.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2577_40x12260_2005.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... . 11473 patterns found. (out of a total of 12260 sites) . 2202 sites without polymorphism (17.96%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis requires at least 1075Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 26 sec) [ -342472.8948] [Alpha ][ 0.708084] . ( 48 sec) [ -342471.7188] [62184] [depth= 1] . ( 84 sec) [ -342468.6372] [62208] [depth= 1] . ( 144 sec) [ -342277.9841] [62199] [depth= 1] . ( 162 sec) [ -342257.6849] [62202] [depth= 1] . ( 238 sec) [ -342136.0589] [62159] [depth= 1] . ( 332 sec) [ -342094.3803] [62359] [depth= 1] . ( 348 sec) [ -342091.5141] [62364] [depth= 1] . ( 428 sec) [ -342029.1892] [62381] [depth= 1] . ( 506 sec) [ -342014.1433] [62479] [depth= 1] . ( 521 sec) [ -341993.9864] [62474] [depth= 1] . ( 559 sec) [ -341839.7657] [62436] [depth= 2] . ( 628 sec) [ -341805.6895] [62173] [depth= 1] . ( 652 sec) [ -341747.6286] [62138] [depth= 1] . ( 671 sec) [ -341650.8828] [62131] [depth= 1] . ( 686 sec) [ -341633.3281] [62138] [depth= 1] . ( 723 sec) [ -341627.0048] [62137] [depth= 2] . ( 761 sec) [ -341446.6664] [62122] [depth= 1] . ( 811 sec) [ -341359.4518] [62122] [depth= 1] . ( 827 sec) [ -341334.9960] [62122] [depth= 1] . ( 854 sec) [ -341298.5710] [62123] [depth= 1] . ( 935 sec) [ -340267.7807] [Branch lengths ] . ( 956 sec) [ -340215.0048] [Alpha ][ 0.809643] . ( 985 sec) [ -340192.2540] [62099] [depth= 1] . ( 1074 sec) [ -340186.1358] [62095] [depth= 1] . ( 1468 sec) [ -340137.5618] [62086] [depth= 1] . ( 1634 sec) [ -340137.1743] [62088] [depth= 1] . ( 1651 sec) [ -340131.4126] [62090] [depth= 1] . ( 1757 sec) [ -339974.1455] [Branch lengths ] . ( 1777 sec) [ -339972.9777] [Alpha ][ 0.826350] . ( 1888 sec) [ -339964.1776] [62091] [depth= 1] . ( 2575 sec) [ -339941.0412] [Branch lengths ] . ( 2595 sec) [ -339940.9024] [Alpha ][ 0.832112] . ( 3386 sec) [ -339936.7222] [Branch lengths ] . ( 3393 sec) [ -339936.7222] [Topology ] . ( 3486 sec) [ -339930.4638] [Topology ] . ( 3579 sec) [ -339918.3930] [Topology ] . ( 3672 sec) [ -339916.5734] [Topology ] . ( 3765 sec) [ -339916.0139] [Topology ] . ( 3857 sec) [ -339915.8016] [Topology ] . ( 3950 sec) [ -339915.7047] [Topology ] . ( 4043 sec) [ -339915.6514] [Topology ] . ( 4063 sec) [ -339915.6339] [Alpha ][ 0.834105] . ( 4070 sec) [ -339915.6339] [Topology ] . ( 4164 sec) [ -339915.5980] [Topology ] . ( 4257 sec) [ -339915.5724] [Topology ] . ( 4349 sec) [ -339915.5525] [Topology ] . ( 4443 sec) [ -339915.5365] [Topology ] . ( 4535 sec) [ -339915.5232] [Topology ] . ( 4628 sec) [ -339915.5120] [Topology ] . ( 4646 sec) [ -339915.5120] [Alpha ][ 0.834105] . ( 4653 sec) [ -339915.5120] [Topology ] . ( 4746 sec) [ -339915.5025] [Topology ] . ( 4838 sec) [ -339915.4942] [Topology ] . ( 4931 sec) [ -339915.4870] [Topology ] . ( 5024 sec) [ -339915.4809] [Topology ] . ( 5117 sec) [ -339915.4755] [Topology ] . ( 5210 sec) [ -339915.4709] [Topology ] . ( 5228 sec) [ -339915.4709] [Alpha ][ 0.834105] . ( 5235 sec) [ -339915.4709] [Topology ] . ( 5328 sec) [ -339915.4668] [Topology ] . ( 5421 sec) [ -339915.4632] [Topology ] . ( 5514 sec) [ -339915.4601] [Topology ] . ( 5607 sec) [ -339915.4573] [Topology ] . ( 5699 sec) [ -339915.4549] [Topology ] . ( 5792 sec) [ -339915.4528] [Topology ] . ( 5810 sec) [ -339915.4528] [Alpha ][ 0.834105] . ( 5817 sec) [ -339915.4528] [Topology ] . ( 5910 sec) [ -339915.4509] [Topology ] . ( 6003 sec) [ -339915.4493] [Topology ] . ( 6096 sec) [ -339915.4478] [Topology ] . ( 6189 sec) [ -339915.4465] [Topology ] . ( 6281 sec) [ -339915.4454] [Topology ] . ( 6374 sec) [ -339915.4444] [Topology ] . ( 6392 sec) [ -339915.4444] [Alpha ][ 0.834105] . ( 6399 sec) [ -339915.4444] [Topology ] . ( 6492 sec) [ -339915.4435] [Topology ] . ( 6509 sec) [ -339915.4435] [Alpha ][ 0.834105] . Checking for NNIs, optimizing five branches... . ( 7691 sec) [ -339907.7859] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -339907.785857. . Printing the most likely tree in file 'proteic_M2577_40x12260_2005.phy_phyml_tree.txt'... . Time used 2h27m27s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 8757.67user 0.00system 2:27:36elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps