Bugfix to vireo

bbimber · bbimber · commit 5421f7ec0fb1 · 2024-03-24T03:11:16.000-07:00
diff --git a/singlecell/src/org/labkey/singlecell/pipeline/singlecell/VireoHandler.java b/singlecell/src/org/labkey/singlecell/pipeline/singlecell/VireoHandler.java
@@ -255,7 +255,7 @@ public void processFilesRemote(List<SequenceOutputFile> inputFiles, JobContext c
 
             new SimpleScriptWrapper(ctx.getLogger()).execute(vireo);
 
-            File[] outFiles = ctx.getWorkingDirectory().listFiles(f -> f.getName().endsWith("_donor_ids.tsv"));
+            File[] outFiles = ctx.getWorkingDirectory().listFiles(f -> f.getName().endsWith("donor_ids.tsv"));
             if (outFiles == null || outFiles.length == 0)
             {
                 throw new PipelineJobException("Missing vireo output file");

Original file line number	Diff line number	Diff line change
`@@ -255,7 +255,7 @@ public void processFilesRemote(List<SequenceOutputFile> inputFiles, JobContext c`
`255`	`255`
`256`	`256`	`new SimpleScriptWrapper(ctx.getLogger()).execute(vireo);`
`257`	`257`
`258`		`- File[] outFiles = ctx.getWorkingDirectory().listFiles(f -> f.getName().endsWith("_donor_ids.tsv"));`
	`258`	`+ File[] outFiles = ctx.getWorkingDirectory().listFiles(f -> f.getName().endsWith("donor_ids.tsv"));`
`259`	`259`	`if (outFiles == null \|\| outFiles.length == 0)`
`260`	`260`	`{`
`261`	`261`	`throw new PipelineJobException("Missing vireo output file");`