Sequence filename : /auto/dufayard/res/parc_wim/nucleic_M2587_117x1910_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: 46 N_GLOBL: 23 MAX_DIST: 23 . Log(lk) : * -> -17388.599662 . Log(lk) : -17388.599662 -> -16916.273931 15 swaps done . Log(lk) : -16916.273931 -> -16805.309528 12 swaps done . Log(lk) : -16805.309528 -> -16767.877181 9 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16239.923502 -> -16184.583828 6 swaps done . Log(lk) : -16184.583828 -> -16160.401192 3 swaps done . Log(lk) : -16160.401192 -> -16146.911376 2 swaps done . Log(lk) : -16146.911376 -> -16138.465602 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16130.724468 -> -16118.621746 3 swaps done . Log(lk) : -16118.621746 -> -16110.802066 1 swap done . Log(lk) : -16110.802066 -> -16106.097558 1 swap done . Log(lk) : -16106.097558 -> -16103.190622 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16099.544044 -> -16095.295222 1 swap done . Log(lk) : -16095.295222 -> -16091.585264 1 swap done . Log(lk) : -16091.585264 -> -16082.378864 2 swaps done . Log(lk) : -16082.378864 -> -16078.491382 2 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16076.966283 -> -16074.897067 1 swap done . Log(lk) : -16074.897067 -> -16073.711034 0 swap done . Log(lk) : -16073.711034 -> -16072.997842 0 swap done . Log(lk) : -16072.997842 -> -16072.538800 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16072.022466 -> -16071.403993 0 swap done . Log(lk) : -16071.403993 -> -16071.002777 0 swap done . Log(lk) : -16071.002777 -> -16070.735607 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods making move: 36 -> 50 (4.223900) making move: 41 -> 80 (6.230944) making move: 79 -> 41 (2.754766) making move: 99 -> 56 (4.920395) Log (lk): -16032.551986 . Log(lk) : -16032.551986 -> -16032.074171 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16031.685830 -> -16031.350094 0 swap done . Log(lk) : -16031.350094 -> -16031.142090 0 swap done . Log(lk) : -16031.142090 -> -16031.000449 0 swap done . Log(lk) : -16031.000449 -> -16030.901276 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16030.816762 -> -16030.741162 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods making move: 99 -> 53 (0.312255) Log (lk): -16021.362885 . Log(lk) : -16021.362885 -> -16020.546921 0 swap done . Log(lk) : -16020.546921 -> -16020.420362 0 swap done . Log(lk) : -16020.420362 -> -16020.386578 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16020.336045 -> -16020.308428 0 swap done . Log(lk) : -16020.308428 -> -16020.291838 0 swap done . Log(lk) : -16020.291838 -> -16020.280336 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations making move: 176 -> 186 (0.038229) Log (lk): -16020.229451 . Log(lk) : -16020.229451 -> -16020.221063 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16020.216164 -> -16020.206352 0 swap done . Log(lk) : -16020.206352 -> -16020.199317 0 swap done . Log(lk) : -16020.199317 -> -16020.194073 0 swap done . Log(lk) : -16020.194073 -> -16020.190099 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16020.188079 -> -16020.183370 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization making move: 7 -> 176 (0.001910) Log (lk): -16020.180646 . Log(lk) : -16020.180646 -> -16020.170750 1 swap done . Log(lk) : -16020.170750 -> -16020.168032 0 swap done . Log(lk) : -16020.168032 -> -16020.165918 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16020.165029 -> -16020.162477 0 swap done . Log(lk) : -16020.162477 -> -16020.160594 0 swap done . Log(lk) : -16020.160594 -> -16020.159106 0 swap done . Log(lk) : -16020.159106 -> -16020.157890 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization making move: 176 -> 7 (0.002058) Log (lk): -16020.154396 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16020.154009 -> -16020.145999 1 swap done . Log(lk) : -16020.145999 -> -16020.144746 0 swap done . Log(lk) : -16020.144746 -> -16020.143725 0 swap done . Log(lk) : -16020.143725 -> -16020.142840 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization making move: 176 -> 19 (0.004088) Log (lk): -16020.137712 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -16020.137398 -> -16020.130287 1 swap done . Log(lk) : -16020.130287 -> -16020.129824 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization Log (lk): -16020.128019 nr_d_L: 356324 nr_d_lk: 82897 nr_loc: 485 nr_glb: 47 . Time used 0h22m3s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 1227.54user 0.00system 22:03.27elapsed 92%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps