Sequence filename : /auto/dufayard/res/2.4.5/nucleic_M2606_110x1206_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 . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... . Nbytes = 47118512 . Log(lk) : * -> -31006.004432 . Log(lk) : -31006.004432 -> -30473.869856 11 swaps done . Log(lk) : -30473.869856 -> -30417.169654 7 swaps done . Log(lk) : -30417.169654 -> -30409.865500 5 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -27042.509960 -> -27004.059138 11 swaps done . Log(lk) : -27004.059138 -> -26992.782206 8 swaps done . Log(lk) : -26992.782206 -> -26992.376354 7 swaps done . Log(lk) : -26992.376354 -> -26990.978760 7 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26971.161654 -> -26964.977101 7 swaps done . Log(lk) : -26964.977101 -> -26962.875541 6 swaps done . Log(lk) : -26962.875541 -> -26962.894866 6 swaps done . Moving backward (topology + branch lengths) . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26962.875541 -> -26958.157994 6 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26958.141080 -> -26958.019163 6 swaps done . Log(lk) : -26958.019163 -> -26957.057728 4 swaps done . Log(lk) : -26957.057728 -> -26957.520011 4 swaps done . Moving backward (topology + branch lengths) . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26957.057728 -> -26956.028768 4 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26956.022637 -> -26956.918739 3 swaps done . Moving backward (topology + branch lengths) . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26956.022637 -> -26955.188321 3 swaps done . Log(lk) : -26955.188321 -> -26953.226641 2 swaps done . Log(lk) : -26953.226641 -> -26952.961645 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.876811 -> -26952.722644 0 swap done . Log(lk) : -26952.722644 -> -26952.668681 0 swap done . Log(lk) : -26952.668681 -> -26952.648457 0 swap done . Log(lk) : -26952.648457 -> -26952.640693 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.560987 -> -26952.514411 0 swap done . Last optimization step... . Log(lk) : * -> -26952.493766 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.493766 -> -26952.454521 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.454521 -> -26952.428232 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.428232 -> -26952.415229 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.415229 -> -26952.409037 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.409037 -> -26952.406332 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.406332 -> -26952.405103 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.405103 -> -26952.404574 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404574 -> -26952.404309 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404309 -> -26952.404190 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404190 -> -26952.404126 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404126 -> -26952.404096 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404096 -> -26952.404076 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404076 -> -26952.404065 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404065 -> -26952.404056 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404056 -> -26952.404051 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404051 -> -26952.404046 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404046 -> -26952.404043 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404043 -> -26952.404040 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404040 -> -26952.404038 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404038 -> -26952.404036 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404036 -> -26952.404035 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404035 -> -26952.404034 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -26952.404034 -> -26952.404033 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -26952.404033 . Time used 0h3m6s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 182.02user 0.00system 3:06.23elapsed 97%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps