ppc64el 2.6-2 [75.5 kB] Get:72 http://ftpmaster.internal/ubuntu zesty/main ppc64el libsmartcols1 ppc64el 2.29-1ubuntu2 [64.2 kB] Get:73 http://ftpmaster.internal/ubuntu zesty/main ppc64el libss2 ppc64el 1.43.4-2 [10.7 kB] Get:74 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libudev1 ppc64el 232-19 [52.9 kB] Get:75 http://ftpmaster.internal/ubuntu zesty/main ppc64el multiarch-support ppc64el 2.24-7ubuntu2 [6818 B] Get:76 http://ftpmaster.internal/ubuntu zesty/main ppc64el tzdata all 2017a-1 [203 kB] Get:77 http://ftpmaster.internal/ubuntu zesty/main ppc64el libdevmapper1.02.1 ppc64el 2:1.02.136-1ubuntu2 [128 kB] Get:78 http://ftpmaster.internal/ubuntu zesty/main ppc64el dmsetup ppc64el 2:1.02.136-1ubuntu2 [69.7 kB] Get:79 http://ftpmaster.internal/ubuntu zesty/main ppc64el libroken18-heimdal ppc64el 7.1.0+dfsg-9ubuntu1 [39.2 kB] Get:80 http://ftpmaster.internal/ubuntu zesty/main ppc64el libasn1-8-heimdal ppc64el 7.1.0+dfsg-9ubuntu1 [137 kB] Get:81 http://ftpmaster.internal/ubuntu zesty/main ppc64el libassuan0 ppc64el 2.4.3-2 [31.5 kB] Get:82 http://ftpmaster.internal/ubuntu zesty/main ppc64el libhogweed4 ppc64el 3.3-1 [133 kB] Get:83 http://ftpmaster.internal/ubuntu zesty/main ppc64el libnettle6 ppc64el 3.3-1 [121 kB] Get:84 http://ftpmaster.internal/ubuntu zesty/main ppc64el libp11-kit0 ppc64el 0.23.3-5 [105 kB] Get:85 http://ftpmaster.internal/ubuntu zesty/main ppc64el libtasn1-6 ppc64el 4.10-1 [35.6 kB] Get:86 http://ftpmaster.internal/ubuntu zesty/main ppc64el libgnutls30 ppc64el 3.5.6-4ubuntu3 [528 kB] Get:87 http://ftpmaster.internal/ubuntu zesty/main ppc64el libheimbase1-heimdal ppc64el 7.1.0+dfsg-9ubuntu1 [28.7 kB] Get:88 http://ftpmaster.internal/ubuntu zesty/main ppc64el libhcrypto4-heimdal ppc64el 7.1.0+dfsg-9ubuntu1 [95.2 kB] Get:89 http://ftpmaster.internal/ubuntu zesty/main ppc64el libwind0-heimdal ppc64el 7.1.0+dfsg-9ubuntu1 [47.7 kB] Get:90 http://ftpmaster.internal/ubuntu zesty/main ppc64el libhx509-5-heimdal ppc64el 7.1.0+dfsg-9ubuntu1 [101 kB] Get:91 http://ftpmaster.internal/ubuntu zesty/main ppc64el libsqlite3-0 ppc64el 3.16.2-3 [439 kB] Get:92 http://ftpmaster.internal/ubuntu zesty/main ppc64el libkrb5-26-heimdal ppc64el 7.1.0+dfsg-9ubuntu1 [194 kB] Get:93 http://ftpmaster.internal/ubuntu zesty/main ppc64el libheimntlm0-heimdal ppc64el 7.1.0+dfsg-9ubuntu1 [15.6 kB] Get:94 http://ftpmaster.internal/ubuntu zesty/main ppc64el libgssapi3-heimdal ppc64el 7.1.0+dfsg-9ubuntu1 [86.2 kB] Get:95 http://ftpmaster.internal/ubuntu zesty/main ppc64el libksba8 ppc64el 1.3.5-2 [90.7 kB] Get:96 http://ftpmaster.internal/ubuntu zesty/main ppc64el libsasl2-modules-db ppc64el 2.1.27~72-g88d82a3+dfsg-1 [14.7 kB] Get:97 http://ftpmaster.internal/ubuntu zesty/main ppc64el libsasl2-2 ppc64el 2.1.27~72-g88d82a3+dfsg-1 [47.6 kB] Get:98 http://ftpmaster.internal/ubuntu zesty/main ppc64el libldap-common all 2.4.44+dfsg-3ubuntu2 [16.8 kB] Get:99 http://ftpmaster.internal/ubuntu zesty/main ppc64el libldap-2.4-2 ppc64el 2.4.44+dfsg-3ubuntu2 [144 kB] Get:100 http://ftpmaster.internal/ubuntu zesty/main ppc64el libnpth0 ppc64el 1.3-1 [8046 B] Get:101 http://ftpmaster.internal/ubuntu zesty/main ppc64el libslang2 ppc64el 2.3.1-5ubuntu1 [383 kB] Get:102 http://ftpmaster.internal/ubuntu zesty/main ppc64el libssl1.0.0 ppc64el 1.0.2g-1ubuntu11 [824 kB] Get:103 http://ftpmaster.internal/ubuntu zesty/main ppc64el pinentry-curses ppc64el 1.0.0-2 [32.1 kB] Get:104 http://ftpmaster.internal/ubuntu zesty/main ppc64el xz-utils ppc64el 5.2.2-1.2 [82.5 kB] Get:105 http://ftpmaster.internal/ubuntu zesty/main ppc64el libgssapi-krb5-2 ppc64el 1.15-1 [109 kB] Get:106 http://ftpmaster.internal/ubuntu zesty/main ppc64el libkrb5-3 ppc64el 1.15-1 [268 kB] Get:107 http://ftpmaster.internal/ubuntu zesty/main ppc64el libkrb5support0 ppc64el 1.15-1 [31.0 kB] Get:108 http://ftpmaster.internal/ubuntu zesty/main ppc64el libk5crypto3 ppc64el 1.15-1 [99.8 kB] Get:109 http://ftpmaster.internal/ubuntu zesty/universe ppc64el libidn2-0 ppc64el 0.16-1 [47.8 kB] Get:110 http://ftpmaster.internal/ubuntu zesty/universe ppc64el libpsl5 ppc64el 0.17.0-4 [40.4 kB] Get:111 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libcurl3-gnutls ppc64el 7.52.1-3ubuntu1 [182 kB] Get:112 http://ftpmaster.internal/ubuntu zesty/main ppc64el apt-transport-https ppc64el 1.4~rc2 [39.2 kB] Get:113 http://ftpmaster.internal/ubuntu zesty/main ppc64el openssl ppc64el 1.0.2g-1ubuntu11 [483 kB] Get:114 http://ftpmaster.internal/ubuntu zesty/main ppc64el ca-certificates all 20161130 [193 kB] Get:115 http://ftpmaster.internal/ubuntu zesty/main ppc64el libpng16-16 ppc64el 1.6.28-1 [187 kB] Get:116 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el advancecomp ppc64el 1.23-1 [253 kB] Get:117 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el cpp ppc64el 4:6.3.0-1ubuntu3 [27.6 kB] Get:118 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el gcc ppc64el 4:6.3.0-1ubuntu3 [5182 B] Get:119 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el g++ ppc64el 4:6.3.0-1ubuntu3 [1468 B] Get:120 http://ftpmaster.internal/ubuntu zesty/main ppc64el make ppc64el 4.1-9.1 [153 kB] Get:121 http://ftpmaster.internal/ubuntu zesty/main ppc64el pkg-create-dbgsym all 0.73 [8952 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 55.8 MB in 1s (41.5 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12166 files and directories currently installed.) Preparing to unpack .../0-perl_5.24.1-1_ppc64el.deb ... Unpacking perl (5.24.1-1) over (5.22.2-3) ... Selecting previously unselected package perl-modules-5.24. Preparing to unpack .../1-perl-modules-5.24_5.24.1-1_all.deb ... Unpacking perl-modules-5.24 (5.24.1-1) ... Selecting previously unselected package libperl5.24:ppc64el. Preparing to unpack .../2-libperl5.24_5.24.1-1_ppc64el.deb ... 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Created symlink /etc/systemd/system/timers.target.wants/motd-news.timer -> /lib/systemd/system/motd-news.timer. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 13988 files and directories currently installed.) Preparing to unpack .../debianutils_4.8.1_ppc64el.deb ... Unpacking debianutils (4.8.1) over (4.8) ... Setting up debianutils (4.8.1) ... (Reading database ... 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Installing new version of config file /etc/systemd/resolved.conf ... Installing new version of config file /etc/systemd/system.conf ... addgroup: The group `systemd-journal' already exists as a system group. Exiting. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 13988 files and directories currently installed.) Preparing to unpack .../0-systemd-sysv_232-19_ppc64el.deb ... Unpacking systemd-sysv (232-19) over (231-9git1) ... 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Preparing to unpack .../42-gcc_4%3a6.3.0-1ubuntu3_ppc64el.deb ... Removing old gcc doc directory. Unpacking gcc (4:6.3.0-1ubuntu3) over (4:6.1.1-1ubuntu2) ... Preparing to unpack .../43-g++_4%3a6.3.0-1ubuntu3_ppc64el.deb ... Unpacking g++ (4:6.3.0-1ubuntu3) over (4:6.1.1-1ubuntu2) ... Preparing to unpack .../44-make_4.1-9.1_ppc64el.deb ... Unpacking make (4.1-9.1) over (4.1-9) ... Preparing to unpack .../45-pkg-create-dbgsym_0.73_all.deb ... Unpacking pkg-create-dbgsym (0.73) over (0.72) ... Setting up libnpth0:ppc64el (1.3-1) ... Setting up libgomp1:ppc64el (6.3.0-9ubuntu1) ... Setting up libatomic1:ppc64el (6.3.0-9ubuntu1) ... Setting up perl-modules-5.24 (5.24.1-1) ... Setting up libperl5.24:ppc64el (5.24.1-1) ... Setting up libnettle6:ppc64el (3.3-1) ... Setting up liblockfile-bin (1.14-1) ... Setting up libcc1-0:ppc64el (6.3.0-9ubuntu1) ... Setting up make (4.1-9.1) ... Setting up libasan3:ppc64el (6.3.0-9ubuntu1) ... Setting up libssl1.0.0:ppc64el (1.0.2g-1ubuntu11) ... Setting up libpng16-16:ppc64el (1.6.28-1) ... Setting up libldap-common (2.4.44+dfsg-3ubuntu2) ... Setting up tzdata (2017a-1) ... Current default time zone: 'Etc/UTC' Local time is now: Fri Mar 17 11:37:00 UTC 2017. Universal Time is now: Fri Mar 17 11:37:00 UTC 2017. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up systemd-sysv (232-19) ... Setting up libubsan0:ppc64el (6.3.0-9ubuntu1) ... Setting up liblockfile1:ppc64el (1.14-1) ... Setting up libsasl2-modules-db:ppc64el (2.1.27~72-g88d82a3+dfsg-1) ... Setting up linux-libc-dev:ppc64el (4.10.0-13.15) ... Setting up advancecomp (1.23-1) ... Setting up libsasl2-2:ppc64el (2.1.27~72-g88d82a3+dfsg-1) ... Setting up libroken18-heimdal:ppc64el (7.1.0+dfsg-9ubuntu1) ... Setting up libksba8:ppc64el (1.3.5-2) ... Setting up libdevmapper1.02.1:ppc64el (2:1.02.136-1ubuntu2) ... Setting up libkrb5support0:ppc64el (1.15-1) ... Setting up libtasn1-6:ppc64el (4.10-1) ... Setting up bzip2 (1.0.6-8.1) ... Setting up perl (5.24.1-1) ... Installing new version of config file /etc/perl/sitecustomize.pl ... Setting up libgmp10:ppc64el (2:6.1.2+dfsg-1) ... Processing triggers for libc-bin (2.24-7ubuntu2) ... Setting up pkg-create-dbgsym (0.73) ... Setting up libunistring0:ppc64el (0.9.3-5.2ubuntu1) ... Setting up xz-utils (5.2.2-1.2) ... Setting up libheimbase1-heimdal:ppc64el (7.1.0+dfsg-9ubuntu1) ... Setting up libp11-kit0:ppc64el (0.23.3-5) ... Setting up openssl (1.0.2g-1ubuntu11) ... Setting up libsqlite3-0:ppc64el (3.16.2-3) ... Setting up dmsetup (2:1.02.136-1ubuntu2) ... Setting up binutils (2.28-2ubuntu1) ... Setting up libc-dev-bin (2.24-7ubuntu2) ... Setting up ca-certificates (20161130) ... Updating certificates in /etc/ssl/certs... 10 added, 10 removed; done. Setting up libc6-dev:ppc64el (2.24-7ubuntu2) ... Setting up libslang2:ppc64el (2.3.1-5ubuntu1) ... Setting up libassuan0:ppc64el (2.4.3-2) ... Setting up libitm1:ppc64el (6.3.0-9ubuntu1) ... Setting up libk5crypto3:ppc64el (1.15-1) ... Setting up libgcc-6-dev:ppc64el (6.3.0-9ubuntu1) ... Setting up libidn2-0:ppc64el (0.16-1) ... Setting up libstdc++-6-dev:ppc64el (6.3.0-9ubuntu1) ... Setting up libwind0-heimdal:ppc64el (7.1.0+dfsg-9ubuntu1) ... Setting up libpsl5:ppc64el (0.17.0-4) ... Setting up init (1.47) ... Setting up libasn1-8-heimdal:ppc64el (7.1.0+dfsg-9ubuntu1) ... Setting up libhcrypto4-heimdal:ppc64el (7.1.0+dfsg-9ubuntu1) ... Setting up libhx509-5-heimdal:ppc64el (7.1.0+dfsg-9ubuntu1) ... Setting up libhogweed4:ppc64el (3.3-1) ... Setting up libisl15:ppc64el (0.18-1) ... Setting up pinentry-curses (1.0.0-2) ... Setting up libkrb5-3:ppc64el (1.15-1) ... Setting up cpp-6 (6.3.0-9ubuntu1) ... Setting up libkrb5-26-heimdal:ppc64el (7.1.0+dfsg-9ubuntu1) ... Setting up libheimntlm0-heimdal:ppc64el (7.1.0+dfsg-9ubuntu1) ... Setting up cpp (4:6.3.0-1ubuntu3) ... Setting up libgnutls30:ppc64el (3.5.6-4ubuntu3) ... Setting up gcc-6 (6.3.0-9ubuntu1) ... Setting up libgssapi-krb5-2:ppc64el (1.15-1) ... Setting up g++-6 (6.3.0-9ubuntu1) ... Setting up libgssapi3-heimdal:ppc64el (7.1.0+dfsg-9ubuntu1) ... Setting up gcc (4:6.3.0-1ubuntu3) ... Setting up libldap-2.4-2:ppc64el (2.4.44+dfsg-3ubuntu2) ... Setting up g++ (4:6.3.0-1ubuntu3) ... Setting up libcurl3-gnutls:ppc64el (7.52.1-3ubuntu1) ... Setting up apt-transport-https (1.4~rc2) ... Processing triggers for libc-bin (2.24-7ubuntu2) ... Processing triggers for ca-certificates (20161130) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-11952261', 'ppc64el', 'zesty-proposed', '-c', 'chroot:autobuild', '--arch=ppc64el', '--dist=zesty-proposed', '--purge=never', '--nolog', 'phyml_3.2.0+dfsg-7.dsc'] Initiating build PACKAGEBUILD-11952261 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-66-generic #87-Ubuntu SMP Fri Mar 3 15:30:20 UTC 2017 ppc64le sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos01-ppc64el-013.buildd +==============================================================================+ | phyml 3:3.2.0+dfsg-7 (ppc64el) 17 Mar 2017 11:37 | +==============================================================================+ Package: phyml Version: 3:3.2.0+dfsg-7 Source Version: 3:3.2.0+dfsg-7 Distribution: zesty-proposed Machine Architecture: ppc64el Host Architecture: ppc64el Build Architecture: ppc64el I: NOTICE: Log filtering will replace 'build/phyml-acxgDa/phyml-3.2.0+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/phyml-acxgDa' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-11952261/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- phyml_3.2.0+dfsg-7.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-44r21A/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-44r21A/apt_archive ./ InRelease Get:2 copy:/<>/resolver-44r21A/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-44r21A/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-44r21A/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-44r21A/apt_archive ./ Packages [529 B] Fetched 2862 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.22 perl-modules-5.22 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 772 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-44r21A/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [772 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 772 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14027 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_ppc64el.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 10), autotools-dev, dh-autoreconf, pkg-config, libhmsbeagle-dev, libopenmpi-dev, chrpath Filtered Build-Depends: debhelper (>= 10), autotools-dev, dh-autoreconf, pkg-config, libhmsbeagle-dev, libopenmpi-dev, chrpath dpkg-deb: building package 'sbuild-build-depends-phyml-dummy' in '/<>/resolver-0vAqM2/apt_archive/sbuild-build-depends-phyml-dummy.deb'. Ign:1 copy:/<>/resolver-0vAqM2/apt_archive ./ InRelease Get:2 copy:/<>/resolver-0vAqM2/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-0vAqM2/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-0vAqM2/apt_archive ./ Sources [255 B] Get:5 copy:/<>/resolver-0vAqM2/apt_archive ./ Packages [576 B] Fetched 2950 B in 0s (278 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install phyml build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.22 perl-modules-5.22 Use 'sudo apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils chrpath debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libfile-stripnondeterminism-perl libglib2.0-0 libhmsbeagle-dev libhmsbeagle1v5 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu57 libltdl-dev libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-route-3-200 libnuma-dev libnuma1 libopenmpi-dev libopenmpi2 libpciaccess0 libpipeline1 libsigsegv2 libtimedate-perl libtool libxml2 m4 man-db ocl-icd-libopencl1 openmpi-common pkg-config po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libhwloc-contrib-plugins libtool-doc openmpi-doc pciutils gfortran | fortran95-compiler gcj-jdk m4-doc less www-browser opencl-icd libmail-box-perl Recommended packages: curl | wget | lynx-cur libglib2.0-data shared-mime-info xdg-user-dirs openmpi-bin xml-core libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils chrpath debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libfile-stripnondeterminism-perl libglib2.0-0 libhmsbeagle-dev libhmsbeagle1v5 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu57 libltdl-dev libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-route-3-200 libnuma-dev libnuma1 libopenmpi-dev libopenmpi2 libpciaccess0 libpipeline1 libsigsegv2 libtimedate-perl libtool libxml2 m4 man-db ocl-icd-libopencl1 openmpi-common pkg-config po-debconf sbuild-build-depends-phyml-dummy 0 upgraded, 50 newly installed, 0 to remove and 0 not upgraded. Need to get 20.4 MB of archives. After this operation, 92.5 MB of additional disk space will be used. Get:1 copy:/<>/resolver-0vAqM2/apt_archive ./ sbuild-build-depends-phyml-dummy 0.invalid.0 [820 B] Get:2 http://ftpmaster.internal/ubuntu zesty/main ppc64el groff-base ppc64el 1.22.3-9 [1361 kB] Get:3 http://ftpmaster.internal/ubuntu zesty/main ppc64el libbsd0 ppc64el 0.8.3-1 [48.2 kB] Get:4 http://ftpmaster.internal/ubuntu zesty/main ppc64el bsdmainutils ppc64el 9.0.12ubuntu1 [179 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main ppc64el libpipeline1 ppc64el 1.4.1-2 [24.1 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main ppc64el man-db ppc64el 2.7.6.1-2 [890 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/main ppc64el libmagic-mgc ppc64el 1:5.29-3 [181 kB] Get:8 http://ftpmaster.internal/ubuntu zesty/main ppc64el libmagic1 ppc64el 1:5.29-3 [71.4 kB] Get:9 http://ftpmaster.internal/ubuntu zesty/main ppc64el file ppc64el 1:5.29-3 [22.5 kB] Get:10 http://ftpmaster.internal/ubuntu zesty/main ppc64el gettext-base ppc64el 0.19.8.1-1ubuntu2 [48.2 kB] Get:11 http://ftpmaster.internal/ubuntu zesty-proposed/main ppc64el libglib2.0-0 ppc64el 2.51.5-1 [1069 kB] Get:12 http://ftpmaster.internal/ubuntu zesty/main ppc64el libicu57 ppc64el 57.1-5 [7773 kB] Get:13 http://ftpmaster.internal/ubuntu zesty/main ppc64el libnuma1 ppc64el 2.0.11-1ubuntu2 [20.5 kB] Get:14 http://ftpmaster.internal/ubuntu zesty/main ppc64el libxml2 ppc64el 2.9.4+dfsg1-2.2 [609 kB] Get:15 http://ftpmaster.internal/ubuntu zesty/main ppc64el libsigsegv2 ppc64el 2.10-5 [14.2 kB] Get:16 http://ftpmaster.internal/ubuntu zesty/main ppc64el m4 ppc64el 1.4.18-1 [202 kB] Get:17 http://ftpmaster.internal/ubuntu zesty/main ppc64el autoconf all 2.69-10 [321 kB] Get:18 http://ftpmaster.internal/ubuntu zesty/main ppc64el autotools-dev all 20161112.1 [39.5 kB] Get:19 http://ftpmaster.internal/ubuntu zesty/main ppc64el automake all 1:1.15-5ubuntu1 [509 kB] Get:20 http://ftpmaster.internal/ubuntu zesty/main ppc64el autopoint all 0.19.8.1-1ubuntu2 [412 kB] Get:21 http://ftpmaster.internal/ubuntu zesty/universe ppc64el chrpath ppc64el 0.16-2 [13.3 kB] Get:22 http://ftpmaster.internal/ubuntu zesty/main ppc64el libtool all 2.4.6-2 [194 kB] Get:23 http://ftpmaster.internal/ubuntu zesty/main ppc64el dh-autoreconf all 13 [15.6 kB] Get:24 http://ftpmaster.internal/ubuntu zesty/main ppc64el libarchive-zip-perl all 1.59-1 [84.0 kB] Get:25 http://ftpmaster.internal/ubuntu zesty/main ppc64el libfile-stripnondeterminism-perl all 0.031-1 [12.8 kB] Get:26 http://ftpmaster.internal/ubuntu zesty/main ppc64el libtimedate-perl all 2.3000-2 [37.5 kB] Get:27 http://ftpmaster.internal/ubuntu zesty/main ppc64el dh-strip-nondeterminism all 0.031-1 [4884 B] Get:28 http://ftpmaster.internal/ubuntu zesty/main ppc64el libcroco3 ppc64el 0.6.11-2 [74.4 kB] Get:29 http://ftpmaster.internal/ubuntu zesty/main ppc64el gettext ppc64el 0.19.8.1-1ubuntu2 [1114 kB] Get:30 http://ftpmaster.internal/ubuntu zesty/main ppc64el intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:31 http://ftpmaster.internal/ubuntu zesty/main ppc64el po-debconf all 1.0.20 [232 kB] Get:32 http://ftpmaster.internal/ubuntu zesty/main ppc64el debhelper all 10.2.2ubuntu1 [742 kB] Get:33 http://ftpmaster.internal/ubuntu zesty/universe ppc64el libhmsbeagle1v5 ppc64el 2.1.2+20150609-1.1 [80.4 kB] Get:34 http://ftpmaster.internal/ubuntu zesty/main ppc64el libltdl7 ppc64el 2.4.6-2 [40.9 kB] Get:35 http://ftpmaster.internal/ubuntu zesty/main ppc64el libltdl-dev ppc64el 2.4.6-2 [169 kB] Get:36 http://ftpmaster.internal/ubuntu zesty/main ppc64el libnl-3-200 ppc64el 3.2.29-0ubuntu1 [48.6 kB] Get:37 http://ftpmaster.internal/ubuntu zesty/main ppc64el libnl-route-3-200 ppc64el 3.2.29-0ubuntu1 [129 kB] Get:38 http://ftpmaster.internal/ubuntu zesty/main ppc64el libpciaccess0 ppc64el 0.13.4-1ubuntu1 [17.2 kB] Get:39 http://ftpmaster.internal/ubuntu zesty/universe ppc64el openmpi-common all 2.0.2-2 [136 kB] Get:40 http://ftpmaster.internal/ubuntu zesty/main ppc64el pkg-config ppc64el 0.29.1-0ubuntu1 [43.9 kB] Get:41 http://ftpmaster.internal/ubuntu zesty/universe ppc64el libhmsbeagle-dev ppc64el 2.1.2+20150609-1.1 [160 kB] Get:42 http://ftpmaster.internal/ubuntu zesty/universe ppc64el libhwloc5 ppc64el 1.11.5-1 [105 kB] Get:43 http://ftpmaster.internal/ubuntu zesty/main ppc64el libnuma-dev ppc64el 2.0.11-1ubuntu2 [34.6 kB] Get:44 http://ftpmaster.internal/ubuntu zesty/universe ppc64el libhwloc-dev ppc64el 1.11.5-1 [173 kB] Get:45 http://ftpmaster.internal/ubuntu zesty/main ppc64el ocl-icd-libopencl1 ppc64el 2.2.11-1 [30.1 kB] Get:46 http://ftpmaster.internal/ubuntu zesty/universe ppc64el libhwloc-plugins ppc64el 1.11.5-1 [12.0 kB] Get:47 http://ftpmaster.internal/ubuntu zesty/main ppc64el libibverbs1 ppc64el 1.2.1-2ubuntu1 [30.3 kB] Get:48 http://ftpmaster.internal/ubuntu zesty/main ppc64el libibverbs-dev ppc64el 1.2.1-2ubuntu1 [98.4 kB] Get:49 http://ftpmaster.internal/ubuntu zesty/universe ppc64el libopenmpi2 ppc64el 2.0.2-2 [1784 kB] Get:50 http://ftpmaster.internal/ubuntu zesty/universe ppc64el libopenmpi-dev ppc64el 2.0.2-2 [913 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 20.4 MB in 2s (9590 kB/s) Selecting previously unselected package groff-base. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14027 files and directories currently installed.) Preparing to unpack .../00-groff-base_1.22.3-9_ppc64el.deb ... Unpacking groff-base (1.22.3-9) ... Selecting previously unselected package libbsd0:ppc64el. Preparing to unpack .../01-libbsd0_0.8.3-1_ppc64el.deb ... Unpacking libbsd0:ppc64el (0.8.3-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../02-bsdmainutils_9.0.12ubuntu1_ppc64el.deb ... Unpacking bsdmainutils (9.0.12ubuntu1) ... Selecting previously unselected package libpipeline1:ppc64el. Preparing to unpack .../03-libpipeline1_1.4.1-2_ppc64el.deb ... Unpacking libpipeline1:ppc64el (1.4.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.7.6.1-2_ppc64el.deb ... Unpacking man-db (2.7.6.1-2) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../05-libmagic-mgc_1%3a5.29-3_ppc64el.deb ... Unpacking libmagic-mgc (1:5.29-3) ... Selecting previously unselected package libmagic1:ppc64el. Preparing to unpack .../06-libmagic1_1%3a5.29-3_ppc64el.deb ... Unpacking libmagic1:ppc64el (1:5.29-3) ... Selecting previously unselected package file. Preparing to unpack .../07-file_1%3a5.29-3_ppc64el.deb ... Unpacking file (1:5.29-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../08-gettext-base_0.19.8.1-1ubuntu2_ppc64el.deb ... Unpacking gettext-base (0.19.8.1-1ubuntu2) ... 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Preparing to unpack .../49-sbuild-build-depends-phyml-dummy_0.invalid.0_ppc64el.deb ... Unpacking sbuild-build-depends-phyml-dummy (0.invalid.0) ... Setting up chrpath (0.16-2) ... Setting up libarchive-zip-perl (1.59-1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libsigsegv2:ppc64el (2.10-5) ... Setting up libnuma1:ppc64el (2.0.11-1ubuntu2) ... Setting up groff-base (1.22.3-9) ... Setting up libglib2.0-0:ppc64el (2.51.5-1) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-1ubuntu2) ... Setting up libpipeline1:ppc64el (1.4.1-2) ... Setting up libhmsbeagle1v5 (2.1.2+20150609-1.1) ... Setting up m4 (1.4.18-1) ... Setting up libicu57:ppc64el (57.1-5) ... Setting up libbsd0:ppc64el (0.8.3-1) ... Setting up libxml2:ppc64el (2.9.4+dfsg1-2.2) ... Setting up libmagic-mgc (1:5.29-3) ... Setting up libmagic1:ppc64el (1:5.29-3) ... Setting up libhmsbeagle-dev (2.1.2+20150609-1.1) ... Setting up libcroco3:ppc64el (0.6.11-2) ... Setting up pkg-config (0.29.1-0ubuntu1) ... Setting up openmpi-common (2.0.2-2) ... Processing triggers for libc-bin (2.24-7ubuntu2) ... Setting up autotools-dev (20161112.1) ... Setting up libltdl7:ppc64el (2.4.6-2) ... Setting up libpciaccess0:ppc64el (0.13.4-1ubuntu1) ... Setting up libnuma-dev:ppc64el (2.0.11-1ubuntu2) ... Setting up ocl-icd-libopencl1:ppc64el (2.2.11-1) ... Setting up bsdmainutils (9.0.12ubuntu1) ... 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 libnl-3-200:ppc64el (3.2.29-0ubuntu1) ... Setting up autopoint (0.19.8.1-1ubuntu2) ... Setting up libfile-stripnondeterminism-perl (0.031-1) ... Setting up libltdl-dev:ppc64el (2.4.6-2) ... Setting up gettext (0.19.8.1-1ubuntu2) ... Setting up libnl-route-3-200:ppc64el (3.2.29-0ubuntu1) ... Setting up autoconf (2.69-10) ... Setting up file (1:5.29-3) ... Setting up libhwloc5:ppc64el (1.11.5-1) ... Setting up libhwloc-plugins (1.11.5-1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up automake (1:1.15-5ubuntu1) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.7.6.1-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libtool (2.4.6-2) ... Setting up libibverbs1 (1.2.1-2ubuntu1) ... Setting up po-debconf (1.0.20) ... Setting up libhwloc-dev:ppc64el (1.11.5-1) ... Setting up libopenmpi2:ppc64el (2.0.2-2) ... Setting up libibverbs-dev (1.2.1-2ubuntu1) ... Setting up libopenmpi-dev (2.0.2-2) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/openmpi/include to provide /usr/include/mpi (mpi) in auto mode Setting up dh-autoreconf (13) ... Setting up dh-strip-nondeterminism (0.031-1) ... Setting up debhelper (10.2.2ubuntu1) ... Setting up sbuild-build-depends-phyml-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.24-7ubuntu2) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-66-generic ppc64el (ppc64le) Toolchain package versions: binutils_2.28-2ubuntu1 dpkg-dev_1.18.10ubuntu1 g++-6_6.3.0-9ubuntu1 gcc-6_6.3.0-9ubuntu1 libc6-dev_2.24-7ubuntu2 libstdc++-6-dev_6.3.0-9ubuntu1 libstdc++6_6.3.0-9ubuntu1 linux-libc-dev_4.10.0-13.15 Package versions: adduser_3.113+nmu3ubuntu5 advancecomp_1.23-1 apt_1.4~rc2 apt-transport-https_1.4~rc2 autoconf_2.69-10 automake_1:1.15-5ubuntu1 autopoint_0.19.8.1-1ubuntu2 autotools-dev_20161112.1 base-files_9.6ubuntu12 base-passwd_3.5.43 bash_4.4-2ubuntu1 binutils_2.28-2ubuntu1 bsdmainutils_9.0.12ubuntu1 bsdutils_1:2.29-1ubuntu2 build-essential_12.1ubuntu2 bzip2_1.0.6-8.1 ca-certificates_20161130 chrpath_0.16-2 coreutils_8.26-3ubuntu3 cpp_4:6.3.0-1ubuntu3 cpp-6_6.3.0-9ubuntu1 dash_0.5.8-2.3ubuntu1 debconf_1.5.59ubuntu1 debhelper_10.2.2ubuntu1 debianutils_4.8.1 dh-autoreconf_13 dh-strip-nondeterminism_0.031-1 diffutils_1:3.5-3 dmsetup_2:1.02.136-1ubuntu2 dpkg_1.18.10ubuntu1 dpkg-dev_1.18.10ubuntu1 e2fslibs_1.43.4-2 e2fsprogs_1.43.4-2 fakeroot_1.21-1ubuntu2 file_1:5.29-3 findutils_4.6.0+git+20161106-2 g++_4:6.3.0-1ubuntu3 g++-6_6.3.0-9ubuntu1 gcc_4:6.3.0-1ubuntu3 gcc-6_6.3.0-9ubuntu1 gcc-6-base_6.3.0-9ubuntu1 gettext_0.19.8.1-1ubuntu2 gettext-base_0.19.8.1-1ubuntu2 gnupg_2.1.15-1ubuntu6 gnupg-agent_2.1.15-1ubuntu6 gpgv_2.1.15-1ubuntu6 grep_2.27-2 groff-base_1.22.3-9 gzip_1.6-4ubuntu1 hostname_3.18 init_1.47 init-system-helpers_1.47 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3 libapparmor1_2.11.0-2ubuntu2 libapt-pkg5.0_1.4~rc2 libarchive-zip-perl_1.59-1 libasan3_6.3.0-9ubuntu1 libasn1-8-heimdal_7.1.0+dfsg-9ubuntu1 libassuan0_2.4.3-2 libatomic1_6.3.0-9ubuntu1 libattr1_1:2.4.47-2 libaudit-common_1:2.6.6-1ubuntu1 libaudit1_1:2.6.6-1ubuntu1 libblkid1_2.29-1ubuntu2 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.24-7ubuntu2 libc-dev-bin_2.24-7ubuntu2 libc6_2.24-7ubuntu2 libc6-dev_2.24-7ubuntu2 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcc1-0_6.3.0-9ubuntu1 libcomerr2_1.43.4-2 libcroco3_0.6.11-2 libcryptsetup4_2:1.7.2-0ubuntu1 libcurl3-gnutls_7.52.1-3ubuntu1 libdb5.3_5.3.28-12 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.136-1ubuntu2 libdpkg-perl_1.18.10ubuntu1 libfakeroot_1.21-1ubuntu2 libfdisk1_2.29-1ubuntu2 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.031-1 libgcc-6-dev_6.3.0-9ubuntu1 libgcc1_1:6.3.0-9ubuntu1 libgcrypt20_1.7.6-1 libgdbm3_1.8.3-14 libglib2.0-0_2.51.5-1 libgmp10_2:6.1.2+dfsg-1 libgnutls30_3.5.6-4ubuntu3 libgomp1_6.3.0-9ubuntu1 libgpg-error0_1.26-2 libgssapi-krb5-2_1.15-1 libgssapi3-heimdal_7.1.0+dfsg-9ubuntu1 libhcrypto4-heimdal_7.1.0+dfsg-9ubuntu1 libheimbase1-heimdal_7.1.0+dfsg-9ubuntu1 libheimntlm0-heimdal_7.1.0+dfsg-9ubuntu1 libhmsbeagle-dev_2.1.2+20150609-1.1 libhmsbeagle1v5_2.1.2+20150609-1.1 libhogweed4_3.3-1 libhwloc-dev_1.11.5-1 libhwloc-plugins_1.11.5-1 libhwloc5_1.11.5-1 libhx509-5-heimdal_7.1.0+dfsg-9ubuntu1 libibverbs-dev_1.2.1-2ubuntu1 libibverbs1_1.2.1-2ubuntu1 libicu57_57.1-5 libidn11_1.33-1 libidn2-0_0.16-1 libip4tc0_1.6.0-3ubuntu2 libisl15_0.18-1 libitm1_6.3.0-9ubuntu1 libk5crypto3_1.15-1 libkeyutils1_1.5.9-9ubuntu1 libkmod2_22-1.1ubuntu1 libkrb5-26-heimdal_7.1.0+dfsg-9ubuntu1 libkrb5-3_1.15-1 libkrb5support0_1.15-1 libksba8_1.3.5-2 libldap-2.4-2_2.4.44+dfsg-3ubuntu2 libldap-common_2.4.44+dfsg-3ubuntu2 liblockfile-bin_1.14-1 liblockfile1_1.14-1 libltdl-dev_2.4.6-2 libltdl7_2.4.6-2 liblz4-1_0.0~r131-2ubuntu2 liblzma5_5.2.2-1.2 libmagic-mgc_1:5.29-3 libmagic1_1:5.29-3 libmount1_2.29-1ubuntu2 libmpc3_1.0.3-1 libmpfr4_3.1.5-1 libncurses5_6.0+20160625-1ubuntu1 libncursesw5_6.0+20160625-1ubuntu1 libnettle6_3.3-1 libnl-3-200_3.2.29-0ubuntu1 libnl-route-3-200_3.2.29-0ubuntu1 libnpth0_1.3-1 libnuma-dev_2.0.11-1ubuntu2 libnuma1_2.0.11-1ubuntu2 libopenmpi-dev_2.0.2-2 libopenmpi2_2.0.2-2 libp11-kit0_0.23.3-5 libpam-modules_1.1.8-3.2ubuntu2 libpam-modules-bin_1.1.8-3.2ubuntu2 libpam-runtime_1.1.8-3.2ubuntu2 libpam0g_1.1.8-3.2ubuntu2 libpciaccess0_0.13.4-1ubuntu1 libpcre3_2:8.39-2 libperl5.22_5.22.2-3 libperl5.24_5.24.1-1 libpipeline1_1.4.1-2 libpng16-16_1.6.28-1 libprocps6_2:3.3.12-1ubuntu2 libpsl5_0.17.0-4 libreadline7_7.0-0ubuntu2 libroken18-heimdal_7.1.0+dfsg-9ubuntu1 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.27~72-g88d82a3+dfsg-1 libsasl2-modules-db_2.1.27~72-g88d82a3+dfsg-1 libseccomp2_2.3.1-2.1ubuntu1 libselinux1_2.6-3 libsemanage-common_2.6-2 libsemanage1_2.6-2 libsepol1_2.6-2 libsigsegv2_2.10-5 libslang2_2.3.1-5ubuntu1 libsmartcols1_2.29-1ubuntu2 libsqlite3-0_3.16.2-3 libss2_1.43.4-2 libssl1.0.0_1.0.2g-1ubuntu11 libstdc++-6-dev_6.3.0-9ubuntu1 libstdc++6_6.3.0-9ubuntu1 libsystemd0_232-19 libtasn1-6_4.10-1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160625-1ubuntu1 libtool_2.4.6-2 libubsan0_6.3.0-9ubuntu1 libudev1_232-19 libunistring0_0.9.3-5.2ubuntu1 libusb-0.1-4_2:0.1.12-30 libustr-1.0-1_1.0.4-6 libuuid1_2.29-1ubuntu2 libwind0-heimdal_7.1.0+dfsg-9ubuntu1 libxml2_2.9.4+dfsg1-2.2 linux-libc-dev_4.10.0-13.15 lockfile-progs_0.1.17 login_1:4.2-3.2ubuntu1 lsb-base_9.20160110ubuntu5 m4_1.4.18-1 make_4.1-9.1 man-db_2.7.6.1-2 mawk_1.3.3-17ubuntu2 mount_2.29-1ubuntu2 multiarch-support_2.24-7ubuntu2 ncurses-base_6.0+20160625-1ubuntu1 ncurses-bin_6.0+20160625-1ubuntu1 ocl-icd-libopencl1_2.2.11-1 openmpi-common_2.0.2-2 openssl_1.0.2g-1ubuntu11 optipng_0.7.6-1build1 passwd_1:4.2-3.2ubuntu1 patch_2.7.5-1 perl_5.24.1-1 perl-base_5.24.1-1 perl-modules-5.22_5.22.2-3 perl-modules-5.24_5.24.1-1 pinentry-curses_1.0.0-2 pkg-config_0.29.1-0ubuntu1 pkg-create-dbgsym_0.73 pkgbinarymangler_131 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.12-1ubuntu2 readline-common_7.0-0ubuntu2 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-phyml-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.9 systemd_232-19 systemd-sysv_232-19 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.8git1 tar_1.29b-1.1 tzdata_2017a-1 ubuntu-keyring_2016.10.27 util-linux_2.29-1ubuntu2 xz-utils_5.2.2-1.2 zlib1g_1:1.2.11.dfsg-0ubuntu1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Wed Feb 1 08:54:28 2017 UTC gpgv: using RSA key gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./phyml_3.2.0+dfsg-7.dsc dpkg-source: info: extracting phyml in phyml-3.2.0+dfsg dpkg-source: info: unpacking phyml_3.2.0+dfsg.orig.tar.gz dpkg-source: info: unpacking phyml_3.2.0+dfsg-7.debian.tar.xz dpkg-source: info: applying sse_only_if_supported.patch dpkg-source: info: applying no-stdc++.patch dpkg-source: info: applying no-configure-ac-date.patch dpkg-source: info: applying fix_declaration_of_temp.patch Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/home/buildd LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd MAIL=/var/mail/buildd OLDPWD=/ PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games PWD=/<>/phyml-3.2.0+dfsg SHELL=/bin/sh SUDO_COMMAND=/usr/sbin/chroot /<> su buildd -s /bin/sh -c cd '/<>/phyml-3.2.0+dfsg' && 'env' SUDO_GID=2501 SUDO_UID=2001 SUDO_USER=buildd TERM=unknown USER=buildd USERNAME=root dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package phyml dpkg-buildpackage: info: source version 3:3.2.0+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build phyml-3.2.0+dfsg dpkg-buildpackage: info: host architecture ppc64el fakeroot debian/rules clean dh clean --with autoreconf dh_testdir debian/rules override_dh_auto_clean make[1]: Entering directory '/<>/phyml-3.2.0+dfsg' # save pdf from cleaning mv doc/phyml-manual.pdf . dh_auto_clean mv phyml-manual.pdf doc # remove temporary bin dir for phyml (see above hack) rm -rf debian/bin make[1]: Leaving directory '/<>/phyml-3.2.0+dfsg' dh_autoreconf_clean dh_clean debian/rules build-arch dh build-arch --with autoreconf dh_testdir -a dh_update_autotools_config -a debian/rules override_dh_autoreconf make[1]: Entering directory '/<>/phyml-3.2.0+dfsg' dh_autoreconf --as-needed libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac, libtoolize: and rerunning libtoolize and aclocal. libtoolize: Consider adding '-I m4' to ACLOCAL_AMFLAGS in Makefile.am. configure.ac:17: installing './compile' configure.ac:15: installing './config.guess' configure.ac:15: installing './config.sub' configure.ac:5: installing './install-sh' configure.ac:5: installing './missing' src/Makefile.am: installing './depcomp' patching file ./ltmain.sh make[1]: Leaving directory '/<>/phyml-3.2.0+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/<>/phyml-3.2.0+dfsg' # According to README you need different configure options to get different executables # Here we hack in a full build process for phyml executable # The hack includes saving the documentation from beeing cleaned up mv doc/phyml-manual.pdf . dh_auto_configure ./configure --build=powerpc64le-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/powerpc64le-linux-gnu --libexecdir=\${prefix}/lib/powerpc64le-linux-gnu --disable-maintainer-mode --disable-dependency-tracking configure: WARNING: unrecognized options: --disable-maintainer-mode 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 whether make supports nested variables... (cached) yes checking build system type... powerpc64le-unknown-linux-gnu checking host system type... powerpc64le-unknown-linux-gnu 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 dependency style of gcc... (cached) none configure: "Do not use MSSE = because not available on arch powerpc64le-unknown-linux-gnu" checking for log in -lm... 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 float.h usability... yes checking float.h presence... yes checking for float.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for size_t... yes checking for pdflatex... no checking for latex... no configure: WARNING: Documentation will not be built! checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for vprintf... yes checking for _doprnt... no checking for floor... yes checking for pow... yes checking for rint... yes checking for sqrt... yes checking for strchr... yes checking for strstr... yes configure: "Do not use MSSE = because not available on arch powerpc64le-unknown-linux-gnu" checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert powerpc64le-unknown-linux-gnu file names to powerpc64le-unknown-linux-gnu format... func_convert_file_noop checking how to convert powerpc64le-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... 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 config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -- LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" make -j4 "LDFLAGS=-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/<>/phyml-3.2.0+dfsg' make all-recursive make[3]: Entering directory '/<>/phyml-3.2.0+dfsg' Making all in src make[4]: Entering directory '/<>/phyml-3.2.0+dfsg/src' gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o main.o main.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o utilities.o utilities.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o optimiz.o optimiz.c .: Building [phyml]. Version 3:3.2.0+dfsg-7 :. gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o lk.o lk.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o bionj.o bionj.c utilities.c: In function ‘Get_Edge_Binary_Coding_Number’: utilities.c:9526:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(b->left->bip_node[b->l_r][j]->id_rank > max_left) ^~ utilities.c:9529:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ max_rght = 0; ^~~~~~~~ utilities.c:9531:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(b->rght->bip_node[b->r_l][j]->id_rank > max_rght) ^~ utilities.c:9535:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(max_left < max_rght) ^~ gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o models.o models.c models.c: In function ‘General_Dist’: models.c:1171:79: warning: comparison of constant ‘0’ with boolean expression is always false [-Wbool-compare] if(!Matinv(eigen_struct->l_e_vect,eigen_struct->size,eigen_struct->size,YES)<0) ^ models.c:1171:79: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] models.c: In function ‘GTR_Dist’: models.c:1273:79: warning: comparison of constant ‘0’ with boolean expression is always false [-Wbool-compare] if(!Matinv(eigen_struct->l_e_vect,eigen_struct->size,eigen_struct->size,YES)<0) {Free(pi); return -1.;} ^ models.c:1273:79: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o free.o free.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o help.o help.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o simu.o simu.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o eigen.o eigen.c simu.c: In function ‘Simu’: simu.c:113:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(tree->io->print_site_lnl) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~ simu.c:113:81: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(tree->io->print_site_lnl) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~~~~~ gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o pars.o pars.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o alrt.o alrt.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o interface.o interface.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o cl.o cl.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o spr.o spr.c spr.c: In function ‘Speed_Spr’: spr.c:3795:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if((tree->io->print_site_lnl) && (!tree->mod->s_opt->spr_pars)) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~ spr.c:3795:116: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if((tree->io->print_site_lnl) && (!tree->mod->s_opt->spr_pars)) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~~~~~ gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o draw.o draw.