Bugfix to RestoreSraDataHandler for new SRA datasets

bbimber · bbimber · commit f98d6e43d2f1 · 2025-10-17T16:02:46.000-07:00
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/RestoreSraDataHandler.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/RestoreSraDataHandler.java
@@ -364,7 +364,9 @@ public void complete(PipelineJob job, List<Readset> readsets, List<SequenceOutpu
                     if (!hasMetrics)
                     {
                         job.getLogger().debug("No existing metrics found for: " + rd.getFileId1());
-                        List<Integer> toAdd = new ArrayList<>(rd.getFileId1());
+                        List<Integer> toAdd = new ArrayList<>();
+                        toAdd.add(rd.getFileId1());
+
                         if (rd.getFileId2() != null)
                         {
                             toAdd.add(rd.getFileId2());

Original file line number	Diff line number	Diff line change
`@@ -364,7 +364,9 @@ public void complete(PipelineJob job, List<Readset> readsets, List<SequenceOutpu`
`364`	`364`	`if (!hasMetrics)`
`365`	`365`	`{`
`366`	`366`	`job.getLogger().debug("No existing metrics found for: " + rd.getFileId1());`
`367`		`- List<Integer> toAdd = new ArrayList<>(rd.getFileId1());`
	`367`	`+ List<Integer> toAdd = new ArrayList<>();`
	`368`	`+ toAdd.add(rd.getFileId1());`
	`369`	`+`
`368`	`370`	`if (rd.getFileId2() != null)`
`369`	`371`	`{`
`370`	`372`	`toAdd.add(rd.getFileId2());`