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Fix busted code. Note for all: 

String.valueOf(byte[]) doesn't work.  You must use new String(byte[]).


git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3533 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
ebanks 2010-06-11 05:01:48 +00:00
parent 338bb9adf4
commit 63ad71cca6
1 changed files with 1 additions and 1 deletions
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2
java/src/org/broadinstitute/sting/gatk/refdata/VariantContextAdaptors.java
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@ -156,7 +156,7 @@ public class VariantContextAdaptors {
if ( vcf.isDeletion() && refAllele.length() > alt.getLength() ) { if ( vcf.isDeletion() && refAllele.length() > alt.getLength() ) {
byte[] semiDeletion = new byte[refAllele.length() - alt.getLength()]; byte[] semiDeletion = new byte[refAllele.length() - alt.getLength()];
System.arraycopy(ref.getBases(), alt.getLength(), semiDeletion, 0, refAllele.length() - alt.getLength()); System.arraycopy(ref.getBases(), alt.getLength(), semiDeletion, 0, refAllele.length() - alt.getLength());
allele = Allele.create(String.valueOf(semiDeletion), false); allele = Allele.create(new String(semiDeletion), false);
} else { } else {
allele = Allele.create(alt.getBases(), false); allele = Allele.create(alt.getBases(), false);
} }