diff --git a/docs/sphinxext/inheritance_diagram.py b/docs/sphinxext/inheritance_diagram.py
new file mode 100644
index 0000000..213abf8
--- /dev/null
+++ b/docs/sphinxext/inheritance_diagram.py
@@ -0,0 +1,423 @@
+"""
+Defines a docutils directive for inserting inheritance diagrams.
+
+Provide the directive with one or more classes or modules (separated
+by whitespace). For modules, all of the classes in that module will
+be used.
+
+Example::
+
+ Given the following classes:
+
+ class A: pass
+ class B(A): pass
+ class C(A): pass
+ class D(B, C): pass
+ class E(B): pass
+
+ .. inheritance-diagram: D E
+
+ Produces a graph like the following:
+
+ A
+ / \
+ B C
+ / \ /
+ E D
+
+The graph is inserted as a PNG+image map into HTML and a PDF in
+LaTeX.
+"""
+
+import inspect
+import os
+import re
+import subprocess
+try:
+ from hashlib import md5
+except ImportError:
+ from md5 import md5
+
+from docutils.nodes import Body, Element
+from docutils.writers.html4css1 import HTMLTranslator
+from sphinx.latexwriter import LaTeXTranslator
+from docutils.parsers.rst import directives
+from sphinx.roles import xfileref_role
+
+class DotException(Exception):
+ pass
+
+class InheritanceGraph(object):
+ """
+ Given a list of classes, determines the set of classes that
+ they inherit from all the way to the root "object", and then
+ is able to generate a graphviz dot graph from them.
+ """
+ def __init__(self, class_names, show_builtins=False):
+ """
+ *class_names* is a list of child classes to show bases from.
+
+ If *show_builtins* is True, then Python builtins will be shown
+ in the graph.
+ """
+ self.class_names = class_names
+ self.classes = self._import_classes(class_names)
+ self.all_classes = self._all_classes(self.classes)
+ if len(self.all_classes) == 0:
+ raise ValueError("No classes found for inheritance diagram")
+ self.show_builtins = show_builtins
+
+ py_sig_re = re.compile(r'''^([\w.]*\.)? # class names
+ (\w+) \s* $ # optionally arguments
+ ''', re.VERBOSE)
+
+ def _import_class_or_module(self, name):
+ """
+ Import a class using its fully-qualified *name*.
+ """
+ try:
+ path, base = self.py_sig_re.match(name).groups()
+ except:
+ raise ValueError(
+ "Invalid class or module '%s' specified for inheritance diagram" % name)
+ fullname = (path or '') + base
+ path = (path and path.rstrip('.'))
+ if not path:
+ path = base
+ if not path:
+ raise ValueError(
+ "Invalid class or module '%s' specified for inheritance diagram" % name)
+ try:
+ module = __import__(path, None, None, [])
+ except ImportError:
+ raise ValueError(
+ "Could not import class or module '%s' specified for inheritance diagram" % name)
+
+ try:
+ todoc = module
+ for comp in fullname.split('.')[1:]:
+ todoc = getattr(todoc, comp)
+ except AttributeError:
+ raise ValueError(
+ "Could not find class or module '%s' specified for inheritance diagram" % name)
+
+ # If a class, just return it
+ if inspect.isclass(todoc):
+ return [todoc]
+ elif inspect.ismodule(todoc):
+ classes = []
+ for cls in todoc.__dict__.values():
+ if inspect.isclass(cls) and cls.__module__ == todoc.__name__:
+ classes.append(cls)
+ return classes
+ raise ValueError(
+ "'%s' does not resolve to a class or module" % name)
+
+ def _import_classes(self, class_names):
+ """
+ Import a list of classes.
+ """
+ classes = []
+ for name in class_names:
+ classes.extend(self._import_class_or_module(name))
+ return classes
+
+ def _all_classes(self, classes):
+ """
+ Return a list of all classes that are ancestors of *classes*.
+ """
+ all_classes = {}
+
+ def recurse(cls):
+ all_classes[cls] = None
+ for c in cls.__bases__:
+ if c not in all_classes:
+ recurse(c)
+
+ for cls in classes:
+ recurse(cls)
+
+ return all_classes.keys()
+
+ def class_name(self, cls, parts=0):
+ """
+ Given a class object, return a fully-qualified name. This
+ works for things I've tested in matplotlib so far, but may not
+ be completely general.
+ """
+ module = cls.__module__
+ if module == '__builtin__':
+ fullname = cls.__name__
+ else:
+ fullname = "%s.%s" % (module, cls.__name__)
+ if parts == 0:
+ return fullname
+ name_parts = fullname.split('.')
+ return '.'.join(name_parts[-parts:])
+
+ def get_all_class_names(self):
+ """
+ Get all of the class names involved in the graph.
+ """
+ return [self.class_name(x) for x in self.all_classes]
+
+ # These are the default options for graphviz
+ default_graph_options = {
+ "rankdir": "LR",
+ "size": '"8.0, 12.0"'
+ }
+ default_node_options = {
+ "shape": "box",
+ "fontsize": 10,
+ "height": 0.25,
+ "fontname": "Vera Sans, DejaVu Sans, Liberation Sans, Arial, Helvetica, sans",
+ "style": '"setlinewidth(0.5)"'
+ }
+ default_edge_options = {
+ "arrowsize": 0.5,
+ "style": '"setlinewidth(0.5)"'
+ }
+
+ def _format_node_options(self, options):
+ return ','.join(["%s=%s" % x for x in options.items()])
+ def _format_graph_options(self, options):
+ return ''.join(["%s=%s;\n" % x for x in options.items()])
+
+ def generate_dot(self, fd, name, parts=0, urls={},
+ graph_options={}, node_options={},
+ edge_options={}):
+ """
+ Generate a graphviz dot graph from the classes that
+ were passed in to __init__.
+
+ *fd* is a Python file-like object to write to.
+
+ *name* is the name of the graph
+
+ *urls* is a dictionary mapping class names to http urls
+
+ *graph_options*, *node_options*, *edge_options* are
+ dictionaries containing key/value pairs to pass on as graphviz
+ properties.
+ """
+ g_options = self.default_graph_options.copy()
+ g_options.update(graph_options)
+ n_options = self.default_node_options.copy()
+ n_options.update(node_options)
+ e_options = self.default_edge_options.copy()
+ e_options.update(edge_options)
+
+ fd.write('digraph %s {\n' % name)
+ fd.write(self._format_graph_options(g_options))
+
+ for cls in self.all_classes:
+ if not self.show_builtins and cls in __builtins__.values():
+ continue
+
+ name = self.class_name(cls, parts)
+
+ # Write the node
+ this_node_options = n_options.copy()
+ url = urls.get(self.class_name(cls))
+ if url is not None:
+ this_node_options['URL'] = '"%s"' % url
+ fd.write(' "%s" [%s];\n' %
+ (name, self._format_node_options(this_node_options)))
+
+ # Write the edges
+ for base in cls.__bases__:
+ if not self.show_builtins and base in __builtins__.values():
+ continue
+
+ base_name = self.class_name(base, parts)
+ fd.write(' "%s" -> "%s" [%s];\n' %
+ (base_name, name,
+ self._format_node_options(e_options)))
+ fd.write('}\n')
+
+ def run_dot(self, args, name, parts=0, urls={},
+ graph_options={}, node_options={}, edge_options={}):
+ """
+ Run graphviz 'dot' over this graph, returning whatever 'dot'
+ writes to stdout.
+
+ *args* will be passed along as commandline arguments.
+
+ *name* is the name of the graph
+
+ *urls* is a dictionary mapping class names to http urls
+
+ Raises DotException for any of the many os and
+ installation-related errors that may occur.
+ """
+ try:
+ dot = subprocess.Popen(['dot'] + list(args),
+ stdin=subprocess.PIPE, stdout=subprocess.PIPE,
+ close_fds=True)
+ except OSError:
+ raise DotException("Could not execute 'dot'. Are you sure you have 'graphviz' installed?")
+ except ValueError:
+ raise DotException("'dot' called with invalid arguments")
+ except:
+ raise DotException("Unexpected error calling 'dot'")
+
+ self.generate_dot(dot.stdin, name, parts, urls, graph_options,
+ node_options, edge_options)
+ dot.stdin.close()
+ result = dot.stdout.read()
+ returncode = dot.wait()
+ if returncode != 0:
+ raise DotException("'dot' returned the errorcode %d" % returncode)
+ return result
+
+class inheritance_diagram(Body, Element):
+ """
+ A docutils node to use as a placeholder for the inheritance
+ diagram.
+ """
+ pass
+
+def inheritance_diagram_directive_run(class_names, options, state):
+ """
+ Run when the inheritance_diagram directive is first encountered.
+ """
+ node = inheritance_diagram()
+
+ # Create a graph starting with the list of classes
+ graph = InheritanceGraph(class_names)
+
+ # Create xref nodes for each target of the graph's image map and
+ # add them to the doc tree so that Sphinx can resolve the
+ # references to real URLs later. These nodes will eventually be
+ # removed from the doctree after we're done with them.
+ for name in graph.get_all_class_names():
+ refnodes, x = xfileref_role(
+ 'class', ':class:`%s`' % name, name, 0, state)
+ node.extend(refnodes)
+ # Store the graph object so we can use it to generate the
+ # dot file later
+ node['graph'] = graph
+ # Store the original content for use as a hash
+ node['parts'] = options.get('parts', 0)
+ node['content'] = " ".join(class_names)
+ return [node]
+
+def get_graph_hash(node):
+ return md5(node['content'] + str(node['parts'])).hexdigest()[-10:]
+
+def html_output_graph(self, node):
+ """
+ Output the graph for HTML. This will insert a PNG with clickable
+ image map.
+ """
+ graph = node['graph']
+ parts = node['parts']
+
+ graph_hash = get_graph_hash(node)
+ name = "inheritance%s" % graph_hash
+ png_path = os.path.join('_static', name + ".png")
+
+ path = '_static'
+ source = self.document.attributes['source']
+ count = source.split('/doc/')[-1].count('/')
+ for i in range(count):
+ if os.path.exists(path): break
+ path = '../'+path
+ path = '../'+path #specifically added for matplotlib
+
+ # Create a mapping from fully-qualified class names to URLs.
+ urls = {}
+ for child in node:
+ if child.get('refuri') is not None:
+ urls[child['reftitle']] = child.get('refuri')
+ elif child.get('refid') is not None:
+ urls[child['reftitle']] = '#' + child.get('refid')
+
+ # These arguments to dot will save a PNG file to disk and write
+ # an HTML image map to stdout.
+ image_map = graph.run_dot(['-Tpng', '-o%s' % png_path, '-Tcmapx'],
+ name, parts, urls)
+ return ('<img src="%s/%s.png" usemap="#%s" class="inheritance"/>%s' %
+ (path, name, name, image_map))
+
+def latex_output_graph(self, node):
+ """
+ Output the graph for LaTeX. This will insert a PDF.
+ """
+ graph = node['graph']
+ parts = node['parts']
+
+ graph_hash = get_graph_hash(node)
+ name = "inheritance%s" % graph_hash
+ pdf_path = os.path.join('_static', name + ".pdf")
+
+ graph.run_dot(['-Tpdf', '-o%s' % pdf_path],
+ name, parts, graph_options={'size': '"6.0,6.0"'})
+ return '\\includegraphics{../../%s}' % pdf_path
+
+def visit_inheritance_diagram(inner_func):
+ """
+ This is just a wrapper around html/latex_output_graph to make it
+ easier to handle errors and insert warnings.
+ """
+ def visitor(self, node):
+ try:
+ content = inner_func(self, node)
+ except DotException, e:
+ # Insert the exception as a warning in the document
+ warning = self.document.reporter.warning(str(e), line=node.line)
+ warning.parent = node
+ node.children = [warning]
+ else:
+ source = self.document.attributes['source']
+ self.body.append(content)
+ node.children = []
+ return visitor
+
+def do_nothing(self, node):
+ pass
+
+options_spec = {
+ 'parts': directives.nonnegative_int
+ }
+
+# Deal with the old and new way of registering directives
+try:
+ from docutils.parsers.rst import Directive
+except ImportError:
+ from docutils.parsers.rst.directives import _directives
+ def inheritance_diagram_directive(name, arguments, options, content, lineno,
+ content_offset, block_text, state,
+ state_machine):
+ return inheritance_diagram_directive_run(arguments, options, state)
+ inheritance_diagram_directive.__doc__ = __doc__
+ inheritance_diagram_directive.arguments = (1, 100, 0)
+ inheritance_diagram_directive.options = options_spec
+ inheritance_diagram_directive.content = 0
+ _directives['inheritance-diagram'] = inheritance_diagram_directive
+else:
+ class inheritance_diagram_directive(Directive):
+ has_content = False
+ required_arguments = 1
+ optional_arguments = 100
+ final_argument_whitespace = False
+ option_spec = options_spec
+
+ def run(self):
+ return inheritance_diagram_directive_run(
+ self.arguments, self.options, self.state)
+ inheritance_diagram_directive.__doc__ = __doc__
+
+ directives.register_directive('inheritance-diagram',
+ inheritance_diagram_directive)
+
+def setup(app):
+ app.add_node(inheritance_diagram)
+
+ HTMLTranslator.visit_inheritance_diagram = \
+ visit_inheritance_diagram(html_output_graph)
+ HTMLTranslator.depart_inheritance_diagram = do_nothing
+
+ LaTeXTranslator.visit_inheritance_diagram = \
+ visit_inheritance_diagram(latex_output_graph)
+ LaTeXTranslator.depart_inheritance_diagram = do_nothing
diff --git a/docs/sphinxext/ipython_console_highlighting.py b/docs/sphinxext/ipython_console_highlighting.py
new file mode 100644
index 0000000..4f0104d
--- /dev/null
+++ b/docs/sphinxext/ipython_console_highlighting.py
@@ -0,0 +1,75 @@
+from pygments.lexer import Lexer, do_insertions
+from pygments.lexers.agile import PythonConsoleLexer, PythonLexer, \
+ PythonTracebackLexer
+from pygments.token import Comment, Generic
+from sphinx import highlighting
+import re
+
+line_re = re.compile('.*?\n')
+
+class IPythonConsoleLexer(Lexer):
+ """
+ For IPython console output or doctests, such as:
+
+ Tracebacks are not currently supported.
+
+ .. sourcecode:: ipython
+
+ In [1]: a = 'foo'
+
+ In [2]: a
+ Out[2]: 'foo'
+
+ In [3]: print a
+ foo
+
+ In [4]: 1 / 0
+ """
+ name = 'IPython console session'
+ aliases = ['ipython']
+ mimetypes = ['text/x-ipython-console']
+ input_prompt = re.compile("(In \[[0-9]+\]: )|( \.\.\.+:)")
+ output_prompt = re.compile("(Out\[[0-9]+\]: )|( \.\.\.+:)")
+ continue_prompt = re.compile(" \.\.\.+:")
+ tb_start = re.compile("\-+")
+
+ def get_tokens_unprocessed(self, text):
+ pylexer = PythonLexer(**self.options)
+ tblexer = PythonTracebackLexer(**self.options)
+
+ curcode = ''
+ insertions = []
+ for match in line_re.finditer(text):
+ line = match.group()
+ input_prompt = self.input_prompt.match(line)
+ continue_prompt = self.continue_prompt.match(line.rstrip())
+ output_prompt = self.output_prompt.match(line)
+ if line.startswith("#"):
+ insertions.append((len(curcode),
+ [(0, Comment, line)]))
+ elif input_prompt is not None:
+ insertions.append((len(curcode),
+ [(0, Generic.Prompt, input_prompt.group())]))
+ curcode += line[input_prompt.end():]
+ elif continue_prompt is not None:
+ insertions.append((len(curcode),
+ [(0, Generic.Prompt, continue_prompt.group())]))
+ curcode += line[continue_prompt.end():]
+ elif output_prompt is not None:
+ insertions.append((len(curcode),
+ [(0, Generic.Output, output_prompt.group())]))
+ curcode += line[output_prompt.end():]
+ else:
+ if curcode:
+ for item in do_insertions(insertions,
+ pylexer.get_tokens_unprocessed(curcode)):
+ yield item
+ curcode = ''
+ insertions = []
+ yield match.start(), Generic.Output, line
+ if curcode:
+ for item in do_insertions(insertions,
+ pylexer.get_tokens_unprocessed(curcode)):
+ yield item
+
+highlighting.lexers['ipython'] = IPythonConsoleLexer()
diff --git a/docs/sphinxext/only_directives.py b/docs/sphinxext/only_directives.py
new file mode 100644
index 0000000..e4dfd5c
--- /dev/null
+++ b/docs/sphinxext/only_directives.py
@@ -0,0 +1,87 @@
+#
+# A pair of directives for inserting content that will only appear in
+# either html or latex.
+#
+
+from docutils.nodes import Body, Element
+from docutils.writers.html4css1 import HTMLTranslator
+from sphinx.latexwriter import LaTeXTranslator
+from docutils.parsers.rst import directives
+
+class html_only(Body, Element):
+ pass
+
+class latex_only(Body, Element):
+ pass
+
+def run(content, node_class, state, content_offset):
+ text = '\n'.join(content)
+ node = node_class(text)
+ state.nested_parse(content, content_offset, node)
+ return [node]
+
+try:
+ from docutils.parsers.rst import Directive
+except ImportError:
+ from docutils.parsers.rst.directives import _directives
+
+ def html_only_directive(name, arguments, options, content, lineno,
+ content_offset, block_text, state, state_machine):
+ return run(content, html_only, state, content_offset)
+
+ def latex_only_directive(name, arguments, options, content, lineno,
+ content_offset, block_text, state, state_machine):
+ return run(content, latex_only, state, content_offset)
+
+ for func in (html_only_directive, latex_only_directive):
+ func.content = 1
+ func.options = {}
+ func.arguments = None
+
+ _directives['htmlonly'] = html_only_directive
+ _directives['latexonly'] = latex_only_directive
+else:
+ class OnlyDirective(Directive):
+ has_content = True
+ required_arguments = 0
+ optional_arguments = 0
+ final_argument_whitespace = True
+ option_spec = {}
+
+ def run(self):
+ self.assert_has_content()
+ return run(self.content, self.node_class,
+ self.state, self.content_offset)
+
+ class HtmlOnlyDirective(OnlyDirective):
+ node_class = html_only
+
+ class LatexOnlyDirective(OnlyDirective):
+ node_class = latex_only
+
+ directives.register_directive('htmlonly', HtmlOnlyDirective)
+ directives.register_directive('latexonly', LatexOnlyDirective)
+
+def setup(app):
+ app.add_node(html_only)
+ app.add_node(latex_only)
+
+ # Add visit/depart methods to HTML-Translator:
+ def visit_perform(self, node):
+ pass
+ def depart_perform(self, node):
+ pass
+ def visit_ignore(self, node):
+ node.children = []
+ def depart_ignore(self, node):
+ node.children = []
+
+ HTMLTranslator.visit_html_only = visit_perform
+ HTMLTranslator.depart_html_only = depart_perform
+ HTMLTranslator.visit_latex_only = visit_ignore
+ HTMLTranslator.depart_latex_only = depart_ignore
+
+ LaTeXTranslator.visit_html_only = visit_ignore
+ LaTeXTranslator.depart_html_only = depart_ignore
+ LaTeXTranslator.visit_latex_only = visit_perform
+ LaTeXTranslator.depart_latex_only = depart_perform
diff --git a/docs/sphinxext/plot_directive.py b/docs/sphinxext/plot_directive.py
new file mode 100644
index 0000000..a1a0621
--- /dev/null
+++ b/docs/sphinxext/plot_directive.py
@@ -0,0 +1,155 @@
+"""A special directive for including a matplotlib plot.
+
+Given a path to a .py file, it includes the source code inline, then:
+
+- On HTML, will include a .png with a link to a high-res .png.
+
+- On LaTeX, will include a .pdf
+
+This directive supports all of the options of the `image` directive,
+except for `target` (since plot will add its own target).
+
+Additionally, if the :include-source: option is provided, the literal
+source will be included inline, as well as a link to the source.
+"""
+
+import sys, os, glob, shutil
+from docutils.parsers.rst import directives
+
+try:
+ # docutils 0.4
+ from docutils.parsers.rst.directives.images import align
+except ImportError:
+ # docutils 0.5
+ from docutils.parsers.rst.directives.images import Image
+ align = Image.align
+
+
+import matplotlib
+import IPython.Shell
+matplotlib.use('Agg')
+import matplotlib.pyplot as plt
+
+mplshell = IPython.Shell.MatplotlibShell('mpl')
+
+options = {'alt': directives.unchanged,
+ 'height': directives.length_or_unitless,
+ 'width': directives.length_or_percentage_or_unitless,
+ 'scale': directives.nonnegative_int,
+ 'align': align,
+ 'class': directives.class_option,
+ 'include-source': directives.flag }
+
+template = """
+.. htmlonly::
+
+ [`source code <../%(srcdir)s/%(basename)s.py>`__,
+ `png <../%(srcdir)s/%(basename)s.hires.png>`__,
+ `pdf <../%(srcdir)s/%(basename)s.pdf>`__]
+
+ .. image:: ../%(srcdir)s/%(basename)s.png
+%(options)s
+
+.. latexonly::
+ .. image:: ../%(srcdir)s/%(basename)s.pdf
+%(options)s
+
+"""
+
+def makefig(fullpath, outdir):
+ """
+ run a pyplot script and save the low and high res PNGs and a PDF in _static
+ """
+
+ fullpath = str(fullpath) # todo, why is unicode breaking this
+ formats = [('png', 100),
+ ('hires.png', 200),
+ ('pdf', 72),
+ ]
+
+ basedir, fname = os.path.split(fullpath)
+ basename, ext = os.path.splitext(fname)
+ all_exists = True
+
+ if basedir != outdir:
+ shutil.copyfile(fullpath, os.path.join(outdir, fname))
+
+ for format, dpi in formats:
+ outname = os.path.join(outdir, '%s.%s' % (basename, format))
+ if not os.path.exists(outname):
+ all_exists = False
+ break
+
+ if all_exists:
+ print ' already have %s'%fullpath
+ return
+
+ print ' building %s'%fullpath
+ plt.close('all') # we need to clear between runs
+ matplotlib.rcdefaults()
+
+ mplshell.magic_run(fullpath)
+ for format, dpi in formats:
+ outname = os.path.join(outdir, '%s.%s' % (basename, format))
+ if os.path.exists(outname): continue
+ plt.savefig(outname, dpi=dpi)
+
+def run(arguments, options, state_machine, lineno):
+ reference = directives.uri(arguments[0])
+ basedir, fname = os.path.split(reference)
+ basename, ext = os.path.splitext(fname)
+
+ # todo - should we be using the _static dir for the outdir, I am
+ # not sure we want to corrupt that dir with autogenerated files
+ # since it also has permanent files in it which makes it difficult
+ # to clean (save an rm -rf followed by and svn up)
+ srcdir = 'pyplots'
+
+ makefig(os.path.join(srcdir, reference), srcdir)
+
+ # todo: it is not great design to assume the makefile is putting
+ # the figs into the right place, so we may want to do that here instead.
+
+ if options.has_key('include-source'):
+ lines = ['.. literalinclude:: ../pyplots/%(reference)s' % locals()]
+ del options['include-source']
+ else:
+ lines = []
+
+ options = [' :%s: %s' % (key, val) for key, val in
+ options.items()]
+ options = "\n".join(options)
+
+ lines.extend((template % locals()).split('\n'))
+
+ state_machine.insert_input(
+ lines, state_machine.input_lines.source(0))
+ return []
+
+
+try:
+ from docutils.parsers.rst import Directive
+except ImportError:
+ from docutils.parsers.rst.directives import _directives
+
+ def plot_directive(name, arguments, options, content, lineno,
+ content_offset, block_text, state, state_machine):
+ return run(arguments, options, state_machine, lineno)
+ plot_directive.__doc__ = __doc__
+ plot_directive.arguments = (1, 0, 1)
+ plot_directive.options = options
+
+ _directives['plot'] = plot_directive
+else:
+ class plot_directive(Directive):
+ required_arguments = 1
+ optional_arguments = 0
+ final_argument_whitespace = True
+ option_spec = options
+ def run(self):
+ return run(self.arguments, self.options,
+ self.state_machine, self.lineno)
+ plot_directive.__doc__ = __doc__
+
+ directives.register_directive('plot', plot_directive)
+