From 4c02607297a08b731cc85f0fe18fcbf6956e342d Mon Sep 17 00:00:00 2001 From: ebanks Date: Fri, 10 Jul 2009 23:19:28 +0000 Subject: [PATCH] genotyper also needs to have 454 reads filtered out git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1221 348d0f76-0448-11de-a6fe-93d51630548a --- .../playground/gatk/walkers/indels/IndelGenotyperWalker.java | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/indels/IndelGenotyperWalker.java b/java/src/org/broadinstitute/sting/playground/gatk/walkers/indels/IndelGenotyperWalker.java index dfa3b039b..ee081949a 100644 --- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/indels/IndelGenotyperWalker.java +++ b/java/src/org/broadinstitute/sting/playground/gatk/walkers/indels/IndelGenotyperWalker.java @@ -7,6 +7,8 @@ import org.broadinstitute.sting.gatk.refdata.ReferenceOrderedData; import org.broadinstitute.sting.gatk.refdata.Transcript; import org.broadinstitute.sting.gatk.refdata.rodRefSeq; import org.broadinstitute.sting.gatk.walkers.ReadWalker; +import org.broadinstitute.sting.gatk.walkers.ReadFilters; +import org.broadinstitute.sting.gatk.filters.Platform454Filter; import org.broadinstitute.sting.playground.utils.CircularArray; import org.broadinstitute.sting.utils.GenomeLoc; @@ -23,7 +25,7 @@ import java.util.List; import java.util.Set; - +@ReadFilters(Platform454Filter.class) public class IndelGenotyperWalker extends ReadWalker { @Argument(fullName="bed", shortName="bed", doc="BED output file name", required=true) java.io.File bed_file;