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Searched refs:bestqscore (Results 1 – 5 of 5) sorted by relevance

/dports/biology/bbmap/bbmap/current/align2/
H A DBBIndexPacBioSkimmer.java702 int bestqscore=0;
755 bestqscore>=maxQuickScore && allBasesCovered);
760 bestqscore=Tools.max(temp[0], bestqscore);
762 if(bestqscore>=maxQuickScore && allBasesCovered){
763 assert(bestqscore==maxQuickScore);
768 "bestqscore: \t"+bestqscore+
789 bestScores[3]=Tools.max(bestScores[3], bestqscore);
948 int bestqscore=bestScores[3];
1107 bestqscore=Tools.max(qscore, bestqscore);
1309 bestScores[3]=Tools.max(bestScores[3], bestqscore);
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H A DBBIndex.java652 int bestqscore=0;
705 bestqscore>=maxQuickScore && allBasesCovered);
710 bestqscore=Tools.max(temp[0], bestqscore);
712 if(bestqscore>=maxQuickScore && allBasesCovered){
713 assert(bestqscore==maxQuickScore);
718 "bestqscore: \t"+bestqscore+
739 bestScores[3]=Tools.max(bestScores[3], bestqscore);
1279 int bestqscore=bestScores[3];
1452 bestqscore=Tools.max(qscore, bestqscore);
1773 int bestqscore=bestScores[3]; in camelWalk3() local
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H A DBBIndex5.java617 int bestqscore=0;
672 bestqscore>=maxQuickScore && allBasesCovered);
677 bestqscore=Tools.max(temp[0], bestqscore);
679 if(bestqscore>=maxQuickScore && allBasesCovered){
680 assert(bestqscore==maxQuickScore);
685 "bestqscore: \t"+bestqscore+
706 bestScores[3]=Tools.max(bestScores[3], bestqscore);
1291 int bestqscore=bestScores[3];
1461 bestqscore=Tools.max(qscore, bestqscore);
1682 bestScores[3]=Tools.max(bestScores[3], bestqscore);
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H A DBBIndexPacBio.java628 int bestqscore=0;
681 bestqscore>=maxQuickScore && allBasesCovered);
686 bestqscore=Tools.max(temp[0], bestqscore);
688 if(bestqscore>=maxQuickScore && allBasesCovered){
689 assert(bestqscore==maxQuickScore);
694 "bestqscore: \t"+bestqscore+
715 bestScores[3]=Tools.max(bestScores[3], bestqscore);
1275 int bestqscore=bestScores[3];
1440 bestqscore=Tools.max(qscore, bestqscore);
1646 bestScores[3]=Tools.max(bestScores[3], bestqscore);
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H A DBBIndexAcc.java725 int bestqscore=0;
778 bestqscore>=maxQuickScore && allBasesCovered);
783 bestqscore=Tools.max(temp[0], bestqscore);
785 if(bestqscore>=maxQuickScore && allBasesCovered){
786 assert(bestqscore==maxQuickScore);
791 "bestqscore: \t"+bestqscore+
812 bestScores[3]=Tools.max(bestScores[3], bestqscore);
1359 int bestqscore=bestScores[3];
1530 bestqscore=Tools.max(qscore, bestqscore);
1763 bestScores[3]=Tools.max(bestScores[3], bestqscore);
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