zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Merge branch 'master' of ssh://copper.broadinstitute.org/humgen/gsa-scr1/gsa-engineering/git/unstable

This commit is contained in:
Menachem Fromer 2012-03-22 17:43:44 -04:00
parent b9b9219ac7 58965d6a6e
commit 7faa9938b1
1 changed files with 2 additions and 0 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
public/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/IndelGenotypeLikelihoodsCalculationModel.java
View File

@ -240,6 +240,7 @@ public class IndelGenotypeLikelihoodsCalculationModel extends GenotypeLikelihood
refAllele = Allele.create(refBases, true);
altAllele = Allele.create(Allele.NULL_ALLELE_STRING, false);
}
else continue; // don't go on with this allele if refBases are non-standard
} else {
// insertion case
if (Allele.acceptableAlleleBases(s)) {
@ -247,6 +248,7 @@ public class IndelGenotypeLikelihoodsCalculationModel extends GenotypeLikelihood
altAllele = Allele.create(s, false);
stop = loc.getStart();
}
else continue; // go on to next allele if consensus insertion has any non-standard base.
}