Add Slurm support

.gitignore

@@ -3,3 +3,8 @@
 *.a
 bin/
 tmp_*
+.spyderproject
+.project
+.pydevproject
+.settings*
+

batchSystems/abstractBatchSystem.py

@@ -26,6 +26,21 @@ class AbstractBatchSystem:
     """An abstract (as far as python currently allows) base class
     to represent the interface the batch system must provide to the jobTree.
     """
+    @classmethod
+    def getDisplayNames(cls):
+        """
+        Array of names used to select this batch system on the command line.  Returns
+        None by default.
+        """
+        return None
+
+    @classmethod
+    def getOptionData(cls):
+        """
+        Returns dict for each option.  Can be used to add to option parser.
+        """
+        return dict()
+
     def __init__(self, config, maxCpus, maxMemory): 
         """This method must be called.
         The config object is setup by the jobTreeSetup script and

batchSystems/gridengine.py

@@ -200,6 +200,12 @@ def run(self):
 class GridengineBatchSystem(AbstractBatchSystem):
     """The interface for gridengine.
     """
+    @classmethod
+    def getDisplayNames(cls):
+        """
+        Names used to select this batch system.
+        """
+        return ["gridengine","gridEngine"]
 
     def __init__(self, config, maxCpus, maxMemory):
         AbstractBatchSystem.__init__(self, config, maxCpus, maxMemory) #Call the parent constructor

batchSystems/lsf.py

@@ -159,6 +159,14 @@ class LSFBatchSystem(AbstractBatchSystem):
     """The interface for running jobs on lsf, runs all the jobs you
     give it as they come in, but in parallel.
     """
+
+    @classmethod
+    def getDisplayNames(cls):
+        """
+        Names used to select this batch system.
+        """
+        return ["lsf","LSF"]
+
     def __init__(self, config, maxCpus, maxMemory):
         AbstractBatchSystem.__init__(self, config, maxCpus, maxMemory) #Call the parent constructor
         self.lsfResultsFile = getParasolResultsFileName(config.attrib["job_tree"])

batchSystems/parasol.py

@@ -92,6 +92,14 @@ def getUpdatedJob(parasolResultsFile, outputQueue1, outputQueue2):
 class ParasolBatchSystem(AbstractBatchSystem):
     """The interface for Parasol.
     """
+
+    @classmethod
+    def getDisplayNames(cls):
+        """
+        Names used to select this batch system.
+        """
+        return ["parasol"]
+
     def __init__(self, config, maxCpus, maxMemory):
         AbstractBatchSystem.__init__(self, config, maxCpus, maxMemory) #Call the parent constructor
         if maxMemory != sys.maxint:

batchSystems/singleMachine.py

@@ -56,6 +56,13 @@ class SingleMachineBatchSystem(AbstractBatchSystem):
     """The interface for running jobs on a single machine, runs all the jobs you
     give it as they come in, but in parallel.
     """
+    @classmethod
+    def getDisplayNames(cls):
+        """
+        Names used to select this batch system.
+        """
+        return ["single_machine","singleMachine"]
+
     def __init__(self, config, maxCpus, maxMemory, workerFn=worker):
         AbstractBatchSystem.__init__(self, config, maxCpus, maxMemory) #Call the parent constructor
         self.jobIndex = 0