| /dports/biology/iqtree/IQ-TREE-2.0.6/pll/ |
| H A D | searchAlgo.c | 979 if (--mintrav <= 0) in addTraverseBIG()
1054 mintrav, maxtrav); in rearrangeBIG()
1063 mintrav, maxtrav); in rearrangeBIG()
1102 mintrav2 = mintrav > 2 ? mintrav : 2; in rearrangeBIG()
2248 if (--mintrav <= 0) in pllTraverseUpdate()
2371 mintrav2 = mintrav > 2 ? mintrav : 2; in pllTestSPR()
2548 if (!mintrav) in pllTraverseNNI()
2560 … pllTraverseNNI (tr, pr, p->next->back, mintrav ? mintrav - 1 : 0, maxtrav - 1, bestList); in pllTraverseNNI()
2562 … pllTraverseNNI (tr, pr, p->next->next->back, mintrav ? mintrav - 1 : 0, maxtrav - 1, bestList); in pllTraverseNNI()
2596 if (mintrav == 0) in pllSearchNNI()
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| H A D | fastDNAparsimony.c | 1264 if (doAll || (--mintrav <= 0)) in addTraverseParsimony()
1269 addTraverseParsimony(tr, pr, p, q->next->back, mintrav, maxtrav, doAll, saveBranches); in addTraverseParsimony()
1270 addTraverseParsimony(tr, pr, p, q->next->next->back, mintrav, maxtrav, doAll, saveBranches); in addTraverseParsimony()
1316 static int rearrangeParsimony(pllInstance *tr, partitionList *pr, nodeptr p, int mintrav, int maxtr… in rearrangeParsimony() argument
1335 assert(mintrav == 1); in rearrangeParsimony()
1337 if(maxtrav < mintrav) in rearrangeParsimony()
1366 addTraverseParsimony(tr, pr, p, p1->next->back, mintrav, maxtrav, doAll, PLL_FALSE); in rearrangeParsimony()
1367 … addTraverseParsimony(tr, pr, p, p1->next->next->back, mintrav, maxtrav, doAll, PLL_FALSE); in rearrangeParsimony()
1372 addTraverseParsimony(tr, pr, p, p2->next->back, mintrav, maxtrav, doAll, PLL_FALSE); in rearrangeParsimony()
1373 … addTraverseParsimony(tr, pr, p, p2->next->next->back, mintrav, maxtrav, doAll, PLL_FALSE); in rearrangeParsimony()
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| H A D | pll.h | 1043 int mintrav; member
1438 int mintrav; member
1661 …(pllInstance * tr, partitionList * pr, int rearrangeType, nodeptr p, int mintrav, int maxtrav, pll…
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| H A D | pllInternal.h | 75 extern void addTraverseBIG ( pllInstance *tr, partitionList *pr, nodeptr p, nodeptr q, int mintrav,…
76 extern int rearrangeBIG ( pllInstance *tr, partitionList *pr, nodeptr p, int mintrav, int maxtrav );
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| /dports/biology/fastdnaml/fastDNAml_1.2.2/source/ |
| H A D | fastDNAml.c | 3108 mintrav, maxtrav, bt, fast); in addTraverse()
3112 mintrav, maxtrav, bt, fast); in addTraverse()
3129 if (maxtrav < 1 || mintrav > maxtrav) return tested; in rearrange()
3143 mintrav, maxtrav, bt, FALSE); in rearrange()
3147 mintrav, maxtrav, bt, FALSE); in rearrange()
3154 mintrav, maxtrav, bt, FALSE); in rearrange()
3158 mintrav, maxtrav, bt, FALSE); in rearrange()
3182 mintrav2 = mintrav > 2 ? mintrav : 2; in rearrange()
3270 int mintrav, tested; in optimize() local
3287 mintrav = tr->opt_level + 1; in optimize()
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