Remove spurious flags from beloved argument (#8271)

* removing Advanced and Hidden from --dont-use-softclipped-bases
broadinstitute · Mar 29, 2023 · 42fccfc · 42fccfc
1 parent ef860bf
commit 42fccfc
Showing 1 changed file with 1 addition and 3 deletions.
diff --git a/...itute/hellbender/tools/walkers/haplotypecaller/AssemblyBasedCallerArgumentCollection.java b/...itute/hellbender/tools/walkers/haplotypecaller/AssemblyBasedCallerArgumentCollection.java
@@ -145,9 +145,7 @@ public ReadThreadingAssembler createReadThreadingAssembler() {
     @Hidden
     @Argument(fullName = ALLELE_LIKELIHOOD_MATRIX_INTERVAL, doc="Interval for which to write the alleleLikelihoodMatrix", optional=true)
     public String alleleLikelihoodMatrixInterval=null;
-
-    @Advanced
-    @Hidden
+
     @Argument(fullName = DONT_USE_SOFT_CLIPPED_BASES_LONG_NAME, doc = "Do not analyze soft clipped bases in the reads", optional = true)
     public boolean dontUseSoftClippedBases = false;