def convert_to_sbml():
"""Handles conversion to sbml requests, that is a request to convert a
model from Bio-PEPA to SBML
"""
convert_id = request.form["convert_id"]
new_text = "Calculating ..."
datastore.update_model_field(None, convert_id, "modelsbml", new_text)
command = [ "python", "web-biopepa-latex/execute_command.py",
"convert_to_sbml", "5", convert_id ]
_process = Popen(command)
return redirect(url_for('show_entries'))
def convert_to_latex(timeout, database, arguments):
""" The method for converting a model to LaTeX """
convert_id = int(arguments[0])
model_source = datastore.get_model_source(database, convert_id)
# Basically makes the method the same but with a timeout of
# the given timeout.
convert_method = timeouts.timeout(timeout)
convert = convert_method(biopepa_to_latex.convert_source)
try:
new_text = convert(model_source)
datastore.update_model_field(database, convert_id, "latex", new_text)
except parcon.ParseException as parse_exception:
message = "Operation to convert to LaTeX failed due to a parse error: "
message += str(parse_exception)
datastore.update_model_field(database, convert_id, "latex", "")
datastore.add_error(database, convert_id, message)
except timeouts.TimeoutError:
message = "Operation to convert to LaTeX timed-out"
datastore.update_model_field(database, convert_id, "latex", "")
datastore.add_error(database, convert_id, message)
