def __init__(self, **keywords): """ """ FilterVCFPipeline.__init__(self, **keywords) self.inputDir = os.path.abspath(self.inputDir) listArgumentName_data_type_ls = [('depthFoldChangeLs', int), ("minDepthPerGenotypeLs", int), \ ("minMACLs", int), ("minMAFLs", float), ("maxSNPMissingRateLs", float)] listArgumentName2hasContent = self.processListArguments(listArgumentName_data_type_ls, emptyContent=[None]) if listArgumentName2hasContent['depthFoldChangeLs'] and not self.alnStatForFilterFname: sys.stderr.write("Error: alnStatForFilterFname (%s) is nothing while depthFoldChangeLs=%s.\n"%\ (self.alnStatForFilterFname, repr(self.depthFoldChangeLs))) sys.exit(3)
def __init__(self, **keywords): """ """ FilterVCFPipeline.__init__(self, **keywords)