def mooseReadSBML(filepath, loadpath, solver='ee',validate="on"):
"""Load SBML model.
Parameter
--------
filepath: str
filepath to be loaded.
loadpath : str
Root path for this model e.g. /model/mymodel
solver : str
Solver to use (default 'ee').
Available options are "ee", "gsl", "stochastic", "gillespie"
"rk", "deterministic"
For full list see ??
"""
global sbmlImport_
if sbmlImport_:
modelpath = _readSBML.mooseReadSBML(filepath, loadpath, solver, validate)
sc = solver.lower()
if sc in ["gssa","gillespie","stochastic","gsolve"]:
method = "gssa"
elif sc in ["gsl","runge kutta","deterministic","ksolve","rungekutta","rk5","rkf","rk"]:
method = "gsl"
elif sc in ["exponential euler","exponentialeuler","neutral"]:
method = "ee"
else:
method = "ee"
if method != 'ee':
chemError = _chemUtil.add_Delete_ChemicalSolver.mooseAddChemSolver(modelpath[0].path, method)
return modelpath
else:
print( sbmlError_ )
return False
def mooseReadSBML(filepath, loadpath, solver='ee'):
"""Load SBML model.
keyword arguments: \n
filepath -- filepath to be loaded \n
loadpath -- Root path for this model e.g. /model/mymodel \n
solver -- Solver to use (default 'ee' ) \n
"""
global sbmlImport_
if sbmlImport_:
return _readSBML.mooseReadSBML( filepath, loadpath, solver )
else:
print( sbmlError_ )
return False
def mooseReadSBML(filepath, loadpath, solver='ee'):
"""Load SBML model.
keyword arguments: \n
filepath -- filepath to be loaded \n
loadpath -- Root path for this model e.g. /model/mymodel \n
solver -- Solver to use (default 'ee' ) \n
"""
global sbmlImport_
if sbmlImport_:
return _readSBML.mooseReadSBML( filepath, loadpath, solver )
else:
print( sbmlError_ )
return False
def mooseReadSBML(filepath, loadpath, solver="ee", validate="on"):
"""Load SBML model (inner helper function for readSBML)."""
global sbmlImport_, sbmlError_
if not sbmlImport_:
raise ImportError("SBML support could not be loaded because of '%s'" %
sbmlError_)
modelpath = _readSBML.mooseReadSBML(filepath, loadpath, solver, validate)
sc = solver.lower().replace(" ", "")
if sc in ["gssa", "gillespie", "stochastic", "gsolve"]:
method = "gssa"
elif sc in ["gsl", "deterministic", "rungekutta", "rk5", "rk"]:
method = "gsl"
else:
method = "ee"
if method != "ee":
_chemUtil.add_Delete_ChemicalSolver.mooseAddChemSolver(
modelpath[0].path, method)
return modelpath
def mooseReadSBML(filepath, loadpath, solver='ee', validate="on"):
"""Load SBML model.
Parameter
--------
filepath: str
filepath to be loaded.
loadpath : str
Root path for this model e.g. /model/mymodel
solver : str
Solver to use (default 'ee').
Available options are "ee", "gsl", "stochastic", "gillespie"
"rk", "deterministic"
For full list see ??
"""
global sbmlImport_
if sbmlImport_:
modelpath = _readSBML.mooseReadSBML(filepath, loadpath, solver,
validate)
sc = solver.lower()
if sc in ["gssa", "gillespie", "stochastic", "gsolve"]:
method = "gssa"
elif sc in [
"gsl", "runge kutta", "deterministic", "ksolve", "rungekutta",
"rk5", "rkf", "rk"
]:
method = "gsl"
elif sc in ["exponential euler", "exponentialeuler", "neutral"]:
method = "ee"
else:
method = "ee"
if method != 'ee':
chemError = _chemUtil.add_Delete_ChemicalSolver.mooseAddChemSolver(
modelpath[0].path, method)
return modelpath
else:
print(sbmlError_)
return False