Allow orphan file job to abort if cancelled mid-task

Author: bbimber

SequenceAnalysis/src/org/labkey/sequenceanalysis/pipeline/OrphanFilePipelineJob.java

@@ -16,6 +16,7 @@
 import org.labkey.api.files.FileUrls;
 import org.labkey.api.pipeline.AbstractTaskFactory;
 import org.labkey.api.pipeline.AbstractTaskFactorySettings;
+import org.labkey.api.pipeline.CancelledException;
 import org.labkey.api.pipeline.PipeRoot;
 import org.labkey.api.pipeline.PipelineJob;
 import org.labkey.api.pipeline.PipelineJobException;
@@ -324,6 +325,11 @@ public void getOrphanFilesForContainer(Container c, User u, Set<File> orphanFile
                 return;
             }
 
+            if (getJob().isCancelled())
+            {
+                throw new CancelledException();
+            }
+
             messages.add("## processing container: " + c.getPath());
 
             Map<URI, Set<Integer>> dataMap = getDataMapForContainer(c);