python make.py html failure

_Nils_Wagner · December 22, 2009, 8:42pm

Hi all,

I cannot build the documentation of matplotlib.
I am using the latest svn of numpy and matplotlib.

How can I fix the problem ?

Nils

python make.py html
Running Sphinx v1.0
loading pickled environment... not found
animation, api, axes_grid, event_handling, misc, mplot3d, pngsuite, pylab_examples, tests, units, user_interfaces, widgets,
building [html]: targets for 494 source files that are out of date
updating environment: 494 added, 0 changed, 0 removed
/home/nwagner/local/lib64/python2.6/site-packages/numpy/core/numeric.py:692: DeprecationWarning:
The current behavior of correlate is deprecated for 1.4.0, and will be removed
for NumPy 1.5.0.

The new behavior fits the conventional definition of correlation: inputs are
never swapped, and the second argument is conjugated for complex arrays.
   DeprecationWarning)
/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py:273: UserWarning: Exception running plot /home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_divider.py
Traceback (most recent call last):
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 270, in render_figures
     run_code(plot_path, function_name, plot_code)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 182, in run_code
     "__plot__", fd, fname, ('py', 'r', imp.PY_SOURCE))
   File "demo_axes_divider.py", line 129, in <module>
   File "demo_axes_divider.py", line 125, in demo
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/pyplot.py", line 350, in draw
     get_current_fig_manager().canvas.draw()
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/backends/backend_agg.py", line 388, in draw
     self.figure.draw(self.renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/figure.py", line 802, in draw
     func(*args)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axes_divider.py", line 582, in draw
     self._axes_class.draw(self, renderer, inframe)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axislines.py", line 710, in draw
     super(Axes, self).draw(renderer, inframe)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/axes.py", line 1775, in draw
     a.draw(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 1343, in draw
     self._draw_ticks(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 1209, in _draw_ticks
     self.major_ticks.draw(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 309, in draw
     gc.set_foreground(self.get_markeredgecolor())
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 236, in get_markeredgecolor
     return self.get_color()
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 232, in get_color
     return self.get_attribute_from_ref_artist("color", "k")
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 187, in get_attribute_from_ref_artist
     ref_artist = self.get_ref_artist()
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 229, in get_ref_artist
     return self._ref_artist.get_ticklines()[0]
IndexError: list index out of range

   warnings.warn(s)
/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py:273: UserWarning: Exception running plot /home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_rgb.py
Traceback (most recent call last):
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 270, in render_figures
     run_code(plot_path, function_name, plot_code)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 182, in run_code
     "__plot__", fd, fname, ('py', 'r', imp.PY_SOURCE))
   File "demo_axes_rgb.py", line 4, in <module>
   File "/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_divider.py", line 129, in <module>
     demo()
   File "/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_divider.py", line 125, in demo
     plt.draw()
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/pyplot.py", line 350, in draw
     get_current_fig_manager().canvas.draw()
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/backends/backend_agg.py", line 388, in draw
     self.figure.draw(self.renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/figure.py", line 802, in draw
     func(*args)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axes_divider.py", line 582, in draw
     self._axes_class.draw(self, renderer, inframe)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axislines.py", line 710, in draw
     super(Axes, self).draw(renderer, inframe)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/axes.py", line 1775, in draw
     a.draw(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 1343, in draw
     self._draw_ticks(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 1209, in _draw_ticks
     self.major_ticks.draw(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 309, in draw
     gc.set_foreground(self.get_markeredgecolor())
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 236, in get_markeredgecolor
     return self.get_color()
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 232, in get_color
     return self.get_attribute_from_ref_artist("color", "k")
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 187, in get_attribute_from_ref_artist
     ref_artist = self.get_ref_artist()
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 229, in get_ref_artist
     return self._ref_artist.get_ticklines()[0]
IndexError: list index out of range

   warnings.warn(s)
/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py:273: UserWarning: Exception running plot /home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_fixed_size_axes.py
Traceback (most recent call last):
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 270, in render_figures
     run_code(plot_path, function_name, plot_code)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 180, in run_code
     fd = open(fname)
IOError: [Errno 2] No such file or directory: 'demo_fixed_size_axes.py'

   warnings.warn(s)
Exception occurred while building, starting debugger:
Traceback (most recent call last):
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/cmdline.py", line 172, in main
     app.build(all_files, filenames)
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/application.py", line 130, in build
     self.builder.build_update()
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/builders/__init__.py", line 265, in build_update
     'out of date' % len(to_build))
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/builders/__init__.py", line 285, in build
     purple, length):
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/builders/__init__.py", line 131, in status_iterator
     for item in iterable:
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/environment.py", line 513, in update_generator
     self.read_doc(docname, app=app)
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/environment.py", line 604, in read_doc
     pub.publish()
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/core.py", line 204, in publish
     self.settings)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/readers/__init__.py", line 69, in read
     self.parse()
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/readers/__init__.py", line 75, in parse
     self.parser.parse(self.input, document)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/__init__.py", line 157, in parse
     self.statemachine.run(inputlines, document, inliner=self.inliner)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 170, in run
     input_source=document['source'])
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py", line 232, in run
     context, state, transitions)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py", line 420, in check_line
     return method(match, context, next_state)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 2658, in underline
     self.section(title, source, style, lineno - 1, messages)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 308, in section
     self.new_subsection(title, lineno, messages)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 376, in new_subsection
     node=section_node, match_titles=1)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 266, in nested_parse
     node=node, match_titles=match_titles)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 195, in run
     results = StateMachineWS.run(self, input_lines, input_offset)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py", line 232, in run
     context, state, transitions)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py", line 420, in check_line
     return method(match, context, next_state)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 2239, in explicit_markup
     nodelist, blank_finish = self.explicit_construct(match)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 2251, in explicit_construct
     return method(self, expmatch)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 1994, in directive
     directive_class, match, type_name, option_presets)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 2043, in run_directive
     result = directive_instance.run()
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/__init__.py", line 364, in run
     self.state, self.state_machine)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 414, in plot_directive
     options, state_machine)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 337, in _plot_directive
     shutil.copyfile(plot_path, os.path.join(destdir, fname))
   File "/usr/lib64/python2.6/shutil.py", line 52, in copyfile
     fsrc = open(src, 'rb')
IOError: [Errno 2] No such file or directory: u'/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_fixed_size_axes.py'

/usr/lib64/python2.6/shutil.py(52)copyfile()

-> fsrc = open(src, 'rb')

Michael_Droettboom1 · December 22, 2009, 9:32pm

I get the same errors as you (which seem to indicate a bug in the axis_grid toolkit), but it's not catastrophic -- the documentation is ultimately built anyway, missing a couple of figures. (I tried with both Sphinx 0.6.3 and Sphinx hg latest).

Have you tried a clean rebuild? (By removing the doc/build directory?)

Mike

Nils Wagner wrote:

···

Hi all,

I cannot build the documentation of matplotlib.
I am using the latest svn of numpy and matplotlib.

How can I fix the problem ?

               Nils

python make.py html
Running Sphinx v1.0
loading pickled environment... not found
animation, api, axes_grid, event_handling, misc, mplot3d, pngsuite, pylab_examples, tests, units, user_interfaces, widgets,
building [html]: targets for 494 source files that are out of date
updating environment: 494 added, 0 changed, 0 removed
/home/nwagner/local/lib64/python2.6/site-packages/numpy/core/numeric.py:692: DeprecationWarning:
The current behavior of correlate is deprecated for 1.4.0, and will be removed
for NumPy 1.5.0.

The new behavior fits the conventional definition of correlation: inputs are
never swapped, and the second argument is conjugated for complex arrays.
   DeprecationWarning)
/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py:273: UserWarning: Exception running plot /home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_divider.py
Traceback (most recent call last):
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 270, in render_figures
     run_code(plot_path, function_name, plot_code)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 182, in run_code
     "__plot__", fd, fname, ('py', 'r', imp.PY_SOURCE))
   File "demo_axes_divider.py", line 129, in <module>
   File "demo_axes_divider.py", line 125, in demo
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/pyplot.py", line 350, in draw
     get_current_fig_manager().canvas.draw()
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/backends/backend_agg.py", line 388, in draw
     self.figure.draw(self.renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/figure.py", line 802, in draw
     func(*args)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axes_divider.py", line 582, in draw
     self._axes_class.draw(self, renderer, inframe)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axislines.py", line 710, in draw
     super(Axes, self).draw(renderer, inframe)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/axes.py", line 1775, in draw
     a.draw(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 1343, in draw
     self._draw_ticks(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 1209, in _draw_ticks
     self.major_ticks.draw(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 309, in draw
     gc.set_foreground(self.get_markeredgecolor())
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 236, in get_markeredgecolor
     return self.get_color()
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 232, in get_color
     return self.get_attribute_from_ref_artist("color", "k")
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 187, in get_attribute_from_ref_artist
     ref_artist = self.get_ref_artist()
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 229, in get_ref_artist
     return self._ref_artist.get_ticklines()[0]
IndexError: list index out of range

   warnings.warn(s)
/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py:273: UserWarning: Exception running plot /home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_rgb.py
Traceback (most recent call last):
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 270, in render_figures
     run_code(plot_path, function_name, plot_code)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 182, in run_code
     "__plot__", fd, fname, ('py', 'r', imp.PY_SOURCE))
   File "demo_axes_rgb.py", line 4, in <module>
   File "/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_divider.py", line 129, in <module>
     demo()
   File "/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_divider.py", line 125, in demo
     plt.draw()
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/pyplot.py", line 350, in draw
     get_current_fig_manager().canvas.draw()
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/backends/backend_agg.py", line 388, in draw
     self.figure.draw(self.renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/figure.py", line 802, in draw
     func(*args)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axes_divider.py", line 582, in draw
     self._axes_class.draw(self, renderer, inframe)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axislines.py", line 710, in draw
     super(Axes, self).draw(renderer, inframe)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/axes.py", line 1775, in draw
     a.draw(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py", line 55, in draw_wrapper
     draw(artist, renderer, *kl)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 1343, in draw
     self._draw_ticks(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 1209, in _draw_ticks
     self.major_ticks.draw(renderer)
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 309, in draw
     gc.set_foreground(self.get_markeredgecolor())
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 236, in get_markeredgecolor
     return self.get_color()
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 232, in get_color
     return self.get_attribute_from_ref_artist("color", "k")
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 187, in get_attribute_from_ref_artist
     ref_artist = self.get_ref_artist()
   File "/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py", line 229, in get_ref_artist
     return self._ref_artist.get_ticklines()[0]
IndexError: list index out of range

   warnings.warn(s)
/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py:273: UserWarning: Exception running plot /home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_fixed_size_axes.py
Traceback (most recent call last):
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 270, in render_figures
     run_code(plot_path, function_name, plot_code)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 180, in run_code
     fd = open(fname)
IOError: [Errno 2] No such file or directory: 'demo_fixed_size_axes.py'

   warnings.warn(s)
Exception occurred while building, starting debugger:
Traceback (most recent call last):
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/cmdline.py", line 172, in main
     app.build(all_files, filenames)
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/application.py", line 130, in build
     self.builder.build_update()
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/builders/__init__.py", line 265, in build_update
     'out of date' % len(to_build))
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/builders/__init__.py", line 285, in build
     purple, length):
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/builders/__init__.py", line 131, in status_iterator
     for item in iterable:
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/environment.py", line 513, in update_generator
     self.read_doc(docname, app=app)
   File "/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/environment.py", line 604, in read_doc
     pub.publish()
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/core.py", line 204, in publish
     self.settings)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/readers/__init__.py", line 69, in read
     self.parse()
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/readesphinx repositoryrs/__init__.py", line 75, in parse
     self.parser.parse(self.input, document)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/__init__.py", line 157, in parse
     self.statemachine.run(inputlines, document, inliner=self.inliner)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 170, in run
     input_source=document['source'])
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py", line 232, in run
     context, state, transitions)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py", line 420, in check_line
     return method(match, context, next_state)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 2658, in underline
     self.section(title, source, style, lineno - 1, messages)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 308, in section
     self.new_subsection(title, lineno, messages)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 376, in new_subsection
     node=section_node, match_titles=1)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 266, in nested_parse
     node=node, match_titles=match_titles)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 195, in run
     results = StateMachineWS.run(self, input_lines, input_offset)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py", line 232, in run
     context, state, transitions)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py", line 420, in check_line
     return method(match, context, next_state)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 2239, in explicit_markup
     nodelist, blank_finish = self.explicit_construct(match)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 2251, in explicit_construct
     return method(self, expmatch)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 1994, in directive
     directive_class, match, type_name, option_presets)
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py", line 2043, in run_directive
     result = directive_instance.run()
   File "/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/__init__.py", line 364, in run
     self.state, self.state_machine)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 414, in plot_directive
     options, state_machine)
   File "/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 337, in _plot_directive
     shutil.copyfile(plot_path, os.path.join(destdir, fname))
   File "/usr/lib64/python2.6/shutil.py", line 52, in copyfile
     fsrc = open(src, 'rb')
IOError: [Errno 2] No such file or directory: u'/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_fixed_size_axes.py'


/usr/lib64/python2.6/shutil.py(52)copyfile()


-> fsrc = open(src, 'rb')

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--
Michael Droettboom
Science Software Branch
Operations and Engineering Division
Space Telescope Science Institute
Operated by AURA for NASA

_Jae-Joon_Lee1 · December 22, 2009, 10:38pm

As far as I can see, this happens when there are obsolete rst files
(related with the Gallery I guess), created during the doc. build with
previous svn checkout.

For example, I recently removed
mpl_examples/axes_grid/demo_fixed_size_axes.py from the svn. But if
you ever have built the documentation with previous svn checkout
(before that file is removed), then you already have some associated
rst files under the doc/examples directory. And the errors are raised
when these obsolete files are processed with sphinx.

I think removing doc/examples directory will solve the problem, or
build the doc from the completely new checkout.

We may delete the "doc/examples" directory within the "make.py", but
I'm not sure how much this will slow down the build time.

Please let me know if there still is a problem.

Regards,

-JJ

···

On Tue, Dec 22, 2009 at 4:32 PM, Michael Droettboom <mdroe@...86...> wrote:

I get the same errors as you (which seem to indicate a bug in the
axis_grid toolkit), but it's not catastrophic -- the documentation is
ultimately built anyway, missing a couple of figures. (I tried with
both Sphinx 0.6.3 and Sphinx hg latest).

Have you tried a clean rebuild? (By removing the doc/build directory?)

Mike

Nils Wagner wrote:
Hi all,

I cannot build the documentation of matplotlib.
I am using the latest svn of numpy and matplotlib.

How can I fix the problem ?
           Nils
python make.py html
Running Sphinx v1.0
loading pickled environment... not found
animation, api, axes_grid, event_handling, misc, mplot3d,
pngsuite, pylab_examples, tests, units, user_interfaces,
widgets,
building [html]: targets for 494 source files that are out
of date
updating environment: 494 added, 0 changed, 0 removed
/home/nwagner/local/lib64/python2.6/site-packages/numpy/core/numeric.py:692:
DeprecationWarning:
The current behavior of correlate is deprecated for 1.4.0,
and will be removed
for NumPy 1.5.0.

The new behavior fits the conventional definition of
correlation: inputs are
never swapped, and the second argument is conjugated for
complex arrays.
DeprecationWarning)
/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py:273:
UserWarning: Exception running plot
/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_divider.py
Traceback (most recent call last):
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py",
line 270, in render_figures
run_code(plot_path, function_name, plot_code)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py",
line 182, in run_code
"__plot__", fd, fname, ('py', 'r', imp.PY_SOURCE))
File "demo_axes_divider.py", line 129, in <module>
File "demo_axes_divider.py", line 125, in demo
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/pyplot.py",
line 350, in draw
get_current_fig_manager().canvas.draw()
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/backends/backend_agg.py",
line 388, in draw
self.figure.draw(self.renderer)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py",
line 55, in draw_wrapper
draw(artist, renderer, *kl)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/figure.py",
line 802, in draw
func(*args)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axes_divider.py",
line 582, in draw
self._axes_class.draw(self, renderer, inframe)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axislines.py",
line 710, in draw
super(Axes, self).draw(renderer, inframe)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py",
line 55, in draw_wrapper
draw(artist, renderer, *kl)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/axes.py",
line 1775, in draw
a.draw(renderer)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py",
line 55, in draw_wrapper
draw(artist, renderer, *kl)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 1343, in draw
self._draw_ticks(renderer)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 1209, in _draw_ticks
self.major_ticks.draw(renderer)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 309, in draw
gc.set_foreground(self.get_markeredgecolor())
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 236, in get_markeredgecolor
return self.get_color()
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 232, in get_color
return self.get_attribute_from_ref_artist("color",
"k")
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 187, in get_attribute_from_ref_artist
ref_artist = self.get_ref_artist()
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 229, in get_ref_artist
return self._ref_artist.get_ticklines()[0]
IndexError: list index out of range

warnings.warn(s)
/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py:273:
UserWarning: Exception running plot
/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_rgb.py
Traceback (most recent call last):
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py",
line 270, in render_figures
run_code(plot_path, function_name, plot_code)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py",
line 182, in run_code
"__plot__", fd, fname, ('py', 'r', imp.PY_SOURCE))
File "demo_axes_rgb.py", line 4, in <module>
File
"/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_divider.py",
line 129, in <module>
demo()
File
"/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_axes_divider.py",
line 125, in demo
plt.draw()
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/pyplot.py",
line 350, in draw
get_current_fig_manager().canvas.draw()
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/backends/backend_agg.py",
line 388, in draw
self.figure.draw(self.renderer)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py",
line 55, in draw_wrapper
draw(artist, renderer, *kl)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/figure.py",
line 802, in draw
func(*args)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axes_divider.py",
line 582, in draw
self._axes_class.draw(self, renderer, inframe)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axislines.py",
line 710, in draw
super(Axes, self).draw(renderer, inframe)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py",
line 55, in draw_wrapper
draw(artist, renderer, *kl)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/axes.py",
line 1775, in draw
a.draw(renderer)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/artist.py",
line 55, in draw_wrapper
draw(artist, renderer, *kl)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 1343, in draw
self._draw_ticks(renderer)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 1209, in _draw_ticks
self.major_ticks.draw(renderer)
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 309, in draw
gc.set_foreground(self.get_markeredgecolor())
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 236, in get_markeredgecolor
return self.get_color()
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 232, in get_color
return self.get_attribute_from_ref_artist("color",
"k")
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 187, in get_attribute_from_ref_artist
ref_artist = self.get_ref_artist()
File
"/home/nwagner/local/lib64/python2.6/site-packages/mpl_toolkits/axes_grid/axis_artist.py",
line 229, in get_ref_artist
return self._ref_artist.get_ticklines()[0]
IndexError: list index out of range

warnings.warn(s)
/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py:273:
UserWarning: Exception running plot
/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_fixed_size_axes.py
Traceback (most recent call last):
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py",
line 270, in render_figures
run_code(plot_path, function_name, plot_code)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py",
line 180, in run_code
fd = open(fname)
IOError: [Errno 2] No such file or directory:
'demo_fixed_size_axes.py'

warnings.warn(s)
Exception occurred while building, starting debugger:
Traceback (most recent call last):
File
"/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/cmdline.py",
line 172, in main
app.build(all_files, filenames)
File
"/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/application.py",
line 130, in build
self.builder.build_update()
File
"/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/builders/__init__.py",
line 265, in build_update
'out of date' % len(to_build))
File
"/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/builders/__init__.py",
line 285, in build
purple, length):
File
"/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/builders/__init__.py",
line 131, in status_iterator
for item in iterable:
File
"/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/environment.py",
line 513, in update_generator
self.read_doc(docname, app=app)
File
"/home/nwagner/local/lib64/python2.6/site-packages/Sphinx-1.0dev_20091204-py2.6.egg/sphinx/environment.py",
line 604, in read_doc
pub.publish()
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/core.py",
line 204, in publish
self.settings)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/readers/__init__.py",
line 69, in read
self.parse()
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/readesphinx repositoryrs/__init__.py",
line 75, in parse
self.parser.parse(self.input, document)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/__init__.py",
line 157, in parse
self.statemachine.run(inputlines, document,
inliner=self.inliner)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 170, in run
input_source=document['source'])
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py",
line 232, in run
context, state, transitions)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py",
line 420, in check_line
return method(match, context, next_state)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 2658, in underline
self.section(title, source, style, lineno - 1,
messages)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 308, in section
self.new_subsection(title, lineno, messages)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 376, in new_subsection
node=section_node, match_titles=1)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 266, in nested_parse
node=node, match_titles=match_titles)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 195, in run
results = StateMachineWS.run(self, input_lines,
input_offset)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py",
line 232, in run
context, state, transitions)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/statemachine.py",
line 420, in check_line
return method(match, context, next_state)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 2239, in explicit_markup
nodelist, blank_finish =
self.explicit_construct(match)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 2251, in explicit_construct
return method(self, expmatch)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 1994, in directive
directive_class, match, type_name, option_presets)
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/states.py",
line 2043, in run_directive
result = directive_instance.run()
File
"/home/nwagner/local/lib64/python2.6/site-packages/docutils-0.5-py2.6.egg/docutils/parsers/rst/__init__.py",
line 364, in run
self.state, self.state_machine)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py",
line 414, in plot_directive
options, state_machine)
File
"/home/nwagner/local/lib64/python2.6/site-packages/matplotlib/sphinxext/plot_directive.py",
line 337, in _plot_directive
shutil.copyfile(plot_path, os.path.join(destdir,
fname))
File "/usr/lib64/python2.6/shutil.py", line 52, in
copyfile
fsrc = open(src, 'rb')
IOError: [Errno 2] No such file or directory:
u'/home/nwagner/svn/matplotlib/doc/mpl_examples/axes_grid/demo_fixed_size_axes.py'

/usr/lib64/python2.6/shutil.py(52)copyfile()

-> fsrc = open(src, 'rb')

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_Nils_Wagner · December 23, 2009, 7:58am

Removing doc/examples has resolved the problem. Thank you very much !

Regards,

Nils

···

On Tue, 22 Dec 2009 17:38:41 -0500 Jae-Joon Lee <lee.j.joon@...287...> wrote:

As far as I can see, this happens when there are obsolete rst files
(related with the Gallery I guess), created during the doc. build with
previous svn checkout.

For example, I recently removed
mpl_examples/axes_grid/demo_fixed_size_axes.py from the svn. But if
you ever have built the documentation with previous svn checkout
(before that file is removed), then you already have some associated
rst files under the doc/examples directory. And the errors are raised
when these obsolete files are processed with sphinx.

I think removing doc/examples directory will solve the problem, or
build the doc from the completely new checkout.

We may delete the "doc/examples" directory within the "make.py", but
I'm not sure how much this will slow down the build time.

Please let me know if there still is a problem.

Regards,

-JJ