Re: [igraph] Problem installing python-igraph on Mac OS X Lion related to ARPACK

[Tamás Nepusz]

Hi,

These are the include files of igraph 0.5.x, not igraph 0.6. Have you run "make 
install" after having compiled igraph 0.6?

-- 
T.

On 7 Jan 2012, at 15:14, Jonathan Donges wrote:

> Hi,
> 
> No, both files are not there. There are the following files in 
> /opt/local/include/igraph:
> 
> -rw-r--r--  1 root  admin    1042  7 Jan 13:11 DensityGrid.h
> -rw-r--r--  1 root  admin    1085  7 Jan 13:11 DensityGrid_3d.h
> -rw-r--r--  1 root  admin   22624  7 Jan 13:11 NetDataTypes.h
> -rw-r--r--  1 root  admin    2468  7 Jan 13:11 NetRoutines.h
> -rw-r--r--  1 root  admin   13492  7 Jan 13:11 arpack.h
> -rw-r--r--  1 root  admin    5676  7 Jan 13:11 arpack_internal.h
> -rw-r--r--  1 root  admin    2111  7 Jan 13:11 array.h
> -rw-r--r--  1 root  admin    2563  7 Jan 13:11 array.pmt
> -rw-r--r--  1 root  admin   24822  7 Jan 13:11 attributes.h
> -rw-r--r--  1 root  admin    1833  7 Jan 13:11 dqueue.h
> -rw-r--r--  1 root  admin    7413  7 Jan 13:11 dqueue.pmt
> -rw-r--r--  1 root  admin     563  7 Jan 13:11 drl_Node.h
> -rw-r--r--  1 root  admin     579  7 Jan 13:11 drl_Node_3d.h
> -rw-r--r--  1 root  admin    2834  7 Jan 13:11 drl_graph.h
> -rw-r--r--  1 root  admin    2513  7 Jan 13:11 drl_graph_3d.h
> -rw-r--r--  1 root  admin    1211  7 Jan 13:11 drl_layout.h
> -rw-r--r--  1 root  admin    1210  7 Jan 13:11 drl_layout_3d.h
> -rw-r--r--  1 root  admin     835  7 Jan 13:11 drl_parse.h
> -rw-r--r--  1 root  admin   21083  7 Jan 13:11 error.h
> -rw-r--r--  1 root  admin    4688  7 Jan 13:11 f2c.h
> -rw-r--r--  1 root  admin    1727  7 Jan 13:11 gengraph_box_list.h
> -rw-r--r--  1 root  admin    3689  7 Jan 13:11 gengraph_definitions.h
> -rw-r--r--  1 root  admin    1443  7 Jan 13:11 gengraph_degree_sequence.h
> -rw-r--r--  1 root  admin    6567  7 Jan 13:11 gengraph_graph_molloy_hash.h
> -rw-r--r--  1 root  admin   10317  7 Jan 13:11 
> gengraph_graph_molloy_optimized.h
> -rw-r--r--  1 root  admin    7284  7 Jan 13:11 gengraph_hash.h
> -rw-r--r--  1 root  admin    1993  7 Jan 13:11 gengraph_header.h
> -rw-r--r--  1 root  admin    2113  7 Jan 13:11 gengraph_powerlaw.h
> -rw-r--r--  1 root  admin    9831  7 Jan 13:11 gengraph_qsort.h
> -rw-r--r--  1 root  admin    6445  7 Jan 13:11 gengraph_random.h
> -rw-r--r--  1 root  admin    1311  7 Jan 13:11 gengraph_vertex_cover.h
> -rw-r--r--  1 root  admin    3012  7 Jan 13:11 gml_tree.h
> -rw-r--r--  1 root  admin    1925  7 Jan 13:11 heap.h
> -rw-r--r--  1 root  admin    9136  7 Jan 13:11 heap.pmt
> -rw-r--r--  1 root  admin  115521  7 Jan 13:11 igraph.h
> -rw-r--r--  1 root  admin    2010  7 Jan 13:11 igraph_math.h
> -rw-r--r--  1 root  admin    2790  7 Jan 13:11 igraph_pmt.h
> -rw-r--r--  1 root  admin    1793  7 Jan 13:11 igraph_pmt_off.h
> -rw-r--r--  1 root  admin    5707  7 Jan 13:11 interrupt.h
> -rw-r--r--  1 root  admin    7567  7 Jan 13:11 matrix.h
> -rw-r--r--  1 root  admin   38279  7 Jan 13:11 matrix.pmt
> -rw-r--r--  1 root  admin    4423  7 Jan 13:11 pottsmodel_2.h
> -rw-r--r--  1 root  admin    1640  7 Jan 13:11 stack.h
> -rw-r--r--  1 root  admin    6500  7 Jan 13:11 stack.pmt
> -rw-r--r--  1 root  admin   26043  7 Jan 13:11 types.h
> -rw-r--r--  1 root  admin    8862  7 Jan 13:11 vector.h
> -rw-r--r--  1 root  admin   54712  7 Jan 13:11 vector.pmt
> -rw-r--r--  1 root  admin    6458  7 Jan 13:11 walktrap_communities.h
> -rw-r--r--  1 root  admin    3389  7 Jan 13:11 walktrap_graph.h
> -rw-r--r--  1 root  admin    4285  7 Jan 13:11 walktrap_heap.h
> 
> Best,
> Jonathan
> 
> 
> Am 07.01.2012 um 13:45 schrieb Tamás Nepusz:
> 
>> Hi,
>> 
>> Do you have igraph_arpack.h, igraph_error.h and similar header files in 
>> /opt/local/include/igraph?
>> 
>> -- 
>> T.
>> 
>> On 7 Jan 2012, at 13:43, Jonathan Donges wrote:
>> 
>>> Hi Tamas,
>>> 
>>> That helped to reduce a lot of the errors. But still there are some left 
>>> related to arpack again:
>>> 
>>>>> sudo python setup.py install
>>> 
>>> Include path: /opt/local/include/igraph
>>> Library path: /opt/local/lib
>>> running install
>>> running bdist_egg
>>> running egg_info
>>> writing python_igraph.egg-info/PKG-INFO
>>> writing top-level names to python_igraph.egg-info/top_level.txt
>>> writing dependency_links to python_igraph.egg-info/dependency_links.txt
>>> reading manifest file 'python_igraph.egg-info/SOURCES.txt'
>>> reading manifest template 'MANIFEST.in'
>>> writing manifest file 'python_igraph.egg-info/SOURCES.txt'
>>> installing library code to build/bdist.macosx-10.6-intel/egg
>>> running install_lib
>>> running build_py
>>> running build_ext
>>> building 'igraph._igraph' extension
>>> gcc-4.2 -fno-strict-aliasing -fno-common -dynamic -arch i386 -arch x86_64 
>>> -g -O2 -DNDEBUG -g -O3 -I/opt/local/include/igraph -I../../build/include 
>>> -I../../include -I/usr/local/include -I/usr/include 
>>> -I/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c 
>>> src/arpackobject.c -o build/temp.macosx-10.6-intel-2.7/src/arpackobject.o
>>> In file included from src/arpackobject.c:24:
>>> src/arpackobject.h:28:27: error: igraph_arpack.h: No such file or directory
>>> In file included from src/arpackobject.c:26:
>>> src/error.h:28:26: error: igraph_error.h: No such file or directory
>>> In file included from src/arpackobject.c:24:
>>> src/arpackobject.h:28:27: error: igraph_arpack.h: No such file or directory
>>> In file included from src/arpackobject.c:26:
>>> src/error.h:28:26: error: igraph_error.h: No such file or directory
>>> lipo: can't figure out the architecture type of: /var/tmp//cclTdhxd.out
>>> error: command 'gcc-4.2' failed with exit status 1
>>> 
>>> What else can be done?
>>> 
>>> Cheers,
>>> Jonathan
>>> 
>>> 
>>> Am 06.01.2012 um 15:14 schrieb Tamás Nepusz:
>>> 
>>>> Hi,
>>>> 
>>>> I think I know what the problem is. igraph 0.6 currently puts its include 
>>>> files in an igraph/ subfolder within the include dir (I guess 
>>>> /usr/local/include), but setup.cfg still refers to /usr/local/include. Try 
>>>> using /usr/local/include/igraph instead. The library path can stay as is.
>>>> 
>>>> Cheers,
>>>> Tamas
>>>> 
>>>> On 6 Jan 2012, at 15:06, Jonathan Donges wrote:
>>>> 
>>>>> Hi,
>>>>> 
>>>>> I removed all older versions of the igraph C libraries and made sure that 
>>>>> the libs are installed in /usr/local/lib. The headers are installed in 
>>>>> /usr/local/include. I made sure that these directories are referenced 
>>>>> both in the setup.cfg and setup.py files as recommended:
>>>>> 
>>>>> sudo python setup.py install
>>>>> Using default include and library paths for compilation
>>>>> If the compilation fails, please edit the LIBIGRAPH_FALLBACK_*
>>>>> variables in setup.py or include_dirs and library_dirs in 
>>>>> setup.cfg to point to the correct directories and libraries
>>>>> where the C core of igraph is installed
>>>>> ()
>>>>> Include path: /usr/include /usr/local/include
>>>>> Library path: /usr/lib /usr/local/lib
>>>>> 
>>>>> I still get the same errors as before when trying to install 
>>>>> python-igraph on Lion:
>>>>> 
>>>>> …
>>>>> building 'igraph._igraph' extension
>>>>> gcc-4.2 -fno-strict-aliasing -fno-common -dynamic -arch i386 -arch x86_64 
>>>>> -g -O2 -DNDEBUG -g -O3 -I/usr/include -I/usr/local/include 
>>>>> -I../../build/include -I../../include -I/usr/local/include -I/usr/include 
>>>>> -I/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c 
>>>>> src/arpackobject.c -o build/temp.macosx-10.6-intel-2.7/src/arpackobject.o
>>>>> In file included from src/arpackobject.c:24:
>>>>> src/arpackobject.h:28:27: error: igraph_arpack.h: No such file or 
>>>>> directory
>>>>> In file included from src/arpackobject.h:29,
>>>>>             from src/arpackobject.c:24:
>>>>> src/graphobject.h:28:20: error: igraph.h: No such file or directory
>>>>> …
>>>>> 
>>>>> Do you have an idea what I could do next?
>>>>> 
>>>>> Thanks,
>>>>> Jonathan
>>>>> 
>>>>> 
>>>>> Am 05.01.2012 um 22:53 schrieb Tamás Nepusz:
>>>>> 
>>>>>>> The igraph headers reside in /usr/local/include on my system. Still, I 
>>>>>>> get the same error. Maybe the version is not correct (I had an earlier 
>>>>>>> version of graph installed before upgrading to Lion from Leopard)? How 
>>>>>>> can I check the version of the headers?
>>>>>> Check out /usr/local/include/igraph_version.h, it should contain the 
>>>>>> version number. If you don't have this file then the headers are from 
>>>>>> 0.5.x since this header has been added only in the 0.6 branch.
>>>>>> 
>>>>>> Cheers,
>>>>>> T.
>>>>>> _______________________________________________
>>>>>> igraph-help mailing list
>>>>>> address@hidden
>>>>>> https://lists.nongnu.org/mailman/listinfo/igraph-help
>>>>> 
>>>>> 
>>>>> _______________________________________________
>>>>> igraph-help mailing list
>>>>> address@hidden
>>>>> https://lists.nongnu.org/mailman/listinfo/igraph-help
>>>>> 
>>>> 
>>>> 
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>>> 
>>> 
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>>> 
>> 
>> 
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> 
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