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VCF is both a multi- and single- sample format, so we shouldn't be throwing an exception when used for SS 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1803 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
ebanks 2009-10-09 17:43:26 +00:00
parent d9f5a314ac
commit 9f3482ef11
1 changed files with 3 additions and 2 deletions
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5
java/src/org/broadinstitute/sting/utils/genotype/vcf/VCFGenotypeWriterAdapter.java
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@ -8,6 +8,7 @@ import org.broadinstitute.sting.utils.genotype.ReadBacked;
import org.broadinstitute.sting.utils.genotype.SampleBacked; import org.broadinstitute.sting.utils.genotype.SampleBacked;
import java.io.File; import java.io.File;
import java.util.Arrays;
import java.util.ArrayList; import java.util.ArrayList;
import java.util.HashMap; import java.util.HashMap;
import java.util.List; import java.util.List;
@ -82,7 +83,7 @@ public class VCFGenotypeWriterAdapter implements GenotypeWriter {
*/ */
@Override @Override
public void addGenotypeCall(Genotype call) { public void addGenotypeCall(Genotype call) {
throw new UnsupportedOperationException("VCF is a multi sample fomat"); addMultiSampleCall(Arrays.asList(call));
} }
/** /**
@ -92,7 +93,7 @@ public class VCFGenotypeWriterAdapter implements GenotypeWriter {
*/ */
@Override @Override
public void addNoCall(int position) { public void addNoCall(int position) {
throw new UnsupportedOperationException("VCF is a multi sample fomat"); throw new UnsupportedOperationException("We don't currently support no-calls in VCF");
} }
/** finish writing, closing any open files. */ /** finish writing, closing any open files. */