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Report only highest AF and AC in multiallelic records in VariantsToTable or else R can't parse table

This commit is contained in:
Guillermo del Angel 2011-07-03 14:32:12 -04:00
parent abe9480c6d
commit fac082de64
1 changed files with 1 additions and 1 deletions
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2
public/java/src/org/broadinstitute/sting/gatk/walkers/variantutils/VariantsToTable.java
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@ -170,7 +170,7 @@ public class VariantsToTable extends RodWalker<Integer, Integer> {
throw new UserException(String.format("Missing field %s in vc %s at %s", field, vc.getSource(), vc)); throw new UserException(String.format("Missing field %s in vc %s at %s", field, vc.getSource(), vc));
} }
if (field.equals("AF")) { if (field.equals("AF") || field.equals("AC")) {
String afo = val; String afo = val;
double af=0; double af=0;