velocyto bugfix

bbimber · bbimber · commit 71ca62024d46 · 2022-03-23T21:16:39.000-07:00
diff --git a/singlecell/src/org/labkey/singlecell/run/VelocytoAnalysisStep.java b/singlecell/src/org/labkey/singlecell/run/VelocytoAnalysisStep.java
@@ -82,7 +82,7 @@ else if (!gtf.exists())
             }
         }
 
-        File loom = getWrapper().runVelocytoFor10x(inputBam, gtf, outputDir, mask);
+        File loom = getWrapper().runVelocytoFor10x(inputBam, gtf, outputDir, mask, rs);
         output.addSequenceOutput(loom, rs.getName() + ": velocyto", "Velocyto Counts", rs.getReadsetId(), null, referenceGenome.getGenomeId(), null);
 
         return output;

Original file line number	Diff line number	Diff line change
`@@ -82,7 +82,7 @@ else if (!gtf.exists())`
`82`	`82`	`}`
`83`	`83`	`}`
`84`	`84`
`85`		`- File loom = getWrapper().runVelocytoFor10x(inputBam, gtf, outputDir, mask);`
	`85`	`+ File loom = getWrapper().runVelocytoFor10x(inputBam, gtf, outputDir, mask, rs);`
`86`	`86`	`output.addSequenceOutput(loom, rs.getName() + ": velocyto", "Velocyto Counts", rs.getReadsetId(), null, referenceGenome.getGenomeId(), null);`
`87`	`87`
`88`	`88`	`return output;`