Bugfix for scatter/gather without a primary output

bbimber · bbimber · commit fe44423e829e · 2023-09-27T13:20:37.000-07:00
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/pipeline/VariantProcessingRemoteSplitTask.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/pipeline/VariantProcessingRemoteSplitTask.java
@@ -141,7 +141,14 @@ else if (output.getPath().startsWith(_wd.getDir().getPath()))
                     throw new PipelineJobException(e);
                 }
 
-                getPipelineJob().getLogger().debug("Final scatter output: " + output.getPath());
+                if (output != null)
+                {
+                    getPipelineJob().getLogger().debug("Final scatter output: " + output.getPath());
+                }
+                else
+                {
+                    getPipelineJob().getLogger().debug("No primary scatter output produced");
+                }
             }
             else
             {

Original file line number	Diff line number	Diff line change
`@@ -141,7 +141,14 @@ else if (output.getPath().startsWith(_wd.getDir().getPath()))`
`141`	`141`	`throw new PipelineJobException(e);`
`142`	`142`	`}`
`143`	`143`
`144`		`- getPipelineJob().getLogger().debug("Final scatter output: " + output.getPath());`
	`144`	`+ if (output != null)`
	`145`	`+ {`
	`146`	`+ getPipelineJob().getLogger().debug("Final scatter output: " + output.getPath());`
	`147`	`+ }`
	`148`	`+ else`
	`149`	`+ {`
	`150`	`+ getPipelineJob().getLogger().debug("No primary scatter output produced");`
	`151`	`+ }`
`145`	`152`	`}`
`146`	`153`	`else`
`147`	`154`	`{`