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#
# \file addModelHistory.R
# \brief adds Model History to a model
# \author Frank Bergmann
#
# <!--------------------------------------------------------------------------
# This sample program is distributed under a different license than the rest
# of libSBML. This program uses the open-source MIT license, as follows:
#
# Copyright (c) 2013-2018 by the California Institute of Technology
# (California, USA), the European Bioinformatics Institute (EMBL-EBI, UK)
# and the University of Heidelberg (Germany), with support from the National
# Institutes of Health (USA) under grant R01GM070923. All rights reserved.
#
# Permission is hereby granted, free of charge, to any person obtaining a
# copy of this software and associated documentation files (the "Software"),
# to deal in the Software without restriction, including without limitation
# the rights to use, copy, modify, merge, publish, distribute, sublicense,
# and/or sell copies of the Software, and to permit persons to whom the
# Software is furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
# THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
# FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
# DEALINGS IN THE SOFTWARE.
#
# Neither the name of the California Institute of Technology (Caltech), nor
# of the European Bioinformatics Institute (EMBL-EBI), nor of the University
# of Heidelberg, nor the names of any contributors, may be used to endorse
# or promote products derived from this software without specific prior
# written permission.
# ------------------------------------------------------------------------ -->
#
#
# Usage: R --slave -f addModelHistory.R --args <input-filename> <output-filename>
#
#
library(libSBML)
args <- commandArgs(trailingOnly = TRUE)
if (length(args) != 2) {
stop(
" usage: addModelHistory <input-filename> <output-filename>\n"
);
}
printStatus <- function(message,status) {
enumStatus <- enumFromInteger(status, "_OperationReturnValues_t" )
cat(message, switch(enumStatus,
LIBSBML_OPERATION_SUCCESS = "succeeded",
LIBSBML_INVALID_OBJECT = "invalid object",
LIBSBML_OPERATION_FAILED = "operation failed",
LIBSBML_UNEXPECTED_ATTRIBUTE = "unexpected attribute (missing metaid)",
"unknown"), "\n");
}
d = readSBML(args[1]);
errors = SBMLDocument_getNumErrors(d);
if (errors > 0) {
cat("Read Error(s):\n");
SBMLDocument_printErrors(d);
cat("Correct the above and re-run.\n");
} else {
h = ModelHistory();
c = ModelCreator();
ModelCreator_setFamilyName(c, "Keating");
ModelCreator_setGivenName(c, "Sarah");
ModelCreator_setEmail(c, "sbml-team@caltech.edu");
ModelCreator_setOrganisation(c, "University of Hertfordshire");
status = ModelHistory_addCreator(h, c);
printStatus("Status for addCreator: ", status);
date = Date("1999-11-13T06:54:32");
date2 = Date("2007-11-30T06:54:00-02:00");
status = ModelHistory_setCreatedDate(h, date);
printStatus("Set created date: ", status);
status = ModelHistory_setModifiedDate(h, date2);
printStatus("Set modified date: ", status);
m = SBMLDocument_getModel(d);
status = SBase_setModelHistory(m, h);
printStatus("Set model history: ", status);
writeSBML(d, args[2]);
}
q(status=errors);
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