.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2637_19x380_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 : Best of NNIs and SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 73 patterns found. (out of a total of 380 sites) . 334 sites without polymorphism (87.89%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 4Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 0 sec) [ -1616.6479] [Alpha ][ 0.500960] . ( 0 sec) [ -1616.6479] [Topology ] . ( 1 sec) [ -1613.6198] [Topology ] . ( 1 sec) [ -1613.1692] [Topology ] . ( 2 sec) [ -1613.0031] [Topology ] . ( 2 sec) [ -1612.8750] [Topology ] . ( 3 sec) [ -1612.7126] [Topology ] . ( 3 sec) [ -1612.4940] [Topology ] . Checking for NNIs, optimizing five branches... . ( 6 sec) [ -1609.1034] [Alpha ][ 0.250961] . ( 6 sec) [ -1609.1034] [Topology ] . ( 7 sec) [ -1608.9583] [Topology ] . ( 7 sec) [ -1608.9268] [Topology ] . ( 7 sec) [ -1608.9202] [Topology ] . ( 8 sec) [ -1608.9188] [Topology ] . ( 8 sec) [ -1608.9185] [Topology ] . Checking for NNIs, optimizing five branches... . ( 11 sec) [ -1607.0474] [Alpha ][ 0.125721] . ( 11 sec) [ -1607.0474] [Topology ] . ( 11 sec) [ -1607.0420] [Topology ] . ( 12 sec) [ -1607.0411] [Topology ] . Checking for NNIs, optimizing five branches... . ( 15 sec) [ -1606.5621] [Alpha ][ 0.062981] . ( 15 sec) [ -1606.5621] [Topology ] . ( 15 sec) [ -1606.5613] [Topology ] . Checking for NNIs, optimizing five branches... . ( 19 sec) [ -1606.5202] [Alpha ][ 0.031523] . ( 19 sec) [ -1606.5202] [Topology ] . ( 19 sec) [ -1606.5201] [Topology ] . Checking for NNIs, optimizing five branches... . ( 22 sec) [ -1606.5197] [Alpha ][ 0.015781] . ( 22 sec) [ -1606.5197] [Topology ] . ( 23 sec) [ -1606.5196] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 29 sec) [ -1616.6479] [Alpha ][ 0.500960] . ( 29 sec) [ -1616.6311] [ 66] [depth= 1] . ( 36 sec) [ -1615.9575] [ 66] [depth= 1] . ( 44 sec) [ -1615.0883] [ 66] [depth= 1] . ( 44 sec) [ -1614.9545] [ 66] [depth= 1] . ( 44 sec) [ -1614.8130] [ 66] [depth= 1] . ( 44 sec) [ -1614.8023] [ 66] [depth= 1] . ( 45 sec) [ -1614.1343] [ 66] [depth= 2] . ( 45 sec) [ -1613.7087] [ 66] [depth= 1] . ( 46 sec) [ -1613.6627] [ 66] [depth= 1] . ( 47 sec) [ -1612.3773] [ 66] [depth= 2] . ( 48 sec) [ -1611.5288] [ 66] [depth= 1] . ( 48 sec) [ -1611.4009] [ 66] [depth= 1] . ( 48 sec) [ -1610.3854] [Branch lengths ] . ( 48 sec) [ -1606.9802] [Alpha ][ 0.250961] . ( 78 sec) [ -1606.9552] [Branch lengths ] . ( 78 sec) [ -1606.9552] [Topology ] . ( 79 sec) [ -1606.9547] [Topology ] . ( 79 sec) [ -1605.0786] [Alpha ][ 0.125721] . ( 79 sec) [ -1605.0786] [Topology ] . ( 79 sec) [ -1605.0726] [Topology ] . ( 80 sec) [ -1605.0715] [Topology ] . ( 80 sec) [ -1605.0713] [Topology ] . ( 80 sec) [ -1604.5908] [Alpha ][ 0.062981] . ( 80 sec) [ -1604.5908] [Topology ] . ( 81 sec) [ -1604.5901] [Topology ] . ( 81 sec) [ -1604.5489] [Alpha ][ 0.031523] . ( 81 sec) [ -1604.5489] [Topology ] . ( 81 sec) [ -1604.5488] [Topology ] . ( 81 sec) [ -1604.5484] [Alpha ][ 0.015781] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -1606.519637 . Log likelihood obtained after SPR moves : -1604.548384 . Log likelihood of the current tree: -1604.548384. . Printing the most likely tree in file 'proteic_M2637_19x380_2006.phy_phyml_tree.txt'... . Time used 0h1m24s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 83.54user 0.00system 1:24.05elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps