def __init__( self, infoKey, matcher, leafOnly=True, userData={} ) :
PathFilter.__init__( self, userData )
self.__infoKey = infoKey
self.__matcher = matcher
self.__leafOnly = leafOnly
def __init__(self, infoKey, matcher, leafOnly=True, userData={}):
PathFilter.__init__(self, userData)
self.__infoKey = infoKey
self.__matcher = matcher
self.__leafOnly = leafOnly
def __init__(self, matchers, leafOnly=True, userData={}):
assert (isinstance(matchers, (list, tuple)))
PathFilter.__init__(self, userData)
self.__matchers = []
for m in matchers:
if isinstance(m, basestring):
self.__matchers.append(re.compile(fnmatch.translate(m)))
else:
assert (type(m) is type(re.compile("")))
self.__matchers.append(m)
self.__leafOnly = leafOnly
def __init__( self, matchers, leafOnly=True, userData={} ) :
assert( isinstance( matchers, ( list, tuple ) ) )
PathFilter.__init__( self, userData )
self.__matchers = []
for m in matchers :
if isinstance( m, basestring ) :
self.__matchers.append( re.compile( fnmatch.translate( m ) ) )
else :
assert( type( m ) is type( re.compile( "" ) ) )
self.__matchers.append( m )
self.__leafOnly = leafOnly
def compute(self, timeout):
"""Filter pathways."""
pf = PathFilter(pathfile=self.pathfile,
sinkfile=self.sinkfile,
filter_bootstraps=True,
filter_inconsistentsubstrates=True,
onlyPathsStartingBy=self.onlyPathsStartingBy,
notPathsStartingBy=self.notPathsStartingBy)
pf.GetPathwaysFromFile()
pf.GetSinkCompoundsFromFile()
pf.FilterOutPathways()
pf.RewritePathFile()
def __init__( self, userData={} ) :
PathFilter.__init__( self, userData )
def __init__(self, userData={}):
PathFilter.__init__(self, userData)
