Sequence filename : /auto/dufayard/res/parc_wim/nucleic_M2792_166x812_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 . 1 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... N_RGRFT: 65 N_GLOBL: 32 MAX_DIST: 32 . Log(lk) : * -> -11402.653474 . Log(lk) : -11402.653474 -> -11194.676480 20 swaps done . Log(lk) : -11194.676480 -> -11151.694330 14 swaps done . Log(lk) : -11151.694330 -> -11140.110278 10 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10595.901045 -> -10578.315243 7 swaps done . Log(lk) : -10578.315243 -> -10575.489019 6 swaps done . Log(lk) : -10575.489019 -> -10572.968467 4 swaps done . Log(lk) : -10572.968467 -> -10572.172253 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10570.588296 -> -10570.272777 0 swap done . Log(lk) : -10570.272777 -> -10570.136293 0 swap done . Log(lk) : -10570.136293 -> -10570.056567 0 swap done . Log(lk) : -10570.056567 -> -10570.006914 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.997424 -> -10569.963059 0 swap done . Log(lk) : -10569.963059 -> -10569.941284 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization making move: 24 -> 14 (0.000084) Log (lk): -10569.939805 . Log(lk) : -10569.939805 -> -10569.921172 1 swap done . Log(lk) : -10569.921172 -> -10569.914058 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.913324 -> -10569.908744 0 swap done . Log(lk) : -10569.908744 -> -10569.905841 0 swap done . Log(lk) : -10569.905841 -> -10569.903977 0 swap done . Log(lk) : -10569.903977 -> -10569.902776 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.902728 -> -10569.901887 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization Log (lk): -10569.901962 . Last optimization step... . Log(lk) : * -> -10569.901900 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.901900 -> -10569.901890 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.901890 -> -10569.901884 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.901884 -> -10569.901881 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.901881 -> -10569.901879 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.901879 -> -10569.901877 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.901877 -> -10569.901876 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10569.901876 -> -10569.901875 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... nr_d_L: 213856 nr_d_lk: 46168 nr_loc: 200 nr_glb: 33 . Time used 0h6m39s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 396.22user 0.00system 6:39.60elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps