.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2899_25x444_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... . 365 patterns found. (out of a total of 444 sites) . 112 sites without polymorphism (25.23%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 21Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 0 sec) [ -10056.3189] [Alpha ][ 0.527413] . ( 0 sec) [ -10056.3189] [Topology ] . ( 2 sec) [ -9992.5648] [Topology ] . ( 4 sec) [ -9980.7430] [Topology ] . ( 6 sec) [ -9970.0285] [Topology ] . ( 8 sec) [ -9967.7955] [Topology ] . ( 10 sec) [ -9966.7252] [Topology ] . ( 12 sec) [ -9966.1293] [Topology ] . ( 14 sec) [ -9965.7364] [Topology ] . ( 15 sec) [ -9965.4689] [Topology ] . ( 17 sec) [ -9965.2838] [Topology ] . Checking for NNIs, optimizing five branches... . ( 34 sec) [ -9961.1497] [Alpha ][ 0.639148] . ( 34 sec) [ -9961.1497] [Topology ] . ( 36 sec) [ -9960.8794] [Topology ] . ( 38 sec) [ -9960.7608] [Topology ] . ( 40 sec) [ -9960.6871] [Topology ] . ( 42 sec) [ -9960.6402] [Topology ] . ( 44 sec) [ -9960.6103] [Topology ] . ( 46 sec) [ -9960.5910] [Topology ] . Checking for NNIs, optimizing five branches... . ( 60 sec) [ -9960.5856] [Alpha ][ 0.643756] . ( 61 sec) [ -9960.5856] [Topology ] . ( 63 sec) [ -9960.5730] [Topology ] . ( 64 sec) [ -9960.5650] [Topology ] . ( 66 sec) [ -9960.5598] [Topology ] . ( 68 sec) [ -9960.5565] [Topology ] . ( 70 sec) [ -9960.5544] [Topology ] . ( 72 sec) [ -9960.5531] [Topology ] . Checking for NNIs, optimizing five branches... . ( 87 sec) [ -9960.5531] [Alpha ][ 0.643756] . ( 87 sec) [ -9960.5531] [Topology ] . ( 89 sec) [ -9960.5522] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 119 sec) [ -10056.3189] [Alpha ][ 0.527413] . ( 121 sec) [ -10055.9442] [ 1783] [depth= 1] . ( 122 sec) [ -10053.8300] [ 1782] [depth= 1] . ( 125 sec) [ -10049.2226] [ 1781] [depth= 1] . ( 125 sec) [ -10048.7893] [ 1785] [depth= 1] . ( 125 sec) [ -10045.8636] [ 1781] [depth= 1] . ( 126 sec) [ -10043.7949] [ 1783] [depth= 1] . ( 127 sec) [ -10037.5562] [ 1779] [depth= 1] . ( 129 sec) [ -10027.9737] [ 1781] [depth= 1] . ( 129 sec) [ -10027.5639] [ 1784] [depth= 1] . ( 129 sec) [ -10026.9130] [ 1782] [depth= 1] . ( 130 sec) [ -10026.2144] [ 1784] [depth= 1] . ( 130 sec) [ -10021.1568] [ 1782] [depth= 1] . ( 130 sec) [ -10013.3564] [ 1782] [depth= 1] . ( 131 sec) [ -10012.6909] [ 1779] [depth= 1] . ( 132 sec) [ -10011.6372] [ 1782] [depth= 1] . ( 132 sec) [ -10006.3388] [ 1782] [depth= 1] . ( 133 sec) [ -10004.2225] [ 1784] [depth= 1] . ( 135 sec) [ -9998.1216] [ 1787] [depth= 1] . ( 135 sec) [ -9998.0778] [ 1782] [depth= 1] . ( 136 sec) [ -9996.5880] [ 1781] [depth= 1] . ( 136 sec) [ -9993.8425] [ 1778] [depth= 1] . ( 136 sec) [ -9992.4525] [ 1780] [depth= 1] . ( 139 sec) [ -9992.0767] [ 1781] [depth= 1] . ( 142 sec) [ -9974.7411] [Branch lengths ] . ( 142 sec) [ -9971.8031] [Alpha ][ 0.623783] . ( 151 sec) [ -9970.9615] [ 1775] [depth= 1] . ( 155 sec) [ -9970.5284] [ 1776] [depth= 1] . ( 160 sec) [ -9968.8445] [ 1780] [depth= 1] . ( 165 sec) [ -9968.6318] [ 1783] [depth= 1] . ( 167 sec) [ -9964.9650] [Branch lengths ] . ( 167 sec) [ -9964.9060] [Alpha ][ 0.638503] . ( 186 sec) [ -9964.5555] [ 1780] [depth= 1] . ( 192 sec) [ -9964.2034] [ 1782] [depth= 1] . ( 193 sec) [ -9962.1992] [Branch lengths ] . ( 194 sec) [ -9962.1964] [Alpha ][ 0.641797] . ( 214 sec) [ -9961.8593] [ 1783] [depth= 1] . ( 226 sec) [ -9960.9768] [Branch lengths ] . ( 226 sec) [ -9960.9763] [Alpha ][ 0.643177] . ( 266 sec) [ -9960.6777] [Branch lengths ] . ( 266 sec) [ -9960.6777] [Topology ] . ( 268 sec) [ -9960.6201] [Topology ] . ( 270 sec) [ -9960.5946] [Topology ] . ( 272 sec) [ -9960.5787] [Topology ] . ( 274 sec) [ -9960.5687] [Topology ] . ( 276 sec) [ -9960.5623] [Topology ] . ( 278 sec) [ -9960.5582] [Topology ] . ( 278 sec) [ -9960.5580] [Alpha ][ 0.643871] . ( 278 sec) [ -9960.5580] [Topology ] . ( 280 sec) [ -9960.5554] [Topology ] . ( 282 sec) [ -9960.5537] [Topology ] . ( 284 sec) [ -9960.5526] [Topology ] . ( 285 sec) [ -9960.5519] [Topology ] . ( 286 sec) [ -9960.5519] [Alpha ][ 0.643871] . ( 286 sec) [ -9960.5519] [Topology ] . ( 288 sec) [ -9960.5514] [Topology ] . ( 288 sec) [ -9960.5514] [Alpha ][ 0.643871] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -9960.552215 . Log likelihood obtained after SPR moves : -9960.551445 . Log likelihood of the current tree: -9960.551445. . Printing the most likely tree in file 'proteic_M2899_25x444_2006.phy_phyml_tree.txt'... . Time used 0h5m3s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 302.36user 0.00system 5:03.70elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps