def registerCustomExecutables(self, workflow=None):
"""
2011-11-25
split out of run()
"""
InspectAlignmentPipeline.registerCustomExecutables(self, workflow=workflow)
namespace = self.namespace
version = self.version
operatingSystem = self.operatingSystem
architecture = self.architecture
clusters_size = self.clusters_size
site_handler = self.site_handler
executableClusterSizeMultiplierList = [] #2012.8.7 each cell is a tuple of (executable, clusterSizeMultipler (0 if u do not need clustering)
verifyBamID = Executable(namespace=namespace, name="verifyBamID", version=version, os=operatingSystem,\
arch=architecture, installed=True)
verifyBamID.addPFN(PFN("file://" + self.verifyBamIDPath, site_handler))
executableClusterSizeMultiplierList.append((verifyBamID, 1))
self.addExecutableAndAssignProperClusterSize(executableClusterSizeMultiplierList, defaultClustersSize=self.clusters_size)
def __init__(self, **keywords):
"""
2011-11-4
"""
self.pathToInsertHomePathList.append('verifyBamIDPath')
InspectAlignmentPipeline.__init__(self, **keywords)
