Sequence filename : /auto/dufayard/res/2.4.5/nucleic_M2662_60x1348_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 . 7 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... . Nbytes = 25481664 . Log(lk) : * -> -13661.024212 . Log(lk) : -13661.024212 -> -13485.822284 7 swaps done . Log(lk) : -13485.822284 -> -13462.261495 2 swaps done . Log(lk) : -13462.261495 -> -13456.280444 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12390.585859 -> -12367.551848 3 swaps done . Log(lk) : -12367.551848 -> -12360.968208 0 swap done . Log(lk) : -12360.968208 -> -12358.226081 1 swap done . Log(lk) : -12358.226081 -> -12354.908079 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12351.157290 -> -12349.790683 0 swap done . Log(lk) : -12349.790683 -> -12349.165517 0 swap done . Log(lk) : -12349.165517 -> -12348.844200 0 swap done . Log(lk) : -12348.844200 -> -12348.672625 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.616688 -> -12348.501304 0 swap done . Last optimization step... . Log(lk) : * -> -12348.406758 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.406758 -> -12348.367189 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.367189 -> -12348.356493 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.356493 -> -12348.353848 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.353848 -> -12348.353218 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.353218 -> -12348.353070 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.353070 -> -12348.353035 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.353035 -> -12348.353027 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.353027 -> -12348.353026 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -12348.353026 -> -12348.353025 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -12348.353025 . Time used 0h0m48s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 47.29user 0.00system 0:47.84elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps