def renameParameter(self, old, new):
"""rename a parameter from old to new."""
ProbabilisticModel.renameParameter( self, old, new )
for terminals, chain in self.getChains().items():
chain.renameParameter( old, new )
def renameParameter(self, old, new):
"""rename a parameter from old to new."""
ProbabilisticModel.renameParameter(self, old, new)
for terminals, chain in self.getChains().items():
chain.renameParameter(old, new)
def __init__(self):
ProbabilisticModel.__init__(self)
self.mTerminals = ("A0", )
self.mTransitions = {}
self.mInitialStates = {}
self.mUpdatePolicy = None
self.mIsMutable = True
def renameParameter(self, old, new):
"""rename a parameter from old to new."""
n = set()
for start, ends in self.mTransitions.items():
for end, rate in ends.items():
if type(rate[1]) == StringType:
ends[end] = (rate[0], re.sub(old, new, rate[1]))
else:
new_rate = []
for v in rate[1]:
if type(v) != StringType:
new_vals.append(v)
else:
new_rate.append(re.sub(old, new, v))
ends[end] = (rate[0], new_rate)
for state, vals in self.mInitialStates.items():
if type(vals[1]) == StringType:
self.mInitialStates[state] = (vals[0],
re.sub(old, new, vals[1]))
else:
new_val = []
if type(vals[1]) in (TupleType, ListType):
for v in vals[1]:
if type(v) != StringType:
new_val.append(v)
else:
new_val.append(re.sub(old, new, v))
self.mInitialStates[state] = (vals[0], new_val)
elif type(vals[1]) == StringType:
self.mInitialStates[state] = (vals[0],
re.sub(old, new, vals[1]))
ProbabilisticModel.renameParameter(self, old, new)
def __init__(self):
ProbabilisticModel.__init__(self)
self.mChains = {}
self.mName = "unnamed"
self.mRules = {}
self.mOrderedRules = []
self.mUpdateRules = None
self.mUpdateRates = None
self.mIsParametric = None
self.mStartState = False
self.mPseudoCounts = None
self.mObservedCounts = None
self.mNonTerminals = []
self.mComments = []
def __init__(self):
ProbabilisticModel.__init__(self)
self.mChains = {}
self.mName = "unnamed"
self.mRules = {}
self.mOrderedRules = []
self.mUpdateRules = None
self.mUpdateRates = None
self.mIsParametric = None
self.mStartState = False
self.mPseudoCounts = None
self.mObservedCounts = None
self.mNonTerminals = []
self.mComments = []
