Sequence filename : /auto/dufayard/res/2.4.5/nucleic_M2567_64x1044_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... . Nbytes = 16728000 . Log(lk) : * -> -7314.541640 . Log(lk) : -7314.541640 -> -7243.691234 6 swaps done . Log(lk) : -7243.691234 -> -7227.161813 4 swaps done . Log(lk) : -7227.161813 -> -7225.707095 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6807.580049 -> -6799.629684 3 swaps done . Log(lk) : -6799.629684 -> -6796.439153 3 swaps done . Log(lk) : -6796.439153 -> -6795.145237 0 swap done . Log(lk) : -6795.145237 -> -6794.548101 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6793.855281 -> -6793.523345 0 swap done . Log(lk) : -6793.523345 -> -6793.358174 0 swap done . Log(lk) : -6793.358174 -> -6793.274588 0 swap done . Log(lk) : -6793.274588 -> -6793.231885 0 swap done . Last optimization step... . Log(lk) : * -> -6793.198671 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6793.198671 -> -6793.184189 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6793.184189 -> -6793.181617 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6793.181617 -> -6793.181074 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6793.181074 -> -6793.180952 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6793.180952 -> -6793.180927 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6793.180927 -> -6793.180921 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6793.180921 -> -6793.180919 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6793.180919 -> -6793.180919 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -6793.180919 . Time used 0h0m29s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 29.20user 0.00system 0:29.65elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps