.......................... 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)... . ( 7 sec) [ -13793.7531] [Alpha ][ 0.587356] . ( 231 sec) [ -13793.5943] [ 2318] [depth= 1] . ( 233 sec) [ -13793.3766] [ 2318] [depth= 1] . ( 236 sec) [ -13793.3429] [ 2318] [depth= 1] . ( 471 sec) [ -13793.1509] [ 2318] [depth= 1] . ( 474 sec) [ -13792.4523] [ 2318] [depth= 1] . ( 477 sec) [ -13792.4316] [ 2318] [depth= 1] . ( 904 sec) [ -13775.7445] [ 2318] [depth= 1] . ( 906 sec) [ -13765.9972] [ 2318] [depth= 1] . ( 1079 sec) [ -13756.6095] [ 2315] [depth= 2] . ( 1081 sec) [ -13756.2925] [ 2318] [depth= 1] . ( 1128 sec) [ -13754.9427] [ 2315] [depth= 1] . ( 1175 sec) [ -13754.3792] [ 2319] [depth= 1] . ( 1385 sec) [ -13748.0524] [ 2324] [depth= 2] . ( 1389 sec) [ -13739.8797] [ 2320] [depth= 2] . ( 1392 sec) [ -13735.9151] [ 2321] [depth= 1] . ( 1394 sec) [ -13733.5529] [ 2321] [depth= 1] . ( 1405 sec) [ -13726.0345] [ 2318] [depth= 1] . ( 1817 sec) [ -13723.6903] [ 2329] [depth= 8] . ( 1906 sec) [ -13703.9143] [ 2327] [depth= 4] . ( 1909 sec) [ -13684.7650] [ 2317] [depth= 8] . ( 1914 sec) [ -13683.4834] [ 2320] [depth= 6] . ( 2003 sec) [ -13682.3778] [ 2320] [depth= 1] . ( 2005 sec) [ -13681.4989] [ 2320] [depth= 1] . ( 2467 sec) [ -13671.5973] [ 2319] [depth= 1] . ( 2682 sec) [ -13669.9999] [ 2319] [depth= 1] . ( 2972 sec) [ -13645.7667] [ 2307] [depth= 11] . ( 2974 sec) [ -13642.3365] [ 2306] [depth= 1] . ( 2976 sec) [ -13620.7460] [ 2302] [depth= 7] . ( 3047 sec) [ -13589.2859] [ 2295] [depth= 6] . ( 3050 sec) [ -13544.7678] [ 2283] [depth= 11] . ( 3052 sec) [ -13538.3581] [ 2282] [depth= 1] . ( 3055 sec) [ -13529.5439] [ 2279] [depth= 3] . ( 3058 sec) [ -13515.1967] [ 2275] [depth= 4] . ( 3061 sec) [ -13499.4690] [ 2274] [depth= 1] . ( 3063 sec) [ -13488.0124] [ 2274] [depth= 1] . ( 3066 sec) [ -13396.8999] [ 2258] [depth= 14] . ( 3142 sec) [ -13394.4485] [ 2258] [depth= 2] . ( 3143 sec) [ -13389.8305] [ 2257] [depth= 1] . ( 3238 sec) [ -13389.4311] [ 2259] [depth= 1] . ( 3240 sec) [ -13388.1570] [ 2259] [depth= 2] . ( 3243 sec) [ -13380.9197] [ 2258] [depth= 1] . ( 3301 sec) [ -13378.8151] [ 2252] [depth= 9] . ( 3302 sec) [ -13333.6474] [ 2238] [depth= 14] . ( 3364 sec) [ -13331.8884] [ 2238] [depth= 1] . ( 3366 sec) [ -13317.4480] [ 2232] [depth= 5] . ( 3395 sec) [ -13317.1910] [ 2234] [depth= 1] . ( 3500 sec) [ -13316.5544] [ 2234] [depth= 1] . ( 3502 sec) [ -13316.5279] [ 2236] [depth= 3] . ( 3559 sec) [ -13315.1014] [ 2234] [depth= 6] . ( 3561 sec) [ -13304.3564] [ 2233] [depth= 15] . ( 3563 sec) [ -13303.6918] [ 2231] [depth= 1] . ( 3565 sec) [ -13302.5005] [ 2231] [depth= 2] . ( 3568 sec) [ -13300.5092] [ 2230] [depth= 1] . ( 3610 sec) [ -13284.1513] [ 2223] [depth= 10] . ( 3613 sec) [ -13281.2707] [ 2223] [depth= 1] . ( 3657 sec) [ -13281.1853] [ 2223] [depth= 1] . ( 3701 sec) [ -13280.9340] [ 2223] [depth= 1] . ( 3910 sec) [ -13277.2288] [ 2224] [depth= 1] . ( 3912 sec) [ -13269.2947] [ 2223] [depth= 1] . ( 3915 sec) [ -13266.4022] [ 2222] [depth= 2] . ( 3994 sec) [ -13265.4632] [ 2221] [depth= 1] . ( 4085 sec) [ -13264.4777] [ 2221] [depth= 1] . ( 4088 sec) [ -13252.3665] [ 2220] [depth= 3] . ( 4091 sec) [ -13250.8126] [ 2220] [depth= 3] . ( 4167 sec) [ -13240.4383] [ 2212] [depth= 8] . ( 4169 sec) [ -13239.4800] [ 2212] [depth= 1] . ( 4345 sec) [ -13238.5653] [ 2212] [depth= 1] . ( 4486 sec) [ -13233.3382] [ 2213] [depth= 2] . ( 4489 sec) [ -13214.0776] [ 2208] [depth= 6] . ( 4551 sec) [ -13212.0113] [ 2207] [depth= 1] . ( 4587 sec) [ -13211.3640] [ 2208] [depth= 1] . ( 4590 sec) [ -13210.8828] [ 2208] [depth= 2] . ( 4592 sec) [ -13204.2327] [ 2208] [depth= 1] . ( 4594 sec) [ -13183.5205] [ 2205] [depth= 9] . ( 4596 sec) [ -13176.0193] [ 2205] [depth= 3] . ( 4599 sec) [ -13175.5136] [ 2205] [depth= 3] . ( 4601 sec) [ -13147.4433] [ 2200] [depth= 11] . ( 4603 sec) [ -13147.4181] [ 2200] [depth= 6] . ( 4605 sec) [ -13136.6275] [ 2199] [depth= 3] . ( 4677 sec) [ -13136.2095] [ 2199] [depth= 2] . ( 4721 sec) [ -13135.7312] [ 2199] [depth= 2] . ( 4724 sec) [ -13131.7788] [ 2198] [depth= 12] . ( 4762 sec) [ -13129.8044] [ 2198] [depth= 1] . ( 4765 sec) [ -13129.2148] [ 2198] [depth= 1] . ( 4766 sec) [ -13128.4420] [ 2199] [depth= 1] . ( 4849 sec) [ -13128.0450] [ 2199] [depth= 2] . ( 4947 sec) [ -13127.2536] [ 2199] [depth= 7] . ( 5052 sec) [ -13127.1230] [ 2198] [depth= 2] . ( 5054 sec) [ -13124.8024] [ 2198] [depth= 1] . ( 5134 sec) [ -13124.6745] [ 2198] [depth= 1] . ( 5136 sec) [ -13124.4940] [ 2198] [depth= 2] . ( 5279 sec) [ -13121.9612] [ 2198] [depth= 3] . ( 5283 sec) [ -13117.8276] [ 2200] [depth= 3] . ( 5285 sec) [ -13117.8063] [ 2200] [depth= 1] . ( 5286 sec) [ -13116.2505] [ 2200] [depth= 3] . ( 5288 sec) [ -13115.6969] [ 2200] [depth= 1] . ( 5289 sec) [ -13115.2857] [ 2201] [depth= 1] . ( 5399 sec) [ -13115.1888] [ 2201] [depth= 1] . ( 5438 sec) [ -13112.5752] [ 2200] [depth= 2] . ( 5440 sec) [ -13112.2507] [ 2206] [depth= 2] . ( 5442 sec) [ -13109.9406] [ 2205] [depth= 3] . ( 5445 sec) [ -13107.9687] [ 2204] [depth= 1] . ( 5446 sec) [ -13106.0162] [ 2203] [depth= 1] . ( 5448 sec) [ -13105.6596] [ 2203] [depth= 1] . ( 5497 sec) [ -13104.5556] [ 2202] [depth= 2] . ( 5916 sec) [ -13103.6697] [ 2202] [depth= 2] . ( 5918 sec) [ -13102.4865] [ 2202] [depth= 2] . ( 6012 sec) [ -13100.5238] [ 2202] [depth= 1] . ( 6395 sec) [ -13086.6634] [ 2198] [depth= 1] . ( 6397 sec) [ -13082.3346] [ 2197] [depth= 6] . ( 6404 sec) [ -13081.9024] [ 2201] [depth= 5] . ( 6570 sec) [ -13081.3059] [ 2201] [depth= 2] . ( 6571 sec) [ -13075.0787] [ 2200] [depth= 3] . ( 6572 sec) [ -13074.8908] [ 2200] [depth= 1] . ( 6574 sec) [ -13074.6083] [ 2200] [depth= 1] . ( 6651 sec) [ -13074.5777] [ 2198] [depth= 4] . ( 6662 sec) [ -13073.3023] [ 2197] [depth= 1] . ( 6664 sec) [ -13073.0680] [ 2196] [depth= 2] . ( 6667 sec) [ -13072.4601] [ 2196] [depth= 1] . ( 6669 sec) [ -13071.8356] [ 2197] [depth= 2] . ( 6671 sec) [ -13071.2164] [ 2197] [depth= 2] . ( 6673 sec) [ -13071.0932] [ 2197] [depth= 2] . ( 6676 sec) [ -13070.7252] [ 2197] [depth= 1] . ( 6678 sec) [ -13070.1233] [ 2198] [depth= 1] . ( 6742 sec) [ -13063.5264] [ 2195] [depth= 1] . ( 6761 sec) [ -13062.6512] [ 2193] [depth= 2] . ( 6805 sec) [ -13061.8680] [ 2193] [depth= 1] . ( 6807 sec) [ -13061.7535] [ 2193] [depth= 1] . ( 6809 sec) [ -13061.2073] [ 2193] [depth= 1] . ( 6820 sec) [ -13059.5875] [ 2192] [depth= 3] . ( 6822 sec) [ -13053.9426] [ 2190] [depth= 4] . ( 6825 sec) [ -13053.6933] [ 2189] [depth= 2] . ( 6828 sec) [ -13051.8706] [ 2190] [depth= 2] . ( 6829 sec) [ -13050.3660] [ 2189] [depth= 2] . ( 6847 sec) [ -13049.9372] [ 2189] [depth= 1] . ( 6849 sec) [ -13049.9095] [ 2189] [depth= 1] . ( 6922 sec) [ -13049.8780] [ 2190] [depth= 1] . ( 6924 sec) [ -13049.4840] [ 2190] [depth= 3] . ( 6929 sec) [ -13049.4436] [ 2190] [depth= 2] . ( 6936 sec) [ -12963.4344] [Branch lengths ] . ( 6939 sec) [ -12959.8253] [Alpha ][ 0.698791] . ( 7045 sec) [ -12959.7217] [ 2190] [depth= 1] . ( 7378 sec) [ -12959.7073] [ 2190] [depth= 2] . ( 7583 sec) [ -12958.2899] [ 2190] [depth= 2] . ( 7674 sec) [ -12957.7196] [ 2186] [depth= 1] . ( 8544 sec) [ -12930.1823] [ 2178] [depth= 6] . ( 8635 sec) [ -12926.3842] [ 2178] [depth= 1] . ( 8636 sec) [ -12926.1651] [ 2178] [depth= 1] . ( 9077 sec) [ -12926.0494] [ 2179] [depth= 1] . ( 9268 sec) [ -12925.9507] [ 2179] [depth= 1] . ( 9271 sec) [ -12925.9387] [ 2179] [depth= 1] . ( 9273 sec) [ -12925.9051] [ 2179] [depth= 2] . ( 9312 sec) [ -12925.5939] [ 2178] [depth= 5] . ( 9340 sec) [ -12923.8683] [ 2179] [depth= 1] . ( 9778 sec) [ -12923.8158] [ 2179] [depth= 1] . ( 9865 sec) [ -12923.5101] [ 2178] [depth= 3] . ( 9866 sec) [ -12919.5123] [ 2176] [depth= 1] . ( 9901 sec) [ -12919.1388] [ 2175] [depth= 1] . ( 9902 sec) [ -12918.2240] [ 2175] [depth= 2] . (10377 sec) [ -12918.0037] [ 2175] [depth= 1] . (10869 sec) [ -12912.1092] [ 2173] [depth= 3] . (10871 sec) [ -12911.9160] [ 2173] [depth= 1] . (11004 sec) [ -12910.7152] [ 2172] [depth= 1] . (11462 sec) [ -12909.9033] [ 2172] [depth= 5] . (11464 sec) [ -12907.8096] [ 2172] [depth= 1] . (11466 sec) [ -12907.5347] [ 2172] [depth= 3] . (11467 sec) [ -12906.1316] [ 2171] [depth= 4] . (11582 sec) [ -12901.3381] [ 2169] [depth= 6] . (12021 sec) [ -12894.2896] [ 2169] [depth= 5] . (12119 sec) [ -12894.2671] [ 2169] [depth= 2] . (12440 sec) [ -12892.8297] [ 2168] [depth= 1] . (12543 sec) [ -12892.2551] [ 2168] [depth= 1] . (12608 sec) [ -12890.4107] [ 2168] [depth= 1] . (12610 sec) [ -12890.3820] [ 2168] [depth= 1] . (12908 sec) [ -12878.5194] [ 2166] [depth= 4] . (13069 sec) [ -12877.6959] [ 2165] [depth= 1] . (13074 sec) [ -12877.5861] [ 2165] [depth= 1] . (13106 sec) [ -12876.4256] [ 2165] [depth= 1] . (13274 sec) [ -12874.9797] [ 2164] [depth= 2] . (13275 sec) [ -12874.5004] [ 2164] [depth= 1] . (13360 sec) [ -12874.2920] [ 2165] [depth= 1] . (13361 sec) [ -12874.2346] [ 2165] [depth= 1] . (13447 sec) [ -12874.1899] [ 2165] [depth= 1] . (13553 sec) [ -12874.1711] [ 2165] [depth= 1] . (13645 sec) [ -12873.3981] [ 2165] [depth= 1] . (13648 sec) [ -12873.3867] [ 2165] [depth= 1] . (13782 sec) [ -12873.2871] [ 2165] [depth= 1] . (13783 sec) [ -12873.2385] [ 2165] [depth= 1] . (13789 sec) [ -12873.1367] [ 2165] [depth= 3] . (13790 sec) [ -12871.8267] [ 2165] [depth= 1] . (13792 sec) [ -12871.6024] [ 2165] [depth= 1] . (13793 sec) [ -12871.5728] [ 2165] [depth= 1] . (13934 sec) [ -12871.2126] [ 2165] [depth= 1] . (13957 sec) [ -12871.0872] [ 2165] [depth= 1] . (13959 sec) [ -12870.8695] [ 2166] [depth= 1] . (13962 sec) [ -12870.4979] [ 2166] [depth= 1] . (14024 sec) [ -12870.4731] [ 2166] [depth= 1] . (14031 sec) [ -12870.1225] [ 2166] [depth= 1] . (14058 sec) [ -12870.0753] [ 2166] [depth= 2] . (14063 sec) [ -12853.2621] [Branch lengths ] . (14065 sec) [ -12853.0876] [Alpha ][ 0.725603] . (14228 sec) [ -12853.0460] [ 2166] [depth= 1] . (14730 sec) [ -12853.0327] [ 2166] [depth= 1] . (15755 sec) [ -12853.0165] [ 2166] [depth= 1] . (15800 sec) [ -12852.7630] [ 2166] [depth= 1] . (15835 sec) [ -12852.5922] [ 2166] [depth= 1] . (16524 sec) [ -12852.3917] [ 2166] [depth= 2] . (16553 sec) [ -12852.3427] [ 2166] [depth= 3] . (17631 sec) [ -12852.1649] [ 2166] [depth= 1] . (19092 sec) [ -12851.9637] [ 2166] [depth= 1] . (19131 sec) [ -12851.9529] [ 2166] [depth= 1] . (19287 sec) [ -12851.2622] [ 2166] [depth= 10] . (19444 sec) [ -12851.2429] [ 2166] [depth= 2] . (19529 sec) [ -12851.0720] [ 2166] [depth= 1] . (20203 sec) [ -12850.6173] [ 2166] [depth= 2] . (21273 sec) [ -12850.5955] [ 2166] [depth= 1] . (21274 sec) [ -12850.5497] [ 2166] [depth= 2] . (21278 sec) [ -12850.5330] [ 2166] [depth= 1] . (21526 sec) [ -12850.3673] [ 2166] [depth= 1] . (21553 sec) [ -12850.3413] [ 2166] [depth= 3] . (21555 sec) [ -12850.3292] [ 2166] [depth= 1] . (21709 sec) [ -12850.2520] [ 2166] [depth= 1] . (22160 sec) [ -12847.2333] [Branch lengths ] . (22163 sec) [ -12847.2225] [Alpha ][ 0.732429] . (27456 sec) [ -12847.1471] [ 2166] [depth= 1] . (27685 sec) [ -12847.1150] [ 2166] [depth= 2] . (30805 sec) [ -12846.2201] [Branch lengths ] . (30807 sec) [ -12846.2185] [Alpha ][ 0.734983] . (39548 sec) [ -12845.8255] [Branch lengths ] . (39549 sec) [ -12845.8255] [Topology ] . (39562 sec) [ -12845.5361] [Topology ] . (39575 sec) [ -12844.5790] [Topology ] . (39588 sec) [ -12842.7988] [Topology ] . (39601 sec) [ -12841.6979] [Topology ] . (39613 sec) [ -12841.2395] [Topology ] . (39626 sec) [ -12841.0616] [Topology ] . (39629 sec) [ -12841.0600] [Alpha ][ 0.737553] . (39629 sec) [ -12841.0600] [Topology ] . (39642 sec) [ -12841.0176] [Topology ] . (39655 sec) [ -12841.0064] [Topology ] . (39668 sec) [ -12841.0027] [Topology ] . (39681 sec) [ -12841.0011] [Topology ] . (39694 sec) [ -12841.0003] [Topology ] . (39696 sec) [ -12841.0003] [Alpha ][ 0.737553] . (39696 sec) [ -12841.0003] [Topology ] . (39709 sec) [ -12840.9998] [Topology ] . (39711 sec) [ -12840.9998] [Alpha ][ 0.737553] . Checking for NNIs, optimizing five branches... . (39804 sec) [ -12840.9609] [Topology ] . Checking for NNIs, optimizing five branches... . (39896 sec) [ -12840.9432] [Topology ] . Checking for NNIs, optimizing five branches... . (39988 sec) [ -12840.9296] [Topology ] . Checking for NNIs, optimizing five branches... . (40079 sec) [ -12840.9278] [Topology ] . Checking for NNIs, optimizing five branches... . (40171 sec) [ -12840.9276] [Topology ] . Checking for NNIs, optimizing five branches... . (40263 sec) [ -12840.8338] [Topology ] . Checking for NNIs, optimizing five branches... . (40354 sec) [ -12840.8336] [Topology ] . Checking for NNIs, optimizing five branches... . (40446 sec) [ -12840.8335] [Topology ] . Checking for NNIs, optimizing five branches... . (40538 sec) [ -12840.8333] [Topology ] . Checking for NNIs, optimizing five branches... . (40630 sec) [ -12840.8280] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -12840.828036. . Printing the most likely tree in file 'proteic_M2624_139x348_2006.phy_phyml_tree.txt'... . Time used 11h18m43s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 38573.32user 0.00system 11:18:56elapsed 94%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps