Hi,
I am running graph-too v2.18 on Ubuntu 15.10 and I was trying to to use the all_paths() function but when I run the example code (or any other code for that matter) I keep getting the following error:
Traceback (most recent call last): File "/usr/lib/python3.4/code.py", line 90, in runcode exec(code, self.locals) File "<input>", line 1, in <module> File "/usr/lib/python3/dist-packages/graph_tool/topology/__init__.py", line 1732, in all_paths _prop("v", g, visited)) RuntimeError: This functionality is not available because boost::coroutine was not found at compile-time
Did I compile the graph-tool the wrong way or is it a problem with the function itself?
Regards, Vaggelis
On 30.11.2016 22:17, Evangelos Petsalis wrote:
Hi,
I am running graph-too v2.18 on Ubuntu 15.10 and I was trying to to use the all_paths() function but when I run the example code (or any other code for that matter) I keep getting the following error:
Traceback (most recent call last): File "/usr/lib/python3.4/code.py", line 90, in runcode exec(code, self.locals) File "<input>", line 1, in <module> File "/usr/lib/python3/dist-packages/graph_tool/topology/__init__.py", line 1732, in all_paths _prop("v", g, visited)) RuntimeError: This functionality is not available because boost::coroutine was not found at compile-time
Did I compile the graph-tool the wrong way or is it a problem with the function itself?
As the error message indicates, the boost::coroutine library was not found at compilation, and hence the algorithm was not compiled, since it requires it.
One of your previous posts indicated that there might be an issue with Ubuntu and co-routine installation. Is this still valid?
http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/...
On Wed, Nov 30, 2016 at 2:28 PM, Tiago de Paula Peixoto tiago@skewed.de wrote:
On 30.11.2016 22:17, Evangelos Petsalis wrote:
Hi,
I am running graph-too v2.18 on Ubuntu 15.10 and I was trying to to use
the
all_paths() function but when I run the example code (or any other code
for
that matter) I keep getting the following error:
Traceback (most recent call last): File "/usr/lib/python3.4/code.py", line 90, in runcode exec(code, self.locals) File "<input>", line 1, in <module> File "/usr/lib/python3/dist-packages/graph_tool/topology/__init__.py", line 1732, in all_paths _prop("v", g, visited)) RuntimeError: This functionality is not available because
boost::coroutine
was not found at compile-time
Did I compile the graph-tool the wrong way or is it a problem with the function itself?
As the error message indicates, the boost::coroutine library was not found at compilation, and hence the algorithm was not compiled, since it requires it.
-- Tiago de Paula Peixoto tiago@skewed.de
graph-tool mailing list graph-tool@skewed.de https://lists.skewed.de/mailman/listinfo/graph-tool
On 30.11.2016 22:33, Evangelos Petsalis wrote:
One of your previous posts indicated that there might be an issue with Ubuntu and co-routine installation. Is this still valid?
http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/...
This has been fixed in newer Ubuntu and Debian releases.
Is there a particular version that graph-tool requires? Because when I ran configure I get the following:
.... checking whether the Boost::Coroutine library is available... yes configure: WARNING: No usable boost::coroutine found! Some functionality will be disabled in the library. .....
My system has coroutine1.58
On Wed, Nov 30, 2016 at 3:39 PM, Tiago de Paula Peixoto tiago@skewed.de wrote:
On 30.11.2016 22:33, Evangelos Petsalis wrote:
One of your previous posts indicated that there might be an issue with Ubuntu and co-routine installation. Is this still valid?
982480.n3.nabble.com/Debian-package-and-boost-at-compile- time-td4026383.html
This has been fixed in newer Ubuntu and Debian releases.
-- Tiago de Paula Peixoto tiago@skewed.de
graph-tool mailing list graph-tool@skewed.de https://lists.skewed.de/mailman/listinfo/graph-tool
On 01.12.2016 00:12, Evangelos Petsalis wrote:
Is there a particular version that graph-tool requires? Because when I ran configure I get the following:
.... checking whether the Boost::Coroutine library is available... yes configure: WARNING: No usable boost::coroutine found! Some functionality will be disabled in the library. .....
My system has coroutine1.58
This should be sufficient. It could be that the configure script is having trouble detecting the correct name of the library (which varies across distros). Try the following:
./configure --with-boost-coroutine=boost_coroutine
Best, Tiago
That seems to do the trick.
Thanks
On Thu, Dec 1, 2016 at 2:38 AM, Tiago de Paula Peixoto tiago@skewed.de wrote:
On 01.12.2016 00:12, Evangelos Petsalis wrote:
Is there a particular version that graph-tool requires? Because when I
ran
configure I get the following:
.... checking whether the Boost::Coroutine library is available... yes configure: WARNING: No usable boost::coroutine found! Some functionality will be disabled in the library. .....
My system has coroutine1.58
This should be sufficient. It could be that the configure script is having trouble detecting the correct name of the library (which varies across distros). Try the following:
./configure --with-boost-coroutine=boost_coroutine
Best, Tiago
-- Tiago de Paula Peixoto tiago@skewed.de
graph-tool mailing list graph-tool@skewed.de https://lists.skewed.de/mailman/listinfo/graph-tool
Tiago,
Apologies for yet another email, but now the compilation fails with the following error. I tried modifying the LDFLAGS parameter with the suggested value but still same error. Any suggestions?
Thansk again for all the help, Vaggelis
CXX graph_blockmodel_overlap_vacate.lo CXX graph_inference.lo CXX int_part.lo CXX spence.lo CXXLD libgraph_tool_inference.la /usr/bin/ld: /usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/ libboost_coroutine.a(exceptions.o): relocation R_X86_64_32 against `.bss' can not be used when making a shared object; recompile with -fPIC /usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libboost_coroutine.a: error adding symbols: Bad value collect2: error: ld returned 1 exit status Makefile:556: recipe for target 'libgraph_tool_inference.la' failed make[4]: *** [libgraph_tool_inference.la] Error 1 make[4]: Leaving directory '/media/sf_VB_SHARE/graph- tool-2.18/src/graph/inference' Makefile:741: recipe for target 'all-recursive' failed make[3]: *** [all-recursive] Error 1 make[3]: Leaving directory '/media/sf_VB_SHARE/graph-tool-2.18/src/graph' Makefile:412: recipe for target 'all-recursive' failed make[2]: *** [all-recursive] Error 1 make[2]: Leaving directory '/media/sf_VB_SHARE/graph-tool-2.18/src' Makefile:584: recipe for target 'all-recursive' failed make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory '/media/sf_VB_SHARE/graph-tool-2.18' Makefile:471: recipe for target 'all' failed make: *** [all] Error 2
On Thu, Dec 1, 2016 at 2:38 AM, Tiago de Paula Peixoto tiago@skewed.de wrote:
On 01.12.2016 00:12, Evangelos Petsalis wrote:
Is there a particular version that graph-tool requires? Because when I
ran
configure I get the following:
.... checking whether the Boost::Coroutine library is available... yes configure: WARNING: No usable boost::coroutine found! Some functionality will be disabled in the library. .....
My system has coroutine1.58
This should be sufficient. It could be that the configure script is having trouble detecting the correct name of the library (which varies across distros). Try the following:
./configure --with-boost-coroutine=boost_coroutine
Best, Tiago
-- Tiago de Paula Peixoto tiago@skewed.de
graph-tool mailing list graph-tool@skewed.de https://lists.skewed.de/mailman/listinfo/graph-tool
On 01.12.2016 19:31, Evangelos Petsalis wrote:
Tiago,
Apologies for yet another email, but now the compilation fails with the following error. I tried modifying the LDFLAGS parameter with the suggested value but still same error. Any suggestions?
Thansk again for all the help, Vaggelis
CXX graph_blockmodel_overlap_vacate.lo CXX graph_inference.lo CXX int_part.lo CXX spence.lo CXXLD libgraph_tool_inference.la http://libgraph_tool_inference.la /usr/bin/ld: /usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libboost_coroutine.a(exceptions.o): relocation R_X86_64_32 against `.bss' can not be used when making a shared object; recompile with -fPIC /usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libboost_coroutine.a: error adding symbols: Bad value collect2: error: ld returned 1 exit status Makefile:556: recipe for target 'libgraph_tool_inference.la http://libgraph_tool_inference.la' failed make[4]: *** [libgraph_tool_inference.la http://libgraph_tool_inference.la] Error 1 make[4]: Leaving directory '/media/sf_VB_SHARE/graph-tool-2.18/src/graph/inference' Makefile:741: recipe for target 'all-recursive' failed make[3]: *** [all-recursive] Error 1 make[3]: Leaving directory '/media/sf_VB_SHARE/graph-tool-2.18/src/graph' Makefile:412: recipe for target 'all-recursive' failed make[2]: *** [all-recursive] Error 1 make[2]: Leaving directory '/media/sf_VB_SHARE/graph-tool-2.18/src' Makefile:584: recipe for target 'all-recursive' failed make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory '/media/sf_VB_SHARE/graph-tool-2.18' Makefile:471: recipe for target 'all' failed make: *** [all] Error 2
It seems like the boost::corountine library was compiled statically, instead of dynamically. Check if there is a libboost_coroutine.so file in the lib directory. If there is not, you have to re-compile boost making sure all libraries are shared objects.
-
Evangelos Petsalis -
Tiago de Paula Peixoto