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planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
author sybila
date Fri, 09 Sep 2022 14:33:08 +0000
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children 4a006ef60d31
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
sybila
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1 import argparse
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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3 from eBCSgen.Analysis.PCTL import PCTL
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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4 from eBCSgen.Errors.FormulaParsingError import FormulaParsingError
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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5 from eBCSgen.Errors.InvalidInputError import InvalidInputError
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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6 from eBCSgen.Parsing.ParseBCSL import load_TS_from_json
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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7 from eBCSgen.Parsing.ParsePCTLformula import PCTLparser
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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10 args_parser = argparse.ArgumentParser(description='Model checking')
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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12 args_parser._action_groups.pop()
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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13 required = args_parser.add_argument_group('required arguments')
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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14 optional = args_parser.add_argument_group('optional arguments')
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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16 required.add_argument('--transition_file', required=True)
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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17 required.add_argument('--output', type=str, required=True)
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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18 required.add_argument('--formula', type=str, required=True)
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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20 args = args_parser.parse_args()
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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22 ts = load_TS_from_json(args.transition_file)
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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24 if len(ts.params) != 0:
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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25 raise InvalidInputError("Provided transition system is parametrised - model checking cannot be executed.")
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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27 formula = PCTLparser().parse(args.formula)
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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28 if formula.success:
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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29 result = PCTL.model_checking(ts, formula, storm_local=True)
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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30 f = open(args.output, "w")
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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31 f.write(result.decode("utf-8"))
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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32 f.close()
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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33 else:
f9908f1109f9 planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit d80d8e9710cba50aab3e6a1e10a527d26fc7e72b
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34 raise FormulaParsingError(formula.data, args.formula)