.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1768_31x228_2004.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 . 'Middle' of each rate class : mean . Amino acid equilibrium frequencies : model . Optimise tree topology : yes . Tree topology search : Best of NNIs and SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 60 patterns found. (out of a total of 228 sites) . 185 sites without polymorphism (81.14%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 5Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 0 sec) [ -1053.9951] [Alpha ][ 0.697638] . ( 0 sec) [ -1053.9951] [Topology ] . ( 1 sec) [ -1052.8861] [Topology ] . ( 1 sec) [ -1052.6774] [Topology ] . ( 2 sec) [ -1052.6053] [Topology ] . ( 2 sec) [ -1052.5698] [Topology ] . ( 3 sec) [ -1052.5565] [Topology ] . ( 3 sec) [ -1052.5493] [Topology ] . Checking for NNIs, optimizing five branches... . ( 5 sec) [ -1052.5493] [Alpha ][ 0.692747] . ( 5 sec) [ -1052.5493] [Topology ] . ( 6 sec) [ -1052.5438] [Topology ] . ( 6 sec) [ -1052.5383] [Topology ] . ( 7 sec) [ -1052.5340] [Topology ] . ( 7 sec) [ -1052.5323] [Topology ] . ( 7 sec) [ -1052.5317] [Topology ] . Checking for NNIs, optimizing five branches... . ( 10 sec) [ -1052.5317] [Alpha ][ 0.692747] . ( 10 sec) [ -1052.5317] [Topology ] . ( 10 sec) [ -1052.5316] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 16 sec) [ -1053.9951] [Alpha ][ 0.697638] . ( 23 sec) [ -1053.8029] [ 52] [depth= 2] . ( 23 sec) [ -1053.4564] [ 52] [depth= 2] . ( 23 sec) [ -1053.3694] [ 52] [depth= 1] . ( 24 sec) [ -1053.2922] [ 52] [depth= 1] . ( 27 sec) [ -1053.2816] [ 52] [depth= 1] . ( 28 sec) [ -1053.2563] [ 52] [depth= 1] . ( 34 sec) [ -1052.9696] [ 52] [depth= 1] . ( 37 sec) [ -1052.9497] [ 52] [depth= 1] . ( 41 sec) [ -1052.7540] [ 52] [depth= 1] . ( 44 sec) [ -1052.7138] [ 52] [depth= 3] . ( 54 sec) [ -1052.6304] [ 52] [depth= 1] . ( 54 sec) [ -1052.6020] [ 52] [depth= 1] . ( 102 sec) [ -1052.5319] [Branch lengths ] . ( 102 sec) [ -1052.5318] [Alpha ][ 0.692829] . ( 243 sec) [ -1052.5310] [Branch lengths ] . ( 244 sec) [ -1052.5310] [Topology ] . ( 244 sec) [ -1052.5310] [Topology ] . ( 244 sec) [ -1052.5310] [Alpha ][ 0.692136] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -1052.531551 . Log likelihood obtained after SPR moves : -1052.530968 . Log likelihood of the current tree: -1052.530968. . Printing the most likely tree in file 'proteic_M1768_31x228_2004.phy_phyml_tree.txt'... . Time used 0h4m7s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 240.38user 0.00system 4:06.90elapsed 97%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps