Sequence filename : /auto/dufayard/res/2.4.5/nucleic_M2946_110x1003_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 . 6 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... . Nbytes = 43702064 . Log(lk) : * -> -19484.109137 . Log(lk) : -19484.109137 -> -19011.685090 11 swaps done . Log(lk) : -19011.685090 -> -18922.049420 9 swaps done . Log(lk) : -18922.049420 -> -18892.849640 6 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17163.180246 -> -17107.059685 8 swaps done . Log(lk) : -17107.059685 -> -17093.322733 6 swaps done . Log(lk) : -17093.322733 -> -17086.204600 3 swaps done . Log(lk) : -17086.204600 -> -17077.088100 4 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17066.184868 -> -17055.090489 4 swaps done . Log(lk) : -17055.090489 -> -17052.488530 2 swaps done . Log(lk) : -17052.488530 -> -17050.683433 3 swaps done . Log(lk) : -17050.683433 -> -17048.049299 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17047.739053 -> -17045.521921 1 swap done . Log(lk) : -17045.521921 -> -17044.302982 0 swap done . Log(lk) : -17044.302982 -> -17043.888341 0 swap done . Log(lk) : -17043.888341 -> -17043.645360 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17043.586414 -> -17043.397652 0 swap done . Log(lk) : -17043.397652 -> -17043.272204 0 swap done . Log(lk) : -17043.272204 -> -17043.187717 0 swap done . Last optimization step... . Log(lk) : * -> -17043.094138 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17043.094138 -> -17043.019214 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17043.019214 -> -17042.989677 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.989677 -> -17042.976407 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.976407 -> -17042.970710 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.970710 -> -17042.968403 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.968403 -> -17042.967442 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.967442 -> -17042.967056 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.967056 -> -17042.966896 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.966896 -> -17042.966833 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.966833 -> -17042.966805 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.966805 -> -17042.966795 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.966795 -> -17042.966791 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.966791 -> -17042.966789 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -17042.966789 -> -17042.966788 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -17042.966788 . Time used 0h2m9s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 126.83user 0.00system 2:08.85elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps