| /dports/biology/bbmap/bbmap/current/align2/ |
| H A D | MultiStateAligner11ts.java | 576 printMatrix(packed, rows, columns, TIMEMASK, SCOREOFFSET); in fillLimitedX() argument
584 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner11ts
915 maxScore>>=SCOREOFFSET; in fillUnlimited() local
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| H A D | MultiStateAligner10ts.java | 579 printMatrix(packed, rows, columns, TIMEMASK, SCOREOFFSET); in fillLimitedX() argument
587 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner10ts
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| H A D | MultiStateAligner9Flat.java | 571 printMatrix(packed, rows, columns, TIMEMASK, SCOREOFFSET); in fillLimitedX() argument
579 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner9Flat
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| H A D | MultiStateAligner9PacBio.java | 571 printMatrix(packed, rows, columns, TIMEMASK, SCOREOFFSET); in fillLimitedX() argument
579 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner9PacBio
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| H A D | MultiStateAligner9XFlat.java | 565 printMatrix(packed, rows, columns, TIMEMASK, SCOREOFFSET); in fillLimitedX() argument
573 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner9XFlat
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| H A D | MSA.java | 570 static void printMatrix(int[][][] packed, int readlen, int reflen, int TIMEMASK, int SCOREOFFSET){ in printMatrix()
576 …static void printMatrix(int[][][] packed, int readlen, int reflen, int TIMEMASK, int SCOREOFFSET, … in printMatrix()
606 public static final String toScorePacked(int[] a, int SCOREOFFSET, int lim){ in toScorePacked()
731 public abstract int SCOREOFFSET(); in SCOREOFFSET() method in MSA
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| H A D | MultiStateAligner9ts.java | 563 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner9ts
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| /dports/biology/bbmap/bbmap/current/aligner/ |
| H A D | MultiStateAligner9PacBioAdapter.java | 490 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner9PacBioAdapter
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| H A D | MultiStateAligner9PacBioAdapter2.java | 559 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner9PacBioAdapter2
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| H A D | MultiStateAligner9PacBioAdapter_WithBarriers.java | 553 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner9PacBioAdapter_WithBarriers
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| H A D | MultiStateAligner9PacBioAdapter3.java | 483 maxScore>>=SCOREOFFSET; in fillLimitedX() field in MultiStateAligner9PacBioAdapter3
936 score>>=SCOREOFFSET; in score() local
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| /dports/biology/bbmap/bbmap/jni/ |
| H A D | MultiStateAligner11tsJNI.c | 36 #define SCOREOFFSET TIMEBITS macro
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