Fix typo

bbimber · bbimber · commit b68c3b8225ff · 2020-09-02T12:53:52.000-07:00
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/MergeLoFreqVcfHandler.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/MergeLoFreqVcfHandler.java
@@ -315,7 +315,7 @@ public void processFilesRemote(List<SequenceOutputFile> inputFiles, JobContext c
                     File pindelFile = new File(so.getFile().getParentFile(), pindelBasename + ".pindel.txt");
                     if (pindelFile.exists())
                     {
-                        try (CSVReader reader = new CSVReader(Readers.getReader(pindelFile)))
+                        try (CSVReader reader = new CSVReader(Readers.getReader(pindelFile), '\t'))
                         {
                             String[] line;
                             while ((line = reader.readNext()) != null)

Original file line number	Diff line number	Diff line change
`@@ -315,7 +315,7 @@ public void processFilesRemote(List<SequenceOutputFile> inputFiles, JobContext c`
`315`	`315`	`File pindelFile = new File(so.getFile().getParentFile(), pindelBasename + ".pindel.txt");`
`316`	`316`	`if (pindelFile.exists())`
`317`	`317`	`{`
`318`		`- try (CSVReader reader = new CSVReader(Readers.getReader(pindelFile)))`
	`318`	`+ try (CSVReader reader = new CSVReader(Readers.getReader(pindelFile), '\t'))`
`319`	`319`	`{`
`320`	`320`	`String[] line;`
`321`	`321`	`while ((line = reader.readNext()) != null)`