1#!/usr/bin/env python
2##
3## @file    promoteParameters.py
4## @brief   promotes all local to global parameters
5## @author  Frank T. Bergmann
6##
7## <!--------------------------------------------------------------------------
8## This sample program is distributed under a different license than the rest
9## of libSBML.  This program uses the open-source MIT license, as follows:
10##
11## Copyright (c) 2013-2018 by the California Institute of Technology
12## (California, USA), the European Bioinformatics Institute (EMBL-EBI, UK)
13## and the University of Heidelberg (Germany), with support from the National
14## Institutes of Health (USA) under grant R01GM070923.  All rights reserved.
15##
16## Permission is hereby granted, free of charge, to any person obtaining a
17## copy of this software and associated documentation files (the "Software"),
18## to deal in the Software without restriction, including without limitation
19## the rights to use, copy, modify, merge, publish, distribute, sublicense,
20## and/or sell copies of the Software, and to permit persons to whom the
21## Software is furnished to do so, subject to the following conditions:
22##
23## The above copyright notice and this permission notice shall be included in
24## all copies or substantial portions of the Software.
25##
26## THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
27## IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
28## FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
29## THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
30## LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
31## FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
32## DEALINGS IN THE SOFTWARE.
33##
34## Neither the name of the California Institute of Technology (Caltech), nor
35## of the European Bioinformatics Institute (EMBL-EBI), nor of the University
36## of Heidelberg, nor the names of any contributors, may be used to endorse
37## or promote products derived from this software without specific prior
38## written permission.
39## ------------------------------------------------------------------------ -->
40
41import sys
42import os.path
43import libsbml
44
45def main (args):
46    """usage: promoteParameters.py input-filename output-filename
47    """
48    if len(args) != 3:
49        print(main.__doc__)
50        sys.exit(1)
51
52    infile  = args[1]
53    outfile = args[2]
54
55    if not os.path.exists(infile):
56        print("[Error] %s : No such file." % infile)
57        sys.exit(1)
58
59    reader  = libsbml.SBMLReader()
60    writer  = libsbml.SBMLWriter()
61    sbmldoc = reader.readSBML(infile)
62
63    if sbmldoc.getNumErrors() > 0:
64        if sbmldoc.getError(0).getErrorId() == libsbml.XMLFileUnreadable:
65            # Handle case of unreadable file here.
66            sbmldoc.printErrors()
67        elif sbmldoc.getError(0).getErrorId() == libsbml.XMLFileOperationError:
68            # Handle case of other file error here.
69            sbmldoc.printErrors()
70        else:
71            # Handle other error cases here.
72            sbmldoc.printErrors()
73
74        sys.exit(1)
75
76    props = libsbml.ConversionProperties()
77    props.addOption("promoteLocalParameters", True, "Promotes all Local Parameters to Global ones")
78    if sbmldoc.convert(props) != libsbml.LIBSBML_OPERATION_SUCCESS:
79        print("[Error] Conversion failed...")
80        sys.exit(1)
81
82    writer.writeSBML(sbmldoc, outfile)
83    print("[OK] wrote {}".format(outfile))
84
85if __name__ == '__main__':
86    main(sys.argv)
87