.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2382_28x162_2005.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 : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 129 patterns found. (out of a total of 162 sites) . 75 sites without polymorphism (46.30%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 9Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -2775.6744] [Alpha ][ 0.500960] . ( 1 sec) [ -2775.5328] [ 461] [depth= 1] . ( 1 sec) [ -2773.6500] [ 461] [depth= 1] . ( 2 sec) [ -2771.2922] [ 461] [depth= 4] . ( 2 sec) [ -2764.0410] [ 462] [depth= 3] . ( 3 sec) [ -2763.1598] [ 466] [depth= 2] . ( 3 sec) [ -2760.2422] [ 460] [depth= 3] . ( 3 sec) [ -2759.2634] [ 459] [depth= 1] . ( 3 sec) [ -2759.1550] [ 460] [depth= 1] . ( 3 sec) [ -2755.4972] [ 459] [depth= 1] . ( 4 sec) [ -2753.4126] [ 459] [depth= 1] . ( 4 sec) [ -2751.7539] [ 457] [depth= 1] . ( 4 sec) [ -2751.1114] [ 456] [depth= 1] . ( 4 sec) [ -2748.8278] [ 455] [depth= 2] . ( 4 sec) [ -2748.4393] [ 455] [depth= 1] . ( 5 sec) [ -2746.5674] [ 455] [depth= 1] . ( 5 sec) [ -2743.8125] [ 455] [depth= 1] . ( 5 sec) [ -2743.6210] [ 455] [depth= 1] . ( 5 sec) [ -2742.3982] [ 454] [depth= 4] . ( 5 sec) [ -2742.3514] [ 454] [depth= 2] . ( 5 sec) [ -2741.9949] [ 454] [depth= 2] . ( 6 sec) [ -2741.8588] [ 455] [depth= 1] . ( 6 sec) [ -2741.4390] [ 455] [depth= 1] . ( 7 sec) [ -2741.1691] [ 455] [depth= 1] . ( 7 sec) [ -2740.9148] [ 455] [depth= 1] . ( 7 sec) [ -2740.5153] [ 455] [depth= 1] . ( 7 sec) [ -2739.2139] [ 455] [depth= 1] . ( 8 sec) [ -2738.4604] [ 454] [depth= 1] . ( 8 sec) [ -2737.8011] [ 452] [depth= 3] . ( 8 sec) [ -2735.8722] [ 453] [depth= 1] . ( 9 sec) [ -2735.8378] [ 452] [depth= 1] . ( 9 sec) [ -2734.8046] [ 451] [depth= 1] . ( 9 sec) [ -2722.7256] [Branch lengths ] . ( 9 sec) [ -2719.3038] [Alpha ][ 0.367724] . ( 11 sec) [ -2718.0336] [ 452] [depth= 6] . ( 11 sec) [ -2714.3177] [ 450] [depth= 3] . ( 13 sec) [ -2714.3055] [ 451] [depth= 1] . ( 13 sec) [ -2713.3910] [ 451] [depth= 1] . ( 13 sec) [ -2712.9663] [ 450] [depth= 6] . ( 14 sec) [ -2710.5052] [ 448] [depth= 1] . ( 16 sec) [ -2709.7504] [ 448] [depth= 1] . ( 16 sec) [ -2709.0906] [ 448] [depth= 1] . ( 17 sec) [ -2708.8351] [ 448] [depth= 1] . ( 17 sec) [ -2707.1650] [Branch lengths ] . ( 18 sec) [ -2707.1276] [Alpha ][ 0.356288] . ( 18 sec) [ -2704.8162] [ 451] [depth= 4] . ( 19 sec) [ -2704.6906] [ 449] [depth= 6] . ( 19 sec) [ -2704.1777] [ 449] [depth= 1] . ( 21 sec) [ -2703.2382] [ 449] [depth= 3] . ( 22 sec) [ -2703.1934] [ 449] [depth= 1] . ( 23 sec) [ -2703.0591] [ 449] [depth= 1] . ( 24 sec) [ -2701.1348] [Branch lengths ] . ( 24 sec) [ -2701.1052] [Alpha ][ 0.346288] . ( 25 sec) [ -2701.0578] [ 449] [depth= 4] . ( 26 sec) [ -2700.6522] [ 449] [depth= 1] . ( 27 sec) [ -2700.5333] [ 449] [depth= 1] . ( 30 sec) [ -2700.5208] [ 449] [depth= 1] . ( 32 sec) [ -2699.6957] [Branch lengths ] . ( 32 sec) [ -2699.6879] [Alpha ][ 0.351454] . ( 40 sec) [ -2699.6447] [Branch lengths ] . ( 40 sec) [ -2699.6447] [Topology ] . ( 41 sec) [ -2699.6430] [Topology ] . ( 42 sec) [ -2699.6426] [Topology ] . ( 42 sec) [ -2699.6426] [Alpha ][ 0.351853] . ( 42 sec) [ -2699.6426] [Topology ] . ( 44 sec) [ -2699.6424] [Topology ] . ( 44 sec) [ -2699.6424] [Alpha ][ 0.351853] . Checking for NNIs, optimizing five branches... . ( 58 sec) [ -2699.6422] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -2699.642218. . Printing the most likely tree in file 'proteic_M2382_28x162_2005.phy_phyml_tree.txt'... . Time used 0h1m11s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 54.16user 0.00system 1:11.45elapsed 75%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps