sim Namespace Reference

Data Structures
class	_object
Functions
def	swig_import_helper
def	_swig_setattr_nondynamic
def	_swig_setattr
def	_swig_getattr
def	_swig_repr
def	new_array
def	get_value
def	get_value2D
def	set_value
def	set_value2D
def	ODEevents
def	ODEflags
def	ODEtolerance
def	ODEsim
def	ODEsim2
def	jacobian
def	jacobian2
def	steadyState
def	steadyState2
def	getDerivatives
def	getDerivatives2
def	SSA
def	getRatesFromSimulatedData
def	Langevin
def	cells_ssa
def	SIM_PYTHON_ODE_FUNCTION
def	sim_create_callback
def	sim_delete_callback
Variables
tuple	_sim = swig_import_helper()
int	_newclass = 0
	new_array = _sim.new_array
	get_value = _sim.get_value
	get_value2D = _sim.get_value2D
	set_value = _sim.set_value
	set_value2D = _sim.set_value2D
	ODEevents = _sim.ODEevents
	ODEflags = _sim.ODEflags
	ODEtolerance = _sim.ODEtolerance
	ODEsim = _sim.ODEsim
	ODEsim2 = _sim.ODEsim2
	jacobian = _sim.jacobian
	jacobian2 = _sim.jacobian2
	steadyState = _sim.steadyState
	steadyState2 = _sim.steadyState2
	getDerivatives = _sim.getDerivatives
	getDerivatives2 = _sim.getDerivatives2
	SSA = _sim.SSA
	getRatesFromSimulatedData = _sim.getRatesFromSimulatedData
	Langevin = _sim.Langevin
	cells_ssa = _sim.cells_ssa
	SIM_PYTHON_ODE_FUNCTION = _sim.SIM_PYTHON_ODE_FUNCTION
	sim_create_callback = _sim.sim_create_callback
	sim_delete_callback = _sim.sim_delete_callback
	cvar = _sim.cvar

---

Function Documentation

def sim::_swig_getattr	(		self,
			class_type,
			name
	)			[private]

Definition at line 50 of file sim.py.

def sim::_swig_repr

(

self

)

[private]

Definition at line 56 of file sim.py.

def sim::_swig_setattr	(		self,
			class_type,
			name,
			value
	)			[private]

Definition at line 47 of file sim.py.

def sim::_swig_setattr_nondynamic	(		self,
			class_type,
			name,
			value,
			static = 1
	)			[private]

Definition at line 34 of file sim.py.

def sim::cells_ssa

(

args

)

Definition at line 126 of file sim.py.

def sim::get_value

(

args

)

Definition at line 134 of file sim.py.

def sim::get_value2D

(

args

)

Definition at line 138 of file sim.py.

def sim::getDerivatives

(

args

)

Definition at line 106 of file sim.py.

def sim::getDerivatives2

(

args

)

Definition at line 110 of file sim.py.

def sim::getRatesFromSimulatedData

(

args

)

Definition at line 118 of file sim.py.

def sim::jacobian

(

args

)

Definition at line 90 of file sim.py.

def sim::jacobian2

(

args

)

Definition at line 94 of file sim.py.

def sim::Langevin

(

args

)

Definition at line 122 of file sim.py.

def sim::new_array

(

args

)

Definition at line 130 of file sim.py.

def sim::ODEevents

(

args

)

Definition at line 70 of file sim.py.

def sim::ODEflags

(

args

)

Definition at line 74 of file sim.py.

def sim::ODEsim

(

args

)

Definition at line 82 of file sim.py.

def sim::ODEsim2

(

args

)

Definition at line 86 of file sim.py.

def sim::ODEtolerance

(

args

)

Definition at line 78 of file sim.py.

def sim::set_value

(

args

)

Definition at line 142 of file sim.py.

def sim::set_value2D

(

args

)

Definition at line 146 of file sim.py.

def sim::sim_create_callback

(

args

)

Definition at line 154 of file sim.py.

def sim::sim_delete_callback

(

)

Definition at line 158 of file sim.py.

def sim::SIM_PYTHON_ODE_FUNCTION

(

args

)

Definition at line 150 of file sim.py.

def sim::SSA

(

args

)

Definition at line 114 of file sim.py.

def sim::steadyState

(

args

)

Definition at line 98 of file sim.py.

def sim::steadyState2

(

args

)

Definition at line 102 of file sim.py.

def sim::swig_import_helper

(

)

Definition at line 10 of file sim.py.

---

Variable Documentation

int sim::_newclass = 0

Definition at line 66 of file sim.py.

tuple sim::_sim = swig_import_helper()

Definition at line 25 of file sim.py.

def sim::cells_ssa = _sim.cells_ssa

Definition at line 148 of file sim.py.

Referenced by _wrap_cells_ssa().

sim::cvar = _sim.cvar

Definition at line 162 of file sim.py.

def sim::get_value = _sim.get_value

Definition at line 76 of file sim.py.

def sim::get_value2D = _sim.get_value2D

Definition at line 80 of file sim.py.

def sim::getDerivatives = _sim.getDerivatives

Definition at line 128 of file sim.py.

Referenced by _wrap_getDerivatives(), and getDerivatives2().

def sim::getDerivatives2 = _sim.getDerivatives2

Definition at line 132 of file sim.py.

Referenced by _wrap_getDerivatives2().

def sim::getRatesFromSimulatedData = _sim.getRatesFromSimulatedData

Definition at line 140 of file sim.py.

Referenced by _wrap_getRatesFromSimulatedData().

def sim::jacobian = _sim.jacobian

Definition at line 112 of file sim.py.

Referenced by _wrap_jacobian(), jacobian2(), and main().

def sim::jacobian2 = _sim.jacobian2

Definition at line 116 of file sim.py.

Referenced by _wrap_jacobian2().

def sim::Langevin = _sim.Langevin

Definition at line 144 of file sim.py.

Referenced by _wrap_Langevin().

def sim::new_array = _sim.new_array

Definition at line 72 of file sim.py.

def sim::ODEevents = _sim.ODEevents

Definition at line 92 of file sim.py.

Referenced by _wrap_ODEevents().

def sim::ODEflags = _sim.ODEflags

Definition at line 96 of file sim.py.

Referenced by _wrap_ODEflags().

def sim::ODEsim = _sim.ODEsim

Definition at line 104 of file sim.py.

Referenced by _wrap_ODEsim(), fitness(), getDerivatives(), main(), and ODEsim2().

def sim::ODEsim2 = _sim.ODEsim2

Definition at line 108 of file sim.py.

Referenced by _wrap_ODEsim2(), and simulateNetworkODE().

def sim::ODEtolerance = _sim.ODEtolerance

Definition at line 100 of file sim.py.

Referenced by _wrap_ODEtolerance().

def sim::set_value = _sim.set_value

Definition at line 84 of file sim.py.

def sim::set_value2D = _sim.set_value2D

Definition at line 88 of file sim.py.

sim::sim_create_callback = _sim.sim_create_callback

Definition at line 156 of file sim.py.

sim::sim_delete_callback = _sim.sim_delete_callback

Definition at line 160 of file sim.py.

sim::SIM_PYTHON_ODE_FUNCTION = _sim.SIM_PYTHON_ODE_FUNCTION

Definition at line 152 of file sim.py.

def sim::SSA = _sim.SSA

Definition at line 136 of file sim.py.

Referenced by _wrap_SSA(), main(), and simulateNetworkStochastically().

def sim::steadyState = _sim.steadyState

Definition at line 120 of file sim.py.

Referenced by _wrap_steadyState(), regularSteadyState(), steadyState2(), and unstableSteadyState().

def sim::steadyState2 = _sim.steadyState2

Definition at line 124 of file sim.py.

Referenced by _wrap_steadyState2(), main(), and networkSteadyState().