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Now supports the case where you have multiple AC values in the info field.

This commit is contained in:
Mark DePristo 2011-07-07 17:21:15 -04:00
parent 0df31f3d78
commit 3d4f0e9dd7
1 changed files with 2 additions and 2 deletions
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4
public/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/stratifications/AlleleCount.java
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@ -43,9 +43,9 @@ public class AlleleCount extends VariantStratifier {
if (eval != null) { if (eval != null) {
int AC = -1; int AC = -1;
if ( eval.hasAttribute("AC") ) if ( eval.hasAttribute("AC") && eval.getAttribute("AC") instanceof Integer ) {
AC = eval.getAttributeAsInt("AC"); AC = eval.getAttributeAsInt("AC");
else if ( eval.isVariant() ) { } else if ( eval.isVariant() ) {
for (Allele allele : eval.getAlternateAlleles()) for (Allele allele : eval.getAlternateAlleles())
AC = Math.max(AC, eval.getChromosomeCount(allele)); AC = Math.max(AC, eval.getChromosomeCount(allele));
} else } else