Sequence filename : /auto/dufayard/res/2.4.5/proteic_M1372_23x394_2003.phy Data type : aa Sequence format : interleaved Number of data sets : 1 Nb of bootstrapped data sets : 0 Model name : WAG 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 . 3 sites are made from completely undetermined states ('X', '-', '?')... . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... . Nbytes = 14301456 . Log(lk) : * -> -4549.015432 . Log(lk) : -4549.015432 -> -4515.458028 3 swaps done . Log(lk) : -4515.458028 -> -4510.853500 2 swaps done . Log(lk) : -4510.853500 -> -4509.633999 1 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -4476.380750 -> -4474.677033 1 swap done . Log(lk) : -4474.677033 -> -4474.544789 0 swap done . Log(lk) : -4474.544789 -> -4474.510859 0 swap done . Log(lk) : -4474.510859 -> -4474.499730 0 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -4474.496370 -> -4474.492625 0 swap done . Log(lk) : -4474.492625 -> -4474.491190 0 swap done . Log(lk) : -4474.491190 -> -4474.490603 0 swap done . Last optimization step... . Log(lk) : * -> -4474.490253 . Optimisation of the gamma shape parameter... . Log(lk) : -4474.490253 -> -4474.490153 . Optimisation of the gamma shape parameter... . Log(lk) : -4474.490153 -> -4474.490139 . Optimisation of the gamma shape parameter... . Log(lk) : -4474.490139 -> -4474.490136 . Optimisation of the gamma shape parameter... . Log(lk) : -4474.490136 -> -4474.490136 . Optimisation of the gamma shape parameter... . Final Log(lk) : -4474.490136 . Time used 0h1m8s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 67.49user 0.00system 1:08.59elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps