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Now that getSampleDB is public in the walker base class this override in VariantAnnotator isn't necessary.

This commit is contained in:
Ryan Poplin 2011-12-18 14:38:59 -05:00
parent 76bd13a1ed
commit 953998dcd0
2 changed files with 3 additions and 8 deletions
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5
public/java/src/org/broadinstitute/sting/gatk/walkers/annotator/VariantAnnotator.java
View File

@ -194,11 +194,6 @@ public class VariantAnnotator extends RodWalker<Integer, Integer> implements Ann
System.exit(0); System.exit(0);
} }
@Override
public SampleDB getSampleDB() {
return super.getSampleDB();
}
/** /**
* Prepare the output file and the list of available features. * Prepare the output file and the list of available features.
*/ */

6
public/java/src/org/broadinstitute/sting/gatk/walkers/variantutils/VariantsToTable.java
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@ -127,12 +127,12 @@ public class VariantsToTable extends RodWalker<Integer, Integer> {
* multi-allelic INFO field values can be lists of values. * multi-allelic INFO field values can be lists of values.
*/ */
@Advanced @Advanced
@Argument(fullName="keepMultiAllelic", shortName="KMA", doc="If provided, we will not require the site to be biallelic", required=false) @Argument(fullName="keepMultiAllelic", shortName="KMA", doc="If provided, we will not require the site to be biallelic", required=false)
public boolean keepMultiAllelic = false; public boolean keepMultiAllelic = false;
@Hidden @Hidden
@Argument(fullName="logACSum", shortName="logACSum", doc="Log sum of AC instead of max value in case of multiallelic variants", required=false) @Argument(fullName="logACSum", shortName="logACSum", doc="Log sum of AC instead of max value in case of multiallelic variants", required=false)
public boolean logACSum = false; public boolean logACSum = false;
/** /**
* By default, this tool throws a UserException when it encounters a field without a value in some record. This * By default, this tool throws a UserException when it encounters a field without a value in some record. This