.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1392_57x430_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... . 389 patterns found. (out of a total of 430 sites) . 150 sites without polymorphism (34.88%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 54Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 2 sec) [ -8287.8174] [Alpha ][ 0.500960] . ( 3 sec) [ -8287.8174] [Topology ] . ( 9 sec) [ -8220.7157] [Topology ] . ( 14 sec) [ -8204.4814] [Topology ] . ( 20 sec) [ -8189.3124] [Topology ] . ( 26 sec) [ -8184.9266] [Topology ] . ( 31 sec) [ -8182.8608] [Topology ] . ( 36 sec) [ -8181.0365] [Topology ] . ( 42 sec) [ -8179.1558] [Topology ] . ( 47 sec) [ -8177.7907] [Topology ] . ( 53 sec) [ -8177.0374] [Topology ] . Checking for NNIs, optimizing five branches... . ( 94 sec) [ -8176.8663] [Topology ] . ( 95 sec) [ -8176.2111] [Alpha ][ 0.546347] . ( 96 sec) [ -8176.2111] [Topology ] . ( 101 sec) [ -8176.0377] [Topology ] . ( 106 sec) [ -8175.9637] [Topology ] . ( 112 sec) [ -8175.9221] [Topology ] . ( 117 sec) [ -8175.8970] [Topology ] . ( 122 sec) [ -8175.8813] [Topology ] . ( 128 sec) [ -8175.8714] [Topology ] . Checking for NNIs, optimizing five branches... . ( 166 sec) [ -8174.8298] [Topology ] . ( 166 sec) [ -8174.8237] [Alpha ][ 0.551022] . ( 167 sec) [ -8174.8237] [Topology ] . ( 172 sec) [ -8174.6407] [Topology ] . ( 178 sec) [ -8174.6187] [Topology ] . ( 183 sec) [ -8174.6129] [Topology ] . ( 188 sec) [ -8174.6109] [Topology ] . ( 194 sec) [ -8174.6101] [Topology ] . Checking for NNIs, optimizing five branches... . ( 230 sec) [ -8174.6100] [Alpha ][ 0.551573] . ( 231 sec) [ -8174.6100] [Topology ] . ( 236 sec) [ -8174.6095] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 311 sec) [ -8287.8174] [Alpha ][ 0.500960] . ( 314 sec) [ -8282.0664] [ 1252] [depth= 1] . ( 315 sec) [ -8281.7063] [ 1254] [depth= 1] . ( 317 sec) [ -8276.3109] [ 1251] [depth= 2] . ( 331 sec) [ -8271.1817] [ 1250] [depth= 1] . ( 332 sec) [ -8268.4324] [ 1249] [depth= 1] . ( 335 sec) [ -8258.8412] [ 1248] [depth= 2] . ( 337 sec) [ -8251.3287] [ 1246] [depth= 3] . ( 338 sec) [ -8250.9587] [ 1247] [depth= 1] . ( 344 sec) [ -8250.1630] [ 1247] [depth= 1] . ( 348 sec) [ -8248.6685] [ 1246] [depth= 1] . ( 350 sec) [ -8248.2108] [ 1245] [depth= 1] . ( 351 sec) [ -8247.4062] [ 1246] [depth= 1] . ( 356 sec) [ -8247.1577] [ 1246] [depth= 1] . ( 357 sec) [ -8246.7235] [ 1246] [depth= 1] . ( 364 sec) [ -8241.4009] [ 1246] [depth= 3] . ( 364 sec) [ -8239.6538] [ 1244] [depth= 1] . ( 365 sec) [ -8238.4411] [ 1244] [depth= 1] . ( 367 sec) [ -8238.3013] [ 1245] [depth= 1] . ( 368 sec) [ -8238.2470] [ 1245] [depth= 1] . ( 370 sec) [ -8238.1333] [ 1246] [depth= 2] . ( 374 sec) [ -8236.1099] [ 1245] [depth= 1] . ( 376 sec) [ -8235.1795] [ 1248] [depth= 2] . ( 379 sec) [ -8226.4629] [ 1246] [depth= 2] . ( 385 sec) [ -8226.1371] [ 1244] [depth= 3] . ( 386 sec) [ -8225.9515] [ 1241] [depth= 2] . ( 388 sec) [ -8214.9763] [ 1240] [depth= 3] . ( 389 sec) [ -8213.4369] [ 1237] [depth= 2] . ( 390 sec) [ -8207.3726] [ 1234] [depth= 3] . ( 391 sec) [ -8207.3301] [ 1237] [depth= 1] . ( 392 sec) [ -8207.2706] [ 1238] [depth= 1] . ( 393 sec) [ -8206.5969] [ 1239] [depth= 1] . ( 394 sec) [ -8206.4048] [ 1239] [depth= 1] . ( 409 sec) [ -8205.3166] [ 1241] [depth= 1] . ( 410 sec) [ -8205.0649] [ 1240] [depth= 1] . ( 412 sec) [ -8204.6930] [ 1243] [depth= 2] . ( 430 sec) [ -8204.5696] [ 1243] [depth= 1] . ( 445 sec) [ -8204.5483] [ 1243] [depth= 4] . ( 445 sec) [ -8204.0844] [ 1243] [depth= 3] . ( 446 sec) [ -8204.0652] [ 1243] [depth= 2] . ( 447 sec) [ -8203.9225] [ 1243] [depth= 2] . ( 451 sec) [ -8202.0665] [ 1244] [depth= 1] . ( 452 sec) [ -8202.0396] [ 1244] [depth= 4] . ( 454 sec) [ -8202.0149] [ 1244] [depth= 3] . ( 455 sec) [ -8201.7570] [ 1245] [depth= 4] . ( 459 sec) [ -8201.6044] [ 1245] [depth= 1] . ( 461 sec) [ -8201.5626] [ 1245] [depth= 3] . ( 462 sec) [ -8201.4399] [ 1245] [depth= 2] . ( 463 sec) [ -8201.2941] [ 1245] [depth= 2] . ( 472 sec) [ -8179.0267] [Branch lengths ] . ( 473 sec) [ -8178.6907] [Alpha ][ 0.534282] . ( 524 sec) [ -8178.4620] [ 1247] [depth= 2] . ( 635 sec) [ -8177.1880] [ 1246] [depth= 4] . ( 644 sec) [ -8177.1747] [ 1246] [depth= 3] . ( 648 sec) [ -8177.1141] [ 1246] [depth= 2] . ( 649 sec) [ -8174.7627] [ 1245] [depth= 1] . ( 657 sec) [ -8174.6109] [ 1245] [depth= 2] . ( 683 sec) [ -8171.7796] [Branch lengths ] . ( 684 sec) [ -8171.6991] [Alpha ][ 0.551102] . ( 896 sec) [ -8170.9909] [Branch lengths ] . ( 897 sec) [ -8170.9909] [Topology ] . ( 902 sec) [ -8170.8159] [Topology ] . ( 908 sec) [ -8170.5220] [Topology ] . ( 914 sec) [ -8170.4235] [Topology ] . ( 920 sec) [ -8170.3745] [Topology ] . ( 925 sec) [ -8170.3462] [Topology ] . ( 931 sec) [ -8170.3280] [Topology ] . ( 937 sec) [ -8170.3157] [Topology ] . ( 938 sec) [ -8170.2626] [Alpha ][ 0.564768] . ( 938 sec) [ -8170.2626] [Topology ] . ( 944 sec) [ -8170.2486] [Topology ] . ( 950 sec) [ -8170.2391] [Topology ] . ( 955 sec) [ -8170.2325] [Topology ] . ( 961 sec) [ -8170.2280] [Topology ] . ( 967 sec) [ -8170.2248] [Topology ] . ( 973 sec) [ -8170.2226] [Topology ] . ( 974 sec) [ -8170.2216] [Alpha ][ 0.566652] . ( 974 sec) [ -8170.2216] [Topology ] . ( 980 sec) [ -8170.2198] [Topology ] . ( 986 sec) [ -8170.2186] [Topology ] . ( 991 sec) [ -8170.2177] [Topology ] . ( 992 sec) [ -8170.2177] [Alpha ][ 0.567219] . ( 992 sec) [ -8170.2177] [Topology ] . ( 998 sec) [ -8170.2170] [Topology ] . ( 999 sec) [ -8170.2170] [Alpha ][ 0.567219] . Checking for NNIs, optimizing five branches... . ( 1036 sec) [ -8170.2167] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -8174.609471 . Log likelihood obtained after SPR moves : -8170.216729 . Log likelihood of the current tree: -8170.216729. . Printing the most likely tree in file 'proteic_M1392_57x430_2003.phy_phyml_tree.txt'... . Time used 0h17m56s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 1044.33user 0.00system 17:57.15elapsed 96%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps