.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1487_52x981_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 : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 623 patterns found. (out of a total of 981 sites) . 470 sites without polymorphism (47.91%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 78Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 3 sec) [ -16605.2876] [Alpha ][ 0.500960] . ( 5 sec) [ -16595.4016] [ 2560] [depth= 1] . ( 7 sec) [ -16593.3251] [ 2559] [depth= 1] . ( 33 sec) [ -16591.2562] [ 2558] [depth= 1] . ( 458 sec) [ -16581.8807] [ 2559] [depth= 1] . ( 465 sec) [ -16572.7899] [ 2558] [depth= 1] . ( 571 sec) [ -16569.0639] [ 2559] [depth= 1] . ( 777 sec) [ -16562.4481] [ 2557] [depth= 1] . ( 835 sec) [ -16561.5336] [ 2558] [depth= 1] . ( 1045 sec) [ -16554.3289] [ 2558] [depth= 1] . ( 1047 sec) [ -16550.8681] [ 2558] [depth= 1] . ( 1048 sec) [ -16542.7190] [ 2558] [depth= 3] . ( 1051 sec) [ -16541.9999] [ 2558] [depth= 1] . ( 1146 sec) [ -16541.5593] [ 2566] [depth= 3] . ( 1148 sec) [ -16514.1734] [ 2563] [depth= 3] . ( 1203 sec) [ -16500.1533] [ 2558] [depth= 3] . ( 1226 sec) [ -16496.7002] [ 2556] [depth= 1] . ( 1231 sec) [ -16495.8871] [ 2555] [depth= 1] . ( 1233 sec) [ -16491.9307] [ 2555] [depth= 1] . ( 1234 sec) [ -16491.5861] [ 2558] [depth= 1] . ( 1243 sec) [ -16489.0742] [ 2555] [depth= 2] . ( 1245 sec) [ -16487.4415] [ 2555] [depth= 1] . ( 1246 sec) [ -16480.2012] [ 2552] [depth= 3] . ( 1249 sec) [ -16477.5478] [ 2559] [depth= 1] . ( 1261 sec) [ -16470.7002] [ 2552] [depth= 1] . ( 1263 sec) [ -16469.8322] [ 2552] [depth= 1] . ( 1283 sec) [ -16469.7132] [ 2559] [depth= 5] . ( 1284 sec) [ -16459.5808] [ 2557] [depth= 1] . ( 1286 sec) [ -16457.0705] [ 2553] [depth= 1] . ( 1331 sec) [ -16456.6260] [ 2553] [depth= 1] . ( 1364 sec) [ -16455.8080] [ 2554] [depth= 1] . ( 1403 sec) [ -16454.1532] [ 2557] [depth= 1] . ( 1405 sec) [ -16450.3643] [ 2554] [depth= 1] . ( 1411 sec) [ -16445.8161] [ 2554] [depth= 1] . ( 1538 sec) [ -16431.5877] [ 2554] [depth= 1] . ( 1573 sec) [ -16431.1907] [ 2558] [depth= 3] . ( 1575 sec) [ -16421.6056] [ 2553] [depth= 3] . ( 1577 sec) [ -16413.6983] [ 2552] [depth= 2] . ( 1579 sec) [ -16413.4564] [ 2552] [depth= 1] . ( 1586 sec) [ -16412.9859] [ 2552] [depth= 1] . ( 1588 sec) [ -16407.4699] [ 2550] [depth= 3] . ( 1590 sec) [ -16404.8927] [ 2550] [depth= 1] . ( 1592 sec) [ -16404.0304] [ 2550] [depth= 1] . ( 1749 sec) [ -16401.9312] [ 2547] [depth= 4] . ( 1751 sec) [ -16400.4029] [ 2547] [depth= 2] . ( 1787 sec) [ -16323.4291] [Branch lengths ] . ( 1790 sec) [ -16302.5169] [Alpha ][ 0.364376] . ( 2704 sec) [ -16296.2295] [ 2544] [depth= 1] . ( 3458 sec) [ -16293.2801] [ 2542] [depth= 1] . ( 3492 sec) [ -16292.6142] [ 2541] [depth= 1] . ( 3540 sec) [ -16292.5059] [ 2537] [depth= 2] . ( 3624 sec) [ -16288.0061] [ 2538] [depth= 1] . ( 4073 sec) [ -16287.8439] [ 2538] [depth= 1] . ( 4090 sec) [ -16287.8029] [ 2538] [depth= 1] . ( 4278 sec) [ -16287.2080] [ 2540] [depth= 1] . ( 4299 sec) [ -16278.2062] [Branch lengths ] . ( 4301 sec) [ -16278.1156] [Alpha ][ 0.371594] . ( 5784 sec) [ -16277.7730] [ 2541] [depth= 1] . ( 6476 sec) [ -16277.0191] [Branch lengths ] . ( 6478 sec) [ -16277.0069] [Alpha ][ 0.374378] . ( 8159 sec) [ -16276.9024] [Branch lengths ] . ( 8160 sec) [ -16276.9024] [Topology ] . ( 8167 sec) [ -16276.8761] [Topology ] . ( 8175 sec) [ -16276.8695] [Topology ] . ( 8183 sec) [ -16276.8663] [Topology ] . ( 8191 sec) [ -16276.8645] [Topology ] . ( 8199 sec) [ -16276.8635] [Topology ] . ( 8207 sec) [ -16276.8628] [Topology ] . ( 8208 sec) [ -16276.8534] [Alpha ][ 0.376823] . ( 8209 sec) [ -16276.8534] [Topology ] . ( 8217 sec) [ -16276.8515] [Topology ] . ( 8225 sec) [ -16276.8504] [Topology ] . ( 8233 sec) [ -16276.8497] [Topology ] . ( 8234 sec) [ -16276.8495] [Alpha ][ 0.377200] . ( 8234 sec) [ -16276.8495] [Topology ] . ( 8242 sec) [ -16276.8489] [Topology ] . ( 8244 sec) [ -16276.8489] [Alpha ][ 0.377200] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -16276.848911. . Printing the most likely tree in file 'proteic_M1487_52x981_2003.phy_phyml_tree.txt'... . Time used 2h18m25s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 6050.14user 0.00system 2:18:26elapsed 72%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps