annotate ebcsgen_generate_ts.py @ 0:3bdec3b22152 draft default tip

planemo upload for repository https://github.com/sybila/galaxytools/tree/master/tools/ebcsgen commit 7befebc7a9bc40d8b97f4dac752ad9646aac40de

import argparse

from eBCSgen.Errors.ModelParsingError import ModelParsingError
from eBCSgen.Errors.UnspecifiedParsingError import UnspecifiedParsingError
from eBCSgen.Parsing.ParseBCSL import Parser

import numpy as np


args_parser = argparse.ArgumentParser(description='Transition system generating')

args_parser._action_groups.pop()
required = args_parser.add_argument_group('required arguments')
optional = args_parser.add_argument_group('optional arguments')

required.add_argument('--model', type=str, required=True)
required.add_argument('--output', type=str, required=True)
required.add_argument('--direct', required=True)

optional.add_argument('--max_time', type=float, default=np.inf)
optional.add_argument('--max_size', type=float, default=np.inf)
optional.add_argument('--bound', type=int, default=None)

args = args_parser.parse_args()

model_parser = Parser("model")
model_str = open(args.model, "r").read()

model = model_parser.parse(model_str)
if model.success:
    if eval(args.direct):
        ts = model.data.generate_direct_transition_system(args.max_time,
                                                          args.max_size,
                                                          args.bound)
        ts.change_to_vector_backend()
    else:
        vm = model.data.to_vector_model(args.bound)
        ts = vm.generate_transition_system(None, args.max_time, args.max_size)
    ts.save_to_json(args.output, model.data.params)
else:
    if "error" in model.data:
        raise UnspecifiedParsingError(model.data["error"])
    raise ModelParsingError(model.data, model_str)