From 0681bea5a57a39229ef350c7cec6c8ad06d83062 Mon Sep 17 00:00:00 2001 From: Khalid Shakir Date: Tue, 28 Feb 2012 09:25:38 -0500 Subject: [PATCH] Changed DoC from PartitionType.INTERVAL to PartitionType.NONE since it doesn't have a way to gather scattered outputs. Added MultiallelicSummary to HSP eval. --- .../sting/gatk/walkers/coverage/DepthOfCoverageWalker.java | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/DepthOfCoverageWalker.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/DepthOfCoverageWalker.java index 7d1858a63..94f9eb6c5 100644 --- a/public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/DepthOfCoverageWalker.java +++ b/public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/DepthOfCoverageWalker.java @@ -114,7 +114,7 @@ import java.util.*; // todo -- allow for user to set linear binning (default is logarithmic) // todo -- formatting --> do something special for end bins in getQuantile(int[] foo), this gets mushed into the end+-1 bins for now @By(DataSource.REFERENCE) -@PartitionBy(PartitionType.INTERVAL) +@PartitionBy(PartitionType.NONE) public class DepthOfCoverageWalker extends LocusWalker>, CoveragePartitioner> implements TreeReducible { @Output @Multiplex(value=DoCOutputMultiplexer.class,arguments={"partitionTypes","refSeqGeneList","omitDepthOutput","omitIntervals","omitSampleSummary","omitLocusTable"})