.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2879_70x800_2006.phy . Data type : dna . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : GTR . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Nucleotide equilibrium frequencies : empirical . 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... . 466 patterns found. (out of a total of 800 sites) . 405 sites without polymorphism (50.62%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 17Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 3 sec) [ -5870.6391] [GTR parameters ] . ( 3 sec) [ -5850.1279] [Alpha ][ 0.500960] . ( 3 sec) [ -5849.0298] [ 886] [depth= 2] . ( 4 sec) [ -5847.8815] [ 882] [depth= 2] . ( 4 sec) [ -5843.0459] [ 879] [depth= 1] . ( 4 sec) [ -5842.3928] [ 879] [depth= 1] . ( 5 sec) [ -5834.5573] [ 876] [depth= 1] . ( 6 sec) [ -5833.5563] [ 876] [depth= 1] . ( 6 sec) [ -5833.2548] [ 876] [depth= 1] . ( 6 sec) [ -5832.6080] [ 876] [depth= 1] . ( 7 sec) [ -5832.5486] [ 876] [depth= 2] . ( 7 sec) [ -5832.4802] [ 876] [depth= 2] . ( 7 sec) [ -5832.2853] [ 876] [depth= 1] . ( 7 sec) [ -5832.1333] [ 876] [depth= 2] . ( 7 sec) [ -5832.1196] [ 876] [depth= 1] . ( 7 sec) [ -5832.1086] [ 876] [depth= 1] . ( 8 sec) [ -5828.7103] [ 877] [depth= 2] . ( 8 sec) [ -5827.7611] [ 877] [depth= 1] . ( 8 sec) [ -5827.5866] [ 877] [depth= 1] . ( 9 sec) [ -5827.4230] [ 877] [depth= 1] . ( 9 sec) [ -5827.2898] [ 877] [depth= 1] . ( 9 sec) [ -5826.9139] [ 877] [depth= 1] . ( 9 sec) [ -5826.5248] [ 877] [depth= 1] . ( 9 sec) [ -5826.4868] [ 877] [depth= 1] . ( 9 sec) [ -5825.5208] [ 877] [depth= 1] . ( 9 sec) [ -5825.4829] [ 877] [depth= 1] . ( 10 sec) [ -5824.6106] [ 877] [depth= 3] . ( 10 sec) [ -5820.1902] [ 876] [depth= 2] . ( 10 sec) [ -5819.4899] [ 876] [depth= 2] . ( 10 sec) [ -5816.8737] [ 876] [depth= 1] . ( 10 sec) [ -5816.5891] [ 876] [depth= 1] . ( 10 sec) [ -5816.5549] [ 876] [depth= 1] . ( 10 sec) [ -5815.9775] [ 876] [depth= 1] . ( 12 sec) [ -5815.0190] [ 876] [depth= 1] . ( 12 sec) [ -5814.4247] [ 876] [depth= 1] . ( 12 sec) [ -5812.2559] [ 876] [depth= 5] . ( 12 sec) [ -5812.1875] [ 876] [depth= 2] . ( 12 sec) [ -5811.8596] [ 876] [depth= 2] . ( 12 sec) [ -5810.8998] [ 876] [depth= 1] . ( 12 sec) [ -5810.8832] [ 876] [depth= 1] . ( 13 sec) [ -5810.8112] [ 876] [depth= 1] . ( 13 sec) [ -5810.6719] [ 876] [depth= 1] . ( 13 sec) [ -5810.5887] [ 876] [depth= 2] . ( 13 sec) [ -5810.4954] [ 876] [depth= 2] . ( 13 sec) [ -5810.0636] [ 876] [depth= 1] . ( 13 sec) [ -5809.8551] [ 876] [depth= 2] . ( 14 sec) [ -5809.6153] [ 876] [depth= 2] . ( 14 sec) [ -5809.5584] [ 876] [depth= 4] . ( 14 sec) [ -5809.4183] [ 876] [depth= 3] . ( 14 sec) [ -5809.3957] [ 876] [depth= 3] . ( 15 sec) [ -5809.3839] [ 876] [depth= 1] . ( 15 sec) [ -5786.0281] [Branch lengths ] . ( 17 sec) [ -5785.5692] [GTR parameters ] . ( 17 sec) [ -5784.8313] [Alpha ][ 0.561078] . ( 20 sec) [ -5784.8208] [ 876] [depth= 2] . ( 22 sec) [ -5784.7844] [ 876] [depth= 1] . ( 23 sec) [ -5784.7719] [ 876] [depth= 1] . ( 23 sec) [ -5784.7521] [ 876] [depth= 2] . ( 24 sec) [ -5784.7291] [ 876] [depth= 1] . ( 24 sec) [ -5784.6829] [ 876] [depth= 1] . ( 25 sec) [ -5784.6496] [ 876] [depth= 1] . ( 26 sec) [ -5784.5670] [ 876] [depth= 3] . ( 27 sec) [ -5784.5465] [ 876] [depth= 2] . ( 27 sec) [ -5784.5202] [ 876] [depth= 3] . ( 28 sec) [ -5784.4882] [ 876] [depth= 2] . ( 28 sec) [ -5784.4751] [ 876] [depth= 2] . ( 29 sec) [ -5784.4639] [ 876] [depth= 4] . ( 29 sec) [ -5784.3613] [ 876] [depth= 2] . ( 32 sec) [ -5782.4588] [Branch lengths ] . ( 34 sec) [ -5782.4273] [GTR parameters ] . ( 34 sec) [ -5782.4218] [Alpha ][ 0.566722] . ( 42 sec) [ -5782.3954] [ 876] [depth= 1] . ( 46 sec) [ -5782.1994] [Branch lengths ] . ( 47 sec) [ -5782.1983] [GTR parameters ] . ( 47 sec) [ -5782.1981] [Alpha ][ 0.567818] . ( 123 sec) [ -5782.1745] [Branch lengths ] . ( 123 sec) [ -5782.1745] [Topology ] . ( 126 sec) [ -5782.1718] [Topology ] . ( 128 sec) [ -5782.1706] [Topology ] . ( 130 sec) [ -5782.1698] [Topology ] . ( 132 sec) [ -5782.1694] [GTR parameters ] . ( 132 sec) [ -5782.1694] [Alpha ][ 0.568385] . ( 132 sec) [ -5782.1694] [Topology ] . ( 135 sec) [ -5782.1687] [Topology ] . ( 135 sec) [ -5782.1687] [GTR parameters ] . ( 135 sec) [ -5782.1687] [Alpha ][ 0.568385] . Checking for NNIs, optimizing five branches... . ( 150 sec) [ -5782.1686] [Topology ] . Checking for NNIs, optimizing five branches... . ( 166 sec) [ -5782.1678] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5782.167801. . Printing the most likely tree in file 'nucleic_M2879_70x800_2006.phy_phyml_tree.txt'... . Time used 0h3m3s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 148.89user 0.00system 3:03.19elapsed 81%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps