graph-tool January 2015

graph-tool@skewed.de

12 participants
27 discussions

Regarding installation
by Sakshi Bharti 21 Jan '15

21 Jan '15

Hello I am installing graph tools in my Biolinux 7 machine.. I installed boost and the commands used for compilation are % sudo ./bootstrap.sh [12:38PM] [sudo] password for oilseed31: Building Boost.Build engine with toolset gcc... tools/build/src/engine/bin.linuxx86_64/b2 Detecting Python version... 2.7 Detecting Python root... /usr Unicode/ICU support for Boost.Regex?... /usr Backing up existing Boost.Build configuration in project-config.jam.2 Generating Boost.Build configuration in project-config.jam... Bootstrapping is done. To build, run: ./b2 To adjust configuration, edit 'project-config.jam'. Further information: - Command line help: ./b2 --help - Getting started guide: http://www.boost.org/more/getting_started/unix-variants.html - Boost.Build documentation: http://www.boost.org/boost-build2/doc/html/index.html % sudo ./b2 [12:39PM] Building the Boost C++ Libraries. Performing configuration checks - 32-bit : no (cached) - 64-bit : yes (cached) - arm : no (cached) - mips1 : no (cached) - power : no (cached) - sparc : no (cached) - x86 : yes (cached) - lockfree boost::atomic_flag : yes (cached) - has_icu builds : yes (cached) warning: Graph library does not contain MPI-based parallel components. note: to enable them, add "using mpi ;" to your user-config.jam - zlib : yes (cached) - iconv (libc) : yes (cached) - icu : yes (cached) - compiler-supports-ssse3 : yes (cached) - compiler-supports-avx2 : no (cached) - gcc visibility : yes (cached) - long double support : yes (cached) warning: skipping optional Message Passing Interface (MPI) library. note: to enable MPI support, add "using mpi ;" to user-config.jam. note: to suppress this message, pass "--without-mpi" to bjam. note: otherwise, you can safely ignore this message. - zlib : yes (cached) Component configuration: - atomic : building - chrono : building - container : building - context : building - coroutine : building - date_time : building - exception : building - filesystem : building - graph : building - graph_parallel : building - iostreams : building - locale : building - log : building - math : building - mpi : building - program_options : building - python : building - random : building - regex : building - serialization : building - signals : building - system : building - test : building - thread : building - timer : building - wave : building ...patience... ...patience... ...patience... ...patience... ...patience... ...patience... ...found 13350 targets... The Boost C++ Libraries were successfully built! The following directory should be added to compiler include paths: /home/oilseed31/Downloads/boost_1_57_0 The following directory should be added to linker library paths: /home/oilseed31/Downloads/boost_1_57_0/stage/lib But when I installed graphtool the commands used are % ./configure [ 9:46AM] checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make supports nested variables... (cached) yes checking for style of include used by make... GNU checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... gcc3 checking for library containing strerror... none required checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking minix/config.h usability... no checking minix/config.h presence... no checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... gcc3 checking for gcc option to accept ISO C99... unsupported checking for gcc option to accept ISO C89... (cached) none needed checking for gcc option to accept ISO Standard C... (cached) none needed checking how to run the C++ preprocessor... g++ -E checking for ANSI C header files... (cached) yes checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... mt checking if mt is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking target system type... x86_64-unknown-linux-gnu checking whether to enable debug info...... no checking whether C++ compiler supports -std=gnu++11... no checking whether to enable function inlining...... yes checking whether to enable optimizations...... yes checking whether to enable symbol visibility manipulation...... yes checking whether to enable parallel algorithms with openmp...... no checking whether to enable cairo drawing...... yes checking for main in -lm... yes checking for main in -lbz2... yes checking for main in -lexpat... yes ================ Detecting python ================ checking for a Python interpreter with version >= 2.6... python checking for python... /usr/bin/python checking for python version... 2.7 checking for python platform... linux2 checking for python script directory... ${prefix}/lib/python2.7/dist-packages checking for python extension module directory... ${exec_prefix}/lib/python2.7/dist-packages checking for python2.7... (cached) /usr/bin/python checking for a version of Python >= '2.1.0'... yes checking for a version of Python == '2.7.3'... yes checking for the distutils Python package... yes checking for Python include path... -I/usr/include/python2.7 checking for Python library path... -L/usr/lib -lpython2.7 checking for Python site-packages path... /usr/lib/python2.7/dist-packages checking python extra libraries... -lpthread -ldl -lutil -lm checking python extra linking flags... -Xlinker -export-dynamic -Wl,-O1 -Wl,-Bsymbolic-functions checking consistency of all components of python development environment... yes graph-tool will be installed at: /usr/lib/python2.7/dist-packages =========================== Using python version: 2.7.3 =========================== checking for boostlib >= 1.53.0... yes checking whether the Boost::Python library is available... yes checking for exit in -lboost_python... yes checking whether the Boost::Iostreams library is available... yes checking for exit in -lboost_iostreams... yes checking whether the Boost::Regex library is available... yes checking for exit in -lboost_regex... yes checking whether the Boost::Graph library is available... yes checking for exit in -lboost_graph... yes checking for main in -lCGAL... yes checking whether to cgal debbuging with valgrind...... no checking python module: numpy... yes checking for /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h... yes checking python module: scipy... yes checking /usr/lib/python2.7/dist-packages/scipy/weave/scxx/object.h usability... yes checking /usr/lib/python2.7/dist-packages/scipy/weave/scxx/object.h presence... yes checking for /usr/lib/python2.7/dist-packages/scipy/weave/scxx/object.h... yes checking expat.h usability... yes checking expat.h presence... yes checking for expat.h... yes checking CGAL/version.h usability... yes checking CGAL/version.h presence... yes checking for CGAL/version.h... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for CAIROMM... no configure: error: Package requirements (cairomm-1.0) were not met: Package expat was not found in the pkg-config search path. Perhaps you should add the directory containing `expat.pc' to the PKG_CONFIG_PATH environment variable Package 'expat', required by 'Fontconfig', not found Consider adjusting the PKG_CONFIG_PATH environment variable if you installed software in a non-standard prefix. Alternatively, you may set the environment variables CAIROMM_CFLAGS and CAIROMM_LIBS to avoid the need to call pkg-config. See the pkg-config man page for more details. % ./configure --disable-cairo [ 9:50AM] checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make supports nested variables... (cached) yes checking for style of include used by make... GNU checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... gcc3 checking for library containing strerror... none required checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking minix/config.h usability... no checking minix/config.h presence... no checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... gcc3 checking for gcc option to accept ISO C99... unsupported checking for gcc option to accept ISO C89... (cached) none needed checking for gcc option to accept ISO Standard C... (cached) none needed checking how to run the C++ preprocessor... g++ -E checking for ANSI C header files... (cached) yes checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... mt checking if mt is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking target system type... x86_64-unknown-linux-gnu checking whether to enable debug info...... no checking whether C++ compiler supports -std=gnu++11... no checking whether to enable function inlining...... yes checking whether to enable optimizations...... yes checking whether to enable symbol visibility manipulation...... yes checking whether to enable parallel algorithms with openmp...... no checking whether to enable cairo drawing...... no checking for main in -lm... yes checking for main in -lbz2... yes checking for main in -lexpat... yes ================ Detecting python ================ checking for a Python interpreter with version >= 2.6... python checking for python... /usr/bin/python checking for python version... 2.7 checking for python platform... linux2 checking for python script directory... ${prefix}/lib/python2.7/dist-packages checking for python extension module directory... ${exec_prefix}/lib/python2.7/dist-packages checking for python2.7... (cached) /usr/bin/python checking for a version of Python >= '2.1.0'... yes checking for a version of Python == '2.7.3'... yes checking for the distutils Python package... yes checking for Python include path... -I/usr/include/python2.7 checking for Python library path... -L/usr/lib -lpython2.7 checking for Python site-packages path... /usr/lib/python2.7/dist-packages checking python extra libraries... -lpthread -ldl -lutil -lm checking python extra linking flags... -Xlinker -export-dynamic -Wl,-O1 -Wl,-Bsymbolic-functions checking consistency of all components of python development environment... yes graph-tool will be installed at: /usr/lib/python2.7/dist-packages =========================== Using python version: 2.7.3 =========================== checking for boostlib >= 1.53.0... yes checking whether the Boost::Python library is available... yes checking for exit in -lboost_python... yes checking whether the Boost::Iostreams library is available... yes checking for exit in -lboost_iostreams... yes checking whether the Boost::Regex library is available... yes checking for exit in -lboost_regex... yes checking whether the Boost::Graph library is available... yes checking for exit in -lboost_graph... yes checking for main in -lCGAL... yes checking whether to cgal debbuging with valgrind...... no checking python module: numpy... yes checking for /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h... yes checking python module: scipy... yes checking /usr/lib/python2.7/dist-packages/scipy/weave/scxx/object.h usability... yes checking /usr/lib/python2.7/dist-packages/scipy/weave/scxx/object.h presence... yes checking for /usr/lib/python2.7/dist-packages/scipy/weave/scxx/object.h... yes checking expat.h usability... yes checking expat.h presence... yes checking for expat.h... yes checking CGAL/version.h usability... yes checking CGAL/version.h presence... yes checking for CGAL/version.h... yes checking whether to enable sparsehash...... yes checking for SPARSEHASH... no not found by pkgconfig, trying default... checking sparsehash/dense_hash_set usability... no checking sparsehash/dense_hash_set presence... no checking for sparsehash/dense_hash_set... no configure: error: sparsehash headers not found % ./configure --disable-sparsehash --disable-cairo [ 9:51AM] checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make supports nested variables... (cached) yes checking for style of include used by make... GNU checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... gcc3 checking for library containing strerror... none required checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking minix/config.h usability... no checking minix/config.h presence... no checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... gcc3 checking for gcc option to accept ISO C99... unsupported checking for gcc option to accept ISO C89... (cached) none needed checking for gcc option to accept ISO Standard C... (cached) none needed checking how to run the C++ preprocessor... g++ -E checking for ANSI C header files... (cached) yes checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... mt checking if mt is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking target system type... x86_64-unknown-linux-gnu checking whether to enable debug info...... no checking whether C++ compiler supports -std=gnu++11... no checking whether to enable function inlining...... yes checking whether to enable optimizations...... yes checking whether to enable symbol visibility manipulation...... yes checking whether to enable parallel algorithms with openmp...... no checking whether to enable cairo drawing...... no checking for main in -lm... yes checking for main in -lbz2... yes checking for main in -lexpat... yes ================ Detecting python ================ checking for a Python interpreter with version >= 2.6... python checking for python... /usr/bin/python checking for python version... 2.7 checking for python platform... linux2 checking for python script directory... ${prefix}/lib/python2.7/dist-packages checking for python extension module directory... ${exec_prefix}/lib/python2.7/dist-packages checking for python2.7... (cached) /usr/bin/python checking for a version of Python >= '2.1.0'... yes checking for a version of Python == '2.7.3'... yes checking for the distutils Python package... yes checking for Python include path... -I/usr/include/python2.7 checking for Python library path... -L/usr/lib -lpython2.7 checking for Python site-packages path... /usr/lib/python2.7/dist-packages checking python extra libraries... -lpthread -ldl -lutil -lm checking python extra linking flags... -Xlinker -export-dynamic -Wl,-O1 -Wl,-Bsymbolic-functions checking consistency of all components of python development environment... yes graph-tool will be installed at: /usr/lib/python2.7/dist-packages =========================== Using python version: 2.7.3 =========================== checking for boostlib >= 1.53.0... yes checking whether the Boost::Python library is available... yes checking for exit in -lboost_python... yes checking whether the Boost::Iostreams library is available... yes checking for exit in -lboost_iostreams... yes checking whether the Boost::Regex library is available... yes checking for exit in -lboost_regex... yes checking whether the Boost::Graph library is available... yes checking for exit in -lboost_graph... yes checking for main in -lCGAL... yes checking whether to cgal debbuging with valgrind...... no checking python module: numpy... yes checking for /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h... yes checking python module: scipy... yes checking /usr/lib/python2.7/dist-packages/scipy/weave/scxx/object.h usability... yes checking /usr/lib/python2.7/dist-packages/scipy/weave/scxx/object.h presence... yes checking for /usr/lib/python2.7/dist-packages/scipy/weave/scxx/object.h... yes checking expat.h usability... yes checking expat.h presence... yes checking for expat.h... yes checking CGAL/version.h usability... yes checking CGAL/version.h presence... yes checking for CGAL/version.h... yes checking whether to enable sparsehash...... no checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/graph/Makefile config.status: creating src/graph/centrality/Makefile config.status: creating src/graph/clustering/Makefile config.status: creating src/graph/community/Makefile config.status: creating src/graph/correlations/Makefile config.status: creating src/graph/draw/Makefile config.status: creating src/graph/flow/Makefile config.status: creating src/graph/generation/Makefile config.status: creating src/graph/layout/Makefile config.status: creating src/graph/search/Makefile config.status: creating src/graph/spectral/Makefile config.status: creating src/graph/stats/Makefile config.status: creating src/graph/topology/Makefile config.status: creating src/graph/util/Makefile config.status: creating src/graph_tool/Makefile config.status: creating config.h config.status: config.h is unchanged config.status: executing depfiles commands config.status: executing libtool commands configure: Modifying libtool to correctly link libstdc++ before anything else.. sudo make ::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0l>, LastIterator = boost::mpl::v_iter<boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 6l>, TransformFunc = boost::mpl::identity<mpl_::na>, F = boost::mpl::inner_loop<boost::mpl::dispatch<boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > >, boost::adj_list<long unsigned int>*>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >]’ /usr/local/include/boost/mpl/for_each.hpp:104:5: instantiated from ‘void boost::mpl::for_each(F, Sequence*, TransformOp*) [with Sequence = boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, TransformOp = boost::mpl::identity<mpl_::na>, F = boost::mpl::inner_loop<boost::mpl::dispatch<boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > >, boost::adj_list<long unsigned int>*>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >]’ /usr/local/include/boost/mpl/for_each.hpp:118:3: instantiated from ‘void boost::mpl::for_each(F, Sequence*) [with Sequence = boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, F = boost::mpl::inner_loop<boost::mpl::dispatch<boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > >, boost::adj_list<long unsigned int>*>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >]’ ./../mpl_nested_loop.hh:100:5: instantiated from ‘void boost::mpl::nested_for_each_imp(Action) [with TR1 = boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, TRS = {boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0>}, Action = boost::mpl::dispatch<boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > >, boost::adj_list<long unsigned int>*>]’ ./../mpl_nested_loop.hh:91:9: instantiated from ‘void boost::mpl::inner_loop<Action, TRS>::operator()(T) const [with T = boost::adj_list<long unsigned int>*, Action = boost::mpl::dispatch<boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > > >, TRS = {boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0>}]’ /usr/local/include/boost/mpl/for_each.hpp:78:9: instantiated from ‘static void boost::mpl::aux::for_each_impl<false>::execute(Iterator*, LastIterator*, TransformFunc*, F) [with Iterator = boost::mpl::v_iter<graph_tool::detail::graph_action<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, graph_tool::detail::all_graph_views, mpl_::bool_<false>, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >::graph_view_pointers, 0l>, LastIterator = boost::mpl::v_iter<graph_tool::detail::graph_action<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, graph_tool::detail::all_graph_views, mpl_::bool_<false>, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >::graph_view_pointers, 6l>, TransformFunc = boost::mpl::identity<mpl_::na>, F = boost::mpl::inner_loop<boost::mpl::dispatch<boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > > >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >]’ /usr/local/include/boost/mpl/for_each.hpp:104:5: instantiated from ‘void boost::mpl::for_each(F, Sequence*, TransformOp*) [with Sequence = graph_tool::detail::graph_action<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, graph_tool::detail::all_graph_views, mpl_::bool_<false>, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >::graph_view_pointers, TransformOp = boost::mpl::identity<mpl_::na>, F = boost::mpl::inner_loop<boost::mpl::dispatch<boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > > >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >]’ /usr/local/include/boost/mpl/for_each.hpp:118:3: instantiated from ‘void boost::mpl::for_each(F, Sequence*) [with Sequence = graph_tool::detail::graph_action<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, graph_tool::detail::all_graph_views, mpl_::bool_<false>, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >::graph_view_pointers, F = boost::mpl::inner_loop<boost::mpl::dispatch<boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > > >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >]’ ./../mpl_nested_loop.hh:100:5: instantiated from ‘void boost::mpl::nested_for_each_imp(Action) [with TR1 = graph_tool::detail::graph_action<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, graph_tool::detail::all_graph_views, mpl_::bool_<false>, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >::graph_view_pointers, TRS = {boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0>}, Action = boost::mpl::dispatch<boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > > >]’ ./../mpl_nested_loop.hh:113:5: instantiated from ‘void boost::mpl::nested_for_each(Action) [with TRS = {graph_tool::detail::graph_action<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, graph_tool::detail::all_graph_views, mpl_::bool_<false>, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0> >::graph_view_pointers, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0>}, Action = boost::mpl::selected_types<graph_tool::detail::action_wrap<std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, mpl_::bool_<false> > >]’ ./../graph_filtering.hh:489:9: instantiated from ‘void graph_tool::detail::graph_action<Action, GraphViews, Wrap, TRS>::operator()(Args&& ...) const [with Args = {boost::any&, boost::any&}, Action = std::_Bind<do_all_pairs_search(std::_Placeholder<1>, boost::typed_identity_property_map<long unsigned int>, std::_Placeholder<2>, std::_Placeholder<3>, bool)>, GraphViews = graph_tool::detail::all_graph_views, Wrap = mpl_::bool_<false>, TRS = {boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<double>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<long int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<short int>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<std::vector<unsigned char>, boost::typed_identity_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, boost::mpl::v_item<graph_tool::ConstantPropertyMap<long unsigned int, boost::adj_list<long unsigned int>::edge_descriptor>, boost::mpl::v_item<boost::adj_edge_index_property_map<long unsigned int>, boost::mpl::v_item<boost::checked_vector_property_map<long double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<double, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<long int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<short int, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::v_item<boost::checked_vector_property_map<unsigned char, boost::adj_edge_index_property_map<long unsigned int> >, boost::mpl::vector0<mpl_::na>, 0>, 0>, 0>, 0>, 0>, 0>, 0>, 0>}]’ graph_all_distances.cc:80:26: instantiated from here /usr/include/c++/4.6/bits/stl_algobase.h:546:6: error: use of deleted function ‘boost::detail::stored_edge_property<Vertex, Property>::self& boost::detail::stored_edge_property<Vertex, Property>::operator=(boost::detail::stored_edge_property<Vertex, Property>::self&&) [with Vertex = long unsigned int, Property = boost::property<boost::edge_weight_t, long double, boost::property<boost::edge_weight2_t, long double, boost::no_property> >, boost::detail::stored_edge_property<Vertex, Property>::self = boost::detail::stored_edge_property<long unsigned int, boost::property<boost::edge_weight_t, long double, boost::property<boost::edge_weight2_t, long double, boost::no_property> > >]’ At global scope: cc1plus: warning: unrecognised command line option "-Wno-unused-local-typedefs" [enabled by default] make[4]: *** [graph_a ll_distances.lo] Error 1 make[4]: Leaving directory `/home/oilseed31/Downloads/graph-tool-2.2.36/src/graph/topology' make[3]: *** [all-recursive] Error 1 make[3]: Leaving directory `/home/oilseed31/Downloads/graph-tool-2.2.36/src/graph' make[2]: *** [all-recursive] Error 1 make[2]: Leaving directory `/home/oilseed31/Downloads/graph-tool-2.2.36/src' make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory `/home/oilseed31/Downloads/graph-tool-2.2.36' make: *** [all] Error 2 Kindly fix this error. I need graph tools for a software DIRT ( http://www.plant-image-analysis.org/software/dirt) Regards, *Sakshi Bharti* *Research fellow * Department of Plant Breeding and Genetics (Oilseeds Section) Punjab Agricultural University Ludhiana-141004 India

2 1

graph-tool-2.2.36 - python -c 'from graph_tool.all import *': ImportError undefined symbol
by graph-tool＠v6y.net 19 Jan '15

19 Jan '15

Hi, using either the latest git repo or 2.2.36 and running: /usr/bin/python3.3 -c 'import graph_tool ; print(graph_tool.__version__)' (or even python3.3 -c 'import graph_tool') results in: Traceback (most recent call last): File "<string>", line 1, in <module> File "/usr/lib64/python3.3/site-packages/graph_tool/__init__.py", line 101, in <module> dl_import("from . import libgraph_tool_core as libcore") File "/usr/lib64/python3.3/site-packages/graph_tool/dl_import.py", line 57, in dl_import exec(import_expr, local_dict, global_dict) File "<string>", line 1, in <module> ImportError: /usr/lib64/python3.3/site-packages/graph_tool/libgraph_tool_core.so: undefined symbol: _ZN5boost6python6detail11init_moduleER11PyModuleDefPFvvE It appears that -lboost_python3_3-mt is not being used, even though my system default is py3.3. the interesting part of the ./configure log shows: graph-tool will be installed at: /usr/lib64/python3.3/site-packages =========================== Using python version: 3.3.5 =========================== checking for boostlib >= 1.53.0... yes checking whether the Boost::Python library is available... yes checking for exit in -lboost_python... no checking for exit in -lboost_python... (cached) no checking for exit in -lboost_python-2.7-mt... yes if I recompile boost without py2.7 support (py3.3 only), then the interesting part of the ./configure log shows: graph-tool will be installed at: /usr/lib64/python3.3/site-packages =========================== Using python version: 3.3.5 =========================== checking for boostlib >= 1.53.0... yes checking whether the Boost::Python library is available... yes checking for exit in -lboost_python... no checking for exit in -lboost_python... (cached) no checking for exit in -lboost_python-2.7... no checking for exit in -lboost_python-3-mt... yes and the test command works: $/usr/bin/python3.3 -c 'import graph_tool ; print(graph_tool.__version__)' 2.2.36 (commit e3865108, Thu Jan 8 17:03:44 2015 +0100) More detail on this issue is available in the gentoo bug tracker: https://bugs.gentoo.org/show_bug.cgi?id=536734 How do we get the Makefile to have BOOST_PYTHON_LIB = boost_python-3-mt instead of BOOST_PYTHON_LIB = boost_python-2.7-mt when boost has been compiled for 2.7 and 3.3? Thanks! -Justin Keogh

2 3

release request
by Lisa Zorn 14 Jan '15

14 Jan '15

Any idea on when you'll be releasing a new version of graph_tool? I'd like to be able to deploy the fix from https://git.skewed.de/count0/graph -tool/issues/188 on our amazon servers. There was talk of a November release but it looks like that didn't work out (no worries, things come up) so I thought I'd ping again. Thank you! -Lisa

2 2

Retrieve the graph neighborhood around a set of vertices
by Dov Sadan 13 Jan '15

13 Jan '15

Hi@alll How can I retrieve the graph neighborhoods around a set of vertices for a given radius (of the neighborhoods)? Thanks, Dov

2 1

Search in a graph of medical records
by Dov Sadan 12 Jan '15

12 Jan '15

Hi@all, I apologize in advance if this is a trivial question, I’m not very experienced with graphs. First, I have a hierarchical order of a disease list. Just for example: 1. Respiratory system disease 1.1. Asphyxia neonatorum 1.2. Croup 1.3. Lower respiratory tract disease 1.4. Bronchial disease 1.4.1. asthma <http://bioportal.bioontology.org/ontologies/DOID/?p=classes&conceptid=http%…> 1.4.2. bronchiectasis 1.4.3. bronchitis 1.5. lung disease 1.5.1. acute chest syndrome 1.5.2. bronchiolitis 1.5.3. brown induration 1.6. interstitial lung disease 1.6.1. bronchiolitis obliterans 1.6.2. extrinsic allergic alveolitis 1.6.3. pneumoconiosis Next, I have a database with people’s medical records. For example: Patient-1: asthma, bronchiolitis Patient-2: asthma, pneumoconiosis Lastly, when a new patient enters the system. For example: Patient-to-search: asthma, brown induration I want to find the person which is “most similar” in terms of the diseases hierarchy. (Which is Patient-1). How do I accomplish such task efficiently with the graph tool? Thanks, Dov

2 1

Re: [graph-tool] updating graph plot dynamically
by Tiago Peixoto 09 Jan '15

09 Jan '15

Sorry for the delay, for some reason your message did not make it to the mailing list. Dave wrote > Hi all. I'm trying to write a simple toy program to explore dynamic graph > plotting. > What I'll need in the future is to use this program to update the > visualization of a graph as long as nodes and vertices are generated, one > by one. Follows what I wrote, taking a lot from the examples. > unfortuantely, the plot is not updated, it keeps showing vertices and > nodes I added outside the update_state function. > Can please someone tell me where I'm wrong? > thanks in advance! The reason why it didn't work is because you did not take care of providing the positions for the new vertices. See attached for a version that does what (I think) you wanted. Best, Tiago dynamic.py <http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com…> ----- -- Tiago de Paula Peixoto <tiago(a)skewed.de> -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com… Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.

1 0

Installation Issues on Debian Wheezy
by rene 09 Jan '15

09 Jan '15

I'm trying to install graph-tool on Debian Wheezy, following the instructions at http://graph-tool.skewed.de/download#debian - unfortunately, I have some problems, depending on what value I use for DISTRIBUTION in my /etc/apt/sources.list file: If I use 'jessie' or 'sid', then (after running 'apt-get update'), when I run 'apt-get install python-graph-tool', I get an error about unsatisfied dependencies (various libboost-... packages, libcgal10, libgomp1, libstdc++6). I'm not sure what the exact error message is in english, since my server language is set to german. If necessary, I can try to provide more details. If I use 'testing' (this was in the instructions until a few days ago), running 'apt-get update' gives me some 404s for: http://downloads.skewed.de testing/main Sources http://downloads.skewed.de testing/main i386 Packages If I use 'wheezy' (on a whim - I haven't seen this in the instructions), then running 'apt-get update' works, and ostensibly, so does running 'apt-get install python-graph-tool', but the version it installs is an old one which cannot load graphs in the gt format (which I need). Am I doing something wrong? Is it possible to install a precompiled package of a recent version on Debian Wheezy? I'm not very familiar with Debian package management. If any more details are required, please let me know. On an unrelated note: thanks for graph-tool! It is well-crafted and has brought me much joy :) -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com… Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.

2 1

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graph-tool January 2015