.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1378_18x1561_2003.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... . 855 patterns found. (out of a total of 1561 sites) . 765 sites without polymorphism (49.01%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 34Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 2 sec) [ -16272.8201] [Alpha ][ 0.500960] . ( 2 sec) [ -16272.8201] [Topology ] . ( 4 sec) [ -16124.4060] [Topology ] . ( 7 sec) [ -16086.2129] [Topology ] . ( 10 sec) [ -16072.3076] [Topology ] . ( 13 sec) [ -16061.1236] [Topology ] . ( 16 sec) [ -16053.0032] [Topology ] . ( 19 sec) [ -16050.9918] [Topology ] . ( 22 sec) [ -16050.3042] [Topology ] . ( 25 sec) [ -16050.2324] [Topology ] . ( 28 sec) [ -16050.2141] [Topology ] . Checking for NNIs, optimizing five branches... . ( 55 sec) [ -16050.0087] [Topology ] . ( 56 sec) [ -16049.2399] [Alpha ][ 0.467378] . ( 56 sec) [ -16049.2399] [Topology ] . ( 59 sec) [ -16049.1251] [Topology ] . ( 62 sec) [ -16049.1165] [Topology ] . ( 65 sec) [ -16049.1154] [Topology ] . ( 68 sec) [ -16049.1151] [Topology ] . Checking for NNIs, optimizing five branches... . ( 92 sec) [ -16048.4517] [Topology ] . ( 93 sec) [ -16048.4488] [Alpha ][ 0.465254] . ( 93 sec) [ -16048.4488] [Topology ] . ( 96 sec) [ -16046.0347] [Topology ] . ( 99 sec) [ -16045.7175] [Topology ] . ( 102 sec) [ -16045.6690] [Topology ] . ( 105 sec) [ -16045.6568] [Topology ] . ( 108 sec) [ -16045.6536] [Topology ] . ( 110 sec) [ -16045.6527] [Topology ] . Checking for NNIs, optimizing five branches... . ( 134 sec) [ -16045.6488] [Alpha ][ 0.467545] . ( 134 sec) [ -16045.6488] [Topology ] . ( 137 sec) [ -16045.6485] [Topology ] . Checking for NNIs, optimizing five branches... . ( 160 sec) [ -16045.6485] [Alpha ][ 0.467545] . ( 161 sec) [ -16045.6485] [Topology ] . ( 163 sec) [ -16045.6484] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 210 sec) [ -16272.8201] [Alpha ][ 0.500960] . ( 214 sec) [ -16264.1231] [ 2165] [depth= 5] . ( 215 sec) [ -16247.5499] [ 2160] [depth= 3] . ( 216 sec) [ -16206.3558] [ 2156] [depth= 2] . ( 217 sec) [ -16188.7553] [ 2153] [depth= 2] . ( 218 sec) [ -16172.6647] [ 2156] [depth= 1] . ( 219 sec) [ -16159.8939] [ 2154] [depth= 2] . ( 219 sec) [ -16152.7174] [ 2157] [depth= 1] . ( 220 sec) [ -16152.5892] [ 2152] [depth= 6] . ( 220 sec) [ -16107.1498] [ 2147] [depth= 4] . ( 221 sec) [ -16105.9109] [ 2144] [depth= 3] . ( 223 sec) [ -16089.6447] [ 2141] [depth= 1] . ( 224 sec) [ -16087.1063] [ 2134] [depth= 1] . ( 226 sec) [ -16080.6675] [ 2136] [depth= 2] . ( 227 sec) [ -16079.8218] [ 2139] [depth= 2] . ( 228 sec) [ -16076.9515] [ 2138] [depth= 1] . ( 233 sec) [ -16076.7579] [ 2136] [depth= 2] . ( 237 sec) [ -16036.3551] [Branch lengths ] . ( 237 sec) [ -16035.0901] [Alpha ][ 0.458010] . ( 255 sec) [ -16033.9401] [ 2139] [depth= 1] . ( 257 sec) [ -16033.2307] [ 2138] [depth= 1] . ( 260 sec) [ -16032.6792] [ 2134] [depth= 1] . ( 269 sec) [ -16031.4201] [ 2138] [depth= 2] . ( 271 sec) [ -16025.1544] [Branch lengths ] . ( 271 sec) [ -16025.1484] [Alpha ][ 0.460801] . ( 288 sec) [ -16025.1280] [ 2135] [depth= 1] . ( 289 sec) [ -16018.5829] [ 2131] [depth= 1] . ( 309 sec) [ -16016.7627] [Branch lengths ] . ( 309 sec) [ -16016.7591] [Alpha ][ 0.462982] . ( 348 sec) [ -16016.6622] [Branch lengths ] . ( 348 sec) [ -16016.6622] [Topology ] . ( 351 sec) [ -16016.6554] [Topology ] . ( 354 sec) [ -16016.6534] [Topology ] . ( 357 sec) [ -16016.6526] [Topology ] . ( 357 sec) [ -16016.6521] [Alpha ][ 0.463697] . ( 357 sec) [ -16016.6521] [Topology ] . ( 360 sec) [ -16016.6517] [Topology ] . ( 361 sec) [ -16016.6517] [Alpha ][ 0.463697] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -16045.648355 . Log likelihood obtained after SPR moves : -16016.651717 . Log likelihood of the current tree: -16016.651717. . Printing the most likely tree in file 'proteic_M1378_18x1561_2003.phy_phyml_tree.txt'... . Time used 0h6m27s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 383.08user 0.00system 6:26.61elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps