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Updating HC integration tests

This commit is contained in:
Ryan Poplin 2012-02-11 11:48:32 -05:00
parent 9b8fd4c2ff
commit 3caa1b83bb
1 changed files with 1 additions and 1 deletions
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public/java/src/org/broadinstitute/sting/gatk/walkers/bqsr/RecalDataManager.java
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@ -181,7 +181,7 @@ public class RecalDataManager {
} }
// Create dataCollapsedByCovariate's, the tables where everything except read group, quality score, and given covariate has been collapsed // Create dataCollapsedByCovariate's, the tables where everything except read group, quality score, and given covariate has been collapsed
for (int iii = 0; iii < dataCollapsedByCovariate.size(); iii++) { for (int iii = 0; iii < dataCollapsedByCovariate.get(errorModel).size(); iii++) {
covariateCollapsedKey[0] = key[0]; // Make a new key with the read group ... covariateCollapsedKey[0] = key[0]; // Make a new key with the read group ...
covariateCollapsedKey[1] = key[1]; // and quality score ... covariateCollapsedKey[1] = key[1]; // and quality score ...
final Object theCovariateElement = key[iii + 2]; // and the given covariate final Object theCovariateElement = key[iii + 2]; // and the given covariate