.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1376_36x484_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... . 392 patterns found. (out of a total of 484 sites) . 132 sites without polymorphism (27.27%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 34Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -11637.9226] [Alpha ][ 0.518665] . ( 2 sec) [ -11637.9226] [Topology ] . ( 5 sec) [ -11554.1149] [Topology ] . ( 9 sec) [ -11539.4579] [Topology ] . ( 12 sec) [ -11537.1299] [Topology ] . ( 15 sec) [ -11536.3324] [Topology ] . ( 18 sec) [ -11536.0538] [Topology ] . ( 21 sec) [ -11535.9271] [Topology ] . ( 25 sec) [ -11535.8649] [Topology ] . ( 28 sec) [ -11535.8332] [Topology ] . ( 32 sec) [ -11535.8168] [Topology ] . Checking for NNIs, optimizing five branches... . ( 56 sec) [ -11532.2276] [Alpha ][ 0.620126] . ( 57 sec) [ -11532.2276] [Topology ] . ( 60 sec) [ -11531.7825] [Topology ] . ( 63 sec) [ -11531.5866] [Topology ] . ( 67 sec) [ -11531.4867] [Topology ] . ( 70 sec) [ -11531.4342] [Topology ] . ( 73 sec) [ -11531.4061] [Topology ] . ( 77 sec) [ -11531.3908] [Topology ] . Checking for NNIs, optimizing five branches... . ( 101 sec) [ -11531.2968] [Alpha ][ 0.638052] . ( 101 sec) [ -11531.2968] [Topology ] . ( 104 sec) [ -11531.2694] [Topology ] . ( 107 sec) [ -11531.2552] [Topology ] . ( 111 sec) [ -11531.2476] [Topology ] . ( 114 sec) [ -11531.2433] [Topology ] . ( 117 sec) [ -11531.2410] [Topology ] . ( 120 sec) [ -11531.2397] [Topology ] . Checking for NNIs, optimizing five branches... . ( 144 sec) [ -11531.2341] [Alpha ][ 0.642636] . ( 145 sec) [ -11531.2341] [Topology ] . ( 148 sec) [ -11531.2321] [Topology ] . ( 151 sec) [ -11531.2310] [Topology ] . ( 154 sec) [ -11531.2305] [Topology ] . Checking for NNIs, optimizing five branches... . ( 178 sec) [ -11531.2303] [Alpha ][ 0.643358] . ( 179 sec) [ -11531.2303] [Topology ] . ( 182 sec) [ -11531.2299] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 231 sec) [ -11637.9226] [Alpha ][ 0.518665] . ( 232 sec) [ -11631.6742] [ 1985] [depth= 2] . ( 232 sec) [ -11621.6295] [ 1984] [depth= 1] . ( 233 sec) [ -11620.5240] [ 1985] [depth= 1] . ( 236 sec) [ -11619.8317] [ 1982] [depth= 1] . ( 238 sec) [ -11609.7200] [ 1988] [depth= 2] . ( 239 sec) [ -11608.6178] [ 1989] [depth= 1] . ( 239 sec) [ -11607.0074] [ 1990] [depth= 2] . ( 240 sec) [ -11599.9160] [ 1984] [depth= 2] . ( 242 sec) [ -11597.2386] [ 1984] [depth= 1] . ( 243 sec) [ -11596.8186] [ 1987] [depth= 1] . ( 258 sec) [ -11595.2558] [ 1989] [depth= 1] . ( 259 sec) [ -11593.4193] [ 1987] [depth= 1] . ( 267 sec) [ -11592.3146] [ 1989] [depth= 1] . ( 269 sec) [ -11588.2502] [ 1988] [depth= 1] . ( 270 sec) [ -11583.5716] [ 1989] [depth= 1] . ( 273 sec) [ -11582.8126] [ 1993] [depth= 1] . ( 273 sec) [ -11582.5599] [ 1991] [depth= 1] . ( 273 sec) [ -11579.7474] [ 1987] [depth= 1] . ( 274 sec) [ -11578.3774] [ 