def runAmiciSimulations(
model: AmiciModel,
solver: AmiciSolver,
edata_list: AmiciExpDataVector,
failfast: bool = True,
num_threads: int = 1,
) -> List['numpy.ReturnDataView']:
"""
Convenience wrapper for loops of amici.runAmiciSimulation
:param model: Model instance
:param solver: Solver instance, must be generated from Model.getSolver()
:param edata_list: list of ExpData instances
:param failfast: returns as soon as an integration failure is encountered
:param num_threads: number of threads to use (only used if compiled
with openmp)
:returns: list of simulation results
"""
with capture_cstdout():
edata_ptr_vector = amici.ExpDataPtrVector(edata_list)
rdata_ptr_list = amici.runAmiciSimulations(solver.get(),
edata_ptr_vector,
model.get(), failfast,
num_threads)
return [numpy.ReturnDataView(r) for r in rdata_ptr_list]
def runAmiciSimulations(model,
solver,
edata_list,
failfast=True,
num_threads=1):
""" Convenience wrapper for loops of amici.runAmiciSimulation
Arguments:
model: Model instance
solver: Solver instance, must be generated from Model.getSolver()
edata_list: list of ExpData instances
failfast: returns as soon as an integration failure is encountered
num_threads: number of threads to use
(only used if compiled with openmp)
Returns:
list of ReturnData objects with simulation results
Raises:
"""
with capture_cstdout():
edata_ptr_vector = amici.ExpDataPtrVector(edata_list)
rdata_ptr_list = amici.runAmiciSimulations(solver.get(),
edata_ptr_vector,
model.get(), failfast,
num_threads)
return [numpy.rdataToNumPyArrays(r) for r in rdata_ptr_list]
def runAmiciSimulation(
model: AmiciModel,
solver: AmiciSolver,
edata: Optional[AmiciExpData] = None) -> 'numpy.ReturnDataView':
"""
Convenience wrapper around :py:func:`amici.amici.runAmiciSimulation`
(generated by swig)
:param model:
Model instance
` :param solver:
Solver instance, must be generated from
:py:meth:`amici.amici.Model.getSolver`
:param edata:
ExpData instance (optional)
:returns:
ReturnData object with simulation results
"""
with capture_cstdout():
rdata = amici.runAmiciSimulation(_get_ptr(solver), _get_ptr(edata),
_get_ptr(model))
return numpy.ReturnDataView(rdata)
def runAmiciSimulation(
model: AmiciModel,
solver: AmiciSolver,
edata: Optional[AmiciExpData] = None) -> 'numpy.ReturnDataView':
"""
Convenience wrapper around amici.runAmiciSimulation (generated by swig)
:param model: Model instance
` :param solver: Solver instance, must be generated from Model.getSolver()
:param edata: ExpData instance (optional)
:returns: ReturnData object with simulation results
"""
if edata and isinstance(edata, amici.ExpDataPtr):
edata = edata.get()
with capture_cstdout():
rdata = amici.runAmiciSimulation(solver.get(), edata, model.get())
return numpy.ReturnDataView(rdata)
def runAmiciSimulation(model, solver, edata=None):
""" Convenience wrapper around amici.runAmiciSimulation (generated by swig)
Arguments:
model: Model instance
solver: Solver instance, must be generated from Model.getSolver()
edata: ExpData instance (optional)
Returns:
ReturnData object with simulation results
Raises:
"""
if edata and edata.__class__.__name__ == 'ExpDataPtr':
edata = edata.get()
with capture_cstdout():
rdata = amici.runAmiciSimulation(solver.get(), edata, model.get())
return rdataToNumPyArrays(rdata)