Searched refs:isSuperTree (Results 1 – 10 of 10) sorted by relevance
182 if (tree->isSuperTree()) { in reportModelSelection()204 if (tree->isSuperTree()) { in reportModelSelection()212 if (tree->isSuperTree()) in reportModelSelection()227 if (tree->isSuperTree()) { in reportModelSelection()671 if (tree.isSuperTree()) { in reportTree()961 if (tree.isSuperTree()) { in reportPhyloAnalysis()1018 if (tree.isSuperTree()) { in reportPhyloAnalysis()1505 if (iqtree.isSuperTree()) { in printAnalysisInfo()2169 if (iqtree->isSuperTree()) { in runTreeReconstruction()2551 if (iqtree->isSuperTree()) { in runTreeReconstruction()[all …]
66 ASSERT(tree->isSuperTree()); in printPartitionLh()121 if (tree->isSuperTree()) { in printSiteLhCategory()140 if (tree->isSuperTree()) { in printSiteLhCategory()151 if (tree->isSuperTree()) { in printSiteLhCategory()227 if (tree->isSuperTree()) { in printAncestralSequences()237 if (tree->isSuperTree()) { in printAncestralSequences()327 if (tree->isSuperTree()) in printSiteProbCategory()334 if (tree->isSuperTree()) { in printSiteProbCategory()1061 if (params.print_partition_lh && !tree->isSuperTree()) { in evaluateTrees()1169 if (tree->isSuperTree()) in evaluateTrees()
292 if (tree->isSuperTree()) { in getOrderedModels()638 if (iqtree->isSuperTree()) { in computeFastMLTree()669 if (iqtree->isSuperTree()) { in transferModelFinderParameters()734 bool empty_model_found = params.model_name.empty() && !iqtree.isSuperTree(); in runModelFinder()736 if (params.model_name.empty() && iqtree.isSuperTree()) { in runModelFinder()798 if (iqtree.isSuperTree()) { in runModelFinder()832 if (iqtree.isSuperTree()) { in runModelFinder()
453 if (isSuperTree()) { in createPLLPartition()569 if (isSuperTree()) in computeInitialTree()621 if (isSuperTree()) in computeInitialTree()1592 if (isSuperTree()) { in perturbStableSplits()1651 if (isSuperTree()) { in doRandomNNIs()1681 if (isSuperTree()) { in doIQP()2075 if (isSuperTree()) { in optimizeModelParameters()2290 if (isSuperTree()) { in doTreeSearch()2689 if (isSuperTree()) in refineBootTrees()2701 if (isSuperTree()) in refineBootTrees()[all …]
136 virtual bool isSuperTree() { return true; } in isSuperTree() function
456 if (isSuperTree()) { in readTreeString()486 if (isSuperTree()) { in readTreeStringSeqName()535 if (isSuperTree()) { in readTreeFile()584 if (!isSuperTree()) { in setModelFactory()2614 if (optx > params->max_branch_length*0.95 && !isSuperTree()) { in optimizeOneBranch()2821 if (isSuperTree()) { in moveRoot()3482 if (!isSuperTree()) { in doNNI()4851 if (isSuperTree()) { in testAllBranches()5392 ASSERT(!isSuperTree()); in reorientPartialLh()
917 if (isSuperTree()) { in computeQuartetLikelihoods()935 if (isSuperTree()) { in computeQuartetLikelihoods()968 if (isSuperTree()) { in computeQuartetLikelihoods()
44 if (!isSuperTree() && aln && num_threads > 1 && num_threads > aln->getNPattern()/8) { in setNumThreads()
492 virtual bool isSuperTree() { in isSuperTree() function
440 if (tree.isSuperTree()) in computeAllPatternLh()451 if (tree.isSuperTree()) ((PhyloSuperTree*)&tree)->mapTrees(); in computeAllPatternLh()466 if (tree.isSuperTree()) ((PhyloSuperTree*)&tree)->computeBranchLengths(); in computeAllPatternLh()519 if (tree.isSuperTree()) ((PhyloSuperTree*)&tree)->mapTrees(); in computeAllPatternLh()