import matplotlib.pyplot hangs

python matplotlib python-import

I'm trying to get matplotlib up and running on OS X 10.8.4. I've installed matplotlib and the dependencies (libping, freetype, numpy, scipy). I am able to import matplotlib just fine. However, if I try to import matplotlib.pyplot, it just hangs. There's no error, it's just that nothing happens.

>>> import matplotlib.pyplot

...I've waited maybe 20 minutes an nothing happens. I'm using version 1.2.1, but even uninstalled that and tried version 1.2.0, but to no avail. I've seen a number of questions on SO about import errors with matplotlib.pyplot, but nothing where it just hangs. I then tried to get it working using the Enthought/Canopy python distribution, but again, the same hanging issue. Here's what I see if I kill the import:

Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/pyplot.py", line 26, in <module>
    from matplotlib.figure import Figure, figaspect
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/figure.py", line 34, in <module>
    import matplotlib.colorbar as cbar
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/colorbar.py", line 29, in <module>
    import matplotlib.collections as collections
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/collections.py", line 23, in <module>
    import matplotlib.backend_bases as backend_bases
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/backend_bases.py", line 37, in <module>
    import matplotlib.widgets as widgets
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/widgets.py", line 17, in <module>
    from lines import Line2D
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/lines.py", line 25, in <module>
    from matplotlib.font_manager import FontProperties
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/font_manager.py", line 1335, in <module>
    _rebuild()
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/font_manager.py", line 1322, in _rebuild
    fontManager = FontManager()
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/font_manager.py", line 980, in __init__
    self.ttffiles = findSystemFonts(paths) + findSystemFonts()
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/font_manager.py", line 317, in findSystemFonts
    for f in get_fontconfig_fonts(fontext):
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/site-packages/matplotlib/font_manager.py", line 274, in get_fontconfig_fonts
    output = pipe.communicate()[0]
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/subprocess.py", line 746, in communicate
    stdout = _eintr_retry_call(self.stdout.read)
  File "/Applications/Canopy.app/appdata/canopy-1.0.3.1262.macosx-x86_64/Canopy.app/Contents/lib/python2.7/subprocess.py", line 478, in _eintr_retry_call
    return func(*args)
KeyboardInterrupt

The output was the same when I was using the default python 2.7 that comes with OS X.

UPDATE

Allowing import matplotlib.pyplot to run for a few hours and then interrupting the import now gives me this output:

Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/Library/Python/2.7/site-packages/matplotlib/pyplot.py", line 26, in <module>
    from matplotlib.figure import Figure, figaspect
  File "/Library/Python/2.7/site-packages/matplotlib/figure.py", line 34, in <module>
    import matplotlib.colorbar as cbar
  File "/Library/Python/2.7/site-packages/matplotlib/colorbar.py", line 29, in <module>
    import matplotlib.collections as collections
  File "/Library/Python/2.7/site-packages/matplotlib/collections.py", line 23, in <module>
    import matplotlib.backend_bases as backend_bases
  File "/Library/Python/2.7/site-packages/matplotlib/backend_bases.py", line 37, in <module>
    import matplotlib.widgets as widgets
  File "/Library/Python/2.7/site-packages/matplotlib/widgets.py", line 17, in <module>
    from lines import Line2D
  File "/Library/Python/2.7/site-packages/matplotlib/lines.py", line 25, in <module>
    from matplotlib.font_manager import FontProperties
  File "/Library/Python/2.7/site-packages/matplotlib/font_manager.py", line 1335, in <module>
    _rebuild()
  File "/Library/Python/2.7/site-packages/matplotlib/font_manager.py", line 1322, in _rebuild
    fontManager = FontManager()
  File "/Library/Python/2.7/site-packages/matplotlib/font_manager.py", line 980, in __init__
    self.ttffiles = findSystemFonts(paths) + findSystemFonts()
  File "/Library/Python/2.7/site-packages/matplotlib/font_manager.py", line 324, in findSystemFonts
    files = list_fonts(path, fontexts)
  File "/Library/Python/2.7/site-packages/matplotlib/font_manager.py", line 171, in list_fonts
    return cbook.listFiles(directory, pattern)
  File "/Library/Python/2.7/site-packages/matplotlib/cbook.py", line 944, in listFiles
    for dirname, dirs, files in os.walk(root):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 294, in walk
    for x in walk(new_path, topdown, onerror, followlinks):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/os.py", line 284, in walk
    if isdir(join(top, name)):
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/genericpath.py", line 41, in isdir
    st = os.stat(s)
KeyboardInterrupt

Does anyone know what the recursive for x in walk(new_path, topdown, onerror, followlinks): might indicate?


You can fix the problem on Mac OS X Mavericks and Yosemite by doing the following:

cd ~/.matplotlib/
fc-list  # Should take a couple minutes.

After fc-list finishes running you will be able to import the package using import matplotlib.pyplot as plt. This is the github issue with the solution. It seems the bug is related to the font cache.


I figured out what was happening. Hopefully the solution is useful to others. In the /usr/X11/lib folder there was a symbolic link for the directory that was pointing back to itself. This appears to have created an infinite loop. When I removed the link, the import worked.


I was having the same problem on Linux.

Turned out matplotlib was having some issues figuring out the GUI backend to use.

Explicitly saying it to use Tkinter background - which it does by default, using the following command resolved the issue:

%matplotlib tk

This followed by import

import matplotlib.pyplot as plt

worked as expected.

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