.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2577_40x12260_2005.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... . 11473 patterns found. (out of a total of 12260 sites) . 2202 sites without polymorphism (17.96%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis requires at least 1075Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 27 sec) [ -342472.8948] [Alpha ][ 0.708084] . ( 35 sec) [ -342472.8948] [Topology ] . ( 124 sec) [ -340651.1021] [Topology ] . ( 224 sec) [ -340371.5817] [Topology ] . ( 317 sec) [ -340229.5774] [Topology ] . ( 414 sec) [ -340191.8149] [Topology ] . ( 506 sec) [ -340129.4716] [Topology ] . ( 603 sec) [ -340147.1150] [Topology ] . Moving backward . ( 620 sec) [ -340030.2839] [Topology ] . ( 713 sec) [ -340005.3645] [Topology ] . ( 806 sec) [ -339997.7500] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2204 sec) [ -339920.7063] [Alpha ][ 0.827808] . ( 2211 sec) [ -339920.7063] [Topology ] . ( 2303 sec) [ -339914.9712] [Topology ] . ( 2397 sec) [ -339912.2371] [Topology ] . ( 2490 sec) [ -339910.6755] [Topology ] . ( 2583 sec) [ -339909.7699] [Topology ] . ( 2676 sec) [ -339909.2204] [Topology ] . ( 2770 sec) [ -339908.8818] [Topology ] . Checking for NNIs, optimizing five branches... . ( 4019 sec) [ -339908.7262] [Alpha ][ 0.833906] . ( 4026 sec) [ -339908.7262] [Topology ] . ( 4119 sec) [ -339908.4906] [Topology ] . ( 4212 sec) [ -339908.3357] [Topology ] . ( 4305 sec) [ -339908.2297] [Topology ] . ( 4398 sec) [ -339908.1526] [Topology ] . ( 4492 sec) [ -339908.0946] [Topology ] . ( 4585 sec) [ -339908.0488] [Topology ] . Checking for NNIs, optimizing five branches... . ( 5802 sec) [ -339908.0476] [Alpha ][ 0.834740] . ( 5810 sec) [ -339908.0476] [Topology ] . ( 5903 sec) [ -339908.0103] [Topology ] . ( 5996 sec) [ -339907.9793] [Topology ] . ( 6091 sec) [ -339907.9532] [Topology ] . ( 6184 sec) [ -339907.9307] [Topology ] . ( 6278 sec) [ -339907.9112] [Topology ] . ( 6372 sec) [ -339907.8942] [Topology ] . Checking for NNIs, optimizing five branches... . ( 7588 sec) [ -339907.8942] [Alpha ][ 0.834740] . ( 7595 sec) [ -339907.8942] [Topology ] . ( 7688 sec) [ -339907.8793] [Topology ] . ( 7781 sec) [ -339907.8662] [Topology ] . ( 7873 sec) [ -339907.8547] [Topology ] . ( 7966 sec) [ -339907.8445] [Topology ] . ( 8059 sec) [ -339907.8356] [Topology ] . ( 8152 sec) [ -339907.8276] [Topology ] . Checking for NNIs, optimizing five branches... . ( 9340 sec) [ -339907.8276] [Alpha ][ 0.834740] . ( 9347 sec) [ -339907.8276] [Topology ] . ( 9440 sec) [ -339907.8206] [Topology ] . ( 9533 sec) [ -339907.8144] [Topology ] . ( 9626 sec) [ -339907.8089] [Topology ] . ( 9719 sec) [ -339907.8041] [Topology ] . ( 9812 sec) [ -339907.7998] [Topology ] . ( 9905 sec) [ -339907.7960] [Topology ] . Checking for NNIs, optimizing five branches... . (11083 sec) [ -339907.7960] [Alpha ][ 0.834740] . (11091 sec) [ -339907.7960] [Topology ] . (11183 sec) [ -339907.7927] [Topology ] . (11276 sec) [ -339907.7898] [Topology ] . (11369 sec) [ -339907.7872] [Topology ] . (11462 sec) [ -339907.7849] [Topology ] . (11555 sec) [ -339907.7828] [Topology ] . (11648 sec) [ -339907.7811] [Topology ] . Checking for NNIs, optimizing five branches... . (12819 sec) [ -339907.7811] [Alpha ][ 0.834740] . (12826 sec) [ -339907.7811] [Topology ] . (12919 sec) [ -339907.7794] [Topology ] . (13012 sec) [ -339907.7780] [Topology ] . (13105 sec) [ -339907.7768] [Topology ] . (13198 sec) [ -339907.7757] [Topology ] . (13291 sec) [ -339907.7747] [Topology ] . Checking for NNIs, optimizing five branches... . (14455 sec) [ -339907.7747] [Alpha ][ 0.834740] . (14463 sec) [ -339907.7747] [Topology ] . (14556 sec) [ -339907.7739] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -339907.773852. . Printing the most likely tree in file 'proteic_M2577_40x12260_2005.phy_phyml_tree.txt'... . Time used 4h41m9s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 16797.73user 0.00system 4:41:18elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps