Sequence filename : /auto/dufayard/res/2.4.5/nucleic_M2921_54x966_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 = 13672680 . Log(lk) : * -> -7281.253266 . Log(lk) : -7281.253266 -> -7175.680247 6 swaps done . Log(lk) : -7175.680247 -> -7163.725578 3 swaps done . Log(lk) : -7163.725578 -> -7162.201041 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6470.876382 -> -6457.067816 4 swaps done . Log(lk) : -6457.067816 -> -6452.633664 3 swaps done . Log(lk) : -6452.633664 -> -6449.535793 1 swap done . Log(lk) : -6449.535793 -> -6448.942761 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6445.247987 -> -6444.823205 1 swap done . Log(lk) : -6444.823205 -> -6444.652897 0 swap done . Log(lk) : -6444.652897 -> -6444.615749 0 swap done . Log(lk) : -6444.615749 -> -6444.603140 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6444.589014 -> -6444.580720 0 swap done . Log(lk) : -6444.580720 -> -6444.577348 0 swap done . Log(lk) : -6444.577348 -> -6444.575888 0 swap done . Last optimization step... . Log(lk) : * -> -6444.574930 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6444.574930 -> -6444.573498 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6444.573498 -> -6444.573309 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6444.573309 -> -6444.573262 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6444.573262 -> -6444.573250 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6444.573250 -> -6444.573247 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6444.573247 -> -6444.573246 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -6444.573246 . Time used 0h0m28s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 27.11user 0.00system 0:27.46elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps