def getPathListFromFile( pathFile ):
lPaths = []
pathFileHandler = open( pathFile, "r" )
while True:
line = pathFileHandler.readline()
if line == "":
break
iPath = Path()
iPath.setFromString( line )
lPaths.append( iPath )
pathFileHandler.close()
return lPaths
def convertPathFileIntoSetFile( pathFile, setFile ):
pathFileHandler = open( pathFile, "r" )
setFileHandler = open( setFile, "w" )
iPath = Path()
while True:
line = pathFileHandler.readline()
if line == "":
break
iPath.setFromString( line )
iSet = iPath.getSubjectAsSetOfQuery()
iSet.write( setFileHandler )
pathFileHandler.close()
setFileHandler.close()
def convertPathFileIntoAlignFile(pathFile, alignFile):
pathFileHandler = open( pathFile, "r" )
alignFileHandler = open( alignFile, "w" )
iPath = Path()
while True:
line = pathFileHandler.readline()
if line == "":
break
iPath.setFromString( line )
iAlign = iPath.getAlignInstance()
iAlign.write( alignFileHandler )
pathFileHandler.close()
alignFileHandler.close()
def getDictOfListsWithIdAsKeyFromFile( pathFile ):
dId2PathList = {}
pathFileHandler = open( pathFile, "r" )
while True:
line = pathFileHandler.readline()
if line == "":
break
iPath = Path()
iPath.setFromString( line )
if dId2PathList.has_key( iPath.id ):
dId2PathList[ iPath.id ].append( iPath )
else:
dId2PathList[ iPath.id ] = [ iPath ]
pathFileHandler.close()
return dId2PathList
