.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2477_39x888_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... . 638 patterns found. (out of a total of 888 sites) . 262 sites without polymorphism (29.50%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 59Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 2 sec) [ -21417.6215] [Alpha ][ 0.500960] . ( 198 sec) [ -21416.4601] [ 3664] [depth= 1] . ( 241 sec) [ -21410.5283] [ 3661] [depth= 1] . ( 242 sec) [ -21406.6173] [ 3663] [depth= 1] . ( 244 sec) [ -21404.2374] [ 3664] [depth= 1] . ( 259 sec) [ -21401.2712] [ 3661] [depth= 1] . ( 389 sec) [ -21401.2088] [ 3670] [depth= 2] . ( 390 sec) [ -21389.8773] [ 3672] [depth= 3] . ( 391 sec) [ -21388.4015] [ 3679] [depth= 3] . ( 415 sec) [ -21353.5687] [ 3668] [depth= 2] . ( 416 sec) [ -21341.0728] [ 3661] [depth= 1] . ( 514 sec) [ -21340.4576] [ 3663] [depth= 1] . ( 515 sec) [ -21331.8320] [ 3661] [depth= 1] . ( 763 sec) [ -21328.3007] [ 3665] [depth= 1] . ( 764 sec) [ -21315.3054] [ 3661] [depth= 1] . ( 874 sec) [ -21312.4008] [ 3665] [depth= 1] . ( 876 sec) [ -21302.7755] [ 3661] [depth= 1] . ( 879 sec) [ -21296.8153] [ 3663] [depth= 1] . ( 899 sec) [ -21295.8727] [ 3661] [depth= 1] . ( 952 sec) [ -21291.4221] [ 3667] [depth= 1] . ( 967 sec) [ -21280.1837] [ 3661] [depth= 1] . ( 968 sec) [ -21278.1980] [ 3662] [depth= 1] . ( 1003 sec) [ -21277.8560] [ 3661] [depth= 1] . ( 1004 sec) [ -21277.7859] [ 3663] [depth= 1] . ( 1005 sec) [ -21275.6221] [ 3663] [depth= 1] . ( 1008 sec) [ -21184.6031] [Branch lengths ] . ( 1009 sec) [ -21184.5740] [Alpha ][ 0.506525] . ( 1125 sec) [ -21181.1090] [ 3660] [depth= 1] . ( 2272 sec) [ -21166.5915] [Branch lengths ] . ( 2274 sec) [ -21166.4856] [Alpha ][ 0.516754] . ( 3501 sec) [ -21163.9637] [Branch lengths ] . ( 3502 sec) [ -21163.9637] [Topology ] . ( 3509 sec) [ -21163.6799] [Topology ] . ( 3517 sec) [ -21163.5795] [Topology ] . ( 3525 sec) [ -21163.5272] [Topology ] . ( 3532 sec) [ -21163.4989] [Topology ] . ( 3540 sec) [ -21163.4834] [Topology ] . ( 3548 sec) [ -21163.4749] [Topology ] . ( 3550 sec) [ -21163.4496] [Alpha ][ 0.522007] . ( 3550 sec) [ -21163.4496] [Topology ] . ( 3558 sec) [ -21163.4435] [Topology ] . ( 3566 sec) [ -21163.4403] [Topology ] . ( 3574 sec) [ -21163.4385] [Topology ] . ( 3582 sec) [ -21163.4375] [Topology ] . ( 3583 sec) [ -21163.4375] [Alpha ][ 0.522007] . ( 3584 sec) [ -21163.4375] [Topology ] . ( 3592 sec) [ -21163.4369] [Topology ] . ( 3593 sec) [ -21163.4369] [Alpha ][ 0.522007] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -21163.436921. . Printing the most likely tree in file 'proteic_M2477_39x888_2005.phy_phyml_tree.txt'... . Time used 1h1m0s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 2211.23user 0.00system 1:01:01elapsed 60%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps