RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux z13-002 4.4.0-43-generic #63-Ubuntu SMP Wed Oct 12 13:54:32 UTC 2016 s390x Buildd toolchain package versions: launchpad-buildd_140 python-lpbuildd_140 sbuild_0.67.0-2ubuntu7 dpkg-dev_1.18.4ubuntu1.1 python-debian_0.1.27ubuntu2 qemu-user-static_1:2.5+dfsg-5ubuntu10.5. Syncing the system clock with the buildd NTP service... 22 Oct 01:42:40 ntpdate[52827]: adjust time server 10.211.37.1 offset 0.000559 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-11057409', '/home/buildd/filecache-default/309330829b4f61930f4191d7be733906953ac6c4'] Unpacking chroot for build PACKAGEBUILD-11057409 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-11057409'] Mounting chroot for build PACKAGEBUILD-11057409 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-11057409', '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-11057409 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-11057409', 's390x'] Updating debian chroot for build PACKAGEBUILD-11057409 Get:1 http://ftpmaster.internal/ubuntu zesty InRelease [247 kB] Get:2 http://ftpmaster.internal/ubuntu zesty-security InRelease [92.2 kB] Get:3 http://ftpmaster.internal/ubuntu zesty-updates InRelease [92.1 kB] Get:4 http://ftpmaster.internal/ubuntu zesty-proposed InRelease [95.6 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main s390x Packages [1145 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main Translation-en [583 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/universe s390x Packages [7431 kB] Get:8 http://ftpmaster.internal/ubuntu zesty/universe Translation-en [4488 kB] Get:9 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x Packages [36.3 kB] Get:10 http://ftpmaster.internal/ubuntu zesty-proposed/main Translation-en [25.9 kB] Get:11 http://ftpmaster.internal/ubuntu zesty-proposed/universe s390x Packages [188 kB] Get:12 http://ftpmaster.internal/ubuntu zesty-proposed/universe Translation-en [93.6 kB] Fetched 14.5 MB in 22s (635 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: base-files binutils cpp-6 dmsetup g++-6 gcc-6 gcc-6-base libapparmor1 libasn1-8-heimdal libatomic1 libcc1-0 libdevmapper1.02.1 libgcc-6-dev libgcc1 libgomp1 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libitm1 libkrb5-26-heimdal liblzma5 libroken18-heimdal libstdc++-6-dev libstdc++6 libwind0-heimdal linux-libc-dev tzdata xz-utils 30 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 22.0 MB of archives. After this operation, 286 kB disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu zesty/main s390x base-files s390x 9.6ubuntu6 [55.8 kB] Get:2 http://ftpmaster.internal/ubuntu zesty/main s390x libgomp1 s390x 6.2.0-8ubuntu1 [71.0 kB] Get:3 http://ftpmaster.internal/ubuntu zesty/main s390x libitm1 s390x 6.2.0-8ubuntu1 [27.3 kB] Get:4 http://ftpmaster.internal/ubuntu zesty/main s390x libcc1-0 s390x 6.2.0-8ubuntu1 [31.0 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main s390x libatomic1 s390x 6.2.0-8ubuntu1 [8158 B] Get:6 http://ftpmaster.internal/ubuntu zesty/main s390x gcc-6-base s390x 6.2.0-8ubuntu1 [17.4 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/main s390x libstdc++6 s390x 6.2.0-8ubuntu1 [402 kB] Get:8 http://ftpmaster.internal/ubuntu zesty/main s390x g++-6 s390x 6.2.0-8ubuntu1 [5821 kB] Get:9 http://ftpmaster.internal/ubuntu zesty/main s390x libstdc++-6-dev s390x 6.2.0-8ubuntu1 [1391 kB] Get:10 http://ftpmaster.internal/ubuntu zesty/main s390x libgcc-6-dev s390x 6.2.0-8ubuntu1 [267 kB] Get:11 http://ftpmaster.internal/ubuntu zesty/main s390x gcc-6 s390x 6.2.0-8ubuntu1 [5612 kB] Get:12 http://ftpmaster.internal/ubuntu zesty/main s390x cpp-6 s390x 6.2.0-8ubuntu1 [5069 kB] Get:13 http://ftpmaster.internal/ubuntu zesty/main s390x libgcc1 s390x 1:6.2.0-8ubuntu1 [24.5 kB] Get:14 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x binutils s390x 2.27-9ubuntu1 [1057 kB] Get:15 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x liblzma5 s390x 5.2.2-1.2 [90.8 kB] Get:16 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x tzdata all 2016h-1 [169 kB] Get:17 http://ftpmaster.internal/ubuntu zesty/main s390x libdevmapper1.02.1 s390x 2:1.02.133-1ubuntu1 [148 kB] Get:18 http://ftpmaster.internal/ubuntu zesty/main s390x dmsetup s390x 2:1.02.133-1ubuntu1 [75.4 kB] Get:19 http://ftpmaster.internal/ubuntu zesty/main s390x libapparmor1 s390x 2.10.95-4ubuntu5.1 [30.4 kB] Get:20 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x libroken18-heimdal s390x 1.7~git20160703+dfsg-1 [39.3 kB] Get:21 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x libasn1-8-heimdal s390x 1.7~git20160703+dfsg-1 [147 kB] Get:22 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x libheimbase1-heimdal s390x 1.7~git20160703+dfsg-1 [27.5 kB] Get:23 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x libhcrypto4-heimdal s390x 1.7~git20160703+dfsg-1 [84.4 kB] Get:24 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x libwind0-heimdal s390x 1.7~git20160703+dfsg-1 [48.2 kB] Get:25 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x libhx509-5-heimdal s390x 1.7~git20160703+dfsg-1 [100.0 kB] Get:26 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x libkrb5-26-heimdal s390x 1.7~git20160703+dfsg-1 [188 kB] Get:27 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x libheimntlm0-heimdal s390x 1.7~git20160703+dfsg-1 [14.7 kB] Get:28 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x libgssapi3-heimdal s390x 1.7~git20160703+dfsg-1 [89.0 kB] Get:29 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x xz-utils s390x 5.2.2-1.2 [82.1 kB] Get:30 http://ftpmaster.internal/ubuntu zesty-proposed/main s390x linux-libc-dev s390x 4.8.0-26.28 [844 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 22.0 MB in 38s (567 kB/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 ... 12051 files and directories currently installed.) Preparing to unpack .../base-files_9.6ubuntu6_s390x.deb ... Unpacking base-files (9.6ubuntu6) over (9.6ubuntu5) ... Setting up base-files (9.6ubuntu6) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... (Reading database ... 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Unpacking libstdc++-6-dev:s390x (6.2.0-8ubuntu1) over (6.2.0-5ubuntu12) ... Preparing to unpack .../2-libgcc-6-dev_6.2.0-8ubuntu1_s390x.deb ... Unpacking libgcc-6-dev:s390x (6.2.0-8ubuntu1) over (6.2.0-5ubuntu12) ... Preparing to unpack .../3-gcc-6_6.2.0-8ubuntu1_s390x.deb ... Unpacking gcc-6 (6.2.0-8ubuntu1) over (6.2.0-5ubuntu12) ... Preparing to unpack .../4-cpp-6_6.2.0-8ubuntu1_s390x.deb ... Unpacking cpp-6 (6.2.0-8ubuntu1) over (6.2.0-5ubuntu12) ... Preparing to unpack .../5-libgcc1_1%3a6.2.0-8ubuntu1_s390x.deb ... Unpacking libgcc1:s390x (1:6.2.0-8ubuntu1) over (1:6.2.0-5ubuntu12) ... Setting up libgcc1:s390x (1:6.2.0-8ubuntu1) ... (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 ... 12049 files and directories currently installed.) Preparing to unpack .../0-binutils_2.27-9ubuntu1_s390x.deb ... Unpacking binutils (2.27-9ubuntu1) over (2.27-8ubuntu2) ... Preparing to unpack .../1-liblzma5_5.2.2-1.2_s390x.deb ... Unpacking liblzma5:s390x (5.2.2-1.2) over (5.1.1alpha+20120614-2.1ubuntu1) ... Setting up liblzma5:s390x (5.2.2-1.2) ... (Reading database ... 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Unpacking dmsetup (2:1.02.133-1ubuntu1) over (2:1.02.130-1ubuntu1) ... Preparing to unpack .../03-libapparmor1_2.10.95-4ubuntu5.1_s390x.deb ... Unpacking libapparmor1:s390x (2.10.95-4ubuntu5.1) over (2.10.95-4ubuntu5) ... Preparing to unpack .../04-libroken18-heimdal_1.7~git20160703+dfsg-1_s390x.deb ... Unpacking libroken18-heimdal:s390x (1.7~git20160703+dfsg-1) over (1.7~git20150920+dfsg-4ubuntu1) ... Preparing to unpack .../05-libasn1-8-heimdal_1.7~git20160703+dfsg-1_s390x.deb ... Unpacking libasn1-8-heimdal:s390x (1.7~git20160703+dfsg-1) over (1.7~git20150920+dfsg-4ubuntu1) ... Preparing to unpack .../06-libheimbase1-heimdal_1.7~git20160703+dfsg-1_s390x.deb ... Unpacking libheimbase1-heimdal:s390x (1.7~git20160703+dfsg-1) over (1.7~git20150920+dfsg-4ubuntu1) ... Preparing to unpack .../07-libhcrypto4-heimdal_1.7~git20160703+dfsg-1_s390x.deb ... Unpacking libhcrypto4-heimdal:s390x (1.7~git20160703+dfsg-1) over (1.7~git20150920+dfsg-4ubuntu1) ... 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Unpacking xz-utils (5.2.2-1.2) over (5.1.1alpha+20120614-2.1ubuntu1) ... Preparing to unpack .../14-linux-libc-dev_4.8.0-26.28_s390x.deb ... Unpacking linux-libc-dev:s390x (4.8.0-26.28) over (4.8.0-22.24) ... Setting up libgomp1:s390x (6.2.0-8ubuntu1) ... Setting up libatomic1:s390x (6.2.0-8ubuntu1) ... Setting up libcc1-0:s390x (6.2.0-8ubuntu1) ... Setting up tzdata (2016h-1) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Oct 22 01:43:51 UTC 2016. Universal Time is now: Sat Oct 22 01:43:51 UTC 2016. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up linux-libc-dev:s390x (4.8.0-26.28) ... Setting up libroken18-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libdevmapper1.02.1:s390x (2:1.02.133-1ubuntu1) ... Processing triggers for libc-bin (2.24-3ubuntu1) ... Setting up libapparmor1:s390x (2.10.95-4ubuntu5.1) ... Setting up xz-utils (5.2.2-1.2) ... Setting up libheimbase1-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up dmsetup (2:1.02.133-1ubuntu1) ... Setting up binutils (2.27-9ubuntu1) ... Setting up cpp-6 (6.2.0-8ubuntu1) ... Setting up libitm1:s390x (6.2.0-8ubuntu1) ... Setting up libgcc-6-dev:s390x (6.2.0-8ubuntu1) ... Setting up libstdc++-6-dev:s390x (6.2.0-8ubuntu1) ... Setting up libwind0-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libasn1-8-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libhcrypto4-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libhx509-5-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up gcc-6 (6.2.0-8ubuntu1) ... Setting up g++-6 (6.2.0-8ubuntu1) ... Setting up libkrb5-26-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libheimntlm0-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libgssapi3-heimdal:s390x (1.7~git20160703+dfsg-1) ... Processing triggers for libc-bin (2.24-3ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-11057409', 's390x', 'zesty-proposed', '-c', 'chroot:autobuild', '--arch=s390x', '--dist=zesty-proposed', '--purge=never', '--nolog', 'murasaki_1.68.6-6build2.dsc'] Initiating build PACKAGEBUILD-11057409 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-43-generic #63-Ubuntu SMP Wed Oct 12 13:54:32 UTC 2016 s390x sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on z13-002.buildd +==============================================================================+ | murasaki 1.68.6-6build2 (s390x) 22 Oct 2016 01:43 | +==============================================================================+ Package: murasaki Version: 1.68.6-6build2 Source Version: 1.68.6-6build2 Distribution: zesty-proposed Machine Architecture: s390x Host Architecture: s390x Build Architecture: s390x I: NOTICE: Log filtering will replace 'build/murasaki-S2PCnh/murasaki-1.68.6' with '<>' I: NOTICE: Log filtering will replace 'build/murasaki-S2PCnh' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-11057409/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- murasaki_1.68.6-6build2.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-bLDiI6/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-bLDiI6/apt_archive ./ InRelease Get:2 copy:/<>/resolver-bLDiI6/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-bLDiI6/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-bLDiI6/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-bLDiI6/apt_archive ./ Packages [525 B] Fetched 2858 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 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 770 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-bLDiI6/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [770 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 770 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 ... 12049 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_s390x.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 9), libboost-regex-dev, libboost-iostreams-dev, libboost-filesystem-dev, libterm-readkey-perl, libtext-wrapper-perl, libcrypto++-dev, libpstreams-dev, libopenmpi-dev Filtered Build-Depends: debhelper (>= 9), libboost-regex-dev, libboost-iostreams-dev, libboost-filesystem-dev, libterm-readkey-perl, libtext-wrapper-perl, libcrypto++-dev, libpstreams-dev, libopenmpi-dev dpkg-deb: building package 'sbuild-build-depends-murasaki-dummy' in '/<>/resolver-d4KpWC/apt_archive/sbuild-build-depends-murasaki-dummy.deb'. Ign:1 copy:/<>/resolver-d4KpWC/apt_archive ./ InRelease Get:2 copy:/<>/resolver-d4KpWC/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-d4KpWC/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-d4KpWC/apt_archive ./ Sources [278 B] Get:5 copy:/<>/resolver-d4KpWC/apt_archive ./ Packages [599 B] Fetched 2996 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install murasaki build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libboost-filesystem-dev libboost-filesystem1.61-dev libboost-filesystem1.61.0 libboost-iostreams-dev libboost-iostreams1.61-dev libboost-iostreams1.61.0 libboost-regex-dev libboost-regex1.61-dev libboost-regex1.61.0 libboost-system1.61-dev libboost-system1.61.0 libboost1.61-dev libcroco3 libcrypto++-dev libcrypto++6 libfile-stripnondeterminism-perl libglib2.0-0 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu-dev libicu57 libltdl-dev libltdl7 libmagic1 libnl-3-200 libnl-route-3-200 libopenmpi-dev libopenmpi2 libpciaccess0 libpipeline1 libpstreams-dev libsigsegv2 libterm-readkey-perl libtext-wrapper-perl libtimedate-perl libtool libunistring0 libxml2 m4 man-db ocl-icd-libopencl1 openmpi-common po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libboost1.61-doc libboost-atomic1.61-dev libboost-chrono1.61-dev libboost-date-time1.61-dev libboost-exception1.61-dev libboost-graph1.61-dev libboost-graph-parallel1.61-dev libboost-locale1.61-dev libboost-log1.61-dev libboost-math1.61-dev libboost-mpi1.61-dev libboost-mpi-python1.61-dev libboost-program-options1.61-dev libboost-python1.61-dev libboost-random1.61-dev libboost-serialization1.61-dev libboost-signals1.61-dev libboost-test1.61-dev libboost-thread1.61-dev libboost-timer1.61-dev libboost-wave1.61-dev libboost1.61-tools-dev libmpfrc++-dev libntl-dev libhwloc-contrib-plugins icu-doc libtool-doc openmpi-doc pciutils gfortran | fortran95-compiler gcj-jdk 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 debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libboost-filesystem-dev libboost-filesystem1.61-dev libboost-filesystem1.61.0 libboost-iostreams-dev libboost-iostreams1.61-dev libboost-iostreams1.61.0 libboost-regex-dev libboost-regex1.61-dev libboost-regex1.61.0 libboost-system1.61-dev libboost-system1.61.0 libboost1.61-dev libcroco3 libcrypto++-dev libcrypto++6 libfile-stripnondeterminism-perl libglib2.0-0 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu-dev libicu57 libltdl-dev libltdl7 libmagic1 libnl-3-200 libnl-route-3-200 libopenmpi-dev libopenmpi2 libpciaccess0 libpipeline1 libpstreams-dev libsigsegv2 libterm-readkey-perl libtext-wrapper-perl libtimedate-perl libtool libunistring0 libxml2 m4 man-db ocl-icd-libopencl1 openmpi-common po-debconf sbuild-build-depends-murasaki-dummy 0 upgraded, 62 newly installed, 0 to remove and 0 not upgraded. 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[28.6 kB] Get:60 http://ftpmaster.internal/ubuntu zesty/main s390x libibverbs-dev s390x 1.2.0-2ubuntu1 [83.5 kB] Get:61 http://ftpmaster.internal/ubuntu zesty-proposed/universe s390x libopenmpi2 s390x 2.0.1-5ubuntu1 [1688 kB] Get:62 http://ftpmaster.internal/ubuntu zesty-proposed/universe s390x libopenmpi-dev s390x 2.0.1-5ubuntu1 [905 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 45.9 MB in 50s (915 kB/s) Selecting previously unselected package groff-base. 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Setting up libboost-iostreams1.61.0:s390x (1.61.0+dfsg-3) ... Setting up gettext-base (0.19.8.1-1ubuntu2) ... Setting up libpipeline1:s390x (1.4.1-2) ... Setting up m4 (1.4.17-5) ... Setting up libicu57:s390x (57.1-4) ... Setting up libboost1.61-dev:s390x (1.61.0+dfsg-3) ... Setting up libxml2:s390x (2.9.4+dfsg1-2) ... Setting up libterm-readkey-perl (2.33-1build1) ... Setting up libmagic1:s390x (1:5.28-2ubuntu1) ... Setting up libcroco3:s390x (0.6.11-1) ... Setting up libboost-filesystem1.61.0:s390x (1.61.0+dfsg-3) ... Setting up libtext-wrapper-perl (1.05-2) ... Setting up openmpi-common (2.0.1-5ubuntu1) ... Processing triggers for libc-bin (2.24-3ubuntu1) ... Setting up autotools-dev (20160430.1) ... Setting up libunistring0:s390x (0.9.3-5.2ubuntu1) ... Setting up libltdl7:s390x (2.4.6-1) ... Setting up libpciaccess0:s390x (0.13.4-1) ... Setting up icu-devtools (57.1-4) ... Setting up ocl-icd-libopencl1:s390x (2.2.9-2) ... Setting up bsdmainutils (9.0.6ubuntu3) ... 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:s390x (3.2.27-1) ... Setting up autopoint (0.19.8.1-1ubuntu2) ... Setting up libfile-stripnondeterminism-perl (0.028-1) ... Setting up libboost-system1.61-dev:s390x (1.61.0+dfsg-3) ... Setting up libltdl-dev:s390x (2.4.6-1) ... Setting up libboost-regex1.61.0:s390x (1.61.0+dfsg-3) ... Setting up gettext (0.19.8.1-1ubuntu2) ... Setting up libnl-route-3-200:s390x (3.2.27-1) ... Setting up autoconf (2.69-10) ... Setting up libicu-dev (57.1-4) ... Setting up file (1:5.28-2ubuntu1) ... Setting up libhwloc5:s390x (1.11.3-2) ... Setting up libhwloc-plugins (1.11.3-2) ... Setting up libboost-filesystem1.61-dev:s390x (1.61.0+dfsg-3) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libboost-regex1.61-dev:s390x (1.61.0+dfsg-3) ... Setting up automake (1:1.15-4ubuntu1) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.7.5-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libboost-regex-dev:s390x (1.61.0.2) ... Setting up libtool (2.4.6-1) ... Setting up libibverbs1 (1.2.0-2ubuntu1) ... Setting up libboost-iostreams1.61-dev:s390x (1.61.0+dfsg-3) ... Setting up po-debconf (1.0.19) ... Setting up libhwloc-dev:s390x (1.11.3-2) ... Setting up libboost-filesystem-dev:s390x (1.61.0.2) ... Setting up libboost-iostreams-dev:s390x (1.61.0.2) ... Setting up libopenmpi2 (2.0.1-5ubuntu1) ... Setting up libibverbs-dev (1.2.0-2ubuntu1) ... Setting up libopenmpi-dev (2.0.1-5ubuntu1) ... update-alternatives: using /usr/lib/openmpi/include to provide /usr/include/mpi (mpi) in auto mode Setting up dh-autoreconf (12) ... Setting up dh-strip-nondeterminism (0.028-1) ... Setting up debhelper (10.2.2ubuntu1) ... Setting up sbuild-build-depends-murasaki-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.24-3ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-43-generic s390x (s390x) Toolchain package versions: binutils_2.27-9ubuntu1 dpkg-dev_1.18.10ubuntu1 g++-6_6.2.0-8ubuntu1 gcc-6_6.2.0-8ubuntu1 libc6-dev_2.24-3ubuntu1 libstdc++-6-dev_6.2.0-8ubuntu1 libstdc++6_6.2.0-8ubuntu1 linux-libc-dev_4.8.0-26.28 Package versions: adduser_3.113+nmu3ubuntu4 advancecomp_1.20-1 apt_1.3.1 apt-transport-https_1.3.1 autoconf_2.69-10 automake_1:1.15-4ubuntu1 autopoint_0.19.8.1-1ubuntu2 autotools-dev_20160430.1 base-files_9.6ubuntu6 base-passwd_3.5.40 bash_4.3-15ubuntu1 binutils_2.27-9ubuntu1 bsdmainutils_9.0.6ubuntu3 bsdutils_1:2.28.2-1ubuntu1 build-essential_12.1ubuntu2 bzip2_1.0.6-8build1 ca-certificates_20160104ubuntu1 coreutils_8.25-2ubuntu2 cpp_4:6.1.1-1ubuntu2 cpp-6_6.2.0-8ubuntu1 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libfdisk1_2.28.2-1ubuntu1 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.028-1 libgcc-6-dev_6.2.0-8ubuntu1 libgcc1_1:6.2.0-8ubuntu1 libgcrypt20_1.7.2-2ubuntu1 libgdbm3_1.8.3-14 libglib2.0-0_2.50.0-1 libgmp10_2:6.1.1+dfsg-1 libgnutls30_3.5.3-5ubuntu1 libgomp1_6.2.0-8ubuntu1 libgpg-error0_1.24-1 libgssapi-krb5-2_1.14.3+dfsg-2 libgssapi3-heimdal_1.7~git20160703+dfsg-1 libhcrypto4-heimdal_1.7~git20160703+dfsg-1 libheimbase1-heimdal_1.7~git20160703+dfsg-1 libheimntlm0-heimdal_1.7~git20160703+dfsg-1 libhogweed4_3.2-1 libhwloc-dev_1.11.3-2 libhwloc-plugins_1.11.3-2 libhwloc5_1.11.3-2 libhx509-5-heimdal_1.7~git20160703+dfsg-1 libibverbs-dev_1.2.0-2ubuntu1 libibverbs1_1.2.0-2ubuntu1 libicu-dev_57.1-4 libicu57_57.1-4 libidn11_1.33-1 libip4tc0_1.6.0-3ubuntu2 libisl15_0.17.1-1 libitm1_6.2.0-8ubuntu1 libk5crypto3_1.14.3+dfsg-2 libkeyutils1_1.5.9-9ubuntu1 libkmod2_22-1.1ubuntu1 libkrb5-26-heimdal_1.7~git20160703+dfsg-1 libkrb5-3_1.14.3+dfsg-2 libkrb5support0_1.14.3+dfsg-2 libksba8_1.3.4-4 libldap-2.4-2_2.4.42+dfsg-2ubuntu4 liblockfile-bin_1.09-6ubuntu1 liblockfile1_1.09-6ubuntu1 libltdl-dev_2.4.6-1 libltdl7_2.4.6-1 liblz4-1_0.0~r131-2ubuntu2 liblzma5_5.2.2-1.2 libmagic1_1:5.28-2ubuntu1 libmount1_2.28.2-1ubuntu1 libmpc3_1.0.3-1 libmpfr4_3.1.5-1 libncurses5_6.0+20160625-1ubuntu1 libncursesw5_6.0+20160625-1ubuntu1 libnettle6_3.2-1 libnl-3-200_3.2.27-1 libnl-route-3-200_3.2.27-1 libnpth0_1.2-3 libopenmpi-dev_2.0.1-5ubuntu1 libopenmpi2_2.0.1-5ubuntu1 libp11-kit0_0.23.2-5 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_0.13.4-1 libpcre3_2:8.39-2 libperl5.22_5.22.2-3 libpipeline1_1.4.1-2 libpng16-16_1.6.25-1 libprocps6_2:3.3.12-1ubuntu2 libpstreams-dev_0.8.0-2 libreadline7_7.0-0ubuntu2 libroken18-heimdal_1.7~git20160703+dfsg-1 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.26.dfsg1-15 libsasl2-modules-db_2.1.26.dfsg1-15 libseccomp2_2.3.1-2ubuntu2 libselinux1_2.5-3 libsemanage-common_2.5-1 libsemanage1_2.5-1 libsepol1_2.5-1 libsigsegv2_2.10-5 libslang2_2.3.0-2.3ubuntu1 libsmartcols1_2.28.2-1ubuntu1 libsqlite3-0_3.14.1-1build1 libss2_1.43.3-1 libssl1.0.0_1.0.2g-1ubuntu9 libstdc++-6-dev_6.2.0-8ubuntu1 libstdc++6_6.2.0-8ubuntu1 libsystemd0_231-9git1 libtasn1-6_4.9-4 libterm-readkey-perl_2.33-1build1 libtext-wrapper-perl_1.05-2 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160625-1ubuntu1 libtool_2.4.6-1 libudev1_231-9git1 libunistring0_0.9.3-5.2ubuntu1 libusb-0.1-4_2:0.1.12-30 libustr-1.0-1_1.0.4-5 libuuid1_2.28.2-1ubuntu1 libwind0-heimdal_1.7~git20160703+dfsg-1 libxml2_2.9.4+dfsg1-2 linux-libc-dev_4.8.0-26.28 lockfile-progs_0.1.17 login_1:4.2-3.2ubuntu1 lsb-base_9.20160110ubuntu5 m4_1.4.17-5 make_4.1-9 man-db_2.7.5-1 mawk_1.3.3-17ubuntu2 mount_2.28.2-1ubuntu1 multiarch-support_2.24-3ubuntu1 ncurses-base_6.0+20160625-1ubuntu1 ncurses-bin_6.0+20160625-1ubuntu1 ocl-icd-libopencl1_2.2.9-2 openmpi-common_2.0.1-5ubuntu1 openssl_1.0.2g-1ubuntu9 optipng_0.7.6-1build1 passwd_1:4.2-3.2ubuntu1 patch_2.7.5-1 perl_5.22.2-3 perl-base_5.22.2-3 perl-modules-5.22_5.22.2-3 pinentry-curses_0.9.7-5 pkg-create-dbgsym_0.72 pkgbinarymangler_131 po-debconf_1.0.19 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-murasaki-dummy_0.invalid.0 sed_4.2.2-8 sensible-utils_0.0.9 systemd_231-9git1 systemd-sysv_231-9git1 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.8git1 tar_1.29b-1 tzdata_2016h-1 ubuntu-keyring_2016.09.19 util-linux_2.28.2-1ubuntu1 xz-utils_5.2.2-1.2 zlib1g_1:1.2.8.dfsg-2ubuntu5 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sat Oct 22 01:40:00 2016 UTC gpgv: using RSA key gpgv: issuer "steve.langasek@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./murasaki_1.68.6-6build2.dsc dpkg-source: info: extracting murasaki in murasaki-1.68.6 dpkg-source: info: unpacking murasaki_1.68.6.orig.tar.gz dpkg-source: info: unpacking murasaki_1.68.6-6build2.debian.tar.xz dpkg-source: info: applying use_proper_libboost_names.patch dpkg-source: info: applying include_libpstream.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying man_syntax.patch dpkg-source: info: applying freebsd.patch dpkg-source: info: applying gcc-6.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=/<> SHELL=/bin/sh SUDO_COMMAND=/usr/sbin/chroot /<> su buildd -s /bin/sh -c cd '/<>' && 'env' SUDO_GID=2501 SUDO_UID=2001 SUDO_USER=buildd TERM=unknown USER=buildd USERNAME=root dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package murasaki dpkg-buildpackage: info: source version 1.68.6-6build2 dpkg-buildpackage: info: source distribution zesty dpkg-source --before-build murasaki-1.68.6 dpkg-buildpackage: info: host architecture s390x fakeroot debian/rules clean dh clean dh_testdir dh_auto_clean make -j1 clean make[1]: Entering directory '/<>' rm -rf *.o *~ .*~ core make -C src clean make[2]: Entering directory '/<>/src' rm -rf *.o *~ .*~ core ../murasaki ../cgr-image ../cgr-compare ../cgr-random ../cgr-sample ../testeco ../align-compare ../align-or ../geneparse ../align-and ../align-best ../align-coverage ../getsegments ../mbfa make[2]: Leaving directory '/<>/src' make[1]: Leaving directory '/<>' dh_clean debian/rules build-arch dh build-arch dh_testdir -a dh_update_autotools_config -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build -- USE_MPI=YES make -j1 USE_MPI=YES make[2]: Entering directory '/<>' make -C src all make[3]: Entering directory '/<>/src' mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c murasaki.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from murasaki.cc:37: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from murasaki.cc:37: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from murasaki.cc:37: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ murasaki.cc: In function ‘void procLocs(LocList&, std::__cxx11::list&, int, int)’: murasaki.cc:1008:8: warning: variable ‘revZero’ set but not used [-Wunused-but-set-variable] bool revZero=false; ^~~~~~~ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c timing.cc mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c dinkymath.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from dinkymath.cc:27: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from dinkymath.cc:27: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from dinkymath.cc:27: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ dinkymath.cc: In function ‘std::__cxx11::string littleEndianStr(unsigned int, int)’: dinkymath.cc:40:7: warning: variable ‘last’ set but not used [-Wunused-but-set-variable] int last=0; ^~~~ dinkymath.cc: In function ‘std::__cxx11::string littleEndianPat(unsigned int, int)’: dinkymath.cc:53:7: warning: variable ‘last’ set but not used [-Wunused-but-set-variable] int last=0; ^~~~ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c sequence.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from sequence.cc:28: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from sequence.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from sequence.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ sequence.cc: In destructor ‘Sequence::~Sequence()’: sequence.cc:377:123: warning: throw will always call terminate() [-Wterminate] throw MurasakiException("Couldn't mark System V IPC shared memory region for deletion for sequence "+name+strerror(errno)); ^ sequence.cc:377:123: note: in C++11 destructors default to noexcept sequence.cc: In destructor ‘BitSequence::~BitSequence()’: sequence.cc:1394:133: warning: throw will always call terminate() [-Wterminate] throw MurasakiException("Couldn't detach System V shared memory region for "+(seq ? seq->filename:string("(anon)"))+strerror(errno)); ^ sequence.cc:1394:133: note: in C++11 destructors default to noexcept sequence.cc: In member function ‘std::pair IntervalSet::entropy() const’: sequence.cc:3332:10: warning: variable ‘shortest’ set but not used [-Wunused-but-set-variable] SeqPos shortest=0,shortlen=length(spaces[0]); ^~~~~~~~ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c msethash.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from msethash.cc:25: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from msethash.cc:25: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from msethash.cc:25: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c options.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from options.h:28, from options.cc:26: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from options.h:28, from options.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from options.h:28, from options.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c ecohash.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecohash.h:29, from ecohash.cc:26: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecohash.h:29, from ecohash.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecohash.h:29, from ecohash.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c ecolist.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecolist.cc:20: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecolist.cc:20: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecolist.cc:20: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c murasaki_mpi.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from murasaki_mpi.cc:33: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from murasaki_mpi.cc:33: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from murasaki_mpi.cc:33: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ murasaki_mpi.cc: In function ‘void mpi_types_init()’: murasaki_mpi.cc:107:3: warning: ‘int MPI_Address(void*, MPI_Aint*)’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&msg.key,disp); ^~~~~~~~~~~ In file included from murasaki_mpi.cc:29:0: /usr/lib/openmpi/include/mpi.h:1200:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ murasaki_mpi.cc:107:28: warning: ‘int MPI_Address(void*, MPI_Aint*)’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&msg.key,disp); ^ In file included from murasaki_mpi.cc:29:0: /usr/lib/openmpi/include/mpi.h:1200:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ murasaki_mpi.cc:108:3: warning: ‘int MPI_Address(void*, MPI_Aint*)’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&msg.seqno,disp+1); ^~~~~~~~~~~ In file included from murasaki_mpi.cc:29:0: /usr/lib/openmpi/include/mpi.h:1200:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ murasaki_mpi.cc:108:32: warning: ‘int MPI_Address(void*, MPI_Aint*)’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&msg.seqno,disp+1); ^ In file included from murasaki_mpi.cc:29:0: /usr/lib/openmpi/include/mpi.h:1200:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ murasaki_mpi.cc:109:3: warning: ‘int MPI_Address(void*, MPI_Aint*)’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&msg.pos,disp+1); ^~~~~~~~~~~ In file included from murasaki_mpi.cc:29:0: /usr/lib/openmpi/include/mpi.h:1200:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ murasaki_mpi.cc:109:30: warning: ‘int MPI_Address(void*, MPI_Aint*)’ is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations] MPI_Address(&msg.pos,disp+1); ^ In file included from murasaki_mpi.cc:29:0: /usr/lib/openmpi/include/mpi.h:1200:20: note: declared here OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address) ^~~~~~~~~~~ murasaki_mpi.cc:112:3: warning: ‘int MPI_Type_struct(int, int*, MPI_Aint*, ompi_datatype_t**, ompi_datatype_t**)’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(3,blocklen,disp,type,&MPI_HashMessage_type); ^~~~~~~~~~~~~~~ In file included from murasaki_mpi.cc:29:0: /usr/lib/openmpi/include/mpi.h:1817:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ murasaki_mpi.cc:112:61: warning: ‘int MPI_Type_struct(int, int*, MPI_Aint*, ompi_datatype_t**, ompi_datatype_t**)’ is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations] MPI_Type_struct(3,blocklen,disp,type,&MPI_HashMessage_type); ^ In file included from murasaki_mpi.cc:29:0: /usr/lib/openmpi/include/mpi.h:1817:20: note: declared here OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[], ^~~~~~~~~~~~~~~ murasaki_mpi.cc: In function ‘void mpi_hasher_client_mode(BitSequence*)’: murasaki_mpi.cc:561:9: warning: variable ‘send_done’ set but not used [-Wunused-but-set-variable] int send_done; ^~~~~~~~~ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c arrayhash.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from arrayhash.cc:28: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from arrayhash.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from arrayhash.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c seqread.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from seqread.cc:28: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from seqread.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from seqread.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c scoring.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from scoring.cc:27: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from scoring.cc:27: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from scoring.cc:27: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c openhash.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from openhash.h:29, from openhash.cc:26: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from openhash.h:29, from openhash.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from openhash.h:29, from openhash.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c genopts.cc mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c binseq.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from binseq.cc:21: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from binseq.cc:21: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from binseq.cc:21: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../murasaki murasaki.o timing.o dinkymath.o sequence.o msethash.o options.o ecohash.o ecolist.o murasaki_mpi.o arrayhash.o seqread.o scoring.o openhash.o genopts.o binseq.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr-image.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-image.cc:33: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-image.cc:33: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-image.cc:33: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr.cc cgr.cc: In member function ‘void Cgr::merge(Cgr&)’: cgr.cc:140:7: warning: variable ‘redist’ set but not used [-Wunused-but-set-variable] int redist=(unsigned long)(rez*rez)<=seedcount; ^~~~~~ cgr.cc: In member function ‘bool Cgr::savePNG(std::__cxx11::string)’: cgr.cc:288:7: warning: variable ‘res’ set but not used [-Wunused-but-set-variable] int res; ^~~ cgr.cc: In member function ‘int PgmBuffer::loadPGM(std::__cxx11::string)’: cgr.cc:435:7: warning: variable ‘wordwidth’ set but not used [-Wunused-but-set-variable] int wordwidth=1; ^~~~~~~~~ cgr.cc: In member function ‘int PgmBuffer::loadBinaryPGM(std::__cxx11::string)’: cgr.cc:546:30: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] data.push_back(*(gray*)(line)); ^ cgr.cc:557:31: warning: ‘height’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(data.size()<(uint)(height*width)) ~~~~~~~^~~~~~~ cgr.cc:557:31: warning: ‘width’ may be used uninitialized in this function [-Wmaybe-uninitialized] cgr.cc: In member function ‘int PgmBuffer::loadPGM(std::__cxx11::string)’: cgr.cc:485:31: warning: ‘height’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(data.size()<(uint)(height*width)) ~~~~~~~^~~~~~~ cgr.cc:485:31: warning: ‘width’ may be used uninitialized in this function [-Wmaybe-uninitialized] mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../cgr-image cgr-image.o cgr.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr-compare.cc mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../cgr-compare cgr-compare.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr-random.cc mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../cgr-random cgr-random.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr-sample.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-sample.cc:35: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-sample.cc:35: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-sample.cc:35: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ cgr-sample.cc: In function ‘int main(int, char**)’: cgr-sample.cc:54:8: warning: variable ‘repeatmask’ set but not used [-Wunused-but-set-variable] bool repeatmask=false,save=false; ^~~~~~~~~~ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../cgr-sample cgr.o cgr-sample.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c testeco.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from testeco.cc:20: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from testeco.cc:20: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from testeco.cc:20: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../testeco testeco.o ecolist.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-compare.cc mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c alignments.cc mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-compare align-compare.o dinkymath.o alignments.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-or.cc mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-or align-or.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c geneparse.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from geneparse.cc:30: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from geneparse.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from geneparse.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../geneparse geneparse.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-and.cc mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-and align-and.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-best.cc mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-best align-best.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-coverage.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from align-coverage.cc:35: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from align-coverage.cc:35: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from align-coverage.cc:35: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ align-coverage.cc: In function ‘int main(int, char**)’: align-coverage.cc:148:10: warning: variable ‘seqStats’ set but not used [-Wunused-but-set-variable] bool seqStats=true; ^~~~~~~~ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-coverage align-coverage.o alignments.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c getsegments.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from getsegments.cc:30: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from getsegments.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from getsegments.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../getsegments getsegments.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c mbfa.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from mbfa.cc:30: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from mbfa.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from mbfa.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../mbfa mbfa.o dinkymath.o timing.o seqread.o binseq.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>' for bin in geneparse mbfa murasaki cgr-* testeco align-* ; do \ mv ${bin} ${bin}-mpi ; \ done make clean make[2]: Entering directory '/<>' rm -rf *.o *~ .*~ core make -C src clean make[3]: Entering directory '/<>/src' rm -rf *.o *~ .*~ core ../murasaki ../cgr-image ../cgr-compare ../cgr-random ../cgr-sample ../testeco ../align-compare ../align-or ../geneparse ../align-and ../align-best ../align-coverage ../getsegments ../mbfa make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>' dh_auto_build -- USE_MPI=NO make -j1 USE_MPI=NO make[2]: Entering directory '/<>' make -C src all make[3]: Entering directory '/<>/src' g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c murasaki.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from murasaki.cc:37: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from murasaki.cc:37: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from murasaki.cc:37: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ murasaki.cc: In function ‘void procLocs(LocList&, std::__cxx11::list&, int, int)’: murasaki.cc:1008:8: warning: variable ‘revZero’ set but not used [-Wunused-but-set-variable] bool revZero=false; ^~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c timing.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c dinkymath.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from dinkymath.cc:27: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from dinkymath.cc:27: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from dinkymath.cc:27: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ dinkymath.cc: In function ‘std::__cxx11::string littleEndianStr(unsigned int, int)’: dinkymath.cc:40:7: warning: variable ‘last’ set but not used [-Wunused-but-set-variable] int last=0; ^~~~ dinkymath.cc: In function ‘std::__cxx11::string littleEndianPat(unsigned int, int)’: dinkymath.cc:53:7: warning: variable ‘last’ set but not used [-Wunused-but-set-variable] int last=0; ^~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c sequence.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from sequence.cc:28: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from sequence.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from sequence.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ sequence.cc: In member function ‘std::pair IntervalSet::entropy() const’: sequence.cc:3332:10: warning: variable ‘shortest’ set but not used [-Wunused-but-set-variable] SeqPos shortest=0,shortlen=length(spaces[0]); ^~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c msethash.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from msethash.cc:25: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from msethash.cc:25: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from msethash.cc:25: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c options.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from options.h:28, from options.cc:26: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from options.h:28, from options.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from options.h:28, from options.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c ecohash.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecohash.h:29, from ecohash.cc:26: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecohash.h:29, from ecohash.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecohash.h:29, from ecohash.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c ecolist.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecolist.cc:20: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecolist.cc:20: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from ecolist.cc:20: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c murasaki_mpi.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c arrayhash.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from arrayhash.cc:28: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from arrayhash.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from arrayhash.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c seqread.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from seqread.cc:28: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from seqread.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from seqread.cc:28: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c scoring.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from scoring.cc:27: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from scoring.cc:27: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from murasaki.h:24, from scoring.cc:27: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c openhash.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from openhash.h:29, from openhash.cc:26: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from openhash.h:29, from openhash.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from openhash.h:29, from openhash.cc:26: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c genopts.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c binseq.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from binseq.cc:21: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from binseq.cc:21: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from binseq.cc:21: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../murasaki murasaki.o timing.o dinkymath.o sequence.o msethash.o options.o ecohash.o ecolist.o murasaki_mpi.o arrayhash.o seqread.o scoring.o openhash.o genopts.o binseq.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr-image.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-image.cc:33: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-image.cc:33: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-image.cc:33: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr.cc cgr.cc: In member function ‘void Cgr::merge(Cgr&)’: cgr.cc:140:7: warning: variable ‘redist’ set but not used [-Wunused-but-set-variable] int redist=(unsigned long)(rez*rez)<=seedcount; ^~~~~~ cgr.cc: In member function ‘bool Cgr::savePNG(std::__cxx11::string)’: cgr.cc:288:7: warning: variable ‘res’ set but not used [-Wunused-but-set-variable] int res; ^~~ cgr.cc: In member function ‘int PgmBuffer::loadPGM(std::__cxx11::string)’: cgr.cc:435:7: warning: variable ‘wordwidth’ set but not used [-Wunused-but-set-variable] int wordwidth=1; ^~~~~~~~~ cgr.cc: In member function ‘int PgmBuffer::loadBinaryPGM(std::__cxx11::string)’: cgr.cc:546:30: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] data.push_back(*(gray*)(line)); ^ cgr.cc:557:31: warning: ‘height’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(data.size()<(uint)(height*width)) ~~~~~~~^~~~~~~ cgr.cc:557:31: warning: ‘width’ may be used uninitialized in this function [-Wmaybe-uninitialized] cgr.cc: In member function ‘int PgmBuffer::loadPGM(std::__cxx11::string)’: cgr.cc:485:31: warning: ‘height’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(data.size()<(uint)(height*width)) ~~~~~~~^~~~~~~ cgr.cc:485:31: warning: ‘width’ may be used uninitialized in this function [-Wmaybe-uninitialized] g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../cgr-image cgr-image.o cgr.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr-compare.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../cgr-compare cgr-compare.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr-random.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../cgr-random cgr-random.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr-sample.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-sample.cc:35: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-sample.cc:35: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from cgr-sample.cc:35: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ cgr-sample.cc: In function ‘int main(int, char**)’: cgr-sample.cc:54:8: warning: variable ‘repeatmask’ set but not used [-Wunused-but-set-variable] bool repeatmask=false,save=false; ^~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../cgr-sample cgr.o cgr-sample.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c testeco.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from testeco.cc:20: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from testeco.cc:20: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from binseq.hh:31, from sequence.h:32, from ecolist.h:23, from testeco.cc:20: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../testeco testeco.o ecolist.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-compare.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c alignments.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-compare align-compare.o dinkymath.o alignments.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-or.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-or align-or.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c geneparse.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from geneparse.cc:30: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from geneparse.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from geneparse.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../geneparse geneparse.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-and.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-and align-and.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-best.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-best align-best.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-coverage.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from align-coverage.cc:35: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from align-coverage.cc:35: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from align-coverage.cc:35: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ align-coverage.cc: In function ‘int main(int, char**)’: align-coverage.cc:148:10: warning: variable ‘seqStats’ set but not used [-Wunused-but-set-variable] bool seqStats=true; ^~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-coverage align-coverage.o alignments.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c getsegments.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from getsegments.cc:30: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from getsegments.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from getsegments.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../getsegments getsegments.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c mbfa.cc In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from mbfa.cc:30: /usr/include/boost/type_traits/detail/bool_trait_def.hpp:18:79: note: #pragma message: NOTE: Use of this header (bool_trait_def.hpp) is deprecated # pragma message("NOTE: Use of this header (bool_trait_def.hpp) is deprecated") ^ In file included from /usr/include/boost/type_traits/detail/bool_trait_def.hpp:21:0, from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:12, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from mbfa.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ In file included from /usr/include/boost/iostreams/detail/is_dereferenceable.hpp:13:0, from /usr/include/boost/iostreams/detail/resolve.hpp:26, from /usr/include/boost/iostreams/detail/push.hpp:24, from /usr/include/boost/iostreams/chain.hpp:29, from /usr/include/boost/iostreams/filtering_streambuf.hpp:17, from seqread.h:34, from mbfa.cc:30: /usr/include/boost/type_traits/detail/template_arity_spec.hpp:13:84: note: #pragma message: NOTE: Use of this header (template_arity_spec.hpp) is deprecated # pragma message("NOTE: Use of this header (template_arity_spec.hpp) is deprecated") ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../mbfa mbfa.o dinkymath.o timing.o seqread.o binseq.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test -a fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a debian/rules override_dh_install-arch make[1]: Entering directory '/<>' dh_install -a # using wildcards in install files is practical but it duplicates some files find debian/murasaki/usr -name "*-mpi" -delete make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a debian/rules override_dh_link make[1]: Entering directory '/<>' dh_link mkdir -p debian/murasaki-mpi/usr/share/man/man1 for man in debian/murasaki/usr/share/man/man1/* ; do \ ln -s `basename ${man}`.gz debian/murasaki-mpi/usr/share/man/man1/`basename ${man} .1`-mpi.1.gz ; \ done make[1]: Leaving directory '/<>' dh_strip_nondeterminism -a dh_compress -a 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 s390x: murasaki murasaki-mpi dh_strip debug symbol extraction: packages to act on: murasaki murasaki-mpi dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol Using buildid for compat level >= 9 dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: package murasaki-mpi: unused substitution variable ${perl:Depends} /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol 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 dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: package murasaki-mpi: unused substitution variable ${perl:Depends} dh_gencontrol debug symbol wrapper: all non-arch-all packages for this build platform s390x: murasaki murasaki-mpi dh_gencontrol debug symbol wrapper: packages to act on: murasaki murasaki-mpi dh_gencontrol debug symbol wrapper: ignored packages: dh_gencontrol debug symbol wrapper: processing package murasaki (pkgdir debian/murasaki, ddeb package dir debian/murasaki-dbgsym) dh_gencontrol debug symbol wrapper: building murasaki-dbgsym_1.68.6-6build2_s390x.ddeb dpkg-deb: building package 'murasaki-dbgsym' in '../murasaki-dbgsym_1.68.6-6build2_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile murasaki-dbgsym_1.68.6-6build2_s390x.ddeb science extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: processing package murasaki-mpi (pkgdir debian/murasaki-mpi, ddeb package dir debian/murasaki-mpi-dbgsym) dh_gencontrol debug symbol wrapper: building murasaki-mpi-dbgsym_1.68.6-6build2_s390x.ddeb dpkg-deb: building package 'murasaki-mpi-dbgsym' in '../murasaki-mpi-dbgsym_1.68.6-6build2_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile murasaki-mpi-dbgsym_1.68.6-6build2_s390x.ddeb science extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 131 INFO: pkgstriptranslations version 131 pkgstriptranslations: processing murasaki-mpi (in debian/murasaki-mpi); do_strip: , oemstrip: pkgstriptranslations: processing murasaki (in debian/murasaki); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/murasaki/DEBIAN/control, package murasaki, directory debian/murasaki pkgstripfiles: Running PNG optimization (using 4 cpus) for package murasaki ... pkgstripfiles: No PNG files. dpkg-deb: building package 'murasaki' in '../murasaki_1.68.6-6build2_s390x.deb'. pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/murasaki-mpi/DEBIAN/control, package murasaki-mpi, directory debian/murasaki-mpi pkgstripfiles: Running PNG optimization (using 4 cpus) for package murasaki-mpi ... pkgstripfiles: No PNG files. dpkg-deb: building package 'murasaki-mpi' in '../murasaki-mpi_1.68.6-6build2_s390x.deb'. dpkg-genchanges --build=any -mLaunchpad Build Daemon >../murasaki_1.68.6-6build2_s390x.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build murasaki-1.68.6 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20161022-0148 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ murasaki_1.68.6-6build2_s390x.changes: -------------------------------------- Format: 1.8 Date: Sat, 22 Oct 2016 01:39:57 +0000 Source: murasaki Binary: murasaki murasaki-mpi murasaki-common Architecture: s390x Version: 1.68.6-6build2 Distribution: zesty-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Steve Langasek Description: murasaki - homology detection tool across multiple large genomes murasaki-common - homology detection tool across multiple large genomes (common fil murasaki-mpi - homology detection tool across multiple large genomes (MPI-versio Changes: murasaki (1.68.6-6build2) zesty; urgency=medium . * No-change rebuild against libopenmpi2 Checksums-Sha1: d2be9b244e67f0bcb848ab4052c70e73d6231a4a 5907706 murasaki-dbgsym_1.68.6-6build2_s390x.ddeb 3089456108e9a5f8f4cae915b15c4da3190b3004 6783074 murasaki-mpi-dbgsym_1.68.6-6build2_s390x.ddeb 5751fc03258d8e2eedb66df4cd4a2b739b1b3d6f 564758 murasaki-mpi_1.68.6-6build2_s390x.deb 2c330ff1a278872732c926c15ab1c56c7832a2fa 461278 murasaki_1.68.6-6build2_s390x.deb Checksums-Sha256: e1b6569f19603efee1bc3f74ed489812d41839776eca1b947df421848f7c8e94 5907706 murasaki-dbgsym_1.68.6-6build2_s390x.ddeb f31d49b01f454ea31731774ec3d1e2e67d59866a9703aff733d108b505b4a9a5 6783074 murasaki-mpi-dbgsym_1.68.6-6build2_s390x.ddeb c8a52b9725310e67fcc7a192f416898a6c73081ff1ba0092c36f9d1cc42b48c0 564758 murasaki-mpi_1.68.6-6build2_s390x.deb 802a8e533eeb5e70de1f082df6a46673eb1d34cfd01cced04c61c45264de1001 461278 murasaki_1.68.6-6build2_s390x.deb Files: 19c0f6f3bb4ff61c96f7b2516a98f28e 5907706 science extra murasaki-dbgsym_1.68.6-6build2_s390x.ddeb 98ceb5245a0d948270d649c5a13c5a08 6783074 science extra murasaki-mpi-dbgsym_1.68.6-6build2_s390x.ddeb 2b060c7787f03ea00e4ad59499d54686 564758 science optional murasaki-mpi_1.68.6-6build2_s390x.deb 7621aa75eaea83247393a34b1ef81867 461278 science optional murasaki_1.68.6-6build2_s390x.deb Original-Maintainer: Debian Med Packaging Team +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ murasaki-mpi_1.68.6-6build2_s390x.deb ------------------------------------- new debian package, version 2.0. size 564758 bytes: control archive=1501 bytes. 1447 bytes, 29 lines control 1116 bytes, 17 lines md5sums Package: murasaki-mpi Source: murasaki Version: 1.68.6-6build2 Architecture: s390x Maintainer: Ubuntu Developers Installed-Size: 4355 Depends: murasaki-common, libboost-filesystem1.61.0, libboost-iostreams1.61.0, libboost-regex1.61.0, libboost-system1.61.0, libc6 (>= 2.4), libgcc1 (>= 1:3.0), libopenmpi2, libstdc++6 (>= 5.2) Section: science Priority: optional Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/ Description: homology detection tool across multiple large genomes (MPI-version) Murasaki is a scalable and fast, language theory-based homology detection tool across multiple large genomes. It enable whole-genome scale multiple genome global alignments. Supports unlimited length gapped-seed patterns and unique TF-IDF based filtering. . Murasaki is an anchor alignment software, which is * exteremely fast (17 CPU hours for whole Human x Mouse genome (with 40 nodes: 52 wall minutes)) * scalable (Arbitrarily parallelizable across multiple nodes using MPI. Even a single node with 16GB of ram can handle over 1Gbp of sequence.) * unlimited pattern length * repeat tolerant * intelligent noise reduction . This package provides the MPI-enabled binary for murasaki. While this will speed up operation on multi-processor machines it will slow down on a single processor. Original-Maintainer: Debian Med Packaging Team drwxr-xr-x root/root 0 2016-10-22 01:39 ./ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/bin/ -rwxr-xr-x root/root 277056 2016-10-22 01:39 ./usr/bin/geneparse-mpi -rwxr-xr-x root/root 403912 2016-10-22 01:39 ./usr/bin/mbfa-mpi -rwxr-xr-x root/root 889640 2016-10-22 01:39 ./usr/bin/murasaki-mpi drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/lib/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/lib/murasaki/ -rwxr-xr-x root/root 280944 2016-10-22 01:39 ./usr/lib/murasaki/align-and-mpi -rwxr-xr-x root/root 289168 2016-10-22 01:39 ./usr/lib/murasaki/align-best-mpi -rwxr-xr-x root/root 309696 2016-10-22 01:39 ./usr/lib/murasaki/align-compare-mpi -rwxr-xr-x root/root 420296 2016-10-22 01:39 ./usr/lib/murasaki/align-coverage-mpi -rwxr-xr-x root/root 276816 2016-10-22 01:39 ./usr/lib/murasaki/align-or-mpi -rwxr-xr-x root/root 182584 2016-10-22 01:39 ./usr/lib/murasaki/cgr-compare-mpi -rwxr-xr-x root/root 420408 2016-10-22 01:39 ./usr/lib/murasaki/cgr-image-mpi -rwxr-xr-x root/root 7138 2010-08-24 14:18 ./usr/lib/murasaki/cgr-image.pl-mpi -rwxr-xr-x root/root 190816 2016-10-22 01:39 ./usr/lib/murasaki/cgr-random-mpi -rwxr-xr-x root/root 326160 2016-10-22 01:39 ./usr/lib/murasaki/cgr-sample-mpi -rwxr-xr-x root/root 157872 2016-10-22 01:39 ./usr/lib/murasaki/testeco-mpi drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/doc/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/doc/murasaki-mpi/ -rw-r--r-- root/root 249 2016-07-12 07:25 ./usr/share/doc/murasaki-mpi/README.test -rw-r--r-- root/root 840 2016-10-22 01:39 ./usr/share/doc/murasaki-mpi/changelog.Debian.gz -rw-r--r-- root/root 2221 2016-07-12 07:25 ./usr/share/doc/murasaki-mpi/copyright drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/man/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/man/man1/ lrwxrwxrwx root/root 0 2016-10-22 01:39 ./usr/share/man/man1/geneparse-mpi.1.gz -> geneparse.1.gz lrwxrwxrwx root/root 0 2016-10-22 01:39 ./usr/share/man/man1/mbfa-mpi.1.gz -> mbfa.1.gz lrwxrwxrwx root/root 0 2016-10-22 01:39 ./usr/share/man/man1/murasaki-mpi.1.gz -> murasaki.1.gz murasaki_1.68.6-6build2_s390x.deb --------------------------------- new debian package, version 2.0. size 461278 bytes: control archive=1437 bytes. 1229 bytes, 24 lines control 1182 bytes, 19 lines md5sums Package: murasaki Version: 1.68.6-6build2 Architecture: s390x Maintainer: Ubuntu Developers Installed-Size: 3414 Depends: murasaki-common, libboost-filesystem1.61.0, libboost-iostreams1.61.0, libboost-regex1.61.0, libboost-system1.61.0, libc6 (>= 2.4), libgcc1 (>= 1:3.0), libstdc++6 (>= 5.2) Section: science Priority: optional Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/ Description: homology detection tool across multiple large genomes Murasaki is a scalable and fast, language theory-based homology detection tool across multiple large genomes. It enable whole-genome scale multiple genome global alignments. Supports unlimited length gapped-seed patterns and unique TF-IDF based filtering. . Murasaki is an anchor alignment software, which is * exteremely fast (17 CPU hours for whole Human x Mouse genome (with 40 nodes: 52 wall minutes)) * scalable (Arbitrarily parallelizable across multiple nodes using MPI. Even a single node with 16GB of ram can handle over 1Gbp of sequence.) * unlimited pattern length * repeat tolerant * intelligent noise reduction Original-Maintainer: Debian Med Packaging Team drwxr-xr-x root/root 0 2016-10-22 01:39 ./ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/bin/ -rwxr-xr-x root/root 277056 2016-10-22 01:39 ./usr/bin/geneparse -rwxr-xr-x root/root 326088 2016-10-22 01:39 ./usr/bin/mbfa -rwxr-xr-x root/root 705264 2016-10-22 01:39 ./usr/bin/murasaki drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/lib/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/lib/murasaki/ -rwxr-xr-x root/root 203120 2016-10-22 01:39 ./usr/lib/murasaki/align-and -rwxr-xr-x root/root 211344 2016-10-22 01:39 ./usr/lib/murasaki/align-best -rwxr-xr-x root/root 231872 2016-10-22 01:39 ./usr/lib/murasaki/align-compare -rwxr-xr-x root/root 342472 2016-10-22 01:39 ./usr/lib/murasaki/align-coverage -rwxr-xr-x root/root 198992 2016-10-22 01:39 ./usr/lib/murasaki/align-or -rwxr-xr-x root/root 104760 2016-10-22 01:39 ./usr/lib/murasaki/cgr-compare -rwxr-xr-x root/root 338488 2016-10-22 01:39 ./usr/lib/murasaki/cgr-image -rwxr-xr-x root/root 112992 2016-10-22 01:39 ./usr/lib/murasaki/cgr-random -rwxr-xr-x root/root 326160 2016-10-22 01:39 ./usr/lib/murasaki/cgr-sample -rwxr-xr-x root/root 75952 2016-10-22 01:39 ./usr/lib/murasaki/testeco drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/doc/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/doc/murasaki/ -rw-r--r-- root/root 249 2016-07-12 07:25 ./usr/share/doc/murasaki/README.test -rw-r--r-- root/root 840 2016-10-22 01:39 ./usr/share/doc/murasaki/changelog.Debian.gz -rw-r--r-- root/root 2221 2016-07-12 07:25 ./usr/share/doc/murasaki/copyright drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/man/ drwxr-xr-x root/root 0 2016-10-22 01:39 ./usr/share/man/man1/ -rw-r--r-- root/root 2518 2016-10-22 01:39 ./usr/share/man/man1/geneparse.1.gz -rw-r--r-- root/root 2721 2016-10-22 01:39 ./usr/share/man/man1/mbfa.1.gz -rw-r--r-- root/root 10888 2016-10-22 01:39 ./usr/share/man/man1/murasaki.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Not removing build depends: as requested Keeping session: +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: s390x Build-Space: 166272 Build-Time: 242 Distribution: zesty-proposed Host Architecture: s390x Install-Time: 65 Job: murasaki_1.68.6-6build2.dsc Machine Architecture: s390x Package: murasaki Package-Time: 308 Source-Version: 1.68.6-6build2 Space: 166272 Status: successful Version: 1.68.6-6build2 -------------------------------------------------------------------------------- Finished at 20161022-0148 Build needed 00:05:08, 166272k disc space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-11057409'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-11057409/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-11057409'] Unmounting chroot for build PACKAGEBUILD-11057409... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-11057409'] Removing build PACKAGEBUILD-11057409