> Hi,
>
> Thanks for the recommendation Tiago. I went further this time and
> successfully went though the ./configure and make stage. However, when I run
> make install something goes wrong. Below I post the relevant part of the
> procedure according to my judgement. First I go into sage's virtual
> environment by typing
>
> $ sage -sh
>
> Then I run:
>
> (sage-sh) juan@mostro:graph-tool-2.2.29.1$ ./configure
> CPPFLAGS="-I/home/juan/usr/local/include/boost"
> LDFLAGS="-L/home/juan/usr/local/lib"
> SPARSEHASH_CFLAGS="-I/usr/include/google/sparsehash"
>
> some bla bla bla
>
> (sage-sh) juan@mostro:graph-tool-2.2.29.1$ make
>
> after many hours...it seems to success. Finally I try to install
>
> (sage-sh) juan@mostro:graph-tool-2.2.29.1$ sudo make install
>
> Making install in src
> make[1]: Entering directory `/home/juan/Downloads/graph-tool-2.2.29.1/src'
> Making install in graph
> make[2]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph'
> Making install in centrality
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/centrality'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/centrality'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/centrality'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_centrality.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/centrality'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_centrality.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/centrality/libgraph_tool_centrality.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_centrality.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/centrality/libgraph_tool_centrality.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/centrality
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/centrality
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_closeness.hh graph_eigentrust.hh
> graph_eigenvector.hh graph_pagerank.hh graph_hits.hh graph_katz.hh
> graph_trust_transitivity.hh minmax.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/centrality'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/centrality'
> Making install in clustering
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/clustering'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/clustering'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/clustering'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_clustering.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/clustering'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_clustering.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/clustering/libgraph_tool_clustering.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_clustering.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/clustering/libgraph_tool_clustering.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/clustering
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/clustering
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_clustering.hh graph_extended_clustering.hh
> graph_motifs.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/clustering'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/clustering'
> Making install in community
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/community'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/community'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/community'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_community.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/community'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_community.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/community/libgraph_tool_community.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_community.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/community/libgraph_tool_community.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/community
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/community
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_blockmodel.hh graph_community.hh
> graph_community_network.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/community'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/community'
> Making install in correlations
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/correlations'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/correlations'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/correlations'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_correlations.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/correlations'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_correlations.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/correlations/libgraph_tool_correlations.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_correlations.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/correlations/libgraph_tool_correlations.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/correlations
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/correlations
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_assortativity.hh graph_correlations.hh
> graph_corr_hist.hh graph_avg_correlations.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/correlations'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/correlations'
> Making install in draw
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/draw'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/draw'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_draw.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_draw.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw/libgraph_tool_draw.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_draw.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw/libgraph_tool_draw.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/draw'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/draw'
> Making install in flow
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/flow'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/flow'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/flow'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_flow.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/flow'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_flow.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/flow/libgraph_tool_flow.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_flow.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/flow/libgraph_tool_flow.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/flow
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/flow
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_augment.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/flow'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/flow'
> Making install in generation
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/generation'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/generation'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/generation'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_generation.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/generation'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_generation.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/generation/libgraph_tool_generation.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_generation.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/generation/libgraph_tool_generation.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/generation
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/generation
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_generation.hh graph_rewiring.hh
> graph_predecessor.hh graph_union.hh graph_triangulation.hh graph_lattice.hh
> graph_geometric.hh graph_complete.hh graph_price.hh dynamic_sampler.hh
> sampler.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/generation'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/generation'
> Making install in layout
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/layout'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/layout'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_layout.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_layout.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw/libgraph_tool_layout.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_layout.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw/libgraph_tool_layout.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/draw
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_arf.hh graph_sfdp.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/layout'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/layout'
> Making install in search
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/search'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/search'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/search'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_search.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/search'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_search.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/search/libgraph_tool_search.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_search.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/search/libgraph_tool_search.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/search
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/search
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/search'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/search'
> Making install in spectral
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/spectral'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/spectral'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/spectral'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_spectral.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/spectral'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_spectral.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/spectral/libgraph_tool_spectral.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_spectral.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/spectral/libgraph_tool_spectral.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/spectral
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/spectral
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_adjacency.hh graph_incidence.hh
> graph_laplacian.hh graph_transition.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/spectral'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/spectral'
> Making install in stats
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/stats'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/stats'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/stats'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_stats.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/stats'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_stats.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/stats/libgraph_tool_stats.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_stats.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/stats/libgraph_tool_stats.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/stats
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/stats
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_parallel.hh graph_histograms.hh
> graph_average.hh graph_distance_sampled.hh graph_distance.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/stats'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/stats'
> Making install in topology
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/topology'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/topology'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/topology'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_topology.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/topology'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_topology.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/topology/libgraph_tool_topology.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_topology.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/topology/libgraph_tool_topology.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/topology
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/topology
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_components.hh graph_kcore.hh
> graph_similarity.hh graph_subgraph_isomorphism.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/topology'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/topology'
> Making install in util
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/util'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/util'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/util'
> /bin/bash ../../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_util.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/util'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_util.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/util/libgraph_tool_util.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_util.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/util/libgraph_tool_util.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/util
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/util
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 graph_search.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/util'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph/util'
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph'
> make[4]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph'
> make[4]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool'
> /bin/bash ../../libtool --mode=install /usr/bin/install -c
> libgraph_tool_core.la
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool'
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_core.so
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/libgraph_tool_core.so
> libtool: install: /usr/bin/install -c .libs/libgraph_tool_core.lai
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/libgraph_tool_core.la
> libtool: finish:
> PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin"
> ldconfig -n
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool
> ----------------------------------------------------------------------
> Libraries have been installed in:
>
> /home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /usr/bin/install -c -m 644 ../../config.h fast_vector_property_map.hh
> gml.hh graph.hh graph_adjacency.hh graph_adaptor.hh graph_exceptions.hh
> graph_filtering.hh graph_properties.hh graph_properties_group.hh
> graph_python_interface.hh graph_selectors.hh graph_util.hh histogram.hh
> mpl_nested_loop.hh numpy_bind.hh numpy_bind_old.hh random.hh str_repr.hh
> shared_map.hh transform_iterator.hh
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include'
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include/boost-workaround/boost/graph/'
> /usr/bin/install -c -m 644
> ../boost-workaround/boost/graph/betweenness_centrality.hpp
> ../boost-workaround/boost/graph/detail/read_graphviz_new.hpp
> ../boost-workaround/boost/graph/graphml.hpp
> ../boost-workaround/boost/graph/graphviz.hpp
> ../boost-workaround/boost/graph/isomorphism.hpp
> ../boost-workaround/boost/graph/kamada_kawai_spring_layout.hpp
> ../boost-workaround/boost/graph/metric_tsp_approx.hpp
> ../boost-workaround/boost/graph/named_function_params-alt.hpp
> ../boost-workaround/boost/graph/overloading.hpp
> ../boost-workaround/boost/graph/push_relabel_max_flow.hpp
> ../boost-workaround/boost/graph/copy_alt.hpp
> ../boost-workaround/boost/graph/reverse_graph_alt.hpp
> ../boost-workaround/boost/graph/stoer_wagner_min_cut.hpp
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool/include/boost-workaround/boost/graph/'
> make[4]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph'
> make[2]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph'
> Making install in graph_tool
> make[2]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph_tool'
> make[3]: Entering directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph_tool'
> make[3]: Nothing to be done for `install-exec-am'.
> /bin/mkdir -p
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool'
> /usr/bin/install -c -m 644 __init__.py dl_import.py decorators.py io.py
> all.py
> '/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site-packages/graph_tool'
> make[3]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph_tool'
> make[2]: Leaving directory
> `/home/juan/Downloads/graph-tool-2.2.29.1/src/graph_tool'
> make[1]: Leaving directory `/home/juan/Downloads/graph-tool-2.2.29.1/src'
> Traceback (most recent call last):
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site.py", line
> 548, in <module>
> main()
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site.py", line
> 530, in main
> known_paths = addusersitepackages(known_paths)
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site.py", line
> 266, in addusersitepackages
> user_site = getusersitepackages()
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site.py", line
> 241, in getusersitepackages
> user_base = getuserbase() # this will also set USER_BASE
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/site.py", line
> 231, in getuserbase
> USER_BASE = get_config_var('userbase')
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/sysconfig.py",
> line 516, in get_config_var
> return get_config_vars().get(name)
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/sysconfig.py",
> line 449, in get_config_vars
> import re
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/re.py", line
> 105, in <module>
> import sre_compile
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/sre_compile.py",
> line 14, in <module>
> import sre_parse
> File "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/sre_parse.py",
> line 17, in <module>
> from sre_constants import *
> File
> "/home/juan/Downloads/sage-6.1.1/local/lib/python2.7/sre_constants.py", line
> 18, in <module>
> from _sre import MAXREPEAT
> ImportError: cannot import name MAXREPEAT
> make[3]: *** [install-graph_toolPYTHON] Error 1
> make[2]: *** [install-am] Error 2
> make[1]: *** [install-recursive] Error 1
> make: *** [install-recursive] Error 1
>
> It seems that sage's Python is trying to import recursively some module. But
> I am not sure how to fix this. Any ideas?
>
> Best Regards,
> Juan
>
>
>
> On Tue, Feb 11, 2014 at 11:45 AM, Tiago Peixoto [via Main discussion list
> for the graph-tool project] <
[hidden email]>
> wrote:
>>
>> On 02/09/2014 09:01 AM, Juan I. Perotti wrote:
>>
>> > Hello,
>> >
>> > I am trying to install graph-tool in sagemath ( check
>> >
http://www.sagemath.org/ <
http://www.sagemath.org/> ), under Ubuntu
>> > 12.04.
>> >
>> > Basically, sagemath is python with many good modules helpful for
>> > mathematics, and why not physics.
>> >
>> > sagemath has its own built version of python, which is standard by using
>> > a
>> > virtual environment. The idea is, I guess, not to mess up with your
>> > system
>> > python.
>> >
>> > By typing in a terminal
>> >
>> > $ sage -sh
>> >
>> >
>> > you enter into sagemath virtual environment, which looks like:
>> >
>> > (sage -sh) $
>> >
>> >
>> > therefore, if you try to run a python console by typing
>> >
>> > (sage -sh)$ python
>> >
>> >
>> > then, it will run the python built in sage's virtual environment.
>> >
>> > From the virtual environment I have installed CGAL, and then, I tried to
>> > configure graph-tool typing:
>> >
>> > (sage -sh) graph-tool-2.2.29$ ./configure
>> > 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... no
>> > checking for mawk... mawk
>> > 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... cpp
>> > 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 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... ld
>> > checking if the linker (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 whether the shell understands some XSI constructs... yes
>> > checking whether the shell understands "+="... yes
>> > 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 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 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 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 (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++... ld -m elf_x86_64
>> > checking if the linker (ld -m elf_x86_64) is GNU ld... yes
>> > checking whether the g++ linker (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 (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... yes
>> > 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 graph filtering...... yes
>> > checking whether to enable parallel algorithms with openmp...... no
>> > checking whether to enable cairo drawing...... yes
>> > checking whether to enable sparsehash...... 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...
>> >
>> > /home/juan/Downloads/software/sage-5.12-linux-64bit-ubuntu_12.04.3_lts-x86_64-Linux/local/bin/python
>> > checking for python version... 2.7
>> > checking for python platform... linux2
>> > checking for python script directory...
>> > ${prefix}/lib/python2.7/site-packages
>> > checking for python extension module directory...
>> > ${exec_prefix}/lib/python2.7/site-packages
>> > checking for python2.7... (cached)
>> >
>> > /home/juan/Downloads/software/sage-5.12-linux-64bit-ubuntu_12.04.3_lts-x86_64-Linux/local/bin/python
>> > checking for a version of Python >= '2.1.0'... yes
>> > checking for a version of Python == '2.7.5'... yes
>> > checking for the distutils Python package... yes
>> > checking for Python include path...
>> >
>> > -I/home/juan/Downloads/software/sage-5.12-linux-64bit-ubuntu_12.04.3_lts-x86_64-Linux/local/include/python2.7
>> > checking for Python library path...
>> >
>> > -L/home/buildbot/build/sage/snapperkob/snapperkob_binary/build/sage-5.12/local/lib
>> > -lpython2.7
>> > checking for Python site-packages path...
>> >
>> > /home/juan/Downloads/software/sage-5.12-linux-64bit-ubuntu_12.04.3_lts-x86_64-Linux/local/lib/python2.7/site-packages
>> > checking python extra libraries... -lpthread -ldl -lutil
>> > checking python extra linking flags... -Xlinker -export-dynamic
>> > checking consistency of all components of python development
>> > environment...
>> > yes
>> > graph-tool will be installed at:
>> >
>> > /home/juan/Downloads/software/sage-5.12-linux-64bit-ubuntu_12.04.3_lts-x86_64-Linux/local/lib/python2.7/site-packages
>> > ===========================
>> > Using python version: 2.7.5
>> > ===========================
>> > checking for boostlib >= 1.38.0... 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
>> >
>> > /home/juan/Downloads/software/sage-5.12-linux-64bit-ubuntu_12.04.3_lts-x86_64-Linux/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h...
>> > yes
>> > checking python module: scipy... yes
>> > checking
>> >
>> > /home/juan/Downloads/software/sage-5.12-linux-64bit-ubuntu_12.04.3_lts-x86_64-Linux/local/lib/python2.7/site-packages/scipy/weave/scxx/object.h
>> > usability... yes
>> > checking
>> >
>> > /home/juan/Downloads/software/sage-5.12-linux-64bit-ubuntu_12.04.3_lts-x86_64-Linux/local/lib/python2.7/site-packages/scipy/weave/scxx/object.h
>> > presence... yes
>> > checking for
>> >
>> > /home/juan/Downloads/software/sage-5.12-linux-64bit-ubuntu_12.04.3_lts-x86_64-Linux/local/lib/python2.7/site-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... no
>> > checking CGAL/version.h presence... no
>> > checking for CGAL/version.h... no
>> > configure: error: CGAL headers not found
>> >
>> >
>> > As you can see, the config is using sage's version of python. However,
>> > it
>> > does not find CGAL's headers. Do you know why?
>> Where did you install CGAL? If you installed it in a non-standard
>> directory, this needs to be passed to the configure script via the
>> CPPFLAGS and LDFLAGS variables.
>>
>> Check the output in the config.log file, which includes the reason why
>> CGAL was not found. You can post the contents of this file to the list,
>> if you are unable to find the problem.
>>
>> Best,
>> Tiago
>>
>> --
>> Tiago de Paula Peixoto <[hidden email]>
>>
>>
>> _______________________________________________
>> graph-tool mailing list
>> [hidden email]
>>
http://lists.skewed.de/mailman/listinfo/graph-tool>>
>> signature.asc (919 bytes) Download Attachment
>> --
>> Tiago de Paula Peixoto <
[hidden email]>
>>
>>
>> ________________________________
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>>
>>
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>> NAML
>
>
>
>
> --
> Dr. Juan I. Perotti
>
> Postal Address:
> Aalto University
> Department of Biomedical Engineering and Computational Science (BECS)
> P.O. Box 12200
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