.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M3497_105x899_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 . Compressing sequences... . 869 patterns found. (out of a total of 899 sites) . 88 sites without polymorphism (9.79%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis will use at least 223Mo of memory space... . Maximizing likelihood (using NNI moves)... . ( 6 sec) [ -85764.1757] [Alpha ][ 1.524966] . ( 7 sec) [ -85764.1757] [Topology ] . ( 27 sec) [ -85232.8513] [Topology ] . ( 48 sec) [ -85148.1980] [Topology ] . ( 69 sec) [ -85130.2476] [Topology ] . ( 89 sec) [ -85124.0492] [Topology ] . ( 110 sec) [ -85120.2628] [Topology ] . ( 130 sec) [ -85116.7459] [Topology ] . ( 150 sec) [ -85114.3990] [Topology ] . ( 171 sec) [ -85111.5627] [Topology ] . ( 191 sec) [ -85109.4036] [Topology ] . ( 215 sec) [ -85104.7793] [Alpha ][ 1.641248] . ( 217 sec) [ -85104.7793] [Topology ] . ( 237 sec) [ -85101.2148] [Topology ] . ( 257 sec) [ -85098.1224] [Topology ] . ( 278 sec) [ -85094.9154] [Topology ] . ( 298 sec) [ -85090.9068] [Topology ] . ( 319 sec) [ -85087.4339] [Topology ] . ( 339 sec) [ -85084.0524] [Topology ] . ( 359 sec) [ -85080.7524] [Topology ] . ( 380 sec) [ -85077.5475] [Topology ] . ( 400 sec) [ -85074.4756] [Topology ] . Checking for NNIs, optimizing five branches... . ( 612 sec) [ -85072.6810] [Topology ] . ( 616 sec) [ -85071.9414] [Alpha ][ 1.559853] . ( 618 sec) [ -85071.9414] [Topology ] . ( 638 sec) [ -85068.1445] [Topology ] . ( 658 sec) [ -85064.6446] [Topology ] . ( 679 sec) [ -85061.5534] [Topology ] . ( 699 sec) [ -85058.9741] [Topology ] . ( 720 sec) [ -85056.9336] [Topology ] . ( 740 sec) [ -85055.3879] [Topology ] . Checking for NNIs, optimizing five branches... . ( 945 sec) [ -85053.8017] [Topology ] . ( 949 sec) [ -85051.6645] [Alpha ][ 1.444454] . ( 951 sec) [ -85051.6645] [Topology ] . ( 971 sec) [ -85049.2134] [Topology ] . ( 992 sec) [ -85047.5145] [Topology ] . ( 1012 sec) [ -85046.3434] [Topology ] . ( 1033 sec) [ -85045.5534] [Topology ] . ( 1053 sec) [ -85045.0302] [Topology ] . ( 1074 sec) [ -85044.6885] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1277 sec) [ -85043.5099] [Alpha ][ 1.367243] . ( 1279 sec) [ -85043.5099] [Topology ] . ( 1299 sec) [ -85042.8029] [Topology ] . ( 1320 sec) [ -85042.3633] [Topology ] . ( 1341 sec) [ -85042.0843] [Topology ] . ( 1361 sec) [ -85041.9073] [Topology ] . ( 1382 sec) [ -85041.7964] [Topology ] . ( 1403 sec) [ -85041.7271] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1606 sec) [ -85041.4044] [Alpha ][ 1.328273] . ( 1608 sec) [ -85041.4044] [Topology ] . ( 1629 sec) [ -85041.2409] [Topology ] . ( 1649 sec) [ -85041.1432] [Topology ] . ( 1670 sec) [ -85041.0826] [Topology ] . ( 1691 sec) [ -85041.0450] [Topology ] . ( 1712 sec) [ -85041.0215] [Topology ] . ( 1733 sec) [ -85041.0068] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1936 sec) [ -85040.9404] [Alpha ][ 1.311037] . ( 1938 sec) [ -85040.9404] [Topology ] . ( 1958 sec) [ -85040.9064] [Topology ] . ( 1979 sec) [ -85040.8860] [Topology ] . ( 2000 sec) [ -85040.8733] [Topology ] . ( 2021 sec) [ -85040.8654] [Topology ] . ( 2042 sec) [ -85040.8605] [Topology ] . ( 2062 sec) [ -85040.8574] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2265 sec) [ -85040.8435] [Alpha ][ 1.303238] . ( 2267 sec) [ -85040.8435] [Topology ] . ( 2288 sec) [ -85040.8363] [Topology ] . ( 2308 sec) [ -85040.8320] [Topology ] . ( 2329 sec) [ -85040.8293] [Topology ] . ( 2350 sec) [ -85040.8276] [Topology ] . ( 2370 sec) [ -85040.8265] [Topology ] . ( 2391 sec) [ -85040.8258] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2594 sec) [ -85040.8229] [Alpha ][ 1.299669] . ( 2596 sec) [ -85040.8229] [Topology ] . ( 2617 sec) [ -85040.8213] [Topology ] . ( 2637 sec) [ -85040.8204] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2841 sec) [ -85040.8203] [Alpha ][ 1.298369] . ( 2842 sec) [ -85040.8203] [Topology ] . ( 2863 sec) [ -85040.8193] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3066 sec) [ -85040.8193] [Alpha ][ 1.298369] . ( 3067 sec) [ -85040.8193] [Topology ] . ( 3088 sec) [ -85040.8187] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -85040.818715. . Printing the most likely tree in file 'proteic_M3497_105x899_2007.phy_phyml_tree.txt'... . Time used 0h58m6s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 3466.73user 0.00system 58:14.34elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps