def registerCustomExecutables(self, workflow=None): """ 2012.3.14 """ if workflow is None: workflow = self AbstractVervetWorkflow.registerCustomExecutables(self, workflow=workflow) self.addOneExecutableFromPathAndAssignProperClusterSize( path=os.path.join(self.vervetSrcPath, "mapper/CountFastqReadBaseCount.py"), name="CountFastqReadBaseCount", clusterSizeMultipler=1, ) self.addOneExecutableFromPathAndAssignProperClusterSize( path=os.path.join(self.vervetSrcPath, "db/input/PutReadBaseCountIntoDB.py"), name="PutReadBaseCountIntoDB", clusterSizeMultipler=0.2, )
def registerCustomExecutables(self, workflow=None): """ 2011-11-28 """ if workflow==None: workflow=self AbstractVervetWorkflow.registerCustomExecutables(self, workflow) namespace = workflow.namespace version = workflow.version operatingSystem = workflow.operatingSystem architecture = workflow.architecture clusters_size = workflow.clusters_size site_handler = workflow.site_handler vervetSrcPath = self.vervetSrcPath executableClusterSizeMultiplierList = [] #2012.8.7 each cell is a tuple of (executable, clusterSizeMultipler (0 if u do not need clustering) AggregateAndHClusterDistanceMatrix = Executable(namespace=namespace, name="AggregateAndHClusterDistanceMatrix", \ version=version, \ os=operatingSystem, arch=architecture, installed=True) AggregateAndHClusterDistanceMatrix.addPFN(PFN("file://" + os.path.join(vervetSrcPath, "reducer/AggregateAndHClusterDistanceMatrix.py"), \ site_handler)) executableClusterSizeMultiplierList.append((AggregateAndHClusterDistanceMatrix, 0)) self.addExecutableAndAssignProperClusterSize(executableClusterSizeMultiplierList, defaultClustersSize=self.clusters_size)