def handleMinus(self, node):
if node.getRightChild():
return Expression(parkin.MINUS,
self.astConverter.handle(node.getLeftChild()),
self.astConverter.handle(node.getRightChild()))
else:
return Expression(parkin.MINUS,
self.astConverter.handle(node.getLeftChild()))
def handleTimes(self, node):
left = self.astConverter.handle(node.getLeftChild())
right = self.astConverter.handle(node.getRightChild())
if right and left:
return Expression(parkin.TIMES, left, right)
else:
return None
def mathForBioParkinCpp(self, idsToReplace=None):
"""
Creates and uses an AstConverter (with the BioParkinCppAstConverterTemplate) to
convert the libsbml ASTNode into an PARKINcpp Expression object.
"""
if self.localParams:
if not idsToReplace:
idsToReplace = {}
for param in self.localParams:
idsToReplace[param.getId()] = Expression(
self.getCombinedId(param))
astConverter = AstConverter(BioParkinCppAstConverterTemplate(),
mainModel=self.mainModel,
idsToReplace=idsToReplace)
return astConverter.handle(self.kineticLaw.getMath())
def handleCos(self, node):
return Expression(parkin.COS, self.astConverter.handle(node.getLeftChild()))
def handleConstPi(self, node=None):
""" Handles ASTNodes representing the constant pi. """
return Expression(math.pi)
def handleConstTrue(self, node=None):
""" Handles ASTNodes representing a simple real/double/float. """
return Expression(1.0)
def handleOdeTime(self, node=None):
""" Handles ASTNodes representing the (ODE-)time variable. """
return Expression("odeTime")
def handleConstE(self, node=None):
""" Handles ASTNodes representing the Euler constant e. """
return Expression(math.e)
def handleReal(self, node):
""" Handles ASTNodes representing a simple real/double/float. """
return Expression(node.getReal())
def handleString(self, node):
""" Handles ASTNodes representing a simple String. """
return Expression(node.getName())
def handleDivide(self, node):
return Expression(parkin.DIVIDE, self.astConverter.handle(node.getLeftChild()), self.astConverter.handle(node.getRightChild()))
def handleInt(self, node):
""" Handles ASTNodes representing a simple Integer. """
return Expression(node.getInteger())
def handleSin(self, node):
return Expression(parkin.SIN, self.astConverter.handle(node.getLeftChild()))
def handleFloor(self, node):
return Expression(parkin.FLOOR, self.astConverter.handle(node.getLeftChild()))
def handleCeiling(self, node):
return Expression(parkin.CEIL, self.astConverter.handle(node.getLeftChild()))
def handleLog(self, node):
return Expression(parkin.LOG, self.astConverter.handle(node.getLeftChild()))
def handlePower(self, node):
return Expression(parkin.POWER, self.astConverter.handle(node.getLeftChild()), self.astConverter.handle(node.getRightChild()))