.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2624_139x348_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... . 347 patterns found. (out of a total of 348 sites) . 60 sites without polymorphism (17.24%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis will use at least 120Mo of memory space... . Maximizing likelihood (using NNI moves)... . ( 4 sec) [ -13793.7531] [Alpha ][ 0.587356] . ( 5 sec) [ -13793.7531] [Topology ] . ( 17 sec) [ -13520.6553] [Topology ] . ( 31 sec) [ -13438.0077] [Topology ] . ( 44 sec) [ -13368.0135] [Topology ] . ( 57 sec) [ -13341.9865] [Topology ] . ( 70 sec) [ -13331.9316] [Topology ] . ( 83 sec) [ -13325.8669] [Topology ] . ( 96 sec) [ -13316.8766] [Topology ] . ( 109 sec) [ -13310.0047] [Topology ] . ( 121 sec) [ -13302.2940] [Topology ] . Checking for NNIs, optimizing five branches... . ( 244 sec) [ -13284.4697] [Topology ] . ( 247 sec) [ -13279.3145] [Alpha ][ 0.713896] . ( 248 sec) [ -13279.3145] [Topology ] . ( 260 sec) [ -13275.1223] [Topology ] . ( 273 sec) [ -13271.4961] [Topology ] . ( 286 sec) [ -13267.0941] [Topology ] . ( 299 sec) [ -13263.3892] [Topology ] . ( 312 sec) [ -13260.9448] [Topology ] . ( 324 sec) [ -13259.4216] [Topology ] . Checking for NNIs, optimizing five branches... . ( 429 sec) [ -13245.1691] [Topology ] . ( 431 sec) [ -13245.1552] [Alpha ][ 0.721149] . ( 432 sec) [ -13245.1552] [Topology ] . ( 445 sec) [ -13240.8513] [Topology ] . ( 458 sec) [ -13239.8187] [Topology ] . ( 470 sec) [ -13239.1737] [Topology ] . ( 483 sec) [ -13238.7619] [Topology ] . ( 496 sec) [ -13238.6037] [Topology ] . ( 509 sec) [ -13238.5114] [Topology ] . ( 521 sec) [ -13238.4450] [Topology ] . ( 534 sec) [ -13238.3907] [Topology ] . Checking for NNIs, optimizing five branches... . ( 638 sec) [ -13232.8902] [Topology ] . ( 640 sec) [ -13232.8902] [Alpha ][ 0.721149] . ( 641 sec) [ -13232.8902] [Topology ] . ( 654 sec) [ -13231.4025] [Topology ] . ( 666 sec) [ -13230.4220] [Topology ] . ( 679 sec) [ -13230.0884] [Topology ] . ( 692 sec) [ -13229.9880] [Topology ] . ( 704 sec) [ -13229.9371] [Topology ] . ( 717 sec) [ -13229.9090] [Topology ] . ( 730 sec) [ -13229.8927] [Topology ] . ( 743 sec) [ -13229.8830] [Topology ] . Checking for NNIs, optimizing five branches... . ( 849 sec) [ -13225.1200] [Topology ] . ( 851 sec) [ -13225.1200] [Alpha ][ 0.721870] . ( 852 sec) [ -13225.1200] [Topology ] . ( 864 sec) [ -13225.0969] [Topology ] . ( 877 sec) [ -13225.0924] [Topology ] . ( 890 sec) [ -13225.0905] [Topology ] . ( 903 sec) [ -13225.0896] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1008 sec) [ -13220.7379] [Topology ] . ( 1010 sec) [ -13220.7379] [Alpha ][ 0.721870] . ( 1011 sec) [ -13220.7379] [Topology ] . ( 1023 sec) [ -13220.4553] [Topology ] . ( 1036 sec) [ -13220.2922] [Topology ] . ( 1049 sec) [ -13220.2543] [Topology ] . ( 1061 sec) [ -13220.2441] [Topology ] . ( 1074 sec) [ -13220.2414] [Topology ] . ( 1087 sec) [ -13220.2407] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1191 sec) [ -13215.8776] [Topology ] . ( 1193 sec) [ -13215.8776] [Alpha ][ 0.721870] . ( 1194 sec) [ -13215.8776] [Topology ] . ( 1206 sec) [ -13215.8621] [Topology ] . ( 1219 sec) [ -13215.8600] [Topology ] . ( 1231 sec) [ -13215.8594] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1337 sec) [ -13212.4824] [Topology ] . ( 1339 sec) [ -13212.4824] [Alpha ][ 0.721148] . ( 1339 sec) [ -13212.4824] [Topology ] . ( 1352 sec) [ -13209.8751] [Topology ] . ( 1365 sec) [ -13209.3164] [Topology ] . ( 1377 sec) [ -13209.2102] [Topology ] . ( 1390 sec) [ -13208.8807] [Topology ] . ( 1402 sec) [ -13208.0600] [Topology ] . ( 1415 sec) [ -13206.5285] [Topology ] . ( 1428 sec) [ -13205.9782] [Topology ] . ( 1440 sec) [ -13205.8797] [Topology ] . ( 1453 sec) [ -13205.8510] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1566 sec) [ -13204.0406] [Topology ] . ( 1568 sec) [ -13204.0405] [Alpha ][ 0.721870] . ( 1569 sec) [ -13204.0405] [Topology ] . ( 1582 sec) [ -13203.9287] [Topology ] . ( 1594 sec) [ -13203.9275] [Topology ] . ( 1607 sec) [ -13200.1512] [Topology ] . ( 1619 sec) [ -13196.5738] [Topology ] . ( 1632 sec) [ -13194.5729] [Topology ] . ( 1645 sec) [ -13193.8221] [Topology ] . ( 1657 sec) [ -13192.6245] [Topology ] . ( 1670 sec) [ -13191.8344] [Topology ] . ( 1682 sec) [ -13191.6880] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1795 sec) [ -13190.0646] [Topology ] . ( 1797 sec) [ -13190.0630] [Alpha ][ 0.724334] . ( 1798 sec) [ -13190.0630] [Topology ] . ( 1811 sec) [ -13189.5071] [Topology ] . ( 1823 sec) [ -13181.3201] [Topology ] . ( 1836 sec) [ -13179.8319] [Topology ] . ( 1849 sec) [ -13176.6713] [Topology ] . ( 1861 sec) [ -13175.3010] [Topology ] . ( 1874 sec) [ -13172.9735] [Topology ] . ( 1887 sec) [ -13171.0032] [Topology ] . ( 1899 sec) [ -13169.9000] [Topology ] . ( 1912 sec) [ -13169.6685] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2024 sec) [ -13168.5938] [Topology ] . ( 2026 sec) [ -13168.5936] [Alpha ][ 0.725185] . ( 2027 sec) [ -13168.5936] [Topology ] . ( 2039 sec) [ -13168.5688] [Topology ] . ( 2052 sec) [ -13168.5557] [Topology ] . ( 2065 sec) [ -13168.5475] [Topology ] . ( 2077 sec) [ -13168.5421] [Topology ] . ( 2090 sec) [ -13168.5386] [Topology ] . ( 2102 sec) [ -13168.5362] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2202 sec) [ -13167.7703] [Topology ] . ( 2204 sec) [ -13167.7703] [Alpha ][ 0.725185] . ( 2205 sec) [ -13167.7703] [Topology ] . ( 2218 sec) [ -13167.4837] [Topology ] . ( 2230 sec) [ -13167.1672] [Topology ] . ( 2243 sec) [ -13167.1121] [Topology ] . ( 2256 sec) [ -13167.0937] [Topology ] . ( 2268 sec) [ -13167.0864] [Topology ] . ( 2281 sec) [ -13167.0831] [Topology ] . ( 2294 sec) [ -13167.0815] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2393 sec) [ -13166.4656] [Topology ] . ( 2395 sec) [ -13166.4653] [Alpha ][ 0.726195] . ( 2396 sec) [ -13166.4653] [Topology ] . ( 2409 sec) [ -13166.4406] [Topology ] . ( 2422 sec) [ -13166.4354] [Topology ] . ( 2434 sec) [ -13166.4333] [Topology ] . ( 2447 sec) [ -13166.4320] [Topology ] . ( 2459 sec) [ -13166.4312] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2562 sec) [ -13165.1013] [Topology ] . ( 2564 sec) [ -13165.1012] [Alpha ][ 0.726921] . ( 2565 sec) [ -13165.1012] [Topology ] . ( 2578 sec) [ -13165.0844] [Topology ] . ( 2591 sec) [ -13165.0799] [Topology ] . ( 2603 sec) [ -13165.0776] [Topology ] . ( 2616 sec) [ -13165.0761] [Topology ] . ( 2629 sec) [ -13165.0750] [Topology ] . ( 2641 sec) [ -13165.0742] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2743 sec) [ -13164.6526] [Topology ] . ( 2745 sec) [ -13164.6525] [Alpha ][ 0.727648] . ( 2746 sec) [ -13164.6525] [Topology ] . ( 2758 sec) [ -13164.5517] [Topology ] . ( 2771 sec) [ -13164.5181] [Topology ] . ( 2784 sec) [ -13161.2571] [Topology ] . ( 2797 sec) [ -13160.3559] [Topology ] . ( 2809 sec) [ -13157.8482] [Topology ] . ( 2822 sec) [ -13150.2335] [Topology ] . ( 2835 sec) [ -13145.5830] [Topology ] . ( 2848 sec) [ -13144.5284] [Topology ] . ( 2860 sec) [ -13144.3239] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2963 sec) [ -13143.9256] [Topology ] . ( 2965 sec) [ -13143.9254] [Alpha ][ 0.728482] . ( 2966 sec) [ -13143.9254] [Topology ] . ( 2978 sec) [ -13143.8162] [Topology ] . ( 2991 sec) [ -13143.7636] [Topology ] . ( 3004 sec) [ -13143.6201] [Topology ] . ( 3017 sec) [ -13143.5211] [Topology ] . ( 3030 sec) [ -13143.4964] [Topology ] . ( 3042 sec) [ -13143.4849] [Topology ] . ( 3055 sec) [ -13143.4380] [Topology ] . ( 3068 sec) [ -13143.2886] [Topology ] . ( 3081 sec) [ -13143.2536] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3189 sec) [ -13143.1266] [Topology ] . ( 3192 sec) [ -13143.1266] [Alpha ][ 0.728482] . ( 3192 sec) [ -13143.1266] [Topology ] . ( 3205 sec) [ -13143.0260] [Topology ] . ( 3218 sec) [ -13142.9909] [Topology ] . ( 3231 sec) [ -13142.9653] [Topology ] . ( 3244 sec) [ -13142.9432] [Topology ] . ( 3257 sec) [ -13142.9224] [Topology ] . ( 3270 sec) [ -13142.9026] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3365 sec) [ -13142.9016] [Topology ] . ( 3367 sec) [ -13142.9016] [Alpha ][ 0.728482] . ( 3368 sec) [ -13142.9016] [Topology ] . ( 3381 sec) [ -13142.8703] [Topology ] . ( 3394 sec) [ -13142.8461] [Topology ] . ( 3407 sec) [ -13142.8240] [Topology ] . ( 3420 sec) [ -13142.8032] [Topology ] . ( 3432 sec) [ -13142.7865] [Topology ] . ( 3445 sec) [ -13142.7788] [Topology ] . ( 3458 sec) [ -13142.7762] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3554 sec) [ -13142.7752] [Topology ] . ( 3556 sec) [ -13142.7752] [Alpha ][ 0.728482] . ( 3557 sec) [ -13142.7752] [Topology ] . ( 3570 sec) [ -13142.7694] [Topology ] . ( 3583 sec) [ -13142.7651] [Topology ] . ( 3595 sec) [ -13142.7635] [Topology ] . ( 3608 sec) [ -13142.7628] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3706 sec) [ -13142.7628] [Alpha ][ 0.728482] . ( 3707 sec) [ -13142.7628] [Topology ] . ( 3720 sec) [ -13142.7625] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -13142.762463. . Printing the most likely tree in file 'proteic_M2624_139x348_2006.phy_phyml_tree.txt'... . Time used 1h5m13s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 3922.39user 0.00system 1:05:23elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps