Note: This problem is not covered in any of these posts: 1, 2, 3.
The aim is to get PyGraphviz installed to work with visualualization tools provided by python-weka-wrapper. I just couldn't install PyGraphviz. The following is the error I get when trying from pip
$ sudo pip install git+git://github.com/pygraphviz/pygraphviz.git
Password:
The directory '/Users/Ebe/Library/Caches/pip/http' or its parent directory is not owned by the current user and the cache has been disabled. Please check the permissions and owner of that directory. If executing pip with sudo, you may want sudo's -H flag.
The directory '/Users/Ebe/Library/Caches/pip' or its parent directory is not owned by the current user and caching wheels has been disabled. check the permissions and owner of that directory. If executing pip with sudo, you may want sudo's -H flag.
Collecting git+git://github.com/pygraphviz/pygraphviz.git
Cloning git://github.com/pygraphviz/pygraphviz.git to /tmp/pip-rMp2aK-build
Installing collected packages: pygraphviz
Running setup.py install for pygraphviz ... error
Complete output from command /opt/local/Library/Frameworks/Python.framework/Versions/2.7/Resources/Python.app/Contents/MacOS/Python -u -c "import setuptools, tokenize;__file__='/tmp/pip-rMp2aK-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-CrnqPI-record/install-record.txt --single-version-externally-managed --compile:
/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/setuptools/dist.py:282: UserWarning: Normalizing '1.4.dev' to '1.4.dev0'
normalized_version,
running install
Trying pkg-config
include_dirs=/opt/local/include/graphviz
library_dirs=/opt/local/lib
running build
running build_py
creating build
creating build/lib.macosx-10.9-x86_64-2.7
creating build/lib.macosx-10.9-x86_64-2.7/pygraphviz
copying pygraphviz/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz
copying pygraphviz/agraph.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz
copying pygraphviz/graphviz.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz
copying pygraphviz/release.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz
copying pygraphviz/version.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz
creating build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_attribute_defaults.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_attributes.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_clear.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_drawing.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_edge_attributes.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_graph.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_html.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_layout.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_node_attributes.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_readwrite.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_string.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_subgraph.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
copying pygraphviz/tests/test_unicode.py -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz/tests
running egg_info
creating pygraphviz.egg-info
writing pygraphviz.egg-info/PKG-INFO
writing top-level names to pygraphviz.egg-info/top_level.txt
writing dependency_links to pygraphviz.egg-info/dependency_links.txt
writing manifest file 'pygraphviz.egg-info/SOURCES.txt'
warning: manifest_maker: standard file '-c' not found
reading manifest file 'pygraphviz.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no previously-included files matching '*~' found anywhere in distribution
warning: no previously-included files matching '*.pyc' found anywhere in distribution
warning: no previously-included files matching '.svn' found anywhere in distribution
no previously-included directories found matching 'doc/build'
writing manifest file 'pygraphviz.egg-info/SOURCES.txt'
copying pygraphviz/graphviz.i -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz
copying pygraphviz/graphviz_wrap.c -> build/lib.macosx-10.9-x86_64-2.7/pygraphviz
running build_ext
building 'pygraphviz._graphviz' extension
creating build/temp.macosx-10.9-x86_64-2.7
creating build/temp.macosx-10.9-x86_64-2.7/pygraphviz
/usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/opt/local/include/graphviz -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c pygraphviz/graphviz_wrap.c -o build/temp.macosx-10.9-x86_64-2.7/pygraphviz/graphviz_wrap.o
pygraphviz/graphviz_wrap.c:2987:10: fatal error: 'graphviz/cgraph.h' file not found
#include "graphviz/cgraph.h"
^
1 error generated.
error: command '/usr/bin/clang' failed with exit status 1
----------------------------------------
Command "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/Resources/Python.app/Contents/MacOS/Python -u -c "import setuptools, tokenize;__file__='/tmp/pip-rMp2aK-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-CrnqPI-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-rMp2aK-build/
Graphviz was installed with the help of MacPorts. It's path is clear in the above result
include_dirs=/opt/local/include/graphviz
library_dirs=/opt/local/lib
The graphviz/cgraph.h is also present. So what's going wrong with the installation.
I tried everything in the net, but nothing seems to work. Here is a full list of what I tried.
Installing from git:
sudo pip install git+git://github.com/pygraphviz/pygraphviz.gitInstalling from setup.py from package source:
sudo python setup.py installInstalling with include and library paths along win command line:
sudo python setup.py install --include-path=/opt/local/include/graphviz --library-path=/opt/local/lib/graphviz
Each one of them throws the same error.
What should I do?