Update reference study

Author: bbimber

singlecell/src/org/labkey/singlecell/pipeline/singlecell/AppendCiteSeq.java

@@ -139,9 +139,9 @@ protected Map<Integer, File> prepareCountData(SingleCellOutput output, SequenceO
         return dataIdToCalls;
     }
 
-    public File getAdtMetadata(File countMatrix)
+    public File getAdtMetadata(File countMatrixDir)
     {
-        return new File(countMatrix.getParentFile(), "adtMetadata.txt");
+        return new File(countMatrixDir, "adtMetadata.txt");
     }
 
     @Override
@@ -160,8 +160,7 @@ protected Chunk createDataChunk(Map<Integer, File> hashingData, File outputDir)
             }
             else
             {
-                File meta = getAdtMetadata(hashingData.get(key));
-                lines.add("\t'" + key + "' = '" + getRelativePath(meta, outputDir) + "',");
+                lines.add("\t'" + key + "' = '" + getRelativePath(getAdtMetadata(hashingData.get(key)), outputDir) + "',");
             }
         }