""" A special directive for generating a matplotlib plot. .. warning:: This is a hacked version of plot_directive.py from Matplotlib. It's very much subject to change! Usage ----- Can be used like this:: .. plot:: examples/example.py .. plot:: import matplotlib.pyplot as plt plt.plot([1,2,3], [4,5,6]) .. plot:: A plotting example: >>> import matplotlib.pyplot as plt >>> plt.plot([1,2,3], [4,5,6]) The content is interpreted as doctest formatted if it has a line starting with ``>>>``. The ``plot`` directive supports the options format : {'python', 'doctest'} Specify the format of the input include-source : bool Whether to display the source code. Default can be changed in conf.py and the ``image`` directive options ``alt``, ``height``, ``width``, ``scale``, ``align``, ``class``. Configuration options --------------------- The plot directive has the following configuration options: plot_include_source Default value for the include-source option plot_pre_code Code that should be executed before each plot. plot_basedir Base directory, to which plot:: file names are relative to. (If None or empty, file names are relative to the directoly where the file containing the directive is.) plot_formats File formats to generate. List of tuples or strings:: [(suffix, dpi), suffix, ...] that determine the file format and the DPI. For entries whose DPI was omitted, sensible defaults are chosen. plot_html_show_formats Whether to show links to the files in HTML. TODO ---- * Refactor Latex output; now it's plain images, but it would be nice to make them appear side-by-side, or in floats. """ import sys, os, shutil, re, textwrap, traceback try: import cStringIO except ImportError: from io import StringIO as cStringIO import warnings warnings.warn("A plot_directive module is also available under " "matplotlib.sphinxext; expect this numpydoc.plot_directive " "module to be deprecated after relevant features have been " "integrated there.", FutureWarning, stacklevel=2) #------------------------------------------------------------------------------ # Registration hook #------------------------------------------------------------------------------ def setup(app): setup.app = app setup.config = app.config setup.confdir = app.confdir app.add_config_value('plot_pre_code', '', True) app.add_config_value('plot_include_source', False, True) app.add_config_value('plot_formats', ['png', 'hires.png', 'pdf'], True) app.add_config_value('plot_basedir', None, True) app.add_config_value('plot_html_show_formats', True, True) app.add_directive('plot', plot_directive, True, (0, 1, False), **plot_directive_options) #------------------------------------------------------------------------------ # plot:: directive #------------------------------------------------------------------------------ from docutils.parsers.rst import directives from docutils import nodes def plot_directive(name, arguments, options, content, lineno, content_offset, block_text, state, state_machine): return run(arguments, content, options, state_machine, state, lineno) plot_directive.__doc__ = __doc__ def _option_boolean(arg): if not arg or not arg.strip(): # no argument given, assume used as a flag return True elif arg.strip().lower() in ('no', '0', 'false'): return False elif arg.strip().lower() in ('yes', '1', 'true'): return True else: raise ValueError('"%s" unknown boolean' % arg) def _option_format(arg): return directives.choice(arg, ('python', 'lisp')) def _option_align(arg): return directives.choice(arg, ("top", "middle", "bottom", "left", "center", "right")) plot_directive_options = {'alt': directives.unchanged, 'height': directives.length_or_unitless, 'width': directives.length_or_percentage_or_unitless, 'scale': directives.nonnegative_int, 'align': _option_align, 'class': directives.class_option, 'include-source': _option_boolean, 'format': _option_format, } #------------------------------------------------------------------------------ # Generating output #------------------------------------------------------------------------------ from docutils import nodes, utils try: # Sphinx depends on either Jinja or Jinja2 import jinja2 def format_template(template, **kw): return jinja2.Template(template).render(**kw) except ImportError: import jinja def format_template(template, **kw): return jinja.from_string(template, **kw) TEMPLATE = """ {{ source_code }} {{ only_html }} {% if source_link or (html_show_formats and not multi_image) %} ( {%- if source_link -%} `Source code <{{ source_link }}>`__ {%- endif -%} {%- if html_show_formats and not multi_image -%} {%- for img in images -%} {%- for fmt in img.formats -%} {%- if source_link or not loop.first -%}, {% endif -%} `{{ fmt }} <{{ dest_dir }}/{{ img.basename }}.{{ fmt }}>`__ {%- endfor -%} {%- endfor -%} {%- endif -%} ) {% endif %} {% for img in images %} .. figure:: {{ build_dir }}/{{ img.basename }}.png {%- for option in options %} {{ option }} {% endfor %} {% if html_show_formats and multi_image -%} ( {%- for fmt in img.formats -%} {%- if not loop.first -%}, {% endif -%} `{{ fmt }} <{{ dest_dir }}/{{ img.basename }}.{{ fmt }}>`__ {%- endfor -%} ) {%- endif -%} {% endfor %} {{ only_latex }} {% for img in images %} .. image:: {{ build_dir }}/{{ img.basename }}.pdf {% endfor %} """ class ImageFile(object): def __init__(self, basename, dirname): self.basename = basename self.dirname = dirname self.formats = [] def filename(self, format): return os.path.join(self.dirname, "%s.%s" % (self.basename, format)) def filenames(self): return [self.filename(fmt) for fmt in self.formats] def run(arguments, content, options, state_machine, state, lineno): if arguments and content: raise RuntimeError("plot:: directive can't have both args and content") document = state_machine.document config = document.settings.env.config options.setdefault('include-source', config.plot_include_source) # determine input rst_file = document.attributes['source'] rst_dir = os.path.dirname(rst_file) if arguments: if not config.plot_basedir: source_file_name = os.path.join(rst_dir, directives.uri(arguments[0])) else: source_file_name = os.path.join(setup.confdir, config.plot_basedir, directives.uri(arguments[0])) code = open(source_file_name, 'r').read() output_base = os.path.basename(source_file_name) else: source_file_name = rst_file code = textwrap.dedent("\n".join(map(str, content))) counter = document.attributes.get('_plot_counter', 0) + 1 document.attributes['_plot_counter'] = counter base, ext = os.path.splitext(os.path.basename(source_file_name)) output_base = '%s-%d.py' % (base, counter) base, source_ext = os.path.splitext(output_base) if source_ext in ('.py', '.rst', '.txt'): output_base = base else: source_ext = '' # ensure that LaTeX includegraphics doesn't choke in foo.bar.pdf filenames output_base = output_base.replace('.', '-') # is it in doctest format? is_doctest = contains_doctest(code) if 'format' in options: if options['format'] == 'python': is_doctest = False else: is_doctest = True # determine output directory name fragment source_rel_name = relpath(source_file_name, setup.confdir) source_rel_dir = os.path.dirname(source_rel_name) while source_rel_dir.startswith(os.path.sep): source_rel_dir = source_rel_dir[1:] # build_dir: where to place output files (temporarily) build_dir = os.path.join(os.path.dirname(setup.app.doctreedir), 'plot_directive', source_rel_dir) if not os.path.exists(build_dir): os.makedirs(build_dir) # output_dir: final location in the builder's directory dest_dir = os.path.abspath(os.path.join(setup.app.builder.outdir, source_rel_dir)) # how to link to files from the RST file dest_dir_link = os.path.join(relpath(setup.confdir, rst_dir), source_rel_dir).replace(os.path.sep, '/') build_dir_link = relpath(build_dir, rst_dir).replace(os.path.sep, '/') source_link = dest_dir_link + '/' + output_base + source_ext # make figures try: results = makefig(code, source_file_name, build_dir, output_base, config) errors = [] except PlotError as err: reporter = state.memo.reporter sm = reporter.system_message( 2, "Exception occurred in plotting %s: %s" % (output_base, err), line=lineno) results = [(code, [])] errors = [sm] # generate output restructuredtext total_lines = [] for j, (code_piece, images) in enumerate(results): if options['include-source']: if is_doctest: lines = [''] lines += [row.rstrip() for row in code_piece.split('\n')] else: lines = ['.. code-block:: python', ''] lines += [' %s' % row.rstrip() for row in code_piece.split('\n')] source_code = "\n".join(lines) else: source_code = "" opts = [':%s: %s' % (key, val) for key, val in options.items() if key in ('alt', 'height', 'width', 'scale', 'align', 'class')] only_html = ".. only:: html" only_latex = ".. only:: latex" if j == 0: src_link = source_link else: src_link = None result = format_template( TEMPLATE, dest_dir=dest_dir_link, build_dir=build_dir_link, source_link=src_link, multi_image=len(images) > 1, only_html=only_html, only_latex=only_latex, options=opts, images=images, source_code=source_code, html_show_formats=config.plot_html_show_formats) total_lines.extend(result.split("\n")) total_lines.extend("\n") if total_lines: state_machine.insert_input(total_lines, source=source_file_name) # copy image files to builder's output directory if not os.path.exists(dest_dir): os.makedirs(dest_dir) for code_piece, images in results: for img in images: for fn in img.filenames(): shutil.copyfile(fn, os.path.join(dest_dir, os.path.basename(fn))) # copy script (if necessary) if source_file_name == rst_file: target_name = os.path.join(dest_dir, output_base + source_ext) f = open(target_name, 'w') f.write(unescape_doctest(code)) f.close() return errors #------------------------------------------------------------------------------ # Run code and capture figures #------------------------------------------------------------------------------ import matplotlib matplotlib.use('Agg') import matplotlib.pyplot as plt import matplotlib.image as image from matplotlib import _pylab_helpers def contains_doctest(text): try: # check if it's valid Python as-is compile(text, '', 'exec') return False except SyntaxError: pass r = re.compile(r'^\s*>>>', re.M) m = r.search(text) return bool(m) def unescape_doctest(text): """ Extract code from a piece of text, which contains either Python code or doctests. """ if not contains_doctest(text): return text code = "" for line in text.split("\n"): m = re.match(r'^\s*(>>>|\.\.\.) (.*)$', line) if m: code += m.group(2) + "\n" elif line.strip(): code += "# " + line.strip() + "\n" else: code += "\n" return code def split_code_at_show(text): """ Split code at plt.show() """ parts = [] is_doctest = contains_doctest(text) part = [] for line in text.split("\n"): if (not is_doctest and line.strip() == 'plt.show()') or \ (is_doctest and line.strip() == '>>> plt.show()'): part.append(line) parts.append("\n".join(part)) part = [] else: part.append(line) if "\n".join(part).strip(): parts.append("\n".join(part)) return parts class PlotError(RuntimeError): pass def run_code(code, code_path, ns=None): # Change the working directory to the directory of the example, so # it can get at its data files, if any. pwd = os.getcwd() old_sys_path = list(sys.path) if code_path is not None: dirname = os.path.abspath(os.path.dirname(code_path)) os.chdir(dirname) sys.path.insert(0, dirname) # Redirect stdout stdout = sys.stdout sys.stdout = cStringIO.StringIO() # Reset sys.argv old_sys_argv = sys.argv sys.argv = [code_path] try: try: code = unescape_doctest(code) if ns is None: ns = {} if not ns: exec(setup.config.plot_pre_code in ns) exec(code in ns) except (Exception, SystemExit) as err: raise PlotError(traceback.format_exc()) finally: os.chdir(pwd) sys.argv = old_sys_argv sys.path[:] = old_sys_path sys.stdout = stdout return ns #------------------------------------------------------------------------------ # Generating figures #------------------------------------------------------------------------------ def out_of_date(original, derived): """ Returns True if derivative is out-of-date wrt original, both of which are full file paths. """ return (not os.path.exists(derived) or os.stat(derived).st_mtime < os.stat(original).st_mtime) def makefig(code, code_path, output_dir, output_base, config): """ Run a pyplot script *code* and save the images under *output_dir* with file names derived from *output_base* """ # -- Parse format list default_dpi = {'png': 80, 'hires.png': 200, 'pdf': 50} formats = [] for fmt in config.plot_formats: if isinstance(fmt, str): formats.append((fmt, default_dpi.get(fmt, 80))) elif type(fmt) in (tuple, list) and len(fmt)==2: formats.append((str(fmt[0]), int(fmt[1]))) else: raise PlotError('invalid image format "%r" in plot_formats' % fmt) # -- Try to determine if all images already exist code_pieces = split_code_at_show(code) # Look for single-figure output files first all_exists = True img = ImageFile(output_base, output_dir) for format, dpi in formats: if out_of_date(code_path, img.filename(format)): all_exists = False break img.formats.append(format) if all_exists: return [(code, [img])] # Then look for multi-figure output files results = [] all_exists = True for i, code_piece in enumerate(code_pieces): images = [] for j in range(1000): img = ImageFile('%s_%02d_%02d' % (output_base, i, j), output_dir) for format, dpi in formats: if out_of_date(code_path, img.filename(format)): all_exists = False break img.formats.append(format) # assume that if we have one, we have them all if not all_exists: all_exists = (j > 0) break images.append(img) if not all_exists: break results.append((code_piece, images)) if all_exists: return results # -- We didn't find the files, so build them results = [] ns = {} for i, code_piece in enumerate(code_pieces): # Clear between runs plt.close('all') # Run code run_code(code_piece, code_path, ns) # Collect images images = [] fig_managers = _pylab_helpers.Gcf.get_all_fig_managers() for j, figman in enumerate(fig_managers): if len(fig_managers) == 1 and len(code_pieces) == 1: img = ImageFile(output_base, output_dir) else: img = ImageFile("%s_%02d_%02d" % (output_base, i, j), output_dir) images.append(img) for format, dpi in formats: try: figman.canvas.figure.savefig(img.filename(format), dpi=dpi) except BaseException as err: raise PlotError(traceback.format_exc()) img.formats.append(format) # Results results.append((code_piece, images)) return results #------------------------------------------------------------------------------ # Relative pathnames #------------------------------------------------------------------------------ try: from os.path import relpath except ImportError: # Copied from Python 2.7 if 'posix' in sys.builtin_module_names: def relpath(path, start=os.path.curdir): """Return a relative version of a path""" from os.path import sep, curdir, join, abspath, commonprefix, \ pardir if not path: raise ValueError("no path specified") start_list = abspath(start).split(sep) path_list = abspath(path).split(sep) # Work out how much of the filepath is shared by start and path. i = len(commonprefix([start_list, path_list])) rel_list = [pardir] * (len(start_list)-i) + path_list[i:] if not rel_list: return curdir return join(*rel_list) elif 'nt' in sys.builtin_module_names: def relpath(path, start=os.path.curdir): """Return a relative version of a path""" from os.path import sep, curdir, join, abspath, commonprefix, \ pardir, splitunc if not path: raise ValueError("no path specified") start_list = abspath(start).split(sep) path_list = abspath(path).split(sep) if start_list[0].lower() != path_list[0].lower(): unc_path, rest = splitunc(path) unc_start, rest = splitunc(start) if bool(unc_path) ^ bool(unc_start): raise ValueError("Cannot mix UNC and non-UNC paths (%s and %s)" % (path, start)) else: raise ValueError("path is on drive %s, start on drive %s" % (path_list[0], start_list[0])) # Work out how much of the filepath is shared by start and path. for i in range(min(len(start_list), len(path_list))): if start_list[i].lower() != path_list[i].lower(): break else: i += 1 rel_list = [pardir] * (len(start_list)-i) + path_list[i:] if not rel_list: return curdir return join(*rel_list) else: raise RuntimeError("Unsupported platform (no relpath available!)")