Sequence filename : /auto/dufayard/res/parc_wim/nucleic_M2738_53x1538_2006.phy Data type : dna Sequence format : interleaved Number of data sets : 1 Nb of bootstrapped data sets : 0 Model name : GTR Proportion of invariable sites : 0.000000 Number of subst. rate categs : 4 Gamma distribution parameter : estimated Starting tree : BIONJ Optimise tree topology : yes Optimise branch lengths and rate parameters : yes . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... N_RGRFT: 20 N_GLOBL: 10 MAX_DIST: 10 . Log(lk) : * -> -15318.453244 . Log(lk) : -15318.453244 -> -15191.413387 6 swaps done . Log(lk) : -15191.413387 -> -15178.983684 3 swaps done . Log(lk) : -15178.983684 -> -15175.738399 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13958.431003 -> -13934.010146 2 swaps done . Log(lk) : -13934.010146 -> -13928.878090 0 swap done . Log(lk) : -13928.878090 -> -13926.928517 0 swap done . Log(lk) : -13926.928517 -> -13926.049412 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13915.496528 -> -13913.910653 0 swap done . Log(lk) : -13913.910653 -> -13913.266016 0 swap done . Log(lk) : -13913.266016 -> -13912.957229 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization making move: 60 -> 59 (0.234711) Log (lk): -13912.667095 . Log(lk) : -13912.667095 -> -13912.656288 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.377893 -> -13912.357247 0 swap done . Log(lk) : -13912.357247 -> -13912.350002 0 swap done . Log(lk) : -13912.350002 -> -13912.346463 0 swap done . Log(lk) : -13912.346463 -> -13912.344687 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.343182 -> -13912.341748 0 swap done . Log(lk) : -13912.341748 -> -13912.341048 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization Log (lk): -13912.341145 . Last optimization step... . Log(lk) : * -> -13912.341145 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.341145 -> -13912.341046 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.341046 -> -13912.341036 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.341036 -> -13912.341027 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.341027 -> -13912.341019 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.341019 -> -13912.341011 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.341011 -> -13912.341003 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.341003 -> -13912.340995 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340995 -> -13912.340987 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340987 -> -13912.340979 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340979 -> -13912.340971 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340971 -> -13912.340964 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340964 -> -13912.340957 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340957 -> -13912.340950 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340950 -> -13912.340348 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340348 -> -13912.340233 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340233 -> -13912.340228 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340228 -> -13912.340225 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340225 -> -13912.340222 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340222 -> -13912.340219 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340219 -> -13912.340217 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340217 -> -13912.340214 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340214 -> -13912.340212 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340212 -> -13912.340210 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340210 -> -13912.340207 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340207 -> -13912.340205 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340205 -> -13912.340202 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340202 -> -13912.340200 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340200 -> -13912.340198 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340198 -> -13912.340195 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340195 -> -13912.340193 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340193 -> -13912.340190 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340190 -> -13912.340188 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340188 -> -13912.340186 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340186 -> -13912.340184 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340184 -> -13912.340182 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340182 -> -13912.340179 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340179 -> -13912.340177 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340177 -> -13912.340175 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340175 -> -13912.340173 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340173 -> -13912.340171 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340171 -> -13912.340169 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340169 -> -13912.340166 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340166 -> -13912.340164 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340164 -> -13912.340162 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340162 -> -13912.340160 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340160 -> -13912.340158 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340158 -> -13912.340156 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340156 -> -13912.340154 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340154 -> -13912.340152 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340152 -> -13912.340150 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340150 -> -13912.340148 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340148 -> -13912.340145 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340145 -> -13912.340143 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340143 -> -13912.340141 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340141 -> -13912.340139 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340139 -> -13912.340137 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340137 -> -13912.340135 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340135 -> -13912.340133 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340133 -> -13912.340131 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340131 -> -13912.340130 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340130 -> -13912.340128 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340128 -> -13912.340126 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340126 -> -13912.340124 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340124 -> -13912.340123 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340123 -> -13912.340121 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340121 -> -13912.340119 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340119 -> -13912.340118 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340118 -> -13912.340116 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340116 -> -13912.340114 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340114 -> -13912.340113 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340113 -> -13912.340111 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340111 -> -13912.340109 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340109 -> -13912.340107 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340107 -> -13912.340105 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340105 -> -13912.340104 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340104 -> -13912.340102 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340102 -> -13912.340100 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340100 -> -13912.340099 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340099 -> -13912.340097 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340097 -> -13912.340096 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340096 -> -13912.340094 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340094 -> -13912.340093 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340093 -> -13912.340091 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340091 -> -13912.340090 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340090 -> -13912.340088 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340088 -> -13912.340087 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340087 -> -13912.340085 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340085 -> -13912.340084 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340084 -> -13912.340082 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340082 -> -13912.340081 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340081 -> -13912.340079 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340079 -> -13912.340078 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340078 -> -13912.340076 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340076 -> -13912.340075 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340075 -> -13912.340073 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340073 -> -13912.340072 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340072 -> -13912.340070 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340070 -> -13912.340069 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -13912.340069 -> -13912.340068 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... nr_d_L: 15440 nr_d_lk: 4768 nr_loc: 200 nr_glb: 11 . Time used 0h4m29s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 266.14user 0.00system 4:29.08elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps