.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2883_91x7386_2007.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 : NNIs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . 526 sites are made from completely undetermined states ('X', '-', '?')... . Compressing sequences... . 4584 patterns found. (out of a total of 7386 sites) . 2512 sites without polymorphism (34.01%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis requires at least 1005Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 39 sec) [ -165873.8199] [Alpha ][ 0.500960] . ( 46 sec) [ -165873.8199] [Topology ] . ( 137 sec) [ -161269.5522] [Topology ] . ( 232 sec) [ -159783.7159] [Topology ] . ( 327 sec) [ -159294.0369] [Topology ] . ( 422 sec) [ -158806.6497] [Topology ] . ( 517 sec) [ -158714.5742] [Topology ] . ( 611 sec) [ -158673.0151] [Topology ] . ( 704 sec) [ -158606.0990] [Topology ] . ( 798 sec) [ -158510.5634] [Topology ] . ( 893 sec) [ -158415.7058] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1903 sec) [ -158387.9808] [Topology ] . ( 1922 sec) [ -158314.3768] [Alpha ][ 0.417397] . ( 1930 sec) [ -158314.3768] [Topology ] . ( 2025 sec) [ -158293.9679] [Topology ] . ( 2119 sec) [ -158221.7853] [Topology ] . ( 2214 sec) [ -158158.4408] [Topology ] . ( 2309 sec) [ -158080.2483] [Topology ] . ( 2404 sec) [ -157894.9535] [Topology ] . ( 2499 sec) [ -157756.6123] [Topology ] . ( 2594 sec) [ -157677.7841] [Topology ] . ( 2690 sec) [ -157447.0930] [Topology ] . ( 2786 sec) [ -157131.1446] [Topology ] . ( 2894 sec) [ -156961.1729] [Alpha ][ 0.423780] . ( 2901 sec) [ -156961.1729] [Topology ] . ( 2995 sec) [ -156941.6214] [Topology ] . ( 3090 sec) [ -156938.9268] [Topology ] . ( 3185 sec) [ -156938.4099] [Topology ] . ( 3280 sec) [ -156938.2466] [Topology ] . ( 3375 sec) [ -156938.1612] [Topology ] . ( 3470 sec) [ -156938.1042] [Topology ] . Checking for NNIs, optimizing five branches... . ( 4339 sec) [ -156937.3565] [Topology ] . ( 4359 sec) [ -156937.3438] [Alpha ][ 0.422717] . ( 4366 sec) [ -156937.3438] [Topology ] . ( 4461 sec) [ -156937.2497] [Topology ] . ( 4555 sec) [ -156937.2085] [Topology ] . ( 4649 sec) [ -156937.1823] [Topology ] . ( 4743 sec) [ -156937.1644] [Topology ] . ( 4837 sec) [ -156937.1517] [Topology ] . ( 4931 sec) [ -156937.1426] [Topology ] . Checking for NNIs, optimizing five branches... . ( 5824 sec) [ -156937.1413] [Alpha ][ 0.422294] . ( 5831 sec) [ -156937.1413] [Topology ] . ( 5926 sec) [ -156937.1340] [Topology ] . ( 6021 sec) [ -156937.1287] [Topology ] . ( 6116 sec) [ -156937.1248] [Topology ] . ( 6214 sec) [ -156937.1221] [Topology ] . ( 6308 sec) [ -156937.1200] [Topology ] . ( 6402 sec) [ -156937.1185] [Topology ] . Checking for NNIs, optimizing five branches... . ( 7293 sec) [ -156937.1185] [Alpha ][ 0.422294] . ( 7300 sec) [ -156937.1185] [Topology ] . ( 7395 sec) [ -156937.1175] [Topology ] . ( 7489 sec) [ -156937.1167] [Topology ] . Checking for NNIs, optimizing five branches... . ( 8379 sec) [ -156937.1167] [Alpha ][ 0.422294] . ( 8387 sec) [ -156937.1167] [Topology ] . ( 8481 sec) [ -156937.1161] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -156937.116110. . Printing the most likely tree in file 'proteic_M2883_91x7386_2007.phy_phyml_tree.txt'... . Time used 2h50m33s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 10217.61user 0.00system 2:50:44elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps