.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M3068_50x1000_2006.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 . Compressing sequences... . 956 patterns found. (out of a total of 1000 sites) . 114 sites without polymorphism (11.40%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis will use at least 114Mo of memory space... . Maximizing likelihood (using NNI moves)... . ( 3 sec) [ -68672.7398] [Alpha ][ 1.356649] . ( 4 sec) [ -68672.7398] [Topology ] . ( 14 sec) [ -68391.7148] [Topology ] . ( 26 sec) [ -68247.0875] [Topology ] . ( 35 sec) [ -68220.2197] [Topology ] . ( 46 sec) [ -68192.7529] [Topology ] . ( 56 sec) [ -68180.9271] [Topology ] . ( 67 sec) [ -68169.7879] [Topology ] . ( 77 sec) [ -68165.9035] [Topology ] . ( 87 sec) [ -68162.5252] [Topology ] . ( 97 sec) [ -68163.0044] [Topology ] . Moving backward . ( 100 sec) [ -68158.8111] [Alpha ][ 1.409922] . ( 101 sec) [ -68158.8111] [Topology ] . ( 111 sec) [ -68157.9549] [Topology ] . ( 121 sec) [ -68157.4960] [Topology ] . ( 132 sec) [ -68157.1840] [Topology ] . ( 142 sec) [ -68156.9526] [Topology ] . ( 152 sec) [ -68156.7749] [Topology ] . ( 162 sec) [ -68156.6362] [Topology ] . Checking for NNIs, optimizing five branches... . ( 265 sec) [ -68155.8973] [Topology ] . ( 267 sec) [ -68155.8961] [Alpha ][ 1.406970] . ( 268 sec) [ -68155.8961] [Topology ] . ( 278 sec) [ -68155.7848] [Topology ] . ( 288 sec) [ -68155.7070] [Topology ] . ( 298 sec) [ -68155.6472] [Topology ] . ( 308 sec) [ -68155.6003] [Topology ] . ( 318 sec) [ -68155.5633] [Topology ] . ( 328 sec) [ -68155.5341] [Topology ] . Checking for NNIs, optimizing five branches... . ( 429 sec) [ -68155.4694] [Topology ] . ( 432 sec) [ -68155.4638] [Alpha ][ 1.400782] . ( 433 sec) [ -68155.4638] [Topology ] . ( 443 sec) [ -68155.4382] [Topology ] . ( 453 sec) [ -68155.4190] [Topology ] . ( 463 sec) [ -68155.4039] [Topology ] . ( 473 sec) [ -68155.3920] [Topology ] . ( 483 sec) [ -68155.3825] [Topology ] . ( 493 sec) [ -68155.3749] [Topology ] . Checking for NNIs, optimizing five branches... . ( 595 sec) [ -68155.3729] [Alpha ][ 1.397054] . ( 595 sec) [ -68155.3729] [Topology ] . ( 605 sec) [ -68155.3658] [Topology ] . ( 615 sec) [ -68155.3603] [Topology ] . ( 626 sec) [ -68155.3558] [Topology ] . ( 636 sec) [ -68155.3522] [Topology ] . ( 646 sec) [ -68155.3494] [Topology ] . ( 656 sec) [ -68155.3471] [Topology ] . Checking for NNIs, optimizing five branches... . ( 758 sec) [ -68155.3465] [Alpha ][ 1.394892] . ( 759 sec) [ -68155.3465] [Topology ] . ( 769 sec) [ -68155.3443] [Topology ] . ( 779 sec) [ -68155.3426] [Topology ] . ( 789 sec) [ -68155.3412] [Topology ] . ( 799 sec) [ -68155.3402] [Topology ] . ( 810 sec) [ -68155.3393] [Topology ] . Checking for NNIs, optimizing five branches... . ( 912 sec) [ -68155.3392] [Alpha ][ 1.393497] . ( 913 sec) [ -68155.3392] [Topology ] . ( 923 sec) [ -68155.3383] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -68155.338325. . Printing the most likely tree in file 'proteic_M3068_50x1000_2006.phy_phyml_tree.txt'... . Time used 0h18m44s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 1118.24user 0.00system 18:46.43elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps