input file is a TSV

bbimber · bbimber · commit f02d95f2cb46 · 2020-04-02T08:35:17.000-07:00
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/analysis/CombineSubreadGeneCountsHandler.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/analysis/CombineSubreadGeneCountsHandler.java
@@ -54,7 +54,7 @@ protected void processOutputFiles(CountResults results, List<SequenceOutputFile>
                         continue;
                     }
 
-                    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
`@@ -54,7 +54,7 @@ protected void processOutputFiles(CountResults results, List<SequenceOutputFile>`
`54`	`54`	`continue;`
`55`	`55`	`}`
`56`	`56`
`57`		`- String[] cells = line.split("\\s+");`
	`57`	`+ String[] cells = line.split("\t");`
`58`	`58`	`String geneId = cells[0];`
`59`	`59`	`if (OTHER_IDS.contains(geneId))`
`60`	`60`	`{`