.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2641_18x326_2006.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... . 243 patterns found. (out of a total of 326 sites) . 100 sites without polymorphism (30.67%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 10Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 0 sec) [ -5190.7718] [Alpha ][ 0.607649] . ( 0 sec) [ -5190.7718] [Topology ] . ( 1 sec) [ -5161.6235] [Topology ] . ( 2 sec) [ -5157.1353] [Topology ] . ( 3 sec) [ -5155.5391] [Topology ] . ( 4 sec) [ -5154.9097] [Topology ] . ( 5 sec) [ -5154.6184] [Topology ] . ( 6 sec) [ -5154.4740] [Topology ] . ( 7 sec) [ -5154.4004] [Topology ] . ( 8 sec) [ -5154.3623] [Topology ] . Checking for NNIs, optimizing five branches... . ( 16 sec) [ -5153.6964] [Alpha ][ 0.682511] . ( 16 sec) [ -5153.6964] [Topology ] . ( 17 sec) [ -5153.6349] [Topology ] . ( 17 sec) [ -5153.6081] [Topology ] . ( 18 sec) [ -5153.5946] [Topology ] . ( 19 sec) [ -5153.5877] [Topology ] . ( 20 sec) [ -5153.5842] [Topology ] . ( 21 sec) [ -5153.5823] [Topology ] . Checking for NNIs, optimizing five branches... . ( 29 sec) [ -5153.5800] [Alpha ][ 0.687271] . ( 29 sec) [ -5153.5800] [Topology ] . ( 30 sec) [ -5153.5788] [Topology ] . ( 31 sec) [ -5153.5782] [Topology ] . Checking for NNIs, optimizing five branches... . ( 39 sec) [ -5153.5782] [Alpha ][ 0.687271] . ( 39 sec) [ -5153.5782] [Topology ] . ( 40 sec) [ -5153.5779] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 55 sec) [ -5190.7718] [Alpha ][ 0.607649] . ( 56 sec) [ -5190.4764] [ 831] [depth= 1] . ( 61 sec) [ -5190.3233] [ 829] [depth= 1] . ( 61 sec) [ -5189.8898] [ 830] [depth= 1] . ( 61 sec) [ -5187.4550] [ 829] [depth= 1] . ( 62 sec) [ -5187.2047] [ 830] [depth= 1] . ( 62 sec) [ -5186.1241] [ 826] [depth= 1] . ( 64 sec) [ -5165.8169] [Branch lengths ] . ( 64 sec) [ -5165.2324] [Alpha ][ 0.678849] . ( 68 sec) [ -5164.8412] [ 830] [depth= 1] . ( 68 sec) [ -5163.6275] [ 829] [depth= 1] . ( 72 sec) [ -5158.3547] [ 829] [depth= 2] . ( 73 sec) [ -5153.8689] [Branch lengths ] . ( 73 sec) [ -5153.8680] [Alpha ][ 0.681664] . ( 82 sec) [ -5153.6122] [Branch lengths ] . ( 82 sec) [ -5153.6122] [Topology ] . ( 83 sec) [ -5153.5937] [Topology ] . ( 84 sec) [ -5153.5875] [Topology ] . ( 85 sec) [ -5153.5845] [Topology ] . ( 85 sec) [ -5153.5830] [Topology ] . ( 86 sec) [ -5153.5822] [Topology ] . ( 86 sec) [ -5153.5789] [Alpha ][ 0.687440] . ( 87 sec) [ -5153.5789] [Topology ] . ( 87 sec) [ -5153.5782] [Topology ] . ( 88 sec) [ -5153.5782] [Alpha ][ 0.687440] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -5153.577906 . Log likelihood obtained after SPR moves : -5153.578202 . Log likelihood of the current tree: -5153.577906. . Printing the most likely tree in file 'proteic_M2641_18x326_2006.phy_phyml_tree.txt'... . Time used 0h1m35s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 94.57user 0.00system 1:35.18elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps