def run(self):
while True:
patientAllTasksDict = self.queue.get()
patientError=False
subtaskList=map(lambda x: str(x), sorted(map(lambda x: int(x), patientAllTasksDict.keys())))
for subTaskGroup in subtaskList:
if patientError: break
subTaskGroupDict=patientAllTasksDict[subTaskGroup]
for JobDict in subTaskGroupDict:
self.parallelDicts.append(JobDict)
jobEvent = threading.Event()
jobThread = Job.pipelineJob(jobEvent, self.drmaaSession, self.logFileWriter, self.parallelDicts)
if not self.runThreadAndWait(jobThread, jobEvent):
patientError=True
continue # break out of current iteration of for loop because error occurred in job
self.parallelDicts=[]
self.queue.task_done()
