How to use the gillespy2.sbml.SBMLimport.__read_sbml_model function in gillespy2
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StochSS / stochss / stochss / handlers / util / convert_sbml_to_model.py View on Github 
def get_sbml_function_definitions(path):
sbml_model = __read_sbml_model(path)[0]
function_definitions = []
for i in range(sbml_model.getNumFunctionDefinitions()):
function = sbml_model.getFunctionDefinition(i)
function_name = function.getId()
function_tree = function.getMath()
num_nodes = function_tree.getNumChildren()
function_args = [function_tree.getChild(i).getName() for i in range(num_nodes-1)]
function_string = __get_math(function_tree.getChild(num_nodes-1))
fd = {"name":function_name, "function":function_string, "args":function_args}
function_definitions.append(fd)
return function_definitionsgillespy2
Python interface for Gillespie-style biochemical simulations
Package Health Score
70 / 100Popular gillespy2 functions
- gillespy2.AssignmentRule
- gillespy2.core.events.Event
- gillespy2.core.events.EventAssignment
- gillespy2.core.events.EventTrigger
- gillespy2.core.log
- gillespy2.core.log.addHandler
- gillespy2.core.log.critical
- gillespy2.core.log.error
- gillespy2.core.log.handlers
- gillespy2.FunctionDefinition
- gillespy2.Model
- gillespy2.Model.__init__
- gillespy2.Parameter
- gillespy2.RateRule
- gillespy2.Reaction
- gillespy2.sbml.SBMLimport.__get_math
- gillespy2.sbml.SBMLimport.__read_sbml_model
- gillespy2.sbml.SBMLimport.convert
- gillespy2.solvers.auto.ssa_solver.get_best_ssa_solver
- gillespy2.Species