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Commented out a debugging line 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@414 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
kiran 2009-04-14 20:15:11 +00:00
parent b39e584787
commit 49d76014d1
1 changed files with 3 additions and 1 deletions
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4
java/src/org/broadinstitute/sting/playground/utils/AlleleMetrics.java
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@ -109,14 +109,16 @@ public class AlleleMetrics {
//String called_genotype = alleleFreq.asString(); //String called_genotype = alleleFreq.asString();
//out.format("%s %s %c %c", hapmap_genotype, called_genotype, alleleFreq.ref, alleleFreq.alt); //out.format("%s %s %c %c", hapmap_genotype, called_genotype, alleleFreq.ref, alleleFreq.alt);
System.out.printf("DBG %f %s\n", LOD_cutoff, alleleFreq.asTabularString()); //System.out.printf("DBG %f %s\n", LOD_cutoff, alleleFreq.asTabularString());
if (alleleFreq.lodVsNextBest >= LOD_cutoff) { if (alleleFreq.lodVsNextBest >= LOD_cutoff) {
/*
System.out.printf("DBG %f %f %f %f\n", System.out.printf("DBG %f %f %f %f\n",
hapmap_q, hapmap_q,
alleleFreq.qhat, alleleFreq.qhat,
alleleFreq.qstar, alleleFreq.qstar,
alleleFreq.lodVsNextBest); alleleFreq.lodVsNextBest);
*/
// Calculate genotyping performance - did we get the correct genotype of the N+1 choices? // Calculate genotyping performance - did we get the correct genotype of the N+1 choices?
//if (hapmap_q != -1 && hapmap_q == alleleFreq.qstar) { //if (hapmap_q != -1 && hapmap_q == alleleFreq.qstar) {