Sequence filename : /auto/dufayard/res/2.4.5/nucleic_M2655_50x872_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 = 11899184 . Log(lk) : * -> -7339.074607 . Log(lk) : -7339.074607 -> -7241.684300 5 swaps done . Log(lk) : -7241.684300 -> -7227.623676 3 swaps done . Log(lk) : -7227.623676 -> -7223.004865 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6546.555371 -> -6534.152738 1 swap done . Log(lk) : -6534.152738 -> -6529.906026 1 swap done . Log(lk) : -6529.906026 -> -6527.312348 0 swap done . Log(lk) : -6527.312348 -> -6526.692107 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6520.211910 -> -6519.607973 0 swap done . Log(lk) : -6519.607973 -> -6519.375116 0 swap done . Log(lk) : -6519.375116 -> -6519.274431 0 swap done . Log(lk) : -6519.274431 -> -6519.228491 0 swap done . Last optimization step... . Log(lk) : * -> -6519.196912 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6519.196912 -> -6519.127947 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6519.127947 -> -6519.117105 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6519.117105 -> -6519.114503 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6519.114503 -> -6519.113923 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6519.113923 -> -6519.113779 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6519.113779 -> -6519.113744 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6519.113744 -> -6519.113736 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6519.113736 -> -6519.113734 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6519.113734 -> -6519.113733 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -6519.113733 . Time used 0h0m23s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 22.47user 0.00system 0:22.80elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps