.......................... 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 ] . ( 122 sec) [ -13302.2940] [Topology ] . Checking for NNIs, optimizing five branches... . ( 246 sec) [ -13284.4697] [Topology ] . ( 248 sec) [ -13279.3145] [Alpha ][ 0.713896] . ( 249 sec) [ -13279.3145] [Topology ] . ( 262 sec) [ -13275.1223] [Topology ] . ( 275 sec) [ -13271.4961] [Topology ] . ( 287 sec) [ -13267.0941] [Topology ] . ( 300 sec) [ -13263.3892] [Topology ] . ( 313 sec) [ -13260.9448] [Topology ] . ( 326 sec) [ -13259.4216] [Topology ] . Checking for NNIs, optimizing five branches... . ( 431 sec) [ -13245.1691] [Topology ] . ( 433 sec) [ -13245.1552] [Alpha ][ 0.721149] . ( 434 sec) [ -13245.1552] [Topology ] . ( 447 sec) [ -13240.8513] [Topology ] . ( 459 sec) [ -13239.8187] [Topology ] . ( 472 sec) [ -13239.1737] [Topology ] . ( 485 sec) [ -13238.7619] [Topology ] . ( 498 sec) [ -13238.6037] [Topology ] . ( 510 sec) [ -13238.5114] [Topology ] . ( 523 sec) [ -13238.4450] [Topology ] . ( 536 sec) [ -13238.3907] [Topology ] . Checking for NNIs, optimizing five branches... . ( 640 sec) [ -13232.8902] [Topology ] . ( 642 sec) [ -13232.8902] [Alpha ][ 0.721149] . ( 643 sec) [ -13232.8902] [Topology ] . ( 655 sec) [ -13231.4025] [Topology ] . ( 668 sec) [ -13230.4220] [Topology ] . ( 683 sec) [ -13230.0884] [Topology ] . ( 696 sec) [ -13229.9880] [Topology ] . ( 710 sec) [ -13229.9371] [Topology ] . ( 727 sec) [ -13229.9090] [Topology ] . ( 741 sec) [ -13229.8927] [Topology ] . ( 754 sec) [ -13229.8830] [Topology ] . Checking for NNIs, optimizing five branches... . ( 880 sec) [ -13225.1200] [Topology ] . ( 883 sec) [ -13225.1200] [Alpha ][ 0.721870] . ( 884 sec) [ -13225.1200] [Topology ] . ( 897 sec) [ -13225.0969] [Topology ] . ( 910 sec) [ -13225.0924] [Topology ] . ( 923 sec) [ -13225.0905] [Topology ] . ( 935 sec) [ -13225.0896] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1041 sec) [ -13220.7379] [Topology ] . ( 1043 sec) [ -13220.7379] [Alpha ][ 0.721870] . ( 1044 sec) [ -13220.7379] [Topology ] . ( 1056 sec) [ -13220.4553] [Topology ] . ( 1069 sec) [ -13220.2922] [Topology ] . ( 1082 sec) [ -13220.2543] [Topology ] . ( 1094 sec) [ -13220.2441] [Topology ] . ( 1107 sec) [ -13220.2414] [Topology ] . ( 1120 sec) [ -13220.2407] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1224 sec) [ -13215.8776] [Topology ] . ( 1226 sec) [ -13215.8776] [Alpha ][ 0.721870] . ( 1227 sec) [ -13215.8776] [Topology ] . ( 1240 sec) [ -13215.8621] [Topology ] . ( 1252 sec) [ -13215.8600] [Topology ] . ( 1265 sec) [ -13215.8594] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1370 sec) [ -13212.4824] [Topology ] . ( 1372 sec) [ -13212.4824] [Alpha ][ 0.721148] . ( 1373 sec) [ -13212.4824] [Topology ] . ( 1386 sec) [ -13209.8751] [Topology ] . ( 1398 sec) [ -13209.3164] [Topology ] . ( 1411 sec) [ -13209.2102] [Topology ] . ( 1423 sec) [ -13208.8807] [Topology ] . ( 1436 sec) [ -13208.0600] [Topology ] . ( 1449 sec) [ -13206.5285] [Topology ] . ( 1461 sec) [ -13205.9782] [Topology ] . ( 1474 sec) [ -13205.8797] [Topology ] . ( 1486 sec) [ -13205.8510] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1600 sec) [ -13204.0406] [Topology ] . ( 1602 sec) [ -13204.0405] [Alpha ][ 0.721870] . ( 1603 sec) [ -13204.0405] [Topology ] . ( 1615 sec) [ -13203.9287] [Topology ] . ( 1628 sec) [ -13203.9275] [Topology ] . ( 1640 sec) [ -13200.1512] [Topology ] . ( 1653 sec) [ -13196.5738] [Topology ] . ( 1666 sec) [ -13194.5729] [Topology ] . ( 1678 sec) [ -13193.8221] [Topology ] . ( 1691 sec) [ -13192.6245] [Topology ] . ( 1703 sec) [ -13191.8344] [Topology ] . ( 1716 sec) [ -13191.6880] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1829 sec) [ -13190.0646] [Topology ] . ( 1831 sec) [ -13190.0630] [Alpha ][ 0.724334] . ( 1832 sec) [ -13190.0630] [Topology ] . ( 1844 sec) [ -13189.5071] [Topology ] . ( 1857 sec) [ -13181.3201] [Topology ] . ( 1870 sec) [ -13179.8319] [Topology ] . ( 1882 sec) [ -13176.6713] [Topology ] . ( 1895 sec) [ -13175.3010] [Topology ] . ( 1908 sec) [ -13172.9735] [Topology ] . ( 1921 sec) [ -13171.0032] [Topology ] . ( 1933 sec) [ -13169.9000] [Topology ] . ( 1946 sec) [ -13169.6685] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2058 sec) [ -13168.5938] [Topology ] . ( 2060 sec) [ -13168.5936] [Alpha ][ 0.725185] . ( 2061 sec) [ -13168.5936] [Topology ] . ( 2074 sec) [ -13168.5688] [Topology ] . ( 2086 sec) [ -13168.5557] [Topology ] . ( 2099 sec) [ -13168.5475] [Topology ] . ( 2111 sec) [ -13168.5421] [Topology ] . ( 2124 sec) [ -13168.5386] [Topology ] . ( 2137 sec) [ -13168.5362] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2236 sec) [ -13167.7703] [Topology ] . ( 2238 sec) [ -13167.7703] [Alpha ][ 0.725185] . ( 2239 sec) [ -13167.7703] [Topology ] . ( 2252 sec) [ -13167.4837] [Topology ] . ( 2264 sec) [ -13167.1672] [Topology ] . ( 2277 sec) [ -13167.1121] [Topology ] . ( 2290 sec) [ -13167.0937] [Topology ] . ( 2303 sec) [ -13167.0864] [Topology ] . ( 2315 sec) [ -13167.0831] [Topology ] . ( 2328 sec) [ -13167.0815] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2428 sec) [ -13166.4656] [Topology ] . ( 2430 sec) [ -13166.4653] [Alpha ][ 0.726195] . ( 2430 sec) [ -13166.4653] [Topology ] . ( 2443 sec) [ -13166.4406] [Topology ] . ( 2456 sec) [ -13166.4354] [Topology ] . ( 2468 sec) [ -13166.4333] [Topology ] . ( 2481 sec) [ -13166.4320] [Topology ] . ( 2494 sec) [ -13166.4312] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2596 sec) [ -13165.1013] [Topology ] . ( 2599 sec) [ -13165.1012] [Alpha ][ 0.726921] . ( 2599 sec) [ -13165.1012] [Topology ] . ( 2612 sec) [ -13165.0844] [Topology ] . ( 2625 sec) [ -13165.0799] [Topology ] . ( 2637 sec) [ -13165.0776] [Topology ] . ( 2650 sec) [ -13165.0761] [Topology ] . ( 2663 sec) [ -13165.0750] [Topology ] . ( 2675 sec) [ -13165.0742] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2777 sec) [ -13164.6526] [Topology ] . ( 2779 sec) [ -13164.6525] [Alpha ][ 0.727648] . ( 2780 sec) [ -13164.6525] [Topology ] . ( 2792 sec) [ -13164.5517] [Topology ] . ( 2805 sec) [ -13164.5181] [Topology ] . ( 2818 sec) [ -13161.2571] [Topology ] . ( 2830 sec) [ -13160.3559] [Topology ] . ( 2843 sec) [ -13157.8482] [Topology ] . ( 2856 sec) [ -13150.2335] [Topology ] . ( 2869 sec) [ -13145.5830] [Topology ] . ( 2881 sec) [ -13144.5284] [Topology ] . ( 2894 sec) [ -13144.3239] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2996 sec) [ -13143.9256] [Topology ] . ( 2999 sec) [ -13143.9254] [Alpha ][ 0.728482] . ( 2999 sec) [ -13143.9254] [Topology ] . ( 3012 sec) [ -13143.8162] [Topology ] . ( 3025 sec) [ -13143.7636] [Topology ] . ( 3038 sec) [ -13143.6201] [Topology ] . ( 3050 sec) [ -13143.5211] [Topology ] . ( 3063 sec) [ -13143.4964] [Topology ] . ( 3076 sec) [ -13143.4849] [Topology ] . ( 3089 sec) [ -13143.4380] [Topology ] . ( 3102 sec) [ -13143.2886] [Topology ] . ( 3115 sec) [ -13143.2536] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3223 sec) [ -13143.1266] [Topology ] . ( 3225 sec) [ -13143.1266] [Alpha ][ 0.728482] . ( 3226 sec) [ -13143.1266] [Topology ] . ( 3239 sec) [ -13143.0260] [Topology ] . ( 3251 sec) [ -13142.9909] [Topology ] . ( 3264 sec) [ -13142.9653] [Topology ] . ( 3277 sec) [ -13142.9432] [Topology ] . ( 3290 sec) [ -13142.9224] [Topology ] . ( 3303 sec) [ -13142.9026] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3398 sec) [ -13142.9016] [Topology ] . ( 3400 sec) [ -13142.9016] [Alpha ][ 0.728482] . ( 3401 sec) [ -13142.9016] [Topology ] . ( 3414 sec) [ -13142.8703] [Topology ] . ( 3427 sec) [ -13142.8461] [Topology ] . ( 3440 sec) [ -13142.8240] [Topology ] . ( 3452 sec) [ -13142.8032] [Topology ] . ( 3465 sec) [ -13142.7865] [Topology ] . ( 3478 sec) [ -13142.7788] [Topology ] . ( 3491 sec) [ -13142.7762] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3587 sec) [ -13142.7752] [Topology ] . ( 3589 sec) [ -13142.7752] [Alpha ][ 0.728482] . ( 3590 sec) [ -13142.7752] [Topology ] . ( 3603 sec) [ -13142.7694] [Topology ] . ( 3616 sec) [ -13142.7651] [Topology ] . ( 3628 sec) [ -13142.7635] [Topology ] . ( 3641 sec) [ -13142.7628] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3739 sec) [ -13142.7628] [Alpha ][ 0.728482] . ( 3740 sec) [ -13142.7628] [Topology ] . ( 3753 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 1h5m46s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 3923.18user 0.00system 1:05:56elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps