Source code for tvb.interfaces.web.controllers.burst.matjax

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# TheVirtualBrain-Framework Package. This package holds all Data Management, and
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Functions responsible for collecting and rendering the descriptions and the documentations
of the dynamic models in Simulator/Phase Plane.

.. moduleauthor:: Mihai Andrei <>
.. moduleauthor:: Robert Vincze <>

[docs]def configure_matjax_doc(available_models): """ Builds a list containing the model names, inline descriptions and descriptions, which will be displayed in the Simulation/Phase Plane section. """ models_docs = [] for clz_name, clz in available_models.items(): models_docs.append({ 'name': clz_name.replace(' ', '_'), 'inline_description': _dfun_math_directives_to_matjax(clz), 'description': _format_doc(clz.__doc__) }) return models_docs
def _dfun_math_directives_to_matjax(model): """ Looks for sphinx math directives if the docstring of the dfun function of a model. It converts them in html text that will be interpreted by mathjax The parsing is simplistic, not a full rst parser. """ try: doc = model.dfun.__doc__ except AttributeError: doc = None if doc is not None: return _format_doc(doc) # try the parent __doc__ try: doc = model.__mro__[1].dfun.__doc__ except (AttributeError, IndexError): doc = None if doc is not None: return _format_doc('Documentation is missing. Copy-ed from parent\n' + doc) return 'Documentation is missing. ' def _format_doc(doc): return _multiline_math_directives_to_matjax(doc).replace('&', '&amp;').replace('.. math::', '') def _multiline_math_directives_to_matjax(doc): """ Looks for multi-line sphinx math directives in the given rst string It converts them in html text that will be interpreted by mathjax The parsing is simplistic, not a rst parser. Wraps .. math :: body in \[\begin{split}\end{split}\] """ # doc = text | math BEGIN = r'\[\begin{split}' END = r'\end{split}\]' in_math = False # 2 state parser out_lines = [] indent = '' for line in doc.splitlines(): if not in_math: # math = indent directive math_body indent, sep, _ = line.partition('.. math::') if sep: out_lines.append(BEGIN) in_math = True else: out_lines.append(line) else: # math body is at least 1 space more indented than the directive, but we tolerate empty lines if line.startswith(indent + ' ') or line.strip() == '': out_lines.append(line) else: # this line is not properly indented, math block is over out_lines.append(END) out_lines.append(line) in_math = False if in_math: # close math tag out_lines.append(END) return '\n'.join(out_lines)