STAR output is also TSV

bbimber · bbimber · commit c5631fd8a956 · 2020-04-02T08:35:17.000-07:00
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/analysis/CombineStarGeneCountsHandler.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/analysis/CombineStarGeneCountsHandler.java
@@ -62,7 +62,7 @@ protected void processOutputFiles(CountResults results, List<SequenceOutputFile>
                 while ((line = reader.readLine()) != null)
                 {
                     line = line.trim();
-                    String[] cells = line.split("\\s+");
+                    String[] cells = line.split("\t");
                     String geneId = cells[0];
                     if (OTHER_IDS.contains(geneId))
                     {

Original file line number	Diff line number	Diff line change
`@@ -62,7 +62,7 @@ protected void processOutputFiles(CountResults results, List<SequenceOutputFile>`
`62`	`62`	`while ((line = reader.readLine()) != null)`
`63`	`63`	`{`
`64`	`64`	`line = line.trim();`
`65`		`- String[] cells = line.split("\\s+");`
	`65`	`+ String[] cells = line.split("\t");`
`66`	`66`	`String geneId = cells[0];`
`67`	`67`	`if (OTHER_IDS.contains(geneId))`
`68`	`68`	`{`