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Searched refs:qNumber (Results 1 – 9 of 9) sorted by relevance

/dports/biology/iqtree/IQ-TREE-2.0.6/pll/
H A DevaluatePartialGenericSpecial.c131 qNumber = ti->qNumber; in computeVectorCAT_FLEX() local
318 assert(0 <= (trav->qNumber - mxtips) && (trav->qNumber - mxtips) < mxtips); in evaluatePartialCAT_FLEX()
503 qNumber = ti->qNumber; in computeVectorGTRCAT_BINARY() local
595 assert(0 <= (trav->qNumber - mxtips) && (trav->qNumber - mxtips) < mxtips); in evaluatePartialGTRCAT_BINARY()
631 qNumber = ti->qNumber, in computeVectorGTRGAMMAPROT() local
778 qNumber = ti->qNumber, in computeVectorGTRGAMMA() local
964 assert(0 <= (trav->qNumber - mxtips) && (trav->qNumber - mxtips) < mxtips); in evaluatePartialGTRGAMMAPROT()
1045 assert(0 <= (trav->qNumber - mxtips) && (trav->qNumber - mxtips) < mxtips); in evaluatePartialGTRGAMMA()
1087 qNumber = ti->qNumber; in computeVectorGTRCAT() local
1197 assert(0 <= (trav->qNumber - mxtips) && (trav->qNumber - mxtips) < mxtips); in evaluatePartialGTRCAT()
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H A DfastDNAparsimony.c319 qNumber = (size_t)ti[index + 1], in newviewParsimonyIterativeFast() local
533 qNumber = (size_t)tr->ti[2]; in evaluateParsimonyIterativeFast() local
545 sum = tr->parsimonyScore[pNumber] + tr->parsimonyScore[qNumber]; in evaluateParsimonyIterativeFast()
565 … left[k] = &(pr->partitionData[model]->parsVect[(width * 2 * qNumber) + width * k]); in evaluateParsimonyIterativeFast()
711 qNumber = (size_t)ti[index + 1], in newviewParsimonyIterativeFast() local
905 qNumber = (size_t)tr->ti[2]; in evaluateParsimonyIterativeFast() local
917 sum = tr->parsimonyScore[pNumber] + tr->parsimonyScore[qNumber]; in evaluateParsimonyIterativeFast()
1186 qNumber = tr->constraintVector[q->number], in testInsertParsimony() local
1197 if(qNumber == -9) in testInsertParsimony()
1198 qNumber = checkerPars(tr, q); in testInsertParsimony()
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H A Dparsimony.c456 qNumber = (size_t)ti[index + 1], in newviewParsimonyIterativeFast() local
480 … left[k] = &(pr->partitionData[model]->parsVect[(width * 2 * qNumber) + width * k]); in newviewParsimonyIterativeFast()
524 … left[k] = &(pr->partitionData[model]->parsVect[(width * 4 * qNumber) + width * k]); in newviewParsimonyIterativeFast()
580 … left[k] = &(pr->partitionData[model]->parsVect[(width * 20 * qNumber) + width * k]); in newviewParsimonyIterativeFast()
628 … left[k] = &(pr->partitionData[model]->parsVect[(width * states * qNumber) + width * k]); in newviewParsimonyIterativeFast()
677 qNumber = (size_t)tr->ti[2]; in evaluateParsimonyIterativeFast() local
689 sum = tr->parsimonyScore[pNumber] + tr->parsimonyScore[qNumber]; in evaluateParsimonyIterativeFast()
709 … left[k] = &(pr->partitionData[model]->parsVect[(width * 2 * qNumber) + width * k]); in evaluateParsimonyIterativeFast()
736 … left[k] = &(pr->partitionData[model]->parsVect[(width * 4 * qNumber) + width * k]); in evaluateParsimonyIterativeFast()
765 … left[k] = &(pr->partitionData[model]->parsVect[(width * 20 * qNumber) + width * k]); in evaluateParsimonyIterativeFast()
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H A DevaluateGenericSpecial.c1206 qNumber = tr->td[0].ti[0].qNumber, in pllEvaluateIterative() local
1223 q_slot = qNumber - tr->mxtips - 1; in pllEvaluateIterative()
1336 if(isTip(pNumber, tr->mxtips) || isTip(qNumber, tr->mxtips)) in pllEvaluateIterative()
1340 if(isTip(qNumber, tr->mxtips)) in pllEvaluateIterative()
1350 tip = pr->partitionData[model]->yVector[qNumber]; in pllEvaluateIterative()
1392 … ex2_asc = &pr->partitionData[model]->ascExpVector[(qNumber - tr->mxtips - 1) * ascWidth]; in pllEvaluateIterative()
1399 …x2_gapColumn = &(pr->partitionData[model]->gapColumn[(qNumber - tr->mxtips - 1) * states * rateH… in pllEvaluateIterative()
1424 …x2_gap = &(pr->partitionData[model]->gapVector[qNumber * pr->partitionData[model]->gapVectorLength… in pllEvaluateIterative()
1426 …x2_gapColumn = &pr->partitionData[model]->gapColumn[(qNumber - tr->mxtips - 1) * states * rateHe… in pllEvaluateIterative()
1448 … ex2_asc = &pr->partitionData[model]->ascExpVector[(qNumber - tr->mxtips - 1) * ascWidth]; in pllEvaluateIterative()
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H A DmakenewzGenericSpecial.c107 qNumber; in getVects() local
112 qNumber = tr->td[0].ti[0].qNumber; in getVects()
124 q_slot = qNumber - tr->mxtips - 1; in getVects()
141 if(isTip(pNumber, tr->mxtips) || isTip(qNumber, tr->mxtips)) in getVects()
143 if(!( isTip(pNumber, tr->mxtips) && isTip(qNumber, tr->mxtips)) ) in getVects()
146 if(isTip(qNumber, tr->mxtips)) in getVects()
148 *tipX1 = pr->partitionData[model]->yVector[qNumber]; in getVects()
195 *tipX2 = pr->partitionData[model]->yVector[qNumber]; in getVects()
1119 int pNumber = tr->td[0].ti[0].pNumber, qNumber = in makenewzIterative() local
1120 tr->td[0].ti[0].qNumber, i, *ex1_asc = in makenewzIterative()
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H A Dpll.h412 int qNumber; /**< should exist in some nodeptr q->number */ member
H A DnewviewGenericSpecial.c2349 ti[*counter].qNumber = q->number; in computeTraversalInfo()
2412 ti[*counter].qNumber = q->number; in computeTraversalInfo()
2498 ti[*counter].qNumber = q->number; in computeTraversalInfo()
2613 q_slot = tInfo->qNumber - tr->mxtips - 1; in pllNewviewIterative()
2726 …x1_gap = &(pr->partitionData[model]->gapVector[tInfo->qNumber * pr->partitionData[model]->gapVecto… in pllNewviewIterative()
2806 tipX1 = pr->partitionData[model]->yVector[tInfo->qNumber]; in pllNewviewIterative()
2846 tipX1 = pr->partitionData[model]->yVector[tInfo->qNumber]; in pllNewviewIterative()
2906 …x1_gapColumn = &pr->partitionData[model]->gapColumn[(tInfo->qNumber - tr->mxtips - 1) * states *… in pllNewviewIterative()
2925 …x1_ascColumn = &pr->partitionData[model]->ascVector[(tInfo->qNumber - tr->mxtips - 1) * pr->partit… in pllNewviewIterative()
2929 … ex1_asc = &pr->partitionData[model]->ascExpVector[(tInfo->qNumber - tr->mxtips - 1) * ascWidth]; in pllNewviewIterative()
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H A DgenericParallelization.c287 MPI_Get_address( &(desc[0].qNumber), disp + 2 ); in defineTraversalInfoMPI()
/dports/science/jmol/jmol-14.32.7/src/javajs/img/
H A DJpgEncoder.java142 int qNumber = jpegObj.qtableNumber[comp]; in writeCompressedData() local
168 dctArray3 = DCT.quantizeBlock(dctArray2, dct.divisors[qNumber]); in writeCompressedData()