Sequence filename : /auto/dufayard/res/2.4.5/nucleic_M2792_166x812_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 = 66473792 . Log(lk) : * -> -11421.781183 . Log(lk) : -11421.781183 -> -11192.330141 19 swaps done . Log(lk) : -11192.330141 -> -11148.093426 14 swaps done . Log(lk) : -11148.093426 -> -11132.571331 10 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10587.707735 -> -10570.288412 8 swaps done . Log(lk) : -10570.288412 -> -10567.479502 6 swaps done . Log(lk) : -10567.479502 -> -10564.975596 4 swaps done . Log(lk) : -10564.975596 -> -10564.096441 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10562.522920 -> -10562.204676 0 swap done . Log(lk) : -10562.204676 -> -10562.067293 0 swap done . Log(lk) : -10562.067293 -> -10561.989168 0 swap done . Log(lk) : -10561.989168 -> -10561.941184 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.933190 -> -10561.900261 0 swap done . Log(lk) : -10561.900261 -> -10561.879345 0 swap done . Last optimization step... . Log(lk) : * -> -10561.857346 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.857346 -> -10561.846178 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.846178 -> -10561.841948 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.841948 -> -10561.840359 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.840359 -> -10561.839778 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.839778 -> -10561.839560 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.839560 -> -10561.839480 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.839480 -> -10561.839449 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.839449 -> -10561.839437 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.839437 -> -10561.839433 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.839433 -> -10561.839431 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.839431 -> -10561.839429 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.839429 -> -10561.839428 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -10561.839428 -> -10561.839427 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -10561.839427 . Time used 0h2m47s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 161.78user 0.00system 2:46.98elapsed 96%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps