[REL - 10i386-default][biology/ugene] Failed for ugene-1.11.4 in build
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Thu Oct 24 11:32:33 UTC 2013
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 at fsfe.org
Last committer: bapt at FreeBSD.org
Ident: $FreeBSD: head/biology/ugene/Makefile 327709 2013-09-20 15:55:44Z bapt $
Log URL: http://beefy1.isc.freebsd.org/bulk/10i386-default/2013-10-24_02h52m55s/logs/ugene-1.11.4.log
Build URL: http://beefy1.isc.freebsd.org/bulk/10i386-default/2013-10-24_02h52m55s
Log:
====>> Building biology/ugene
build started at Thu Oct 24 11:30:29 UTC 2013
port directory: /usr/ports/biology/ugene
building for: FreeBSD 10i386-default-job-04 10.0-BETA1 FreeBSD 10.0-BETA1 r256420 i386
maintained by: h2+fbsdports at fsfe.org
Makefile ident: $FreeBSD: head/biology/ugene/Makefile 327709 2013-09-20 15:55:44Z bapt $
Poudriere version: 3.1-pre
---Begin Environment---
UNAME_m=i386
UNAME_p=i386
OSVERSION=1000500
UNAME_v=FreeBSD 10.0-BETA1 r256420
UNAME_r=10.0-BETA1
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/10i386-default/ref
PKG_EXT=txz
tpid=43116
POUDRIERE_BUILD_TYPE=bulk
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=10i386-default
USER=root
HOME=/root
POUDRIERE_VERSION=3.1-pre
LOCALBASE=/usr/local
PACKAGE_BUILDING=yes
PKG_VERSION=/poudriere/pkg-static version
PKG_BIN=/usr/local/sbin/pkg-static
---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---
ARCH=i386
MACHINE=i386
MACHINE_ARCH=i386
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
#### /usr/local/etc/poudriere.d/make.conf ####
WITH_PKGNG=yes
NO_RESTRICTED=yes
DISABLE_MAKE_JOBS=poudriere
---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_8.txz
Installing pkg-1.1.4_8... 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_4... done
done
Installing libXi-1.7.2,1...Installing libXfixes-5.0.1...Installing libX11-1.6.2,1...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-4.8.5.txz
Installing qt4-gui-4.8.5...Installing dejavu-2.34...Installing fontconfig-2.10.95,1...Installing expat-2.1.0... done
Installing freetype2-2.5.0.1... 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
done
Installing encodings-1.0.4,1...Installing font-util-1.3.0... done
done
Installing font-bh-ttf-1.0.3...Installing mkfontscale-1.1.1...Installing libfontenc-1.1.2... done
done
Installing mkfontdir-1.0.7... done
done
Installing font-misc-ethiopic-1.0.3... done
Installing font-misc-meltho-1.0.3... done
Installing fontcacheproto-0.1.3... done
Installing gettext-0.18.3.1... done
Installing glib-2.36.3...Installing python27-2.7.5_3... done
Installing python2-2_1... done
Installing python-2.7_1,2... done
Installing perl-5.14.4_2...Removing /usr/local/etc/perl5_version... Done.
Creating /usr/local/etc/perl5_version... Done.
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.
done
Installing pcre-8.33... done
Installing libffi-3.0.13... done
No schema files found: doing nothing.
done
Installing hicolor-icon-theme-0.12... done
Installing icu-50.1.2... done
Installing libICE-1.0.8,1... done
Installing libSM-1.2.2,1... done
Installing libXcursor-1.1.14...Installing renderproto-0.11.1... done
Installing libXrender-0.9.8... done
done
Installing libXfontcache-1.0.5... 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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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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