def readExperiment(self, experimentXmlPath):
expXml = ET.parse(experimentXmlPath).getroot()
exp = ExperimentWrapper(expXml)
self.nameMap = dict()
for eventName, sequencePath in exp.seqMap.items():
for sequenceFile in fileList(sequencePath):
if not os.path.isdir(sequenceFile):
self.processSequence(eventName, sequenceFile)
def readProject(self, projectXmlPath):
mcProj = MultiCactusProject()
mcProj.readXML(projectXmlPath)
mcProj.mcTree.nameUnlabeledInternalNodes()
self.nameMap = dict()
for leaf in mcProj.mcTree.getLeaves():
eventName = mcProj.mcTree.getName(leaf)
sequencePath = mcProj.sequencePath(eventName)
for sequenceFile in fileList(sequencePath):
if not os.path.isdir(sequenceFile):
self.processSequence(eventName, sequenceFile)
