Fixing a small error made in the rebasing onto master.

broadinstitute · Sep 13, 2018 · 5a3b039 · 5a3b039
1 parent b822fc5
commit 5a3b039
Showing 1 changed file with 3 additions and 4 deletions.
diff --git a/src/main/java/org/broadinstitute/hellbender/tools/funcotator/Funcotator.java b/src/main/java/org/broadinstitute/hellbender/tools/funcotator/Funcotator.java
@@ -4,12 +4,11 @@
 import htsjdk.tribble.util.ParsingUtils;
 import htsjdk.variant.variantcontext.VariantContext;
 import htsjdk.variant.variantcontext.VariantContextBuilder;
+import org.apache.logging.log4j.LogManager;
+import org.apache.logging.log4j.Logger;
 import org.broadinstitute.barclay.argparser.ArgumentCollection;
 import org.broadinstitute.barclay.argparser.BetaFeature;
 import org.broadinstitute.barclay.argparser.CommandLineProgramProperties;
-import org.apache.logging.log4j.LogManager;
-import org.apache.logging.log4j.Logger;
-import org.broadinstitute.barclay.argparser.*;
 import org.broadinstitute.barclay.help.DocumentedFeature;
 import org.broadinstitute.hellbender.cmdline.StandardArgumentDefinitions;
 import org.broadinstitute.hellbender.engine.*;
@@ -317,7 +316,7 @@ public void onTraversalStart() {
             default:
                 throw new GATKException("Unsupported output format type specified: " + funcotatorArgs.outputFormatType.toString());
         }
-        logger.info("Creating a " + outputFormatType + " file for output: " + outputFile.toURI());
+        logger.info("Creating a " + funcotatorArgs.outputFormatType + " file for output: " + funcotatorArgs.outputFile.toURI());
 
         // Check for reference version (in)compatibility:
         determineReferenceAndDatasourceCompatibility();