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Make error messages clearer (even I was confused)

This commit is contained in:
Eric Banks 2011-10-19 11:49:16 -04:00
parent 6cadaa84c9
commit 48c4a8cb33
1 changed files with 3 additions and 3 deletions
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6
public/java/src/org/broadinstitute/sting/utils/variantcontext/VariantContext.java
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@ -1357,10 +1357,10 @@ public class VariantContext implements Feature { // to enable tribble intergrati
throw new IllegalArgumentException("Duplicate allele added to VariantContext: " + a); throw new IllegalArgumentException("Duplicate allele added to VariantContext: " + a);
} }
// deal with the case where the first allele isn't the reference // deal with the case where the first allele isn't the reference
if ( a.isReference() ) { if ( a.isReference() ) {
if ( sawRef ) if ( sawRef )
throw new IllegalArgumentException("Alleles for a VariantContext must contain a single reference allele: " + alleles); throw new IllegalArgumentException("Alleles for a VariantContext must contain at most one reference allele: " + alleles);
alleleList.add(0, a); alleleList.add(0, a);
sawRef = true; sawRef = true;
} }
@ -1372,7 +1372,7 @@ public class VariantContext implements Feature { // to enable tribble intergrati
throw new IllegalArgumentException("Cannot create a VariantContext with an empty allele list"); throw new IllegalArgumentException("Cannot create a VariantContext with an empty allele list");
if ( alleleList.get(0).isNonReference() ) if ( alleleList.get(0).isNonReference() )
throw new IllegalArgumentException("Alleles for a VariantContext must contain a single reference allele: " + alleles); throw new IllegalArgumentException("Alleles for a VariantContext must contain at least one reference allele: " + alleles);
return alleleList; return alleleList;
} }