.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M3755_77x9918_2008.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... . 9606 patterns found. (out of a total of 9918 sites) . 1366 sites without polymorphism (13.77%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis requires at least 1774Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 54 sec) [ -367503.1303] [Alpha ][ 0.583614] . ( 97 sec) [ -367479.8715] [71609] [depth= 1] . ( 123 sec) [ -367463.0786] [71596] [depth= 13] . ( 216 sec) [ -367352.2282] [71590] [depth= 3] . ( 261 sec) [ -367331.5949] [71588] [depth= 4] . ( 497 sec) [ -367320.5834] [71591] [depth= 1] . ( 522 sec) [ -367303.2097] [71588] [depth= 1] . ( 547 sec) [ -367219.6522] [71569] [depth= 1] . ( 572 sec) [ -367103.3616] [71575] [depth= 1] . ( 643 sec) [ -367027.6930] [71522] [depth= 7] . ( 692 sec) [ -366993.5322] [71516] [depth= 1] . ( 734 sec) [ -366972.3021] [71516] [depth= 1] . ( 782 sec) [ -366906.9381] [71501] [depth= 3] . ( 806 sec) [ -366780.3474] [71432] [depth= 4] . ( 855 sec) [ -366697.1147] [71400] [depth= 9] . ( 880 sec) [ -366327.2030] [71264] [depth= 7] . ( 950 sec) [ -366299.7423] [71267] [depth= 1] . ( 1000 sec) [ -366276.2880] [71271] [depth= 1] . ( 1029 sec) [ -366229.0645] [71270] [depth= 1] . ( 1054 sec) [ -366225.9293] [71267] [depth= 1] . ( 1101 sec) [ -366222.8633] [71270] [depth= 2] . ( 1184 sec) [ -366178.3597] [71266] [depth= 1] . ( 1248 sec) [ -366174.6960] [71278] [depth= 1] . ( 1323 sec) [ -366166.6771] [71251] [depth= 1] . ( 1359 sec) [ -366136.3021] [71249] [depth= 1] . ( 1389 sec) [ -366108.8860] [71231] [depth= 7] . ( 1445 sec) [ -366020.3449] [71212] [depth= 4] . ( 1471 sec) [ -365934.6914] [71135] [depth= 5] . ( 1496 sec) [ -365929.8617] [71140] [depth= 1] . ( 1531 sec) [ -365885.8893] [71145] [depth= 2] . ( 1581 sec) [ -365881.4562] [71143] [depth= 1] . ( 1608 sec) [ -365864.3021] [71147] [depth= 1] . ( 1649 sec) [ -365825.8596] [71143] [depth= 1] . ( 1693 sec) [ -365764.7606] [71117] [depth= 4] . ( 1718 sec) [ -365666.4977] [71080] [depth= 2] . ( 1778 sec) [ -365430.1861] [70990] [depth= 9] . ( 1817 sec) [ -365407.7230] [70991] [depth= 1] . ( 1844 sec) [ -365395.7962] [70990] [depth= 1] . ( 1870 sec) [ -365334.3067] [70930] [depth= 8] . ( 1897 sec) [ -365315.2264] [70940] [depth= 1] . ( 1923 sec) [ -365284.5831] [70942] [depth= 1] . ( 1948 sec) [ -365219.4002] [70940] [depth= 1] . ( 1966 sec) [ -365218.4065] [70934] [depth= 1] . ( 1991 sec) [ -365137.9914] [70873] [depth= 1] . ( 2022 sec) [ -365120.9474] [70877] [depth= 1] . ( 2044 sec) [ -365079.8314] [70880] [depth= 1] . ( 2068 sec) [ -365063.3396] [70881] [depth= 1] . ( 2110 sec) [ -365016.7147] [70883] [depth= 1] . ( 2147 sec) [ -365002.9586] [70882] [depth= 1] . ( 2173 sec) [ -364929.3508] [70880] [depth= 1] . ( 2201 sec) [ -364916.4274] [70883] [depth= 1] . ( 2282 sec) [ -364912.2576] [70877] [depth= 8] . ( 2333 sec) [ -364882.2286] [70881] [depth= 1] . ( 2394 sec) [ -364874.8900] [70884] [depth= 1] . ( 2463 sec) [ -364828.2144] [70881] [depth= 1] . ( 2507 sec) [ -364820.0398] [70884] [depth= 1] . ( 2589 sec) [ -364817.2346] [70884] [depth= 1] . ( 2617 sec) [ -364747.9871] [70891] [depth= 1] . ( 2675 sec) [ -364724.5513] [70890] [depth= 1] . ( 2703 sec) [ -364466.1270] [70891] [depth= 1] . ( 2728 sec) [ -364388.7698] [70869] [depth= 5] . ( 2765 sec) [ -364365.3703] [70868] [depth= 1] . ( 2801 sec) [ -364278.1772] [70869] [depth= 1] . ( 2852 sec) [ -364229.8186] [70872] [depth= 1] . ( 2951 sec) [ -364211.2456] [70870] [depth= 2] . ( 2988 sec) [ -364207.1846] [70872] [depth= 4] . ( 3037 sec) [ -364172.9434] [70870] [depth= 2] . ( 3128 sec) [ -362570.7356] [Branch lengths ] . ( 3171 sec) [ -362309.1687] [Alpha ][ 0.771723] . ( 3212 sec) [ -362297.8841] [70824] [depth= 7] . ( 3237 sec) [ -362274.1343] [70824] [depth= 1] . ( 3309 sec) [ -362271.2671] [70823] [depth= 1] . ( 3335 sec) [ -362258.9209] [70827] [depth= 1] . ( 3360 sec) [ -362258.0858] [70823] [depth= 1] . ( 3607 sec) [ -362257.3534] [70830] [depth= 1] . ( 3644 sec) [ -362236.5046] [70834] [depth= 1] . ( 3862 sec) [ -362235.8485] [70839] [depth= 1] . ( 4032 sec) [ -362209.6489] [70835] [depth= 1] . ( 4070 sec) [ -362203.7411] [70832] [depth= 1] . ( 4164 sec) [ -362167.5641] [70813] [depth= 4] . ( 4201 sec) [ -362167.1814] [70807] [depth= 1] . ( 4288 sec) [ -362153.6768] [70807] [depth= 3] . ( 4358 sec) [ -362143.3430] [70807] [depth= 1] . ( 4490 sec) [ -362139.8888] [70805] [depth= 1] . ( 4543 sec) [ -362132.5741] [70799] [depth= 1] . ( 4631 sec) [ -362132.3391] [70806] [depth= 1] . ( 4928 sec) [ -362112.7263] [70810] [depth= 10] . ( 5473 sec) [ -362103.8560] [70807] [depth= 1] . ( 5587 sec) [ -361667.7610] [Branch lengths ] . ( 5625 sec) [ -361655.7381] [Alpha ][ 0.818278] . ( 5773 sec) [ -361645.3588] [70807] [depth= 1] . ( 6214 sec) [ -361642.8680] [70812] [depth= 3] . ( 6283 sec) [ -361628.8669] [70810] [depth= 2] . ( 6434 sec) [ -361623.8931] [70805] [depth= 2] . ( 6554 sec) [ -361618.9851] [70792] [depth= 2] . ( 6826 sec) [ -361604.4119] [70794] [depth= 2] . ( 7247 sec) [ -361603.4274] [70790] [depth= 1] . ( 7330 sec) [ -361602.8604] [70796] [depth= 1] . ( 7922 sec) [ -361455.3418] [Branch lengths ] . ( 7960 sec) [ -361454.7979] [Alpha ][ 0.828459] . (10191 sec) [ -361405.8454] [Branch lengths ] . (10205 sec) [ -361405.8454] [Topology ] . (10368 sec) [ -361389.2355] [Topology ] . (10532 sec) [ -361377.6466] [Topology ] . (10695 sec) [ -361373.7640] [Topology ] . (10859 sec) [ -361371.6465] [Topology ] . (11022 sec) [ -361370.3820] [Topology ] . (11186 sec) [ -361369.6033] [Topology ] . (11349 sec) [ -361369.1148] [Topology ] . (11383 sec) [ -361369.1079] [Alpha ][ 0.829537] . (11396 sec) [ -361369.1079] [Topology ] . (11560 sec) [ -361368.8062] [Topology ] . (11723 sec) [ -361368.6140] [Topology ] . (11887 sec) [ -361368.5017] [Topology ] . (12050 sec) [ -361368.4301] [Topology ] . (12214 sec) [ -361368.3982] [Topology ] . (12376 sec) [ -361368.3780] [Topology ] . (12411 sec) [ -361368.3780] [Alpha ][ 0.829537] . (12424 sec) [ -361368.3780] [Topology ] . (12588 sec) [ -361368.3822] [Topology ] . Moving backward . (12619 sec) [ -361367.7475] [Topology ] . (12783 sec) [ -361367.7262] [Topology ] . (12946 sec) [ -361367.7120] [Topology ] . (13110 sec) [ -361367.7024] [Topology ] . (13274 sec) [ -361367.6960] [Topology ] . (13439 sec) [ -361367.6916] [Topology ] . (13473 sec) [ -361367.6916] [Alpha ][ 0.829537] . (13486 sec) [ -361367.6916] [Topology ] . (13651 sec) [ -361367.6886] [Topology ] . (13815 sec) [ -361367.6866] [Topology ] . (13979 sec) [ -361367.6853] [Topology ] . (14142 sec) [ -361367.6843] [Topology ] . (14176 sec) [ -361367.6843] [Alpha ][ 0.829537] . (14190 sec) [ -361367.6843] [Topology ] . (14353 sec) [ -361367.6836] [Topology ] . (14387 sec) [ -361367.6836] [Alpha ][ 0.829537] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -361367.683563. . Printing the most likely tree in file 'proteic_M3755_77x9918_2008.phy_phyml_tree.txt'... . Time used 4h32m17s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 16313.07user 0.00system 4:32:37elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps