.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2624_139x348_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 : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 347 patterns found. (out of a total of 348 sites) . 60 sites without polymorphism (17.24%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis will use at least 120Mo of memory space... . Maximizing likelihood (using SPR moves)... . ( 3 sec) [ -13793.7531] [Alpha ][ 0.587356] . ( 8 sec) [ -13793.5943] [ 2318] [depth= 1] . ( 10 sec) [ -13793.3766] [ 2318] [depth= 1] . ( 11 sec) [ -13793.3429] [ 2318] [depth= 1] . ( 16 sec) [ -13793.1509] [ 2318] [depth= 1] . ( 18 sec) [ -13792.4523] [ 2318] [depth= 1] . ( 19 sec) [ -13792.4316] [ 2318] [depth= 1] . ( 31 sec) [ -13775.7445] [ 2318] [depth= 1] . ( 32 sec) [ -13765.9972] [ 2318] [depth= 1] . ( 41 sec) [ -13756.6095] [ 2315] [depth= 2] . ( 43 sec) [ -13756.2925] [ 2318] [depth= 1] . ( 46 sec) [ -13754.9427] [ 2315] [depth= 1] . ( 50 sec) [ -13754.3792] [ 2319] [depth= 1] . ( 62 sec) [ -13748.0524] [ 2324] [depth= 2] . ( 64 sec) [ -13739.8797] [ 2320] [depth= 2] . ( 66 sec) [ -13735.9151] [ 2321] [depth= 1] . ( 67 sec) [ -13733.5529] [ 2321] [depth= 1] . ( 69 sec) [ -13726.0345] [ 2318] [depth= 1] . ( 82 sec) [ -13706.1504] [ 2316] [depth= 4] . ( 83 sec) [ -13676.8374] [ 2305] [depth= 9] . ( 85 sec) [ -13675.9165] [ 2307] [depth= 7] . ( 112 sec) [ -13663.2889] [ 2306] [depth= 1] . ( 114 sec) [ -13663.0499] [ 2306] [depth= 2] . ( 126 sec) [ -13653.1229] [ 2305] [depth= 1] . ( 133 sec) [ -13651.3550] [ 2305] [depth= 1] . ( 141 sec) [ -13626.6391] [ 2293] [depth= 11] . ( 143 sec) [ -13623.2763] [ 2292] [depth= 1] . ( 144 sec) [ -13601.5735] [ 2288] [depth= 7] . ( 146 sec) [ -13570.6331] [ 2281] [depth= 6] . ( 148 sec) [ -13526.8637] [ 2269] [depth= 11] . ( 149 sec) [ -13520.5355] [ 2268] [depth= 1] . ( 151 sec) [ -13513.9596] [ 2268] [depth= 2] . ( 152 sec) [ -13493.1363] [ 2262] [depth= 5] . ( 154 sec) [ -13477.9599] [ 2262] [depth= 3] . ( 155 sec) [ -13466.6384] [ 2262] [depth= 1] . ( 157 sec) [ -13374.7411] [ 2238] [depth= 11] . ( 160 sec) [ -13372.3376] [ 2238] [depth= 2] . ( 162 sec) [ -13368.7876] [ 2237] [depth= 3] . ( 170 sec) [ -13362.1308] [ 2235] [depth= 3] . ( 172 sec) [ -13360.1275] [ 2235] [depth= 3] . ( 173 sec) [ -13359.8561] [ 2235] [depth= 1] . ( 175 sec) [ -13349.3757] [ 2233] [depth= 2] . ( 179 sec) [ -13339.0267] [ 2228] [depth= 6] . ( 180 sec) [ -13293.7497] [ 2214] [depth= 14] . ( 181 sec) [ -13292.6002] [ 2213] [depth= 1] . ( 183 sec) [ -13292.2884] [ 2212] [depth= 3] . ( 188 sec) [ -13290.5210] [ 2212] [depth= 1] . ( 189 sec) [ -13290.3000] [ 2213] [depth= 1] . ( 192 sec) [ -13289.4927] [ 2215] [depth= 1] . ( 196 sec) [ -13286.9914] [ 2216] [depth= 1] . ( 198 sec) [ -13285.9712] [ 2214] [depth= 1] . ( 201 sec) [ -13284.1159] [ 2212] [depth= 6] . ( 202 sec) [ -13268.6962] [ 2210] [depth= 12] . ( 203 sec) [ -13268.3357] [ 2208] [depth= 1] . ( 205 sec) [ -13267.0741] [ 2208] [depth= 1] . ( 206 sec) [ -13266.7426] [ 2208] [depth= 1] . ( 209 sec) [ -13264.0041] [ 2208] [depth= 1] . ( 211 sec) [ -13263.9403] [ 2208] [depth= 1] . ( 212 sec) [ -13263.5602] [ 2208] [depth= 1] . ( 229 sec) [ -13259.5980] [ 2209] [depth= 1] . ( 230 sec) [ -13236.4215] [ 2208] [depth= 2] . ( 231 sec) [ -13235.0346] [ 2206] [depth= 2] . ( 236 sec) [ -13233.2562] [ 2207] [depth= 1] . ( 241 sec) [ -13232.2852] [ 2208] [depth= 1] . ( 243 sec) [ -13231.1487] [ 2207] [depth= 4] . ( 247 sec) [ -13203.3142] [ 2200] [depth= 8] . ( 250 sec) [ -13202.8258] [ 2201] [depth= 1] . ( 252 sec) [ -13201.8187] [ 2200] [depth= 1] . ( 257 sec) [ -13200.6499] [ 2202] [depth= 2] . ( 259 sec) [ -13197.0671] [ 2202] [depth= 1] . ( 261 sec) [ -13196.3461] [ 2201] [depth= 1] . ( 274 sec) [ -13192.7648] [ 2202] [depth= 2] . ( 276 sec) [ -13173.5052] [ 2197] [depth= 6] . ( 279 sec) [ -13173.3332] [ 2197] [depth= 1] . ( 281 sec) [ -13171.7260] [ 2195] [depth= 3] . ( 283 sec) [ -13171.2663] [ 2195] [depth= 2] . ( 284 sec) [ -13164.6161] [ 2195] [depth= 1] . ( 286 sec) [ -13141.6081] [ 2192] [depth= 6] . ( 287 sec) [ -13135.8094] [ 2192] [depth= 3] . ( 289 sec) [ -13135.2979] [ 2192] [depth= 3] . ( 291 sec) [ -13107.4538] [ 2187] [depth= 12] . ( 293 sec) [ -13107.4156] [ 2187] [depth= 5] . ( 295 sec) [ -13105.8293] [ 2187] [depth= 1] . ( 297 sec) [ -13105.4432] [ 2187] [depth= 2] . ( 300 sec) [ -13104.9557] [ 2187] [depth= 2] . ( 302 sec) [ -13101.8807] [ 2186] [depth= 3] . ( 304 sec) [ -13100.9820] [ 2186] [depth= 1] . ( 305 sec) [ -13100.1709] [ 2186] [depth= 1] . ( 306 sec) [ -13099.5573] [ 2187] [depth= 1] . ( 314 sec) [ -13099.1565] [ 2187] [depth= 2] . ( 316 sec) [ -13098.0531] [ 2187] [depth= 2] . ( 319 sec) [ -13097.5354] [ 2187] [depth= 1] . ( 324 sec) [ -13097.1396] [ 2187] [depth= 1] . ( 325 sec) [ -13090.8414] [ 2186] [depth= 1] . ( 328 sec) [ -13090.7045] [ 2186] [depth= 1] . ( 330 sec) [ -13090.5489] [ 2186] [depth= 2] . ( 335 sec) [ -13089.6035] [ 2186] [depth= 1] . ( 338 sec) [ -13089.0252] [ 2187] [depth= 4] . ( 340 sec) [ -13089.0111] [ 2187] [depth= 2] . ( 341 sec) [ -13087.9764] [ 2189] [depth= 1] . ( 342 sec) [ -13087.7221] [ 2189] [depth= 1] . ( 344 sec) [ -13083.6959] [ 2188] [depth= 1] . ( 346 sec) [ -13083.3358] [ 2188] [depth= 2] . ( 352 sec) [ -13078.3683] [ 2187] [depth= 2] . ( 353 sec) [ -13077.1170] [ 2187] [depth= 1] . ( 358 sec) [ -13076.1466] [ 2187] [depth= 4] . ( 359 sec) [ -13071.8185] [ 2188] [depth= 2] . ( 362 sec) [ -13071.4761] [ 2188] [depth= 1] . ( 379 sec) [ -13071.3022] [ 2188] [depth= 1] . ( 391 sec) [ -13070.1176] [ 2189] [depth= 1] . ( 392 sec) [ -13069.0867] [ 2188] [depth= 1] . ( 399 sec) [ -13067.2618] [ 2189] [depth= 3] . ( 401 sec) [ -13066.4716] [ 2188] [depth= 2] . ( 417 sec) [ -13065.5878] [ 2188] [depth= 1] . ( 419 sec) [ -13065.4746] [ 2188] [depth= 1] . ( 420 sec) [ -13065.4360] [ 2189] [depth= 1] . ( 422 sec) [ -13065.1851] [ 2189] [depth= 1] . ( 425 sec) [ -13064.5043] [ 2189] [depth= 1] . ( 439 sec) [ -13058.9299] [ 2188] [depth= 3] . ( 440 sec) [ -13058.7959] [ 2188] [depth= 1] . ( 442 sec) [ -13058.7304] [ 2188] [depth= 1] . ( 444 sec) [ -13052.5370] [ 2187] [depth= 2] . ( 445 sec) [ -13050.2265] [ 2188] [depth= 1] . ( 452 sec) [ -13049.9081] [ 2188] [depth= 1] . ( 455 sec) [ -13048.9231] [ 2191] [depth= 7] . ( 457 sec) [ -13048.7421] [ 2191] [depth= 1] . ( 462 sec) [ -13045.5597] [ 2191] [depth= 1] . ( 464 sec) [ -13045.4863] [ 2191] [depth= 2] . ( 465 sec) [ -13045.1382] [ 2191] [depth= 3] . ( 471 sec) [ -13040.5369] [ 2189] [depth= 2] . ( 473 sec) [ -13040.5019] [ 2190] [depth= 1] . ( 474 sec) [ -13038.6367] [ 2191] [depth= 2] . ( 480 sec) [ -13037.8834] [ 2191] [depth= 1] . ( 482 sec) [ -13037.6357] [ 2191] [depth= 2] . ( 486 sec) [ -13036.4306] [ 2191] [depth= 6] . ( 487 sec) [ -13035.2017] [ 2191] [depth= 1] . ( 493 sec) [ -13031.3024] [ 2190] [depth= 4] . ( 503 sec) [ -13030.8243] [ 2189] [depth= 1] . ( 505 sec) [ -13029.9148] [ 2188] [depth= 1] . ( 506 sec) [ -13029.7673] [ 2189] [depth= 4] . ( 507 sec) [ -13029.4536] [ 2189] [depth= 3] . ( 509 sec) [ -13023.2685] [ 2187] [depth= 1] . ( 510 sec) [ -13023.0534] [ 2187] [depth= 1] . ( 511 sec) [ -13020.9811] [ 2185] [depth= 4] . ( 516 sec) [ -13019.6298] [ 2185] [depth= 3] . ( 518 sec) [ -13019.2002] [ 2185] [depth= 1] . ( 519 sec) [ -13018.4425] [ 2185] [depth= 2] . ( 520 sec) [ -13016.7036] [ 2185] [depth= 2] . ( 522 sec) [ -13015.5989] [ 2184] [depth= 1] . ( 531 sec) [ -12925.0074] [Branch lengths ] . ( 534 sec) [ -12921.4114] [Alpha ][ 0.699755] . ( 539 sec) [ -12921.3680] [ 2184] [depth= 1] . ( 560 sec) [ -12921.0593] [ 2185] [depth= 1] . ( 569 sec) [ -12920.5124] [ 2181] [depth= 1] . ( 603 sec) [ -12920.3065] [ 2180] [depth= 2] . ( 619 sec) [ -12919.9108] [ 2180] [depth= 1] . ( 643 sec) [ -12919.7378] [ 2179] [depth= 1] . ( 650 sec) [ -12919.5367] [ 2179] [depth= 1] . ( 657 sec) [ -12919.0645] [ 2179] [depth= 1] . ( 672 sec) [ -12918.9764] [ 2179] [depth= 2] . ( 673 sec) [ -12918.9399] [ 2179] [depth= 1] . ( 675 sec) [ -12918.5421] [ 2181] [depth= 1] . ( 676 sec) [ -12917.9926] [ 2181] [depth= 1] . ( 694 sec) [ -12917.3919] [ 2181] [depth= 1] . ( 706 sec) [ -12917.3270] [ 2181] [depth= 1] . ( 709 sec) [ -12917.1707] [ 2181] [depth= 2] . ( 714 sec) [ -12916.9932] [ 2181] [depth= 1] . ( 715 sec) [ -12911.5485] [ 2178] [depth= 1] . ( 722 sec) [ -12910.9903] [ 2178] [depth= 2] . ( 743 sec) [ -12910.8216] [ 2178] [depth= 1] . ( 749 sec) [ -12910.7293] [ 2178] [depth= 1] . ( 771 sec) [ -12909.1435] [ 2178] [depth= 4] . ( 788 sec) [ -12907.2378] [ 2177] [depth= 6] . ( 799 sec) [ -12907.1840] [ 2177] [depth= 1] . ( 828 sec) [ -12905.4979] [ 2177] [depth= 1] . ( 830 sec) [ -12905.4070] [ 2177] [depth= 2] . ( 836 sec) [ -12904.7182] [ 2177] [depth= 2] . ( 839 sec) [ -12904.3577] [ 2177] [depth= 14] . ( 853 sec) [ -12904.2708] [ 2177] [depth= 1] . ( 878 sec) [ -12904.1409] [ 2177] [depth= 4] . ( 879 sec) [ -12902.0904] [ 2176] [depth= 4] . ( 883 sec) [ -12902.0219] [ 2176] [depth= 3] . ( 886 sec) [ -12901.3720] [ 2176] [depth= 9] . ( 888 sec) [ -12901.2508] [ 2176] [depth= 3] . ( 890 sec) [ -12901.1570] [ 2176] [depth= 2] . ( 899 sec) [ -12901.0081] [ 2176] [depth= 1] . ( 902 sec) [ -12900.8449] [ 2176] [depth= 2] . ( 914 sec) [ -12900.8208] [ 2176] [depth= 1] . ( 916 sec) [ -12900.7938] [ 2176] [depth= 1] . ( 921 sec) [ -12900.7459] [ 2176] [depth= 1] . ( 929 sec) [ -12900.6710] [ 2176] [depth= 1] . ( 965 sec) [ -12900.6346] [ 2176] [depth= 2] . ( 973 sec) [ -12900.3021] [ 2175] [depth= 1] . ( 974 sec) [ -12900.2265] [ 2175] [depth= 1] . ( 1036 sec) [ -12900.1911] [ 2175] [depth= 1] . ( 1037 sec) [ -12899.1709] [ 2175] [depth= 1] . ( 1046 sec) [ -12899.1535] [ 2175] [depth= 2] . ( 1067 sec) [ -12899.0788] [ 2176] [depth= 1] . ( 1084 sec) [ -12898.9084] [ 2176] [depth= 1] . ( 1085 sec) [ -12895.9564] [ 2171] [depth= 6] . ( 1092 sec) [ -12893.0324] [ 2170] [depth= 1] . ( 1093 sec) [ -12892.9948] [ 2170] [depth= 1] . ( 1095 sec) [ -12891.6223] [ 2170] [depth= 7] . ( 1104 sec) [ -12891.6079] [ 2170] [depth= 1] . ( 1147 sec) [ -12891.4833] [ 2169] [depth= 1] . ( 1162 sec) [ -12891.4677] [ 2169] [depth= 1] . ( 1176 sec) [ -12891.4479] [ 2169] [depth= 1] . ( 1180 sec) [ -12877.1716] [Branch lengths ] . ( 1183 sec) [ -12876.9648] [Alpha ][ 0.728771] . ( 1189 sec) [ -12876.9155] [ 2169] [depth= 1] . ( 1427 sec) [ -12876.4549] [ 2168] [depth= 3] . ( 1617 sec) [ -12876.2229] [ 2167] [depth= 13] . ( 1626 sec) [ -12876.1835] [ 2167] [depth= 2] . ( 1628 sec) [ -12875.5073] [ 2167] [depth= 1] . ( 1651 sec) [ -12875.4162] [ 2167] [depth= 1] . ( 1653 sec) [ -12875.1435] [ 2167] [depth= 4] . ( 1696 sec) [ -12875.1303] [ 2167] [depth= 1] . ( 1703 sec) [ -12875.0809] [ 2167] [depth= 2] . ( 1869 sec) [ -12875.0701] [ 2167] [depth= 1] . ( 1870 sec) [ -12874.1049] [ 2167] [depth= 1] . ( 1880 sec) [ -12874.0917] [ 2168] [depth= 1] . ( 1885 sec) [ -12873.9343] [ 2168] [depth= 1] . ( 1900 sec) [ -12873.7674] [ 2168] [depth= 2] . ( 1959 sec) [ -12869.9810] [Branch lengths ] . ( 1961 sec) [ -12869.9718] [Alpha ][ 0.735084] . ( 1966 sec) [ -12869.9605] [ 2168] [depth= 1] . ( 2224 sec) [ -12869.9176] [ 2168] [depth= 3] . ( 2278 sec) [ -12868.4700] [ 2168] [depth= 7] . ( 2438 sec) [ -12867.2708] [ 2167] [depth= 8] . ( 2446 sec) [ -12867.2443] [ 2167] [depth= 1] . ( 2467 sec) [ -12867.1943] [ 2167] [depth= 2] . ( 2494 sec) [ -12867.1778] [ 2167] [depth= 1] . ( 2496 sec) [ -12867.1160] [ 2167] [depth= 1] . ( 2510 sec) [ -12867.0940] [ 2167] [depth= 1] . ( 2606 sec) [ -12866.4484] [ 2167] [depth= 1] . ( 2615 sec) [ -12865.9444] [ 2167] [depth= 1] . ( 2758 sec) [ -12864.9992] [ 2167] [depth= 1] . ( 2809 sec) [ -12864.9615] [ 2167] [depth= 1] . ( 2813 sec) [ -12862.9944] [Branch lengths ] . ( 2815 sec) [ -12862.9934] [Alpha ][ 0.737092] . ( 3716 sec) [ -12862.6528] [Branch lengths ] . ( 3716 sec) [ -12862.6528] [Topology ] . ( 3729 sec) [ -12862.3980] [Topology ] . ( 3742 sec) [ -12861.4719] [Topology ] . ( 3755 sec) [ -12859.7142] [Topology ] . ( 3768 sec) [ -12858.6257] [Topology ] . ( 3781 sec) [ -12858.1707] [Topology ] . ( 3793 sec) [ -12857.9908] [Topology ] . ( 3796 sec) [ -12857.9901] [Alpha ][ 0.738764] . ( 3797 sec) [ -12857.9901] [Topology ] . ( 3809 sec) [ -12857.9477] [Topology ] . ( 3822 sec) [ -12857.9364] [Topology ] . ( 3835 sec) [ -12857.9330] [Topology ] . ( 3848 sec) [ -12857.9318] [Topology ] . ( 3861 sec) [ -12857.9313] [Topology ] . ( 3863 sec) [ -12857.9313] [Alpha ][ 0.738764] . ( 3864 sec) [ -12857.9313] [Topology ] . ( 3876 sec) [ -12857.9312] [Topology ] . ( 3879 sec) [ -12857.9312] [Alpha ][ 0.738764] . Checking for NNIs, optimizing five branches... . ( 3974 sec) [ -12857.9311] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -12857.931052. . Printing the most likely tree in file 'proteic_M2624_139x348_2006.phy_phyml_tree.txt'... . Time used 1h7m49s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 4077.93user 0.00system 1:07:59elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps