.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2480_40x430_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 : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 399 patterns found. (out of a total of 430 sites) . 44 sites without polymorphism (10.23%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 38Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -24093.8919] [Alpha ][ 0.744037] . ( 6 sec) [ -24093.1300] [ 5023] [depth= 1] . ( 7 sec) [ -24074.3469] [ 5017] [depth= 1] . ( 12 sec) [ -24074.2184] [ 5018] [depth= 1] . ( 12 sec) [ -24070.3588] [ 5017] [depth= 1] . ( 13 sec) [ -24070.3081] [ 5010] [depth= 1] . ( 13 sec) [ -24059.4258] [ 5017] [depth= 1] . ( 14 sec) [ -24053.8688] [ 5012] [depth= 1] . ( 15 sec) [ -24053.8338] [ 5016] [depth= 1] . ( 15 sec) [ -24044.7092] [ 5012] [depth= 1] . ( 16 sec) [ -24041.4949] [ 5006] [depth= 1] . ( 16 sec) [ -24038.2194] [ 5009] [depth= 1] . ( 17 sec) [ -24037.4616] [ 5006] [depth= 1] . ( 18 sec) [ -24034.8911] [ 5009] [depth= 1] . ( 19 sec) [ -24028.1894] [ 5009] [depth= 2] . ( 20 sec) [ -24027.4720] [ 5011] [depth= 1] . ( 21 sec) [ -24017.8850] [ 5013] [depth= 1] . ( 23 sec) [ -24015.8225] [ 5013] [depth= 1] . ( 23 sec) [ -24010.0331] [ 5012] [depth= 1] . ( 24 sec) [ -23998.2863] [ 5011] [depth= 1] . ( 24 sec) [ -23993.8977] [ 5005] [depth= 3] . ( 25 sec) [ -23993.4091] [ 5007] [depth= 1] . ( 27 sec) [ -23991.7665] [ 5006] [depth= 1] . ( 28 sec) [ -23982.2916] [ 5007] [depth= 1] . ( 28 sec) [ -23978.7872] [ 5007] [depth= 1] . ( 29 sec) [ -23973.4050] [ 5007] [depth= 1] . ( 29 sec) [ -23966.9241] [ 5005] [depth= 1] . ( 30 sec) [ -23964.7344] [ 5007] [depth= 1] . ( 37 sec) [ -23963.0203] [ 5010] [depth= 1] . ( 37 sec) [ -23961.9891] [ 5007] [depth= 1] . ( 41 sec) [ -23892.1227] [Branch lengths ] . ( 42 sec) [ -23887.7439] [Alpha ][ 0.870589] . ( 56 sec) [ -23886.1656] [ 5007] [depth= 1] . ( 83 sec) [ -23880.5868] [Branch lengths ] . ( 84 sec) [ -23880.4813] [Alpha ][ 0.892537] . ( 126 sec) [ -23879.5816] [Branch lengths ] . ( 126 sec) [ -23879.5816] [Topology ] . ( 130 sec) [ -23878.0499] [Topology ] . ( 133 sec) [ -23877.7849] [Topology ] . ( 136 sec) [ -23877.7482] [Topology ] . ( 140 sec) [ -23877.7360] [Topology ] . ( 143 sec) [ -23877.7307] [Topology ] . ( 146 sec) [ -23877.7281] [Topology ] . ( 149 sec) [ -23877.7268] [Topology ] . ( 150 sec) [ -23877.6630] [Alpha ][ 0.909862] . ( 150 sec) [ -23877.6630] [Topology ] . ( 153 sec) [ -23877.6554] [Topology ] . ( 157 sec) [ -23877.6520] [Topology ] . ( 160 sec) [ -23877.6503] [Topology ] . ( 163 sec) [ -23877.6494] [Topology ] . ( 164 sec) [ -23877.6487] [Alpha ][ 0.911614] . ( 164 sec) [ -23877.6487] [Topology ] . ( 167 sec) [ -23877.6480] [Topology ] . ( 168 sec) [ -23877.6480] [Alpha ][ 0.911614] . Checking for NNIs, optimizing five branches... . ( 196 sec) [ -23877.3394] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -23877.339434. . Printing the most likely tree in file 'proteic_M2480_40x430_2005.phy_phyml_tree.txt'... . Time used 0h3m45s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 224.18user 0.00system 3:45.68elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps