Date: Thu, 26 Sep 2013 09:32:10 GMT From: pkg-fallout@FreeBSD.org To: h2+fbsdports@fsfe.org Cc: pkg-fallout@FreeBSD.org Subject: [REL - head-amd64-default][biology/ugene] Failed for ugene-1.11.4 in build Message-ID: <201309260932.r8Q9WAG5045756@beefy2.isc.freebsd.org>
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You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: h2+fbsdports@fsfe.org Last committer: bapt@FreeBSD.org Ident: $FreeBSD: head/biology/ugene/Makefile 327709 2013-09-20 15:55:44Z bapt $ Log URL: http://beefy2.isc.freebsd.org/bulk/head-amd64-default/2013-09-26_00h44m15s/logs/ugene-1.11.4.log Build URL: http://beefy2.isc.freebsd.org/bulk/head-amd64-default/2013-09-26_00h44m15s Log: ====>> Building biology/ugene build started at Thu Sep 26 09:29:33 UTC 2013 port directory: /usr/ports/biology/ugene building for: FreeBSD head-amd64-default-job-20 10.0-CURRENT FreeBSD 10.0-CURRENT amd64 maintained by: h2+fbsdports@fsfe.org Makefile ident: $FreeBSD: head/biology/ugene/Makefile 327709 2013-09-20 15:55:44Z bapt $ Poudriere version: 3.1-pre ---Begin Environment--- OSVERSION=1000055 UNAME_v=FreeBSD 10.0-CURRENT UNAME_r=10.0-CURRENT BLOCKSIZE=K MAIL=/var/mail/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/usr/local/sbin:/usr/local/bin:/root/bin STATUS=1 MASTERMNT=/usr/local/poudriere/data/build/head-amd64-default/ref PKG_EXT=txz tpid=79705 POUDRIERE_BUILD_TYPE=bulk NBPARALLEL=24 PKGNG=1 PKGNAME=ugene-1.11.4 PKG_DELETE=/usr/local/sbin/pkg-static delete -y -f PKG_ADD=/usr/local/sbin/pkg-static add PWD=/root MASTERNAME=head-amd64-default USER=root HOME=/root POUDRIERE_VERSION=3.1-pre LOCALBASE=/usr/local PACKAGE_BUILDING=yes PKG_VERSION=/poudriere/pkg-static version ---End Environment--- ---Begin OPTIONS List--- ---End OPTIONS List--- --CONFIGURE_ARGS-- --with-qt-includes=/usr/local/include/qt4 --with-qt-libraries=/usr/local/lib/qt4 --with-extra-libs=/usr/local/lib --with-extra-includes=/usr/local/include --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- TMPDIR="/tmp" MOC="/usr/local/bin/moc-qt4" UIC="/usr/local/bin/uic-qt4" LIBS="" QMAKE="/usr/local/bin/qmake-qt4" QMAKESPEC="/usr/local/share/qt4/mkspecs/freebsd-clang" QTDIR="/usr/local" TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- TMPDIR="/tmp" QMAKESPEC="/usr/local/share/qt4/mkspecs/freebsd-clang" TMPDIR="/tmp" SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" CC="cc" CFLAGS="-O2 -pipe -fno-strict-aliasing" CPP="cpp" CPPFLAGS="" LDFLAGS="" CXX="c++" CXXFLAGS="-O2 -pipe -fno-strict-aliasing" MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -o root -g wheel -m 555" BSD_INSTALL_LIB="install -s -o root -g wheel -m 444" BSD_INSTALL_SCRIPT="install -o root -g wheel -m 555" BSD_INSTALL_DATA="install -o root -g wheel -m 444" BSD_INSTALL_MAN="install -o root -g wheel -m 444" --End MAKE_ENV-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/ugene DOCSDIR=/usr/local/share/doc/ugene EXAMPLESDIR=/usr/local/share/examples/ugene WWWDIR=/usr/local/www/ugene ETCDIR=/usr/local/etc/ugene --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PACKAGES=/packages DISTDIR=/distfiles #### /usr/local/etc/poudriere.d/make.conf #### WITH_PKGNG=yes NO_RESTRICTED=yes DISABLE_MAKE_JOBS=yes ---End make.conf--- ===> Cleaning for ugene-1.11.4 =======================<phase: check-config >============================ =========================================================================== =======================<phase: pkg-depends >============================ ===> ugene-1.11.4 depends on file: /usr/local/sbin/pkg - not found ===> Verifying install for /usr/local/sbin/pkg in /usr/ports/ports-mgmt/pkg ===> Installing existing package /packages/All/pkg-1.1.4_5.txz Installing pkg-1.1.4_5... done If you are upgrading from the old package format, first run: # pkg2ng ===> Returning to build of ugene-1.11.4 =========================================================================== =======================<phase: fetch-depends >============================ =========================================================================== =======================<phase: fetch >============================ ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by ugene-1.11.4 for building =========================================================================== =======================<phase: checksum >============================ ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by ugene-1.11.4 for building => SHA256 Checksum OK for ugene-1.11.4.tar.gz. =========================================================================== =======================<phase: extract-depends>============================ =========================================================================== =======================<phase: extract >============================ ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by ugene-1.11.4 for building ===> Extracting for ugene-1.11.4 => SHA256 Checksum OK for ugene-1.11.4.tar.gz. =========================================================================== =======================<phase: patch-depends >============================ =========================================================================== =======================<phase: patch >============================ ===> Patching for ugene-1.11.4 ===> Applying FreeBSD patches for ugene-1.11.4 =========================================================================== =======================<phase: build-depends >============================ ===> ugene-1.11.4 depends on file: /usr/local/libdata/pkgconfig/glproto.pc - not found ===> Verifying install for /usr/local/libdata/pkgconfig/glproto.pc in /usr/ports/x11/glproto ===> Installing existing package /packages/All/glproto-1.4.16.txz Installing glproto-1.4.16... done ===> Returning to build of ugene-1.11.4 ===> ugene-1.11.4 depends on file: /usr/local/libdata/pkgconfig/dri2proto.pc - not found ===> Verifying install for /usr/local/libdata/pkgconfig/dri2proto.pc in /usr/ports/x11/dri2proto ===> Installing existing package /packages/All/dri2proto-2.8.txz Installing dri2proto-2.8... done ===> Returning to build of ugene-1.11.4 ===> ugene-1.11.4 depends on file: /usr/local/libdata/pkgconfig/xtst.pc - not found ===> Verifying install for /usr/local/libdata/pkgconfig/xtst.pc in /usr/ports/x11/libXtst ===> Installing existing package /packages/All/libXtst-1.2.2.txz Installing libXtst-1.2.2...Installing xproto-7.0.24... done Installing xextproto-7.2.1... done Installing recordproto-1.14.2... done Installing libxcb-1.9.1...Installing libXdmcp-1.1.1... done Installing libXau-1.0.8... done Installing libxml2-2.8.0_2... done Installing libpthread-stubs-0.3_3... done done Installing libXi-1.7.2,1...Installing libXfixes-5.0.1...Installing libX11-1.6.1,1...Installing kbproto-1.0.6... done done Installing fixesproto-5.0... done done Installing libXext-1.3.2,1... done Installing inputproto-2.3... done done done ===> Returning to build of ugene-1.11.4 ===> ugene-1.11.4 depends on file: /usr/local/lib/qt4/libQtGui.so - not found ===> Verifying install for /usr/local/lib/qt4/libQtGui.so in /usr/ports/x11-toolkits/qt4-gui ===> Installing existing package /packages/All/qt4-gui-4.8.4.txz Installing qt4-gui-4.8.4...Installing xset-1.2.3_1...Installing libSM-1.2.1,1...Installing libICE-1.0.8,1... done done Installing libXt-1.1.4,1... done Installing libXmu-1.1.1,1... done Installing libXfontcache-1.0.5...Installing fontcacheproto-0.1.3... done done done Installing xprop-1.2.2... done Installing xineramaproto-1.2.1... done Installing renderproto-0.11.1... done Installing randrproto-1.4.0... done Installing libXrender-0.9.8... done Installing libXrandr-1.4.1... done Installing libXinerama-1.1.3,1... done Installing libXcursor-1.1.14... done Installing xorg-fonts-truetype-7.7_1...Installing mkfontscale-1.1.1...Installing libfontenc-1.1.2... done Installing freetype2-2.5.0.1... done done Installing mkfontdir-1.0.7... done Installing fontconfig-2.10.95,1...Installing expat-2.1.0... done Running fc-cache to build fontconfig cache... /usr/local/share/fonts: skipping, no such directory /usr/local/lib/X11/fonts: caching, new cache contents: 0 fonts, 1 dirs /usr/local/lib/X11/fonts/local: caching, new cache contents: 0 fonts, 0 dirs /root/.local/share/fonts: skipping, no such directory /root/.fonts: skipping, no such directory /var/db/fontconfig: cleaning cache directory /root/.cache/fontconfig: not cleaning non-existent cache directory /root/.fontconfig: not cleaning non-existent cache directory fc-cache: succeeded done Installing font-util-1.3.0... done Installing font-misc-meltho-1.0.3... done Installing font-misc-ethiopic-1.0.3... done Installing font-bh-ttf-1.0.3... done Installing encodings-1.0.4,1... done Installing dejavu-2.34... done done Installing hicolor-icon-theme-0.12... done Installing python27-2.7.5_3...Installing gettext-0.18.3... done done Installing python2-2_1... done Installing python-2.7_1,2... done Installing perl-5.14.4_1...Removing stale symlinks from /usr/bin... Skipping /usr/bin/perl Skipping /usr/bin/perl5 Done. Creating various symlinks in /usr/bin... Symlinking /usr/local/bin/perl5.14.4 to /usr/bin/perl Symlinking /usr/local/bin/perl5.14.4 to /usr/bin/perl5 Done. Removing /usr/local/etc/perl5_version... Done. Creating /usr/local/etc/perl5_version... Done. done Installing png-1.5.17... done Installing xdg-utils-1.0.2.20130919_1... done <snip> Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins_3rdparty/hmm2/hmm2.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins_3rdparty/gor4/gor4.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins_3rdparty/psipred/psipred.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins_3rdparty/phylip/phylip.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins_3rdparty/kalign/kalign.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins_3rdparty/ptools/ptools.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/biostruct3d_view/biostruct3d_view.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/chroma_view/chroma_view.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/circular_view/circular_view.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/annotator/annotator.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/dbi_bam/dbi_bam.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/dna_export/dna_export.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/dna_stat/dna_stat.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/dna_flexibility/dna_flexibility.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/dna_graphpack/dna_graphpack.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/orf_marker/orf_marker.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/workflow_designer/workflow_designer.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/repeat_finder/repeat_finder.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/test_runner/test_runner.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/perf_monitor/perf_monitor.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/smith_waterman/smith_waterman.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins_3rdparty/primer3/primer3.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/enzymes/enzymes.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/remote_blast/remote_blast.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/genome_aligner/genome_aligner.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/weight_matrix/weight_matrix.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/dotplot/dotplot.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/query_designer/query_designer.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/external_tool_support/external_tool_support.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/expert_discovery/expert_discovery.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/remote_service/remote_service.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/CoreTests/CoreTests.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/api_tests/api_tests.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/GUITestBase/GUITestBase.pro Reading /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/plugins/opencl_support/opencl_support.pro =========================================================================== =======================<phase: build >============================ ===> Building for ugene-1.11.4 cd src/libs_3rdparty/qscore/ && /usr/bin/make -f Makefile all /usr/bin/make -f Makefile.Release all clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/QScoreAdapter.o src/QScoreAdapter.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_clineshift.o src/qscore/qscore_clineshift.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_comparemap.o src/qscore/qscore_comparemap.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_comparemsa.o src/qscore/qscore_comparemsa.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_comparepair.o src/qscore/qscore_comparepair.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_context.o src/qscore/qscore_context.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_fasta.o src/qscore/qscore_fasta.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_fastq.o src/qscore/qscore_fastq.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_gapscore.o src/qscore/qscore_gapscore.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_gapscore2.o src/qscore/qscore_gapscore2.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_msa_qscore.o src/qscore/qscore_msa_qscore.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_options.o src/qscore/qscore_options.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_perseq.o src/qscore/qscore_perseq.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_qscore.o src/qscore/qscore_qscore.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_sab.o src/qscore/qscore_sab.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_seq.o src/qscore/qscore_seq.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_sumpairs.o src/qscore/qscore_sumpairs.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_tc.o src/qscore/qscore_tc.cpp clang++ -c -pipe -O2 -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DNDEBUG -DQT_NO_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/release -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/qscore_utils.o src/qscore/qscore_utils.cpp rm -f libqscore.a ar cqs libqscore.a _tmp/obj/release/QScoreAdapter.o _tmp/obj/release/qscore_clineshift.o _tmp/obj/release/qscore_comparemap.o _tmp/obj/release/qscore_comparemsa.o _tmp/obj/release/qscore_comparepair.o _tmp/obj/release/qscore_context.o _tmp/obj/release/qscore_fasta.o _tmp/obj/release/qscore_fastq.o _tmp/obj/release/qscore_gapscore.o _tmp/obj/release/qscore_gapscore2.o _tmp/obj/release/qscore_msa_qscore.o _tmp/obj/release/qscore_options.o _tmp/obj/release/qscore_perseq.o _tmp/obj/release/qscore_qscore.o _tmp/obj/release/qscore_sab.o _tmp/obj/release/qscore_seq.o _tmp/obj/release/qscore_sumpairs.o _tmp/obj/release/qscore_tc.o _tmp/obj/release/qscore_utils.o rm -f ../../_release/libqscore.a mv -f libqscore.a ../../_release/ /usr/bin/make -f Makefile.Debug all clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/QScoreAdapter.o src/QScoreAdapter.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_clineshift.o src/qscore/qscore_clineshift.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_comparemap.o src/qscore/qscore_comparemap.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_comparemsa.o src/qscore/qscore_comparemsa.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_comparepair.o src/qscore/qscore_comparepair.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_context.o src/qscore/qscore_context.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_fasta.o src/qscore/qscore_fasta.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_fastq.o src/qscore/qscore_fastq.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_gapscore.o src/qscore/qscore_gapscore.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_gapscore2.o src/qscore/qscore_gapscore2.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_msa_qscore.o src/qscore/qscore_msa_qscore.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_options.o src/qscore/qscore_options.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_perseq.o src/qscore/qscore_perseq.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_qscore.o src/qscore/qscore_qscore.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_sab.o src/qscore/qscore_sab.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_seq.o src/qscore/qscore_seq.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_sumpairs.o src/qscore/qscore_sumpairs.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_tc.o src/qscore/qscore_tc.cpp clang++ -c -pipe -g -w -fPIC -pthread -D_THREAD_SAFE -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -D_DEBUG -DQT_SCRIPT_LIB -DQT_XML_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtNetwork -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtXml -I/usr/local/include/qt4/QtScript -I/usr/local/include/qt4 -Isrc -I_tmp -I../../core/src -I../../include -I_tmp/moc/debug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/qscore_utils.o src/qscore/qscore_utils.cpp rm -f libqscored.a ar cqs libqscored.a _tmp/obj/debug/QScoreAdapter.o _tmp/obj/debug/qscore_clineshift.o _tmp/obj/debug/qscore_comparemap.o _tmp/obj/debug/qscore_comparemsa.o _tmp/obj/debug/qscore_comparepair.o _tmp/obj/debug/qscore_context.o _tmp/obj/debug/qscore_fasta.o _tmp/obj/debug/qscore_fastq.o _tmp/obj/debug/qscore_gapscore.o _tmp/obj/debug/qscore_gapscore2.o _tmp/obj/debug/qscore_msa_qscore.o _tmp/obj/debug/qscore_options.o _tmp/obj/debug/qscore_perseq.o _tmp/obj/debug/qscore_qscore.o _tmp/obj/debug/qscore_sab.o _tmp/obj/debug/qscore_seq.o _tmp/obj/debug/qscore_sumpairs.o _tmp/obj/debug/qscore_tc.o _tmp/obj/debug/qscore_utils.o rm -f ../../_debug/libqscored.a mv -f libqscored.a ../../_debug/ cd src/libs_3rdparty/sqlite3/ && /usr/bin/make -f Makefile all /usr/bin/make -f Makefile.Release all clang -c -pipe -O2 -w -pthread -D_THREAD_SAFE -fPIC -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DSQLITE_ENABLE_COLUMN_METADATA -DSQLITE_ENABLE_RTREE -DTHREADSAFE -DNDEBUG -DQT_NO_DEBUG -DQT_PLUGIN -DQT_GUI_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4 -Isrc -Irelease -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/sqlite3.o src/sqlite3.c rm -f libugenedb.so clang++ -pthread -Wl,-rpath,/usr/local/lib/qt4 -shared -o libugenedb.so _tmp/obj/release/sqlite3.o -L/usr/local/lib/qt4 -L/usr/local/lib -L../../_release -lQtGui -L/usr/local/lib -L/usr/local/lib/qt4 -lQtCore mv -f libugenedb.so ../../_release/ /usr/bin/make -f Makefile.Debug all clang -c -pipe -g -w -pthread -D_THREAD_SAFE -fPIC -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DSQLITE_ENABLE_COLUMN_METADATA -DSQLITE_ENABLE_RTREE -DTHREADSAFE -D_DEBUG -DQT_PLUGIN -DQT_GUI_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4 -Isrc -Idebug -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/debug/sqlite3.o src/sqlite3.c rm -f libugenedbd.so clang++ -pthread -Wl,-rpath,/usr/local/lib/qt4 -shared -o libugenedbd.so _tmp/obj/debug/sqlite3.o -L/usr/local/lib/qt4 -L/usr/local/lib -L../../_debug -lQtGui -L/usr/local/lib -L/usr/local/lib/qt4 -lQtCore mv -f libugenedbd.so ../../_debug/ { test -z "../../_debug/" || cd "../../_debug/"; } && test $(gdb --version | sed -e 's,[^0-9][^0-9]*\([0-9]\)\.\([0-9]\).*,\1\2,;q') -gt 72 && gdb --nx --batch --quiet -ex 'set confirm off' -ex "save gdb-index ." -ex quit 'libugenedbd.so' && test -f libugenedbd.so.gdb-index && objcopy --add-section '.gdb_index=libugenedbd.so.gdb-index' --set-section-flags '.gdb_index=readonly' 'libugenedbd.so' 'libugenedbd.so' && rm -f libugenedbd.so.gdb-index || true cd src/libs_3rdparty/gtest/ && /usr/bin/make -f Makefile all /usr/bin/make -f Makefile.Release all clang++ -c -pipe -O2 -w -pthread -D_THREAD_SAFE -fPIC -DUGENE_VERSION=1.11.4 -DUGENE_VER_MAJOR=1 -DUGENE_VER_MINOR=11 -DUGENE_VER_PATCH=4 -DUGENE_X86_64 -DUGENE_DATA_DIR=\"/usr/local/share/ugene\" -DGTEST_CREATE_SHARED_LIBRARY=1 -DNDEBUG -DQT_NO_DEBUG -DQT_PLUGIN -DQT_GUI_LIB -DQT_CORE_LIB -DQT_SHARED -I/usr/local/share/qt4/mkspecs/freebsd-clang -I. -I/usr/local/include/qt4/QtCore -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4 -Isrc -Irelease -I/usr/local/include/qt4 -I/usr/local/include -o _tmp/obj/release/gtest-all.o src/gtest-all.cc In file included from src/gtest-all.cc:39: In file included from src/gtest/gtest.h:61: In file included from src/gtest/gtest-param-test.h:192: In file included from src/gtest/internal/gtest-param-util.h:47: src/gtest/gtest-printers.h:497:34: error: no member named 'tr1' in namespace 'std' inline void PrintTo(const ::std::tr1::tuple<>& t, ::std::ostream* os) { ~~~~~~~^ src/gtest/gtest-printers.h:497:44: error: expected ')' inline void PrintTo(const ::std::tr1::tuple<>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:497:20: note: to match this '(' inline void PrintTo(const ::std::tr1::tuple<>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:498:16: error: use of undeclared identifier 't' PrintTupleTo(t, os); ^ src/gtest/gtest-printers.h:502:27: error: no member named 'tr1' in namespace 'std' void PrintTo(const ::std::tr1::tuple<T1>& t, ::std::ostream* os) { ~~~~~~~^ src/gtest/gtest-printers.h:502:37: error: expected ')' void PrintTo(const ::std::tr1::tuple<T1>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:502:13: note: to match this '(' void PrintTo(const ::std::tr1::tuple<T1>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:503:16: error: use of undeclared identifier 't' PrintTupleTo(t, os); ^ src/gtest/gtest-printers.h:507:27: error: no member named 'tr1' in namespace 'std' void PrintTo(const ::std::tr1::tuple<T1, T2>& t, ::std::ostream* os) { ~~~~~~~^ src/gtest/gtest-printers.h:507:37: error: expected ')' void PrintTo(const ::std::tr1::tuple<T1, T2>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:507:13: note: to match this '(' void PrintTo(const ::std::tr1::tuple<T1, T2>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:508:16: error: use of undeclared identifier 't' PrintTupleTo(t, os); ^ src/gtest/gtest-printers.h:512:27: error: no member named 'tr1' in namespace 'std' void PrintTo(const ::std::tr1::tuple<T1, T2, T3>& t, ::std::ostream* os) { ~~~~~~~^ src/gtest/gtest-printers.h:512:37: error: expected ')' void PrintTo(const ::std::tr1::tuple<T1, T2, T3>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:512:13: note: to match this '(' void PrintTo(const ::std::tr1::tuple<T1, T2, T3>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:513:16: error: use of undeclared identifier 't' PrintTupleTo(t, os); ^ src/gtest/gtest-printers.h:517:27: error: no member named 'tr1' in namespace 'std' void PrintTo(const ::std::tr1::tuple<T1, T2, T3, T4>& t, ::std::ostream* os) { ~~~~~~~^ src/gtest/gtest-printers.h:517:37: error: expected ')' void PrintTo(const ::std::tr1::tuple<T1, T2, T3, T4>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:517:13: note: to match this '(' void PrintTo(const ::std::tr1::tuple<T1, T2, T3, T4>& t, ::std::ostream* os) { ^ src/gtest/gtest-printers.h:518:16: error: use of undeclared identifier 't' PrintTupleTo(t, os); ^ src/gtest/gtest-printers.h:522:27: error: no member named 'tr1' in namespace 'std' void PrintTo(const ::std::tr1::tuple<T1, T2, T3, T4, T5>& t, ~~~~~~~^ src/gtest/gtest-printers.h:522:37: error: expected ')' void PrintTo(const ::std::tr1::tuple<T1, T2, T3, T4, T5>& t, ^ src/gtest/gtest-printers.h:522:13: note: to match this '(' void PrintTo(const ::std::tr1::tuple<T1, T2, T3, T4, T5>& t, ^ src/gtest/gtest-printers.h:524:16: error: use of undeclared identifier 't' PrintTupleTo(t, os); ^ src/gtest/gtest-printers.h:529:27: error: no member named 'tr1' in namespace 'std' void PrintTo(const ::std::tr1::tuple<T1, T2, T3, T4, T5, T6>& t, ~~~~~~~^ fatal error: too many errors emitted, stopping now [-ferror-limit=] 20 errors generated. *** Error code 1 Stop. make[3]: stopped in /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/libs_3rdparty/gtest *** Error code 1 Stop. make[2]: stopped in /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4/src/libs_3rdparty/gtest *** Error code 1 Stop. make[1]: stopped in /wrkdirs/usr/ports/biology/ugene/work/ugene-1.11.4 *** Error code 1 Stop. make: stopped in /usr/ports/biology/ugene ===> Cleaning for ugene-1.11.4
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