.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M3756_77x11234_2008.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 : NNIs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 10843 patterns found. (out of a total of 11234 sites) . 1701 sites without polymorphism (15.14%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis requires at least 2002Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 55 sec) [ -442377.5064] [Alpha ][ 0.612478] . ( 71 sec) [ -442377.5064] [Topology ] . ( 250 sec) [ -439607.5044] [Topology ] . ( 469 sec) [ -438305.3604] [Topology ] . ( 653 sec) [ -438023.5178] [Topology ] . ( 863 sec) [ -437731.6309] [Topology ] . ( 1050 sec) [ -437663.2212] [Topology ] . ( 1256 sec) [ -437347.8603] [Topology ] . ( 1451 sec) [ -437063.9641] [Topology ] . ( 1648 sec) [ -436842.7090] [Topology ] . ( 1848 sec) [ -436560.7565] [Topology ] . ( 2080 sec) [ -436135.1470] [Alpha ][ 0.805713] . ( 2095 sec) [ -436135.1470] [Topology ] . ( 2295 sec) [ -436107.6494] [Topology ] . ( 2497 sec) [ -436032.7816] [Topology ] . ( 2706 sec) [ -436028.7534] [Topology ] . ( 2909 sec) [ -435898.5463] [Topology ] . ( 3118 sec) [ -435764.8624] [Topology ] . ( 3317 sec) [ -435716.3998] [Topology ] . ( 3527 sec) [ -435764.6784] [Topology ] . Moving backward . ( 3562 sec) [ -435406.7051] [Topology ] . ( 3763 sec) [ -435442.3825] [Topology ] . Moving backward . ( 3826 sec) [ -435269.6119] [Alpha ][ 0.811090] . ( 3841 sec) [ -435269.6119] [Topology ] . ( 4033 sec) [ -435216.2848] [Topology ] . ( 4225 sec) [ -435185.7555] [Topology ] . ( 4414 sec) [ -435233.6787] [Topology ] . Moving backward . ( 4449 sec) [ -435125.5834] [Topology ] . ( 4639 sec) [ -435120.2445] [Topology ] . ( 4828 sec) [ -435104.9923] [Topology ] . ( 5019 sec) [ -435105.2297] [Topology ] . Moving backward . ( 5054 sec) [ -435092.2168] [Topology ] . ( 5243 sec) [ -435090.1838] [Topology ] . Checking for NNIs, optimizing five branches... . ( 7867 sec) [ -435074.7735] [Topology ] . ( 7905 sec) [ -435074.7735] [Alpha ][ 0.811090] . ( 7920 sec) [ -435074.7735] [Topology ] . ( 8108 sec) [ -435073.6059] [Topology ] . ( 8295 sec) [ -435061.6859] [Topology ] . ( 8484 sec) [ -435028.4859] [Topology ] . ( 8676 sec) [ -434996.9355] [Topology ] . ( 8865 sec) [ -434951.8403] [Topology ] . ( 9055 sec) [ -434920.3481] [Topology ] . ( 9244 sec) [ -434910.8099] [Topology ] . ( 9433 sec) [ -434907.4486] [Topology ] . ( 9621 sec) [ -434905.6495] [Topology ] . Checking for NNIs, optimizing five branches... . (12189 sec) [ -434893.7900] [Topology ] . (12227 sec) [ -434893.7900] [Alpha ][ 0.811090] . (12243 sec) [ -434893.7900] [Topology ] . (12430 sec) [ -434891.5814] [Topology ] . (12618 sec) [ -434890.1628] [Topology ] . (12804 sec) [ -434889.9261] [Topology ] . (12992 sec) [ -434889.8479] [Topology ] . (13178 sec) [ -434889.8068] [Topology ] . (13366 sec) [ -434889.7790] [Topology ] . (13553 sec) [ -434889.7593] [Topology ] . Checking for NNIs, optimizing five branches... . (15850 sec) [ -434880.5722] [Topology ] . (15888 sec) [ -434880.5722] [Alpha ][ 0.811090] . (15903 sec) [ -434880.5722] [Topology ] . (16089 sec) [ -434880.1482] [Topology ] . (16276 sec) [ -434879.8760] [Topology ] . (16463 sec) [ -434879.0329] [Topology ] . (16650 sec) [ -434877.3309] [Topology ] . (16836 sec) [ -434876.4488] [Topology ] . (17023 sec) [ -434876.0050] [Topology ] . (17210 sec) [ -434875.7675] [Topology ] . (17397 sec) [ -434875.6369] [Topology ] . (17584 sec) [ -434875.5642] [Topology ] . Checking for NNIs, optimizing five branches... . (20080 sec) [ -434869.5269] [Topology ] . (20119 sec) [ -434869.5269] [Alpha ][ 0.811090] . (20134 sec) [ -434869.5269] [Topology ] . (20322 sec) [ -434869.4948] [Topology ] . (20509 sec) [ -434869.4795] [Topology ] . (20697 sec) [ -434869.4709] [Topology ] . (20885 sec) [ -434869.4658] [Topology ] . (21073 sec) [ -434869.4629] [Topology ] . (21261 sec) [ -434869.4610] [Topology ] . Checking for NNIs, optimizing five branches... . (23557 sec) [ -434867.4564] [Topology ] . (23595 sec) [ -434867.4545] [Alpha ][ 0.810279] . (23611 sec) [ -434867.4545] [Topology ] . (23796 sec) [ -434857.2756] [Topology ] . (23981 sec) [ -434851.8400] [Topology ] . (24166 sec) [ -434849.5547] [Topology ] . (24351 sec) [ -434848.0764] [Topology ] . (24536 sec) [ -434847.1203] [Topology ] . (24721 sec) [ -434846.4719] [Topology ] . (24906 sec) [ -434846.0345] [Topology ] . Checking for NNIs, optimizing five branches... . (27229 sec) [ -434841.0403] [Topology ] . (27267 sec) [ -434841.0403] [Alpha ][ 0.810279] . (27283 sec) [ -434841.0403] [Topology ] . (27469 sec) [ -434840.6724] [Topology ] . (27656 sec) [ -434840.4707] [Topology ] . (27843 sec) [ -434840.3376] [Topology ] . (28030 sec) [ -434840.2474] [Topology ] . (28217 sec) [ -434840.1857] [Topology ] . (28404 sec) [ -434840.1434] [Topology ] . Checking for NNIs, optimizing five branches... . (30725 sec) [ -434838.7184] [Topology ] . (30764 sec) [ -434838.7184] [Alpha ][ 0.810279] . (30779 sec) [ -434838.7184] [Topology ] . (30965 sec) [ -434837.8381] [Topology ] . (31152 sec) [ -434836.6992] [Topology ] . (31338 sec) [ -434836.4251] [Topology ] . (31524 sec) [ -434836.2887] [Topology ] . (31710 sec) [ -434836.2091] [Topology ] . (31896 sec) [ -434836.1614] [Topology ] . (32082 sec) [ -434836.1321] [Topology ] . Checking for NNIs, optimizing five branches... . (34392 sec) [ -434836.1321] [Alpha ][ 0.810279] . (34407 sec) [ -434836.1321] [Topology ] . (34593 sec) [ -434836.1141] [Topology ] . (34779 sec) [ -434836.1029] [Topology ] . (34965 sec) [ -434836.0959] [Topology ] . (35151 sec) [ -434836.0914] [Topology ] . (35337 sec) [ -434836.0885] [Topology ] . (35524 sec) [ -434836.0866] [Topology ] . Checking for NNIs, optimizing five branches... . (37822 sec) [ -434836.0866] [Alpha ][ 0.810279] . (37837 sec) [ -434836.0866] [Topology ] . (38023 sec) [ -434836.0854] [Topology ] . (38209 sec) [ -434836.0844] [Topology ] . Checking for NNIs, optimizing five branches... . (40510 sec) [ -434836.0844] [Alpha ][ 0.810279] . (40526 sec) [ -434836.0844] [Topology ] . (40712 sec) [ -434836.0838] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -434836.083826. . Printing the most likely tree in file 'proteic_M3756_77x11234_2008.phy_phyml_tree.txt'... . Time used 12h34m16s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 45152.07user 0.00system 12:34:50elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps