.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2363_38x251_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 : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 244 patterns found. (out of a total of 251 sites) . 24 sites without polymorphism (9.56%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 23Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -12114.3207] [Alpha ][ 1.997534] . ( 2 sec) [ -12110.8932] [ 2680] [depth= 1] . ( 2 sec) [ -12110.4070] [ 2682] [depth= 1] . ( 3 sec) [ -12110.2346] [ 2680] [depth= 1] . ( 3 sec) [ -12100.5882] [ 2676] [depth= 1] . ( 4 sec) [ -12099.5999] [ 2677] [depth= 1] . ( 4 sec) [ -12070.9114] [ 2680] [depth= 2] . ( 5 sec) [ -12069.5901] [ 2680] [depth= 1] . ( 5 sec) [ -12037.4390] [ 2679] [depth= 1] . ( 6 sec) [ -12032.5684] [ 2679] [depth= 1] . ( 7 sec) [ -12029.4027] [ 2678] [depth= 1] . ( 13 sec) [ -12029.3224] [ 2682] [depth= 1] . ( 14 sec) [ -12026.5579] [ 2685] [depth= 1] . ( 15 sec) [ -11996.3150] [ 2682] [depth= 1] . ( 16 sec) [ -11996.3034] [ 2675] [depth= 3] . ( 17 sec) [ -11995.8486] [ 2674] [depth= 1] . ( 17 sec) [ -11994.3122] [ 2674] [depth= 2] . ( 18 sec) [ -11980.3131] [ 2675] [depth= 2] . ( 19 sec) [ -11971.4374] [ 2677] [depth= 4] . ( 19 sec) [ -11958.0486] [ 2677] [depth= 3] . ( 20 sec) [ -11952.8312] [ 2674] [depth= 2] . ( 20 sec) [ -11949.9584] [ 2676] [depth= 1] . ( 20 sec) [ -11939.1935] [ 2678] [depth= 1] . ( 23 sec) [ -11896.9614] [ 2676] [depth= 1] . ( 24 sec) [ -11893.9444] [ 2679] [depth= 1] . ( 24 sec) [ -11890.3046] [ 2682] [depth= 1] . ( 25 sec) [ -11889.1187] [ 2681] [depth= 1] . ( 25 sec) [ -11858.9227] [ 2684] [depth= 1] . ( 25 sec) [ -11853.8631] [ 2681] [depth= 1] . ( 26 sec) [ -11849.8898] [ 2683] [depth= 1] . ( 26 sec) [ -11844.4896] [ 2691] [depth= 1] . ( 26 sec) [ -11837.9036] [ 2691] [depth= 4] . ( 27 sec) [ -11836.1449] [ 2694] [depth= 1] . ( 27 sec) [ -11830.5738] [ 2682] [depth= 3] . ( 28 sec) [ -11828.3091] [ 2677] [depth= 2] . ( 28 sec) [ -11826.3234] [ 2675] [depth= 1] . ( 30 sec) [ -11825.0977] [ 2679] [depth= 3] . ( 30 sec) [ -11820.4917] [ 2682] [depth= 3] . ( 31 sec) [ -11818.6907] [ 2684] [depth= 2] . ( 32 sec) [ -11817.3830] [ 2685] [depth= 1] . ( 32 sec) [ -11815.5880] [ 2684] [depth= 1] . ( 33 sec) [ -11815.0178] [ 2681] [depth= 3] . ( 33 sec) [ -11814.5392] [ 2681] [depth= 3] . ( 35 sec) [ -11811.3536] [ 2685] [depth= 4] . ( 36 sec) [ -11780.1590] [Branch lengths ] . ( 37 sec) [ -11759.9574] [Alpha ][ 3.990621] . ( 40 sec) [ -11736.7077] [ 2679] [depth= 1] . ( 40 sec) [ -11736.2167] [ 2683] [depth= 1] . ( 41 sec) [ -11735.7741] [ 2683] [depth= 1] . ( 48 sec) [ -11735.4868] [ 2685] [depth= 1] . ( 53 sec) [ -11735.1508] [ 2682] [depth= 2] . ( 55 sec) [ -11734.5591] [ 2683] [depth= 2] . ( 55 sec) [ -11734.1263] [ 2687] [depth= 1] . ( 58 sec) [ -11734.1143] [ 2685] [depth= 1] . ( 60 sec) [ -11733.4633] [ 2680] [depth= 1] . ( 63 sec) [ -11731.9379] [ 2676] [depth= 4] . ( 64 sec) [ -11731.1082] [ 2679] [depth= 7] . ( 67 sec) [ -11729.8617] [ 2680] [depth= 1] . ( 68 sec) [ -11727.3337] [ 2669] [depth= 4] . ( 69 sec) [ -11727.1254] [ 2671] [depth= 3] . ( 69 sec) [ -11726.6312] [ 2678] [depth= 1] . ( 75 sec) [ -11726.5293] [ 2679] [depth= 2] . ( 76 sec) [ -11726.4940] [ 2679] [depth= 1] . ( 77 sec) [ -11716.7434] [Branch lengths ] . ( 78 sec) [ -11714.9961] [Alpha ][ 5.388255] . ( 82 sec) [ -11714.9716] [ 2677] [depth= 1] . ( 107 sec) [ -11714.9531] [ 2674] [depth= 1] . ( 110 sec) [ -11714.7916] [ 2675] [depth= 1] . ( 114 sec) [ -11714.7552] [ 2680] [depth= 1] . ( 117 sec) [ -11714.3590] [ 2680] [depth= 1] . ( 118 sec) [ -11714.3341] [ 2682] [depth= 1] . ( 119 sec) [ -11713.9644] [ 2681] [depth= 2] . ( 127 sec) [ -11713.5023] [ 2681] [depth= 2] . ( 129 sec) [ -11710.9663] [Branch lengths ] . ( 129 sec) [ -11710.7946] [Alpha ][ 5.948914] . ( 133 sec) [ -11710.6128] [ 2682] [depth= 1] . ( 134 sec) [ -11710.5781] [ 2675] [depth= 1] . ( 189 sec) [ -11710.5592] [ 2680] [depth= 2] . ( 191 sec) [ -11709.1816] [Branch lengths ] . ( 191 sec) [ -11709.1557] [Alpha ][ 6.191678] . ( 255 sec) [ -11708.6791] [Branch lengths ] . ( 255 sec) [ -11708.6791] [Topology ] . ( 258 sec) [ -11708.5810] [Topology ] . ( 261 sec) [ -11708.5284] [Topology ] . ( 264 sec) [ -11708.5028] [Topology ] . ( 266 sec) [ -11708.4928] [Topology ] . ( 269 sec) [ -11708.4890] [Topology ] . ( 271 sec) [ -11708.4871] [Topology ] . ( 271 sec) [ -11708.4800] [Alpha ][ 6.322708] . ( 272 sec) [ -11708.4800] [Topology ] . ( 274 sec) [ -11708.4777] [Topology ] . ( 276 sec) [ -11708.4767] [Topology ] . ( 279 sec) [ -11708.4761] [Topology ] . ( 279 sec) [ -11708.4757] [Alpha ][ 6.353911] . ( 279 sec) [ -11708.4757] [Topology ] . ( 282 sec) [ -11708.4752] [Topology ] . ( 282 sec) [ -11708.4752] [Alpha ][ 6.360265] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11708.475193. . Printing the most likely tree in file 'proteic_M2363_38x251_2004.phy_phyml_tree.txt'... . Time used 0h5m11s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 285.77user 0.00system 5:11.79elapsed 91%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps