Optimizing branch length cutoff for collapsing 'csi_no_prune_1ref_names_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 101 cutoff: 5.4e-05 nleaves: 101 cutoff: 0.000486 nleaves: 100 cutoff: 0.00054 nleaves: 100 cutoff: 0.00055 nleaves: 41 csi_no_prune_1ref_names_renamed.newick Optimized cutoff: 0.00055 nleaves: 41 Optimizing branch length cutoff for collapsing 'csi_no_prune_mg1655ref_names_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 101 cutoff: 5.4e-05 nleaves: 101 cutoff: 0.000486 nleaves: 100 cutoff: 0.0005 nleaves: 100 cutoff: 0.00051 nleaves: 100 cutoff: 0.00053 nleaves: 100 cutoff: 0.00055 nleaves: 49 csi_no_prune_mg1655ref_names_renamed.newick Optimized cutoff: 0.00055 nleaves: 49 Optimizing branch length cutoff for collapsing 'csi_prune_10_1ref_names_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 101 cutoff: 5.4e-05 nleaves: 101 cutoff: 0.000486 nleaves: 100 cutoff: 0.0005 nleaves: 100 cutoff: 0.00051 nleaves: 100 cutoff: 0.00053 nleaves: 100 cutoff: 0.00055 nleaves: 49 csi_prune_10_1ref_names_renamed.newick Optimized cutoff: 0.00055 nleaves: 49 Optimizing branch length cutoff for collapsing 'ndtree_upgma_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 101 cutoff: 0.14744 nleaves: 101 cutoff: 0.25 nleaves: 101 cutoff: 0.35294 nleaves: 101 cutoff: 0.5 nleaves: 101 cutoff: 0.51786 nleaves: 101 cutoff: 0.55303 nleaves: 101 cutoff: 0.6 nleaves: 101 cutoff: 0.62637 nleaves: 101 cutoff: 0.70645 nleaves: 101 cutoff: 0.79167 nleaves: 101 cutoff: 0.8125 nleaves: 101 cutoff: 0.83333 nleaves: 101 cutoff: 0.88333 nleaves: 101 cutoff: 0.8875 nleaves: 91 cutoff: 0.98214 nleaves: 91 cutoff: 1 nleaves: 86 cutoff: 1.01364 nleaves: 86 cutoff: 1.14286 nleaves: 79 cutoff: 1.225 nleaves: 79 cutoff: 1.35417 nleaves: 79 cutoff: 1.375 nleaves: 79 cutoff: 1.41667 nleaves: 79 cutoff: 1.5 nleaves: 76 cutoff: 1.6 nleaves: 76 cutoff: 1.625 nleaves: 74 cutoff: 1.63571 nleaves: 74 cutoff: 1.66667 nleaves: 74 cutoff: 1.68132 nleaves: 74 cutoff: 1.7 nleaves: 69 cutoff: 1.75 nleaves: 67 cutoff: 1.75817 nleaves: 67 cutoff: 1.775 nleaves: 67 cutoff: 1.79487 nleaves: 67 cutoff: 1.83333 nleaves: 66 cutoff: 2 nleaves: 64 cutoff: 2.14286 nleaves: 63 cutoff: 2.16667 nleaves: 54 cutoff: 2.2 nleaves: 52 cutoff: 2.25 nleaves: 53 cutoff: 2.3 nleaves: 53 cutoff: 2.30357 nleaves: 53 cutoff: 2.34351 nleaves: 53 cutoff: 2.41667 nleaves: 50 ndtree_upgma_renamed.newick Optimized cutoff: 2.41667 nleaves: 50 Optimizing branch length cutoff for collapsing 'pairwise_nj_renamed.newick'. Goal is 50 leafs cutoff: -8.46354 nleaves: 100 cutoff: -6.82304 nleaves: 99 cutoff: -5.96429 nleaves: 98 cutoff: -5.12684 nleaves: 97 cutoff: -3.39808 nleaves: 96 cutoff: -3.32757 nleaves: 95 cutoff: -1.95726 nleaves: 94 cutoff: -1.92148 nleaves: 93 cutoff: -1.78991 nleaves: 92 cutoff: -1.60081 nleaves: 91 cutoff: -1.54598 nleaves: 90 cutoff: -1.20195 nleaves: 89 cutoff: -1.134 nleaves: 88 cutoff: -1.09608 nleaves: 87 cutoff: -0.95699 nleaves: 86 cutoff: -0.95439 nleaves: 85 cutoff: -0.75081 nleaves: 84 cutoff: -0.51763 nleaves: 83 cutoff: -0.5131 nleaves: 82 cutoff: -0.48335 nleaves: 81 cutoff: -0.46185 nleaves: 80 cutoff: -0.45431 nleaves: 79 cutoff: -0.43292 nleaves: 78 cutoff: -0.25045 nleaves: 77 cutoff: -0.24295 nleaves: 76 cutoff: -0.09674 nleaves: 75 cutoff: -0.05185 nleaves: 74 cutoff: -0.04614 nleaves: 73 cutoff: -0.04086 nleaves: 72 cutoff: -0.04008 nleaves: 71 cutoff: -0.03972 nleaves: 70 cutoff: -0.02841 nleaves: 69 cutoff: -0.02551 nleaves: 68 cutoff: -0.02326 nleaves: 67 cutoff: -0.02216 nleaves: 66 cutoff: -0.01875 nleaves: 65 cutoff: -0.01053 nleaves: 64 cutoff: -0.01031 nleaves: 63 cutoff: -0.00021 nleaves: 62 cutoff: 0 nleaves: 60 cutoff: 0.00021 nleaves: 61 cutoff: 0.0011 nleaves: 60 cutoff: 0.00366 nleaves: 60 cutoff: 0.00417 nleaves: 59 cutoff: 0.00731 nleaves: 59 cutoff: 0.01432 nleaves: 58 cutoff: 0.01623 nleaves: 58 cutoff: 0.01785 nleaves: 57 cutoff: 0.01875 nleaves: 56 cutoff: 0.02216 nleaves: 56 cutoff: 0.02266 nleaves: 55 cutoff: 0.02287 nleaves: 54 cutoff: 0.02688 nleaves: 53 cutoff: 0.02716 nleaves: 51 cutoff: 0.02812 nleaves: 51 cutoff: 0.02841 nleaves: 51 cutoff: 0.03704 nleaves: 50 pairwise_nj_renamed.newick Optimized cutoff: 0.03704 nleaves: 50 Optimizing branch length cutoff for collapsing 'RAxML_bestTree.raxml_names_NCremoved_renamed.newick'. Goal is 50 leafs cutoff: 1e-07 nleaves: 101 cutoff: 9e-07 nleaves: 100 cutoff: 1e-06 nleaves: 31 RAxML_bestTree.raxml_names_NCremoved_renamed.newick Optimized cutoff: 1e-06 nleaves: 31 Optimizing branch length cutoff for collapsing 'realphy_phyml_names_no_ref_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 36 realphy_phyml_names_no_ref_renamed.newick Optimized cutoff: 0 nleaves: 36 Optimizing branch length cutoff for collapsing 'tree_101_final_nd_nj_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 39 tree_101_final_nd_nj_renamed.newick Optimized cutoff: 0 nleaves: 39 Optimizing branch length cutoff for collapsing 'tree_nj_000913_names_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 39 tree_nj_000913_names_renamed.newick Optimized cutoff: 0 nleaves: 39 Optimizing branch length cutoff for collapsing 'tree_nj_012759_names_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 39 tree_nj_012759_names_renamed.newick Optimized cutoff: 0 nleaves: 39 Optimizing branch length cutoff for collapsing 'tree_nj_017641_names_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 39 tree_nj_017641_names_renamed.newick Optimized cutoff: 0 nleaves: 39 Optimizing branch length cutoff for collapsing 'z_164_nj_renamed.newick'. Goal is 50 leafs cutoff: 0 nleaves: 39 z_164_nj_renamed.newick Optimized cutoff: 0 nleaves: 39