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o stats.o stats.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o rates.o rates.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mcmc.o mcmc.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o times.o times.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o tiporder.o tiporder.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mg.o mg.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o m4.o m4.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o io.o io.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o make.o make.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o nexus.o nexus.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o init.o init.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o xml.o xml.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mixt.o mixt.c /bin/bash ../libtool --tag=CC --mode=link gcc -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o phyml main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o draw.o stats.o rates.o mcmc.o times.o tiporder.o mg.o m4.o io.o make.o nexus.o init.o xml.o mixt.o -lm -lm libtool: link: gcc -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o phyml main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o draw.o stats.o rates.o mcmc.o times.o tiporder.o mg.o m4.o io.o make.o nexus.o init.o xml.o mixt.o -lm Done. make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' make[4]: Entering directory '/<>/phyml-3.2.0+dfsg' make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg' # move phyml binary to temporary dir inside debian/ mkdir -p /<>/phyml-3.2.0+dfsg/debian/bin mv src/phyml /<>/phyml-3.2.0+dfsg/debian/bin/phyml /usr/bin/make distclean make[2]: Entering directory '/<>/phyml-3.2.0+dfsg' Making distclean in src make[3]: Entering directory '/<>/phyml-3.2.0+dfsg/src' rm -f phyml test -z "" || rm -f rm -rf .libs _libs rm -f *.o rm -f *.lo rm -f *.tab.c test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags rm -rf ./.deps rm -f Makefile make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' Making distclean in doc make[3]: Entering directory '/<>/phyml-3.2.0+dfsg/doc' test -z "phyml-manual.pdf phyml-manual.log phyml-manual.idx phyml-manual.out phyml-manual.toc phyml-manual.aux phyml-manual.ilg phyml-manual.ind phyml-manual.dvi " || rm -f phyml-manual.pdf phyml-manual.log phyml-manual.idx phyml-manual.out phyml-manual.toc phyml-manual.aux phyml-manual.ilg phyml-manual.ind phyml-manual.dvi rm -rf .libs _libs rm -f *.lo test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f Makefile make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg/doc' make[3]: Entering directory '/<>/phyml-3.2.0+dfsg' rm -rf .libs _libs rm -f *.lo test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f config.h stamp-h1 rm -f libtool config.lt rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags rm -f cscope.out cscope.in.out cscope.po.out cscope.files make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg' rm -f config.status config.cache config.log configure.lineno config.status.lineno rm -f Makefile make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg' dh_auto_configure -- --enable-beagle ./configure --build=powerpc64le-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/powerpc64le-linux-gnu --libexecdir=\${prefix}/lib/powerpc64le-linux-gnu --disable-maintainer-mode --disable-dependency-tracking --enable-beagle configure: WARNING: unrecognized options: --disable-maintainer-mode 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 whether make supports nested variables... (cached) yes checking build system type... powerpc64le-unknown-linux-gnu checking host system type... powerpc64le-unknown-linux-gnu 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 dependency style of gcc... (cached) none configure: "Do not use MSSE = because not available on arch powerpc64le-unknown-linux-gnu" checking for log in -lm... 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 float.h usability... yes checking float.h presence... yes checking for float.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for size_t... yes checking for pdflatex... no checking for latex... no configure: WARNING: Documentation will not be built! checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for vprintf... yes checking for _doprnt... no checking for floor... yes checking for pow... yes checking for rint... yes checking for sqrt... yes checking for strchr... yes checking for strstr... yes configure: "Do not use MSSE = because not available on arch powerpc64le-unknown-linux-gnu" checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert powerpc64le-unknown-linux-gnu file names to powerpc64le-unknown-linux-gnu format... func_convert_file_noop checking how to convert powerpc64le-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for BEAGLE... 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 config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -- LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" make -j4 "LDFLAGS=-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/<>/phyml-3.2.0+dfsg' make all-recursive make[3]: Entering directory '/<>/phyml-3.2.0+dfsg' Making all in src make[4]: Entering directory '/<>/phyml-3.2.0+dfsg/src' .: Building [phyml-beagle]. Version 3:3.2.0+dfsg-7 :. gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o main.o main.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o utilities.o utilities.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o optimiz.o optimiz.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o lk.o lk.c utilities.c: In function ‘K80_dist’: utilities.c:2129:7: warning: unused variable ‘temp’ [-Wunused-variable] int temp; ^~~~ gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o bionj.o bionj.c utilities.c: In function ‘Get_Edge_Binary_Coding_Number’: utilities.c:9526:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(b->left->bip_node[b->l_r][j]->id_rank > max_left) ^~ utilities.c:9529:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ max_rght = 0; ^~~~~~~~ utilities.c:9531:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(b->rght->bip_node[b->r_l][j]->id_rank > max_rght) ^~ utilities.c:9535:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(max_left < max_rght) ^~ gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o models.o models.c models.c: In function ‘General_Dist’: models.c:1171:79: warning: comparison of constant ‘0’ with boolean expression is always false [-Wbool-compare] if(!Matinv(eigen_struct->l_e_vect,eigen_struct->size,eigen_struct->size,YES)<0) ^ models.c:1171:79: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] models.c: In function ‘GTR_Dist’: models.c:1273:79: warning: comparison of constant ‘0’ with boolean expression is always false [-Wbool-compare] if(!Matinv(eigen_struct->l_e_vect,eigen_struct->size,eigen_struct->size,YES)<0) {Free(pi); return -1.;} ^ models.c:1273:79: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o free.o free.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o help.o help.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o simu.o simu.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o eigen.o eigen.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o pars.o pars.c simu.c: In function ‘Simu’: simu.c:113:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(tree->io->print_site_lnl) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~ simu.c:113:81: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(tree->io->print_site_lnl) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~~~~~ gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o alrt.o alrt.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o interface.o interface.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o cl.o cl.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o spr.o spr.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o draw.o draw.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o stats.o stats.c spr.c: In function ‘Speed_Spr’: spr.c:3795:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if((tree->io->print_site_lnl) && (!tree->mod->s_opt->spr_pars)) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~ spr.c:3795:116: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if((tree->io->print_site_lnl) && (!tree->mod->s_opt->spr_pars)) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~~~~~ gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o rates.o rates.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o mcmc.o mcmc.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o times.o times.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o tiporder.o tiporder.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o mg.o mg.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o m4.o m4.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o io.o io.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o make.o make.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o nexus.o nexus.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o init.o init.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o xml.o xml.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o mixt.o mixt.c gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o beagle_utils.o beagle_utils.c /bin/bash ../libtool --tag=CC --mode=link gcc -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o phyml-beagle main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o draw.o stats.o rates.o mcmc.o times.o tiporder.o mg.o m4.o io.o make.o nexus.o init.o xml.o mixt.o beagle_utils.o -lm -lhmsbeagle -lm libtool: link: gcc -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -I/usr/include/libhmsbeagle-1 -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o phyml-beagle main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o draw.o stats.o rates.o mcmc.o times.o tiporder.o mg.o m4.o io.o make.o nexus.o init.o xml.o mixt.o beagle_utils.o -ldl -lhmsbeagle -lm Done. make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' make[4]: Entering directory '/<>/phyml-3.2.0+dfsg' make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg' # move phyml binary to temporary dir inside debian/ mkdir -p /<>/phyml-3.2.0+dfsg/debian/bin mv src/phyml-beagle /<>/phyml-3.2.0+dfsg/debian/bin/phyml-beagle /usr/bin/make distclean make[2]: Entering directory '/<>/phyml-3.2.0+dfsg' Making distclean in src make[3]: Entering directory '/<>/phyml-3.2.0+dfsg/src' rm -f phyml-beagle test -z "" || rm -f rm -rf .libs _libs rm -f *.o rm -f *.lo rm -f *.tab.c test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags rm -rf ./.deps rm -f Makefile make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' Making distclean in doc make[3]: Entering directory '/<>/phyml-3.2.0+dfsg/doc' test -z "phyml-manual.pdf phyml-manual.log phyml-manual.idx phyml-manual.out phyml-manual.toc phyml-manual.aux phyml-manual.ilg phyml-manual.ind phyml-manual.dvi " || rm -f phyml-manual.pdf phyml-manual.log phyml-manual.idx phyml-manual.out phyml-manual.toc phyml-manual.aux phyml-manual.ilg phyml-manual.ind phyml-manual.dvi rm -rf .libs _libs rm -f *.lo test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f Makefile make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg/doc' make[3]: Entering directory '/<>/phyml-3.2.0+dfsg' rm -rf .libs _libs rm -f *.lo test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f config.h stamp-h1 rm -f libtool config.lt rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags rm -f cscope.out cscope.in.out cscope.po.out cscope.files make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg' rm -f config.status config.cache config.log configure.lineno config.status.lineno rm -f Makefile make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg' dh_auto_configure -- --enable-mpi ./configure --build=powerpc64le-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/powerpc64le-linux-gnu --libexecdir=\${prefix}/lib/powerpc64le-linux-gnu --disable-maintainer-mode --disable-dependency-tracking --enable-mpi configure: WARNING: unrecognized options: --disable-maintainer-mode 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 whether make supports nested variables... (cached) yes checking build system type... powerpc64le-unknown-linux-gnu checking host system type... powerpc64le-unknown-linux-gnu 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 dependency style of gcc... (cached) none configure: "Do not use MSSE = because not available on arch powerpc64le-unknown-linux-gnu" checking for log in -lm... 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 float.h usability... yes checking float.h presence... yes checking for float.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for size_t... yes checking for pdflatex... no checking for latex... no configure: WARNING: Documentation will not be built! checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for vprintf... yes checking for _doprnt... no checking for floor... yes checking for pow... yes checking for rint... yes checking for sqrt... yes checking for strchr... yes checking for strstr... yes configure: "Do not use MSSE = because not available on arch powerpc64le-unknown-linux-gnu" checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert powerpc64le-unknown-linux-gnu file names to powerpc64le-unknown-linux-gnu format... func_convert_file_noop checking how to convert powerpc64le-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... 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 config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -- LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" make -j4 "LDFLAGS=-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/<>/phyml-3.2.0+dfsg' make all-recursive make[3]: Entering directory '/<>/phyml-3.2.0+dfsg' Making all in src make[4]: Entering directory '/<>/phyml-3.2.0+dfsg/src' mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o main.o main.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o utilities.o utilities.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o optimiz.o optimiz.c .: Building [phyml-mpi]. Version 3:3.2.0+dfsg-7 :. mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o lk.o lk.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o bionj.o bionj.c utilities.c: In function ‘Get_Edge_Binary_Coding_Number’: utilities.c:9526:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(b->left->bip_node[b->l_r][j]->id_rank > max_left) ^~ utilities.c:9529:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ max_rght = 0; ^~~~~~~~ utilities.c:9531:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(b->rght->bip_node[b->r_l][j]->id_rank > max_rght) ^~ utilities.c:9535:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(max_left < max_rght) ^~ mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o models.o models.c models.c: In function ‘General_Dist’: models.c:1171:79: warning: comparison of constant ‘0’ with boolean expression is always false [-Wbool-compare] if(!Matinv(eigen_struct->l_e_vect,eigen_struct->size,eigen_struct->size,YES)<0) ^ models.c:1171:79: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] models.c: In function ‘GTR_Dist’: models.c:1273:79: warning: comparison of constant ‘0’ with boolean expression is always false [-Wbool-compare] if(!Matinv(eigen_struct->l_e_vect,eigen_struct->size,eigen_struct->size,YES)<0) {Free(pi); return -1.;} ^ models.c:1273:79: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o free.o free.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o help.o help.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o simu.o simu.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o eigen.o eigen.c simu.c: In function ‘Simu’: simu.c:113:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(tree->io->print_site_lnl) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~ simu.c:113:81: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(tree->io->print_site_lnl) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~~~~~ mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o pars.o pars.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o alrt.o alrt.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o interface.o interface.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o cl.o cl.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o spr.o spr.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o draw.o draw.c spr.c: In function ‘Speed_Spr’: spr.c:3795:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if((tree->io->print_site_lnl) && (!tree->mod->s_opt->spr_pars)) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~ spr.c:3795:116: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if((tree->io->print_site_lnl) && (!tree->mod->s_opt->spr_pars)) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~~~~~ mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o stats.o stats.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o rates.o rates.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mcmc.o mcmc.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o times.o times.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o tiporder.o tiporder.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mg.o mg.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o m4.o m4.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o io.o io.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o make.o make.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o nexus.o nexus.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o init.o init.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o xml.o xml.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mixt.o mixt.c mpicc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mpi_boot.o mpi_boot.c /bin/bash ../libtool --tag=CC --mode=link mpicc -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o phyml-mpi main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o draw.o stats.o rates.o mcmc.o times.o tiporder.o mg.o m4.o io.o make.o nexus.o init.o xml.o mixt.o mpi_boot.o -lm -lm libtool: link: mpicc -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o phyml-mpi main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o draw.o stats.o rates.o mcmc.o times.o tiporder.o mg.o m4.o io.o make.o nexus.o init.o xml.o mixt.o mpi_boot.o -lm Done. make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' make[4]: Entering directory '/<>/phyml-3.2.0+dfsg' make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg' # move phyml binary to temporary dir inside debian/ # mkdir -p /<>/phyml-3.2.0+dfsg/debian/bin mv src/phyml-mpi /<>/phyml-3.2.0+dfsg/debian/bin/phyml-mpi /usr/bin/make distclean make[2]: Entering directory '/<>/phyml-3.2.0+dfsg' Making distclean in src make[3]: Entering directory '/<>/phyml-3.2.0+dfsg/src' rm -f phyml-mpi test -z "" || rm -f rm -rf .libs _libs rm -f *.o rm -f *.lo rm -f *.tab.c test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags rm -rf ./.deps rm -f Makefile make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' Making distclean in doc make[3]: Entering directory '/<>/phyml-3.2.0+dfsg/doc' test -z "phyml-manual.pdf phyml-manual.log phyml-manual.idx phyml-manual.out phyml-manual.toc phyml-manual.aux phyml-manual.ilg phyml-manual.ind phyml-manual.dvi " || rm -f phyml-manual.pdf phyml-manual.log phyml-manual.idx phyml-manual.out phyml-manual.toc phyml-manual.aux phyml-manual.ilg phyml-manual.ind phyml-manual.dvi rm -rf .libs _libs rm -f *.lo test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f Makefile make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg/doc' make[3]: Entering directory '/<>/phyml-3.2.0+dfsg' rm -rf .libs _libs rm -f *.lo test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f config.h stamp-h1 rm -f libtool config.lt rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags rm -f cscope.out cscope.in.out cscope.po.out cscope.files make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg' rm -f config.status config.cache config.log configure.lineno config.status.lineno rm -f Makefile make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg' dh_auto_configure -- --enable-phytime ./configure --build=powerpc64le-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/powerpc64le-linux-gnu --libexecdir=\${prefix}/lib/powerpc64le-linux-gnu --disable-maintainer-mode --disable-dependency-tracking --enable-phytime configure: WARNING: unrecognized options: --disable-maintainer-mode 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 whether make supports nested variables... (cached) yes checking build system type... powerpc64le-unknown-linux-gnu checking host system type... powerpc64le-unknown-linux-gnu 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 dependency style of gcc... (cached) none configure: "Do not use MSSE = because not available on arch powerpc64le-unknown-linux-gnu" checking for log in -lm... 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 float.h usability... yes checking float.h presence... yes checking for float.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for size_t... yes checking for pdflatex... no checking for latex... no configure: WARNING: Documentation will not be built! checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for vprintf... yes checking for _doprnt... no checking for floor... yes checking for pow... yes checking for rint... yes checking for sqrt... yes checking for strchr... yes checking for strstr... yes configure: "Do not use MSSE = because not available on arch powerpc64le-unknown-linux-gnu" checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert powerpc64le-unknown-linux-gnu file names to powerpc64le-unknown-linux-gnu format... func_convert_file_noop checking how to convert powerpc64le-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... 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 config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -- LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" CPPFLAGS="-DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2" make -j4 "LDFLAGS=-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" "CPPFLAGS=-DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2" make[2]: Entering directory '/<>/phyml-3.2.0+dfsg' make all-recursive make[3]: Entering directory '/<>/phyml-3.2.0+dfsg' Making all in src make[4]: Entering directory '/<>/phyml-3.2.0+dfsg/src' gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o main.o main.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o utilities.o utilities.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o optimiz.o optimiz.c .: Building [phytime]. Version 3:3.2.0+dfsg-7 :. gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o lk.o lk.c utilities.c: In function ‘Get_Edge_Binary_Coding_Number’: utilities.c:9526:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(b->left->bip_node[b->l_r][j]->id_rank > max_left) ^~ utilities.c:9529:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ max_rght = 0; ^~~~~~~~ utilities.c:9531:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(b->rght->bip_node[b->r_l][j]->id_rank > max_rght) ^~ utilities.c:9535:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(max_left < max_rght) ^~ gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o bionj.o bionj.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o models.o models.c models.c: In function ‘General_Dist’: models.c:1171:79: warning: comparison of constant ‘0’ with boolean expression is always false [-Wbool-compare] if(!Matinv(eigen_struct->l_e_vect,eigen_struct->size,eigen_struct->size,YES)<0) ^ models.c:1171:79: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] models.c: In function ‘GTR_Dist’: models.c:1273:79: warning: comparison of constant ‘0’ with boolean expression is always false [-Wbool-compare] if(!Matinv(eigen_struct->l_e_vect,eigen_struct->size,eigen_struct->size,YES)<0) {Free(pi); return -1.;} ^ models.c:1273:79: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o free.o free.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o help.o help.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o simu.o simu.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o eigen.o eigen.c simu.c: In function ‘Simu’: simu.c:113:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(tree->io->print_site_lnl) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~ simu.c:113:81: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(tree->io->print_site_lnl) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~~~~~ gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o pars.o pars.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o alrt.o alrt.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o interface.o interface.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o cl.o cl.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o spr.o spr.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o times.o times.c spr.c: In function ‘Speed_Spr’: spr.c:3795:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if((tree->io->print_site_lnl) && (!tree->mod->s_opt->spr_pars)) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~ spr.c:3795:116: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if((tree->io->print_site_lnl) && (!tree->mod->s_opt->spr_pars)) Print_Site_Lk(tree,tree->io->fp_out_lk); fflush(tree->io->fp_out_lk); ^~~~~~ gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o m4.o m4.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o draw.o draw.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o rates.o rates.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mcmc.o mcmc.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o stats.o stats.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mg.o mg.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o tiporder.o tiporder.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o io.o io.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o make.o make.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o mixt.o mixt.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o init.o init.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o nexus.o nexus.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o xml.o xml.c gcc -I. -I.. -DPHYREX -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -c -o phyrex.o phyrex.c phyrex.c: In function ‘PHYREX_Main_Simulate’: phyrex.c:137:7: warning: variable ‘n_otus’ set but not used [-Wunused-but-set-variable] int n_otus, n_sites; ^~~~~~ /bin/bash ../libtool --tag=CC --mode=link gcc -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o phytime main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o times.o m4.o draw.o rates.o mcmc.o stats.o mg.o tiporder.o io.o make.o mixt.o init.o nexus.o xml.o phyrex.o -lm -lm libtool: link: gcc -Wall -O2 -fomit-frame-pointer -funroll-loops -Wempty-body -Wuninitialized -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o phytime main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o times.o m4.o draw.o rates.o mcmc.o stats.o mg.o tiporder.o io.o make.o mixt.o init.o nexus.o xml.o phyrex.o -lm Done. make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' make[4]: Entering directory '/<>/phyml-3.2.0+dfsg' make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg' mv phyml-manual.pdf doc make[1]: Leaving directory '/<>/phyml-3.2.0+dfsg' dh_auto_test -a make -j4 check VERBOSE=1 make[1]: Entering directory '/<>/phyml-3.2.0+dfsg' Making check in src make[2]: Entering directory '/<>/phyml-3.2.0+dfsg/src' .: Building [phytime]. Version 3:3.2.0+dfsg-7 :. Done. make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' make[2]: Entering directory '/<>/phyml-3.2.0+dfsg' make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[1]: Leaving directory '/<>/phyml-3.2.0+dfsg' fakeroot debian/rules binary-arch dh binary-arch --with autoreconf dh_testroot -a dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/<>/phyml-3.2.0+dfsg' dh_auto_install make -j4 install DESTDIR=/<>/phyml-3.2.0\+dfsg/debian/phyml AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/<>/phyml-3.2.0+dfsg' Making install in src make[3]: Entering directory '/<>/phyml-3.2.0+dfsg/src' .: Building [phytime]. Version 3:3.2.0+dfsg-7 :. Done. make[4]: Entering directory '/<>/phyml-3.2.0+dfsg/src' make[4]: Nothing to be done for 'install-data-am'. /bin/mkdir -p '/<>/phyml-3.2.0+dfsg/debian/phyml/usr/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c phytime '/<>/phyml-3.2.0+dfsg/debian/phyml/usr/bin' libtool: install: /usr/bin/install -c phytime /<>/phyml-3.2.0+dfsg/debian/phyml/usr/bin/phytime make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg/src' make[3]: Entering directory '/<>/phyml-3.2.0+dfsg' make[4]: Entering directory '/<>/phyml-3.2.0+dfsg' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[3]: Leaving directory '/<>/phyml-3.2.0+dfsg' make[2]: Leaving directory '/<>/phyml-3.2.0+dfsg' # install phyml binary we have kept safe above mkdir -p /<>/phyml-3.2.0+dfsg/debian/phyml/usr/lib/phyml/bin mv /<>/phyml-3.2.0+dfsg/debian/bin/* /<>/phyml-3.2.0+dfsg/debian/phyml/usr/lib/phyml/bin chrpath --delete debian/phyml/usr/lib/phyml/bin/phyml* make[1]: Leaving directory '/<>/phyml-3.2.0+dfsg' dh_install -a debian/rules override_dh_installdocs make[1]: Entering directory '/<>/phyml-3.2.0+dfsg' dh_installdocs mv /<>/phyml-3.2.0+dfsg/debian/phyml/usr/share/doc/phyml/phyml-manual.pdf /<>/phyml-3.2.0+dfsg/debian/phyml/usr/share/doc/phyml/phyml_manual.pdf make[1]: Leaving directory '/<>/phyml-3.2.0+dfsg' dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a debian/rules override_dh_compress make[1]: Entering directory '/<>/phyml-3.2.0+dfsg' dh_compress --exclude=.pdf make[1]: Leaving directory '/<>/phyml-3.2.0+dfsg' dh_fixperms -a dh_strip -a dh_strip debug symbol extraction: enabling -a due to Build-Debug-Symbols: yes in /CurrentlyBuilding dh_strip debug symbol extraction: all non-arch-all packages for this build platform ppc64el: phyml dh_strip debug symbol extraction: packages to act on: phyml dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 phyml has no unstripped objects, ignoring find: ‘/<>/phyml-3.2.0+dfsg/debian/phyml-dbgsym’: No such file or directory /usr/bin/pkg_create_dbgsym: nothing in /<>/phyml-3.2.0+dfsg/debian/phyml-dbgsym and no dbgdepends, ignoring dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: all non-arch-all packages for this build platform ppc64el: phyml dh_gencontrol debug symbol wrapper: packages to act on: phyml dh_gencontrol debug symbol wrapper: ignored packages: dh_gencontrol debug symbol wrapper: no debian/phyml-dbgsym, skipping package phyml dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 131 pkgstriptranslations: processing phyml (in debian/phyml); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/phyml/DEBIAN/control, package phyml, directory debian/phyml pkgstripfiles: Truncating usr/share/doc/phyml/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package phyml ... pkgstripfiles: No PNG files. dpkg-deb: building package 'phyml' in '../phyml_3.2.0+dfsg-7_ppc64el.deb'. dpkg-genchanges --build=any -mLaunchpad Build Daemon >../phyml_3.2.0+dfsg-7_ppc64el.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build phyml-3.2.0+dfsg dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20170317-1138 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ phyml_3.2.0+dfsg-7_ppc64el.changes: ----------------------------------- Format: 1.8 Date: Wed, 01 Feb 2017 09:36:51 +0100 Source: phyml Binary: phyml Architecture: ppc64el Version: 3:3.2.0+dfsg-7 Distribution: zesty-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: phyml - Phylogenetic estimation using Maximum Likelihood Closes: 853738 Changes: phyml (3:3.2.0+dfsg-7) unstable; urgency=medium . * Fix bug in wrapper script which really Closes: #853738 Checksums-Sha1: 1c8217644270935cf1ac73c8e13f670b9a13e790 1282236 phyml_3.2.0+dfsg-7_ppc64el.deb Checksums-Sha256: 3b0500dfadaf9f5d2ba505c9433590a4c89fdeab6fada835f6c2c8758411c9d8 1282236 phyml_3.2.0+dfsg-7_ppc64el.deb Files: 3c0f3c685d7a6ae7290496cc08e55f1c 1282236 science optional phyml_3.2.0+dfsg-7_ppc64el.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ phyml_3.2.0+dfsg-7_ppc64el.deb ------------------------------ new debian package, version 2.0. size 1282236 bytes: control archive=1892 bytes. 1763 bytes, 32 lines control 1709 bytes, 24 lines md5sums Package: phyml Version: 3:3.2.0+dfsg-7 Architecture: ppc64el Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 5993 Depends: libc6 (>= 2.17), libhmsbeagle1v5, libopenmpi2, openmpi-bin Section: science Priority: optional Homepage: http://www.atgc-montpellier.fr/phyml Description: Phylogenetic estimation using Maximum Likelihood PhyML is a software that estimates maximum likelihood phylogenies from alignments of nucleotide or amino acid sequences. It provides a wide range of options that were designed to facilitate standard phylogenetic analyses. The main strengths of PhyML lies in the large number of substitution models coupled to various options to search the space of phylogenetic tree topologies, going from very fast and efficient methods to slower but generally more accurate approaches. It also implements two methods to evaluate branch supports in a sound statistical framework (the non-parametric bootstrap and the approximate likelihood ratio test). . PhyML was designed to process moderate to large data sets. In theory, alignments with up to 4,000 sequences 2,000,000 character-long can be analyzed. In practice however, the amount of memory required to process a data set is proportional of the product of the number of sequences by their length. Hence, a large number of sequences can only be processed provided that they are short. Also, PhyML can handle long sequences provided that they are not numerous. With most standard personal computers, the “comfort zone” for PhyML generally lies around 3 to 500 sequences less than 2,000 character long. . This package also includes PhyTime. drwxr-xr-x root/root 0 2017-02-01 08:36 ./ drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/ drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/bin/ -rwxr-xr-x root/root 579 2017-02-01 08:36 ./usr/bin/phyml lrwxrwxrwx root/root 0 2017-02-01 08:36 ./usr/bin/phyml-beagle -> ../lib/phyml/bin/phyml-beagle -rwxr-xr-x root/root 1512176 2017-02-01 08:36 ./usr/bin/phytime drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/lib/ drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/lib/phyml/ drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/lib/phyml/bin/ -rwxr-xr-x root/root 1381104 2017-02-01 08:36 ./usr/lib/phyml/bin/phyml -rwxr-xr-x root/root 1381136 2017-02-01 08:36 ./usr/lib/phyml/bin/phyml-beagle -rwxr-xr-x root/root 1381104 2017-02-01 08:36 ./usr/lib/phyml/bin/phyml-mpi drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/share/ drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/share/doc-base/ -rw-r--r-- root/root 202 2017-02-01 08:36 ./usr/share/doc-base/phyml drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/share/doc/ drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/share/doc/phyml/ -rw-r--r-- root/root 2446 2017-02-01 08:36 ./usr/share/doc/phyml/README.Debian -rw-r--r-- root/root 1723 2017-02-01 08:36 ./usr/share/doc/phyml/changelog.Debian.gz -rw-r--r-- root/root 2025 2017-02-01 08:36 ./usr/share/doc/phyml/copyright drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/share/doc/phyml/examples/ -rw-r--r-- root/root 5082 2017-02-01 08:36 ./usr/share/doc/phyml/examples/example.nex.gz drwxr-xr-x root/root 0 2015-12-17 10:01 ./usr/share/doc/phyml/examples/lg4x/ -rw-r--r-- root/root 1900 2015-12-17 10:01 ./usr/share/doc/phyml/examples/lg4x/X1.mat -rw-r--r-- root/root 1899 2015-12-17 10:01 ./usr/share/doc/phyml/examples/lg4x/X2.mat -rw-r--r-- root/root 1893 2015-12-17 10:01 ./usr/share/doc/phyml/examples/lg4x/X3.mat -rw-r--r-- root/root 1895 2015-12-17 10:01 ./usr/share/doc/phyml/examples/lg4x/X4.mat -rw-r--r-- root/root 1994 2015-12-17 10:01 ./usr/share/doc/phyml/examples/lg4x/lg4x.xml -rw-r--r-- root/root 2175 2015-12-17 10:01 ./usr/share/doc/phyml/examples/nexus_example.nxs -rw-r--r-- root/root 3543 2015-12-17 10:01 ./usr/share/doc/phyml/examples/nucleic.gz drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/share/doc/phyml/examples/phytime_input_files/ -rw-r--r-- root/root 1933 2015-12-17 10:01 ./usr/share/doc/phyml/examples/phytime_input_files/p1.calib -rw-r--r-- root/root 2055 2015-12-17 10:01 ./usr/share/doc/phyml/examples/phytime_input_files/p1.nxs.gz -rw-r--r-- root/root 3249 2015-12-17 10:01 ./usr/share/doc/phyml/examples/phytime_input_files/p1.tree -rw-r--r-- root/root 5114 2015-12-17 10:01 ./usr/share/doc/phyml/examples/proteic.gz -rw-r--r-- root/root 407931 2015-12-17 10:01 ./usr/share/doc/phyml/phyml_manual.pdf drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/share/man/ drwxr-xr-x root/root 0 2017-02-01 08:36 ./usr/share/man/man1/ lrwxrwxrwx root/root 0 2017-02-01 08:36 ./usr/share/man/man1/phyml-beagle.1.gz -> phyml.1.gz -rw-r--r-- root/root 2898 2017-02-01 08:36 ./usr/share/man/man1/phyml.1.gz -rw-r--r-- root/root 2306 2017-02-01 08:36 ./usr/share/man/man1/phytime.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Not removing build depends: as requested Keeping session: +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: ppc64el Build-Space: 19176 Build-Time: 81 Distribution: zesty-proposed Host Architecture: ppc64el Install-Time: 14 Job: phyml_3.2.0+dfsg-7.dsc Machine Architecture: ppc64el Package: phyml Package-Time: 95 Source-Version: 3:3.2.0+dfsg-7 Space: 19176 Status: successful Version: 3:3.2.0+dfsg-7 -------------------------------------------------------------------------------- Finished at 20170317-1138 Build needed 00:01:35, 19176k disc space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-11952261'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-11952261/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-11952261'] Unmounting chroot for build PACKAGEBUILD-11952261... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-11952261'] Removing build PACKAGEBUILD-11952261