Building seqan-1.3.1_2.txz (origin /buildshare/ports/355755/biology/seqan) for powerpc-10-0 on XXX Pre-existing file system for this slot! slot2: removed slot2: created x distfiles/ x distfiles/seqan-1.3.1.zip x packages/ x packages/cmake-2.8.12.1_4.txz x packages/python27-2.7.6_4.txz x packages/cmake-modules-2.8.12.1_1.txz x packages/pkg-1.2.7_2.txz x packages/gettext-0.18.3.1_1.txz ELF ldconfig path: /lib /usr/lib /usr/lib/compat Make depends ===> seqan-1.3.1_2 depends on file: /usr/local/sbin/pkg - not found ===> Verifying install for /usr/local/sbin/pkg in /buildshare/ports/355755/ports-mgmt/pkg ===> Installing existing package /packages/pkg-1.2.7_2.txz Installing pkg-1.2.7_2... done If you are upgrading from the old package format, first run: # pkg2ng ===> Returning to build of seqan-1.3.1_2 ===> seqan-1.3.1_2 depends on file: /usr/local/bin/python2.7 - not found ===> Verifying install for /usr/local/bin/python2.7 in /buildshare/ports/355755/lang/python27 ===> Installing existing package /packages/python27-2.7.6_4.txz Installing python27-2.7.6_4...Installing gettext-0.18.3.1_1... done done ==== Note that some of the standard modules are provided as separate ports since they require extra dependencies: bsddb databases/py-bsddb gdbm databases/py-gdbm sqlite3 databases/py-sqlite3 tkinter x11-toolkits/py-tkinter Install them as needed. ==== ===> Returning to build of seqan-1.3.1_2 ===> seqan-1.3.1_2 depends on file: /usr/local/bin/cmake - not found ===> Verifying install for /usr/local/bin/cmake in /buildshare/ports/355755/devel/cmake ===> Installing existing package /packages/cmake-2.8.12.1_4.txz Installing cmake-2.8.12.1_4...Installing cmake-modules-2.8.12.1_1... done done ===> Returning to build of seqan-1.3.1_2 Make install ===> License BSD GPLv3 accepted by the user ===> seqan-1.3.1_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by seqan-1.3.1_2 for building ===> Extracting for seqan-1.3.1_2 => SHA256 Checksum OK for seqan-1.3.1.zip. ===> Patching for seqan-1.3.1_2 ===> Applying FreeBSD patches for seqan-1.3.1_2 ===> seqan-1.3.1_2 depends on file: /usr/local/bin/python2.7 - found ===> seqan-1.3.1_2 depends on file: /usr/local/bin/cmake - found ===> Configuring for seqan-1.3.1_2 ===> Performing out-of-source build /bin/mkdir -p /obj/buildshare/ports/355755/biology/seqan/work/.build -- The C compiler identification is GNU 4.2.1 -- The CXX compiler identification is GNU 4.2.1 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Found PythonInterp: /usr/local/bin/python2.7 (found suitable version "2.7.6", minimum required is "2.7") Determining GCC version. GCC version is 421 -- Try OpenMP C flag = [-fopenmp] -- Performing Test OpenMP_FLAG_DETECTED -- Performing Test OpenMP_FLAG_DETECTED - Success -- Try OpenMP CXX flag = [-fopenmp] -- Performing Test OpenMP_FLAG_DETECTED -- Performing Test OpenMP_FLAG_DETECTED - Success -- Performing Test TR1_SHARED_PTR_USE_TR1_MEMORY -- Performing Test TR1_SHARED_PTR_USE_TR1_MEMORY - Success -- Performing Test TR1_SHARED_PTR_USE_MEMORY -- Performing Test TR1_SHARED_PTR_USE_MEMORY - Failed -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_C_FLAGS_DEBUG CMAKE_MODULE_LINKER_FLAGS CMAKE_SHARED_LINKER_FLAGS PythonLibs_FIND_VERSION THREADS_HAVE_PTHREAD_ARG -- Build files have been written to: /obj/buildshare/ports/355755/biology/seqan/work/.build ===> Building for seqan-1.3.1_2 /usr/local/bin/cmake -H/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/cmake -B/obj/buildshare/ports/355755/biology/seqan/work/.build --check-build-system 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/obj/buildshare/ports/355755/biology/seqan/work/.build /obj/buildshare/ports/355755/biology/seqan/work/.build /obj/buildshare/ports/355755/biology/seqan/work/.build/CMakeFiles/Seqan.dir/DependInfo.cmake Scanning dependencies of target Seqan /usr/bin/make -f CMakeFiles/Seqan.dir/build.make CMakeFiles/Seqan.dir/build /usr/local/bin/cmake -E cmake_progress_report /obj/buildshare/ports/355755/biology/seqan/work/.build/CMakeFiles [ 13%] Built target Seqan /usr/bin/make -f apps/CMakeFiles/dfi.dir/build.make apps/CMakeFiles/dfi.dir/depend cd /obj/buildshare/ports/355755/biology/seqan/work/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/cmake /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/cmake/apps /obj/buildshare/ports/355755/biology/seqan/work/.build /obj/buildshare/ports/355755/biology/seqan/work/.build/apps /obj/buildshare/ports/355755/biology/seqan/work/.build/apps/CMakeFiles/dfi.dir/DependInfo.cmake Scanning dependencies of target dfi /usr/bin/make -f apps/CMakeFiles/dfi.dir/build.make apps/CMakeFiles/dfi.dir/build /usr/local/bin/cmake -E cmake_progress_report /obj/buildshare/ports/355755/biology/seqan/work/.build/CMakeFiles 19 [ 14%] Building CXX object apps/CMakeFiles/dfi.dir/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/dfi/dfi.cpp.o cd /obj/buildshare/ports/355755/biology/seqan/work/.build/apps && /usr/bin/c++ -O2 -pipe -fno-strict-aliasing -W -Wall -Wno-long-long -pedantic -Wno-variadic-macros -fopenmp -DSEQAN_HAS_SAMTOOLS=1 -DSEQAN_ENABLE_TESTING=0 -O2 -pipe -fno-strict-aliasing -DSEQAN_ENABLE_DEBUG=0 -I/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/lib/samtools -I/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1 -o CMakeFiles/dfi.dir/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/dfi/dfi.cpp.o -c /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/dfi/dfi.cpp /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h: In function 'int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool) [with TPredHull = PredMinAllSupp, TPred = PredEntropy, TAlphabet = seqan::SimpleType, TParamPredHull = double, TParamPred = double, TFileNames = seqan::String >, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h: In function 'int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool) [with TPredHull = PredMinFreq, TPred = PredMaxFreq, TAlphabet = seqan::SimpleType, TParamPredHull = seqan::String >, TParamPred = seqan::String >, TFileNames = seqan::String >, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h: In function 'int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool) [with TPredHull = PredMinSupp, TPred = PredEmerging, TAlphabet = seqan::SimpleType, TParamPredHull = double, TParamPred = double, TFileNames = seqan::String >, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h: In function 'int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool) [with TPredHull = PredMinAllSupp, TPred = PredEntropy, TAlphabet = seqan::SimpleType, TParamPredHull = double, TParamPred = double, TFileNames = seqan::String >, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h: In function 'int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool) [with TPredHull = PredMinSupp, TPred = PredEmerging, TAlphabet = seqan::SimpleType, TParamPredHull = double, TParamPred = double, TFileNames = seqan::String >, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h: In function 'int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool) [with TPredHull = PredMinFreq, TPred = PredMaxFreq, TAlphabet = unsigned char, TParamPredHull = seqan::String >, TParamPred = seqan::String >, TFileNames = seqan::String >, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h: In function 'int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool) [with TPredHull = PredMinAllSupp, TPred = PredEntropy, TAlphabet = unsigned char, TParamPredHull = double, TParamPred = double, TFileNames = seqan::String >, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h: In function 'int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool) [with TPredHull = PredMinFreq, TPred = PredMaxFreq, TAlphabet = seqan::SimpleType, TParamPredHull = seqan::String >, TParamPred = seqan::String >, TFileNames = seqan::String >, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h: In function 'int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool) [with TPredHull = PredMinSupp, TPred = PredEmerging, TAlphabet = unsigned char, TParamPredHull = double, TParamPred = double, TFileNames = seqan::String >, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i1' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: warning: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' may be used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/index/index_wotd.h:866: note: 'desc.seqan::VertexWotdModified_::range.seqan::Pair::i2' was declared here Linking CXX executable dfi cd /obj/buildshare/ports/355755/biology/seqan/work/.build/apps && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/dfi.dir/link.txt --verbose=1 /usr/bin/c++ -O2 -pipe -fno-strict-aliasing -W -Wall -Wno-long-long -pedantic -Wno-variadic-macros -fopenmp -DSEQAN_HAS_SAMTOOLS=1 -DSEQAN_ENABLE_TESTING=0 -O2 -pipe -fno-strict-aliasing -DSEQAN_ENABLE_DEBUG=0 CMakeFiles/dfi.dir/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/dfi/dfi.cpp.o -o dfi -L/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/lib -lz -Wl,-rpath,/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/lib: /usr/local/bin/cmake -E cmake_progress_report /obj/buildshare/ports/355755/biology/seqan/work/.build/CMakeFiles 19 [ 14%] Built target dfi /usr/bin/make -f apps/CMakeFiles/insegt.dir/build.make apps/CMakeFiles/insegt.dir/depend cd /obj/buildshare/ports/355755/biology/seqan/work/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/cmake /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/cmake/apps /obj/buildshare/ports/355755/biology/seqan/work/.build /obj/buildshare/ports/355755/biology/seqan/work/.build/apps /obj/buildshare/ports/355755/biology/seqan/work/.build/apps/CMakeFiles/insegt.dir/DependInfo.cmake Scanning dependencies of target insegt /usr/bin/make -f apps/CMakeFiles/insegt.dir/build.make apps/CMakeFiles/insegt.dir/build /usr/local/bin/cmake -E cmake_progress_report /obj/buildshare/ports/355755/biology/seqan/work/.build/CMakeFiles 44 [ 15%] Building CXX object apps/CMakeFiles/insegt.dir/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/insegt/insegt.cpp.o cd /obj/buildshare/ports/355755/biology/seqan/work/.build/apps && /usr/bin/c++ -O2 -pipe -fno-strict-aliasing -W -Wall -Wno-long-long -pedantic -Wno-variadic-macros -fopenmp -DSEQAN_HAS_SAMTOOLS=1 -DSEQAN_ENABLE_TESTING=0 -O2 -pipe -fno-strict-aliasing -DSEQAN_ENABLE_DEBUG=0 -I/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/lib/samtools -I/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1 -o CMakeFiles/insegt.dir/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/insegt/insegt.cpp.o -c /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/insegt/insegt.cpp /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/basic/basic_aggregates.h: In function 'typename seqan::Value >, 0>::Type& seqan::value(seqan::Map >&, const TKey2&) [with TValue = seqan::Pair, TSpec = const seqan::Tag, TKey2 = unsigned int]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/basic/basic_aggregates.h:83: warning: 'val_temp.seqan::Pair::i2' is used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/map/map_skiplist.h:657: note: 'val_temp.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/basic/basic_aggregates.h: In function 'void seqan::createAnnoCountGFF(TFile&, TAnnoCountStore&, TAnnoNormStore&, seqan::FragmentStore&, TMap&) [with TFile = std::fstream, TAnnoCountStore = seqan::String >, TAnnoNormStore = seqan::String >, TSpec = void, TConfig = seqan::FragmentStoreConfig, TMap = seqan::Map, seqan::Skiplist > >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/basic/basic_aggregates.h:83: warning: 'val_temp.seqan::Pair::i2' is used uninitialized in this function /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/seqan/map/map_skiplist.h:657: note: 'val_temp.seqan::Pair::i2' was declared here /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/insegt/overlap_module.h: In function 'void seqan::buildAnnoCountStore(TAnnoCountStore&, seqan::FragmentStore&, TReadAnnoStore&) [with TAnnoCountStore = seqan::String >, TSpec = void, TConfig = seqan::FragmentStoreConfig, TReadAnnoStore = seqan::String, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/insegt/overlap_module.h:445: warning: 'secReadId' may be used uninitialized in this function Linking CXX executable insegt cd /obj/buildshare/ports/355755/biology/seqan/work/.build/apps && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/insegt.dir/link.txt --verbose=1 /usr/bin/c++ -O2 -pipe -fno-strict-aliasing -W -Wall -Wno-long-long -pedantic -Wno-variadic-macros -fopenmp -DSEQAN_HAS_SAMTOOLS=1 -DSEQAN_ENABLE_TESTING=0 -O2 -pipe -fno-strict-aliasing -DSEQAN_ENABLE_DEBUG=0 CMakeFiles/insegt.dir/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/insegt/insegt.cpp.o -o insegt -L/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/lib -lz -Wl,-rpath,/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/lib: /usr/local/bin/cmake -E cmake_progress_report /obj/buildshare/ports/355755/biology/seqan/work/.build/CMakeFiles 44 [ 15%] Built target insegt /usr/bin/make -f apps/CMakeFiles/mason.dir/build.make apps/CMakeFiles/mason.dir/depend cd /obj/buildshare/ports/355755/biology/seqan/work/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/cmake /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/cmake/apps /obj/buildshare/ports/355755/biology/seqan/work/.build /obj/buildshare/ports/355755/biology/seqan/work/.build/apps /obj/buildshare/ports/355755/biology/seqan/work/.build/apps/CMakeFiles/mason.dir/DependInfo.cmake Scanning dependencies of target mason /usr/bin/make -f apps/CMakeFiles/mason.dir/build.make apps/CMakeFiles/mason.dir/build /usr/local/bin/cmake -E cmake_progress_report /obj/buildshare/ports/355755/biology/seqan/work/.build/CMakeFiles 47 [ 16%] Building CXX object apps/CMakeFiles/mason.dir/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/mason/mason.cpp.o cd /obj/buildshare/ports/355755/biology/seqan/work/.build/apps && /usr/bin/c++ -O2 -pipe -fno-strict-aliasing -W -Wall -Wno-long-long -pedantic -Wno-variadic-macros -fopenmp -DSEQAN_HAS_SAMTOOLS=1 -DSEQAN_ENABLE_TESTING=0 -O2 -pipe -fno-strict-aliasing -DSEQAN_ENABLE_DEBUG=0 -I/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/lib/samtools -I/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1 -o CMakeFiles/mason.dir/obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/mason/mason.cpp.o -c /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/mason/mason.cpp /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/mason/simulate_illumina.h: In function 'void applySimulationInstructions(TString&, TRNG&, const ReadSimulationInstruction >&, const Options >&) [with TRNG = seqan::Rng, TString = seqan::String, seqan::Alloc >]': /obj/buildshare/ports/355755/biology/seqan/work/seqan-1.3.1/apps/mason/simulate_illumina.h:461: internal compiler error: Segmentation fault Please submit a full bug report, with preprocessed source if appropriate. See for instructions. *** Error code 1 Stop. make[3]: stopped in /obj/buildshare/ports/355755/biology/seqan/work/.build *** Error code 1 Stop. make[2]: stopped in /obj/buildshare/ports/355755/biology/seqan/work/.build *** Error code 1 Stop. make[1]: stopped in /obj/buildshare/ports/355755/biology/seqan/work/.build *** Error code 1 Stop. make: stopped in /buildshare/ports/355755/biology/seqan