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temperary fix, relying on a old reference order data constructor 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@302 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
aaron 2009-04-06 21:38:41 +00:00
parent af5a443e5a
commit 5feb7ee627
1 changed files with 6 additions and 5 deletions
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11
java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/ReferenceMetaDataSource.java
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@ -1,13 +1,13 @@
package org.broadinstitute.sting.gatk.dataSources.simpleDataSources; package org.broadinstitute.sting.gatk.dataSources.simpleDataSources;
import org.broadinstitute.sting.gatk.refdata.HapMapAlleleFrequenciesROD;
import org.broadinstitute.sting.gatk.refdata.ReferenceOrderedData; import org.broadinstitute.sting.gatk.refdata.ReferenceOrderedData;
import org.broadinstitute.sting.gatk.refdata.ReferenceOrderedDatum; import org.broadinstitute.sting.gatk.refdata.ReferenceOrderedDatum;
import org.broadinstitute.sting.gatk.refdata.rodDbSNP;
import org.broadinstitute.sting.utils.GenomeLoc; import org.broadinstitute.sting.utils.GenomeLoc;
import java.io.File; import java.util.ArrayList;
import java.util.*; import java.util.HashMap;
import java.util.Iterator;
import java.util.List;
/** /**
* *
@ -92,7 +92,7 @@ public class ReferenceMetaDataSource implements SimpleDataSource {
} }
public ReferenceMetaDataSource(HashMap<String, RODTYPE> files) { public ReferenceMetaDataSource(HashMap<String, RODTYPE> files) {
/*
// setup a rod list // setup a rod list
List<ReferenceOrderedData<? extends ReferenceOrderedDatum>> rods = new ArrayList<ReferenceOrderedData<? extends ReferenceOrderedDatum>>(); List<ReferenceOrderedData<? extends ReferenceOrderedDatum>> rods = new ArrayList<ReferenceOrderedData<? extends ReferenceOrderedDatum>>();
@ -114,5 +114,6 @@ public class ReferenceMetaDataSource implements SimpleDataSource {
} }
} }
} }
*/
} }
} }