openpathsampling.high_level.transition.TISTransition

class openpathsampling.high_level.transition.TISTransition(stateA, stateB, interfaces, orderparameter=None, name=None, name_suffix='')

Transition using TIS ensembles.

The additional information from the TIS ensembles allows us to set up all the analysis (assuming we built these are proper TIS ensembles, which we DO in the intitialization!)

Parameters:

• stateA (Volume) – Volume for the state from which the transition begins

• stateB (Volume) – Volume for the state in which the transition ends

• interfaces (list of Volume) – Volumes for the interfaces

• orderparameter (CollectiveVariable) – order parameter to be used in the analysis (does not need to be the parameter which defines the interfaces, although it usually is)

• name (string) – name for the transition

__init__(stateA, stateB, interfaces, orderparameter=None, name=None, name_suffix='')

Methods

__init__(stateA, stateB, interfaces[, ...])
args()	Return a list of args of the __init__ function of a class
base()	Return the most parent class actually derived from StorableObject
conditional_transition_probability(steps, ...)	This transition's conditional transition probability for a given ensemble.
copy([with_results])
copy_analysis_from(other)
count_weaks()	Return number of objects subclassed from StorableObject still in memory
crossing_probability(ensemble[, n_blocks])	Return the crossing probability for the given ensemble.
descendants()	Return a list of all subclassed objects
fix_name()	Set the objects name to be immutable.
from_dict(dct)	Reconstruct an object from a dictionary representaiton
get_uuid()
idx(store)	Return the index which is used for the object in the given store.
named(name)	Name an unnamed object.
objects()	Returns a dictionary of all storable objects
pathlength_histogram(ensemble)	Return the pathlength histogram for the given ensemble.
rate(steps[, flux, outer_ensemble, ...])	Calculate the rate for this transition.
reverse_uuid()
ruuid(uid)
set_observer(active)	(De-)Activate observing creation of storable objects
to_dict()	Convert object into a dictionary representation
total_crossing_probability([steps, method, ...])	Return the total crossing probability using method

Attributes

ACTIVE_LONG
CREATION_COUNT
INSTANCE_UUID
all_ensembles
base_cls	Return the base class
base_cls_name	Return the name of the base class
cls	Return the class name as a string
default_name	Return the default name.
is_named	True if this object has a custom name.
name	Return the current name of the object.
observe_objects