Fix NPE

bbimber · bbimber · commit 1ea5d84dd173 · 2021-06-14T07:42:12.000-07:00
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/util/GenotypeGVCFsWrapper.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/util/GenotypeGVCFsWrapper.java
@@ -226,7 +226,11 @@ else if (f.isDirectory() && doneFile.exists())
                 {
                     ctx.getLogger().info("Files will be marked for deletion after this step");
                     toDelete.add(movedFile);
-                    toDelete.add(movedIdx);
+                    if (movedIdx != null)
+                    {
+                        toDelete.add(movedIdx);
+                    }
+
                     if (doneFile.exists())
                     {
                         toDelete.add(doneFile);

Original file line number	Diff line number	Diff line change
`@@ -226,7 +226,11 @@ else if (f.isDirectory() && doneFile.exists())`
`226`	`226`	`{`
`227`	`227`	`ctx.getLogger().info("Files will be marked for deletion after this step");`
`228`	`228`	`toDelete.add(movedFile);`
`229`		`- toDelete.add(movedIdx);`
	`229`	`+ if (movedIdx != null)`
	`230`	`+ {`
	`231`	`+ toDelete.add(movedIdx);`
	`232`	`+ }`
	`233`	`+`
`230`	`234`	`if (doneFile.exists())`
`231`	`235`	`{`
`232`	`236`	`toDelete.add(doneFile);`