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Merged bug fix from Stable into Unstable

This commit is contained in:
Eric Banks 2012-03-23 13:51:33 -04:00
parent e4ec90cfce d3f2bc4361
commit 2511839068
1 changed files with 5 additions and 1 deletions
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6
public/java/src/org/broadinstitute/sting/utils/variantcontext/GenotypeLikelihoods.java
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@ -222,7 +222,10 @@ public class GenotypeLikelihoods {
/*
* a cache of the PL index to the 2 alleles it represents over all possible numbers of alternate alleles
*/
private static GenotypeLikelihoodsAllelePair[] PLIndexToAlleleIndex = new GenotypeLikelihoodsAllelePair[]{ new GenotypeLikelihoodsAllelePair(0, 0) };
private static GenotypeLikelihoodsAllelePair[] PLIndexToAlleleIndex;
static {
calculatePLcache(65); // start with data for 10 alternate alleles
}
private static void calculatePLcache(final int minIndex) {
// how many alternate alleles do we need to calculate for?
@ -266,6 +269,7 @@ public class GenotypeLikelihoods {
*/
public static GenotypeLikelihoodsAllelePair getAllelePair(final int PLindex) {
// make sure that we've cached enough data
// TODO -- this is not thread-safe!
if ( PLindex >= PLIndexToAlleleIndex.length )
calculatePLcache(PLindex);