.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1503_23x479_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 . '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... . 356 patterns found. (out of a total of 479 sites) . 140 sites without polymorphism (29.23%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 19Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -9920.9916] [Alpha ][ 0.500960] . ( 1 sec) [ -9920.9916] [Topology ] . ( 2 sec) [ -9858.0273] [Topology ] . ( 4 sec) [ -9854.1883] [Topology ] . ( 6 sec) [ -9853.4558] [Topology ] . ( 7 sec) [ -9853.2048] [Topology ] . ( 9 sec) [ -9853.1061] [Topology ] . ( 11 sec) [ -9853.0648] [Topology ] . ( 12 sec) [ -9853.0467] [Topology ] . Checking for NNIs, optimizing five branches... . ( 26 sec) [ -9851.5926] [Alpha ][ 0.563972] . ( 26 sec) [ -9851.5926] [Topology ] . ( 28 sec) [ -9851.3146] [Topology ] . ( 30 sec) [ -9851.2161] [Topology ] . ( 32 sec) [ -9851.1749] [Topology ] . ( 33 sec) [ -9851.1568] [Topology ] . ( 35 sec) [ -9851.1487] [Topology ] . ( 37 sec) [ -9851.1450] [Topology ] . Checking for NNIs, optimizing five branches... . ( 50 sec) [ -9851.0669] [Alpha ][ 0.579529] . ( 50 sec) [ -9851.0669] [Topology ] . ( 52 sec) [ -9851.0496] [Topology ] . ( 54 sec) [ -9851.0429] [Topology ] . ( 55 sec) [ -9851.0400] [Topology ] . ( 57 sec) [ -9851.0387] [Topology ] . ( 59 sec) [ -9851.0381] [Topology ] . Checking for NNIs, optimizing five branches... . ( 72 sec) [ -9851.0335] [Alpha ][ 0.583469] . ( 72 sec) [ -9851.0335] [Topology ] . ( 74 sec) [ -9851.0320] [Topology ] . ( 76 sec) [ -9851.0314] [Topology ] . Checking for NNIs, optimizing five branches... . ( 89 sec) [ -9851.0312] [Alpha ][ 0.584097] . ( 89 sec) [ -9851.0312] [Topology ] . ( 91 sec) [ -9851.0309] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 117 sec) [ -9920.9916] [Alpha ][ 0.500960] . ( 119 sec) [ -9920.4868] [ 1746] [depth= 1] . ( 119 sec) [ -9918.9749] [ 1748] [depth= 1] . ( 119 sec) [ -9916.9721] [ 1749] [depth= 1] . ( 122 sec) [ -9911.0355] [ 1750] [depth= 1] . ( 127 sec) [ -9902.7965] [ 1750] [depth= 2] . ( 127 sec) [ -9896.0069] [ 1744] [depth= 1] . ( 128 sec) [ -9895.2402] [ 1747] [depth= 1] . ( 128 sec) [ -9893.0349] [ 1743] [depth= 1] . ( 129 sec) [ -9892.2817] [ 1747] [depth= 1] . ( 129 sec) [ -9892.2648] [ 1743] [depth= 1] . ( 130 sec) [ -9888.2612] [ 1743] [depth= 1] . ( 131 sec) [ -9887.7172] [ 1751] [depth= 1] . ( 131 sec) [ -9884.1766] [ 1743] [depth= 1] . ( 132 sec) [ -9880.9951] [ 1743] [depth= 1] . ( 134 sec) [ -9879.7464] [ 1743] [depth= 1] . ( 135 sec) [ -9856.8332] [Branch lengths ] . ( 135 sec) [ -9855.8301] [Alpha ][ 0.553326] . ( 147 sec) [ -9853.9110] [ 1743] [depth= 1] . ( 153 sec) [ -9851.7389] [Branch lengths ] . ( 153 sec) [ -9851.6339] [Alpha ][ 0.571283] . ( 170 sec) [ -9851.3159] [Branch lengths ] . ( 170 sec) [ -9851.3159] [Topology ] . ( 172 sec) [ -9851.2852] [Topology ] . ( 174 sec) [ -9851.2763] [Topology ] . ( 175 sec) [ -9851.2725] [Topology ] . ( 177 sec) [ -9851.2708] [Topology ] . ( 179 sec) [ -9851.2701] [Topology ] . ( 179 sec) [ -9851.2269] [Alpha ][ 0.583426] . ( 179 sec) [ -9851.2269] [Topology ] . ( 181 sec) [ -9851.2189] [Topology ] . ( 183 sec) [ -9851.2160] [Topology ] . ( 184 sec) [ -9851.2147] [Topology ] . ( 186 sec) [ -9851.2141] [Topology ] . ( 186 sec) [ -9851.2128] [Alpha ][ 0.585523] . ( 187 sec) [ -9851.2128] [Topology ] . ( 188 sec) [ -9851.2120] [Topology ] . ( 189 sec) [ -9851.2120] [Alpha ][ 0.586109] . Checking for NNIs, optimizing five branches... . ( 202 sec) [ -9851.2098] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -9851.030860 . Log likelihood obtained after SPR moves : -9851.209848 . Log likelihood of the current tree: -9851.030860. . Printing the most likely tree in file 'proteic_M1503_23x479_2003.phy_phyml_tree.txt'... . Time used 0h3m35s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 213.22user 0.00system 3:35.71elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps