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| @@ -0,0 +1,200 @@ | ||
| #!/usr/bin/env python | ||
| # | ||
| # @file cleaner.py | ||
| # @brief Remove some MATLAB content that we can't process. | ||
| # @author Michael Hucka | ||
| # | ||
| # <!--------------------------------------------------------------------------- | ||
| # This software is part of MOCCASIN, the Model ODE Converter for Creating | ||
| # Automated SBML INteroperability. Visit https://github.com/sbmlteam/moccasin/. | ||
| # | ||
| # Copyright (C) 2014-2016 jointly by the following organizations: | ||
| # 1. California Institute of Technology, Pasadena, CA, USA | ||
| # 2. Icahn School of Medicine at Mount Sinai, New York, NY, USA | ||
| # 3. Boston University, Boston, MA, USA | ||
| # | ||
| # This is free software; you can redistribute it and/or modify it under the | ||
| # terms of the GNU Lesser General Public License as published by the Free | ||
| # Software Foundation. A copy of the license agreement is provided in the | ||
| # file named "COPYING.txt" included with this software distribution and also | ||
| # available online at https://github.com/sbmlteam/moccasin/. | ||
| # ------------------------------------------------------------------------- --> | ||
|
|
||
| import sys | ||
| sys.path.append('..') | ||
| from matlab_parser import * | ||
|
|
||
| # MatlabCleaner | ||
| # | ||
| # Some things, like calls to figure and plotting commands, are never anything | ||
| # we need to process in MOCCASIN. We can remove them from the input and save | ||
| # time and confusion in later processing steps. | ||
|
|
||
| _ignorable = [ | ||
| 'annotation' | ||
| 'area', | ||
| 'axes', | ||
| 'axis', | ||
| 'bar', | ||
| 'bar3', | ||
| 'bar3h', | ||
| 'barh', | ||
| 'box', | ||
| 'caxis', | ||
| 'celldisp', | ||
| 'cellplot', | ||
| 'cla', | ||
| 'clc', | ||
| 'clabel', | ||
| 'clear', | ||
| 'close', | ||
| 'colorbar', | ||
| 'colordef', | ||
| 'colormap', | ||
| 'coneplot', | ||
| 'countour', | ||
| 'countour3', | ||
| 'countourc', | ||
| 'countourf', | ||
| 'countourslice', | ||
| 'daspect', | ||
| 'datetick', | ||
| 'diary', | ||
| 'disp', | ||
| 'errorbar', | ||
| 'etreeplot', | ||
| 'ezcontour', | ||
| 'ezcontourf', | ||
| 'fcontour', | ||
| 'figure', | ||
| 'figurepalette', | ||
| 'fill', | ||
| 'fill3', | ||
| 'format', | ||
| 'fplot', | ||
| 'fplot3', | ||
| 'fprintf', | ||
| 'fscanf', | ||
| 'gca', | ||
| 'gplot', | ||
| 'grid', | ||
| 'gtext', | ||
| 'histcounts', | ||
| 'histcounts2', | ||
| 'histogram', | ||
| 'histogram2', | ||
| 'hold', | ||
| 'legend', | ||
| 'line', | ||
| 'loglog', | ||
| 'mesh', | ||
| 'meshc', | ||
| 'meshgrid', | ||
| 'odeset', | ||
| 'patch', | ||
| 'pie', | ||
| 'pie3', | ||
| 'plot', | ||
| 'plot3', | ||
| 'plotmatrix' | ||
| 'polaraxes', | ||
| 'polarplot', | ||
| 'print', | ||
| 'printf', | ||
| 'rectangle', | ||
| 'refresh', | ||
| 'rlim', | ||
| 'rgbplot', | ||
| 'scatter', | ||
| 'scatter3', | ||
| 'semilogx', | ||
| 'semilogy', | ||
| 'set', | ||
| 'sprintf', | ||
| 'stairs' | ||
| 'stem', | ||
| 'stem3', | ||
| 'subplot', | ||
| 'surf', | ||
| 'surf2patch', | ||
| 'surface', | ||
| 'surfc', | ||
| 'surfl', | ||
| 'surfnorm', | ||
| 'text', | ||
| 'textlabel', | ||
| 'thetalim', | ||
| 'title', | ||
| 'treelayout', | ||
| 'unmesh', | ||
| 'xlabel', | ||
| 'xlim', | ||
| 'ylabel', | ||
| 'ylim', | ||
| 'yyaxis', | ||
| 'zlabel', | ||
| 'zlim', | ||
| 'zoom', | ||
| ] | ||
|
|
||
|
|
||
| class MatlabCleaner(MatlabNodeVisitor): | ||
| def __init__(self): | ||
| super(MatlabCleaner, self).__init__() | ||
|
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||
|
|
||
| def _push_context(self, newcontext): | ||
| self._context = newcontext | ||
|
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|
|
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| def _pop_context(self): | ||
| # Don't pop topmost context. | ||
| if self._context.parent and not self._context.topmost: | ||
| self._context = self._context.parent | ||
|
|
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|
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| def visit_Assignment(self, node): | ||
| # Catches assignments where the RHS is a call to something ignorable. | ||
| # The whole assignmet can be ignored in that case. | ||
| rhs = node.rhs | ||
| if (isinstance(rhs, FunCall) and isinstance(rhs.name, Identifier) | ||
| and rhs.name.name in _ignorable): | ||
| # Remove the assignment from the context too. | ||
| if (isinstance(node.lhs, Identifier) | ||
| and node.lhs in self._context.assignments): | ||
| self._context.assignments.pop(node.lhs) | ||
| return None | ||
| if rhs is None: | ||
| # This happens if something else has taken out the RHS already. | ||
| return None | ||
| return node | ||
|
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|
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| def visit_FunCall(self, node): | ||
| # This catches top-level calls to things like 'figure', 'plot', etc. | ||
| if isinstance(node.name, Identifier) and node.name.name in _ignorable: | ||
| return None | ||
| return node | ||
|
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|
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| def visit_FunDef(self, node): | ||
| # Push the new function context. Note that FunDef is unusual in having | ||
| # a node.context property -- other MatlabNodes don't. | ||
| self._push_context(node.context) | ||
| self._context.nodes = self.visit(self._context.nodes) | ||
| node.body = self._context.nodes | ||
| self._pop_context() | ||
| return node | ||
|
|
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|
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| def visit_For(self, node): | ||
| # We could potentially handle simple loops like "for x in 1:n" if we | ||
| # could determine the number of times the loop body should be | ||
| # executed. Right now, Moccasin is not smart enough to do that. | ||
| # Since it doesn't make sense to execute the loop an arbitrary number | ||
| # of times rather than the number of times in the user's Matlab code, | ||
| # we just ignore loops completely, and we tell people not to use | ||
| # loops. | ||
| node.expr = [] | ||
| node.body = None | ||
| return None |
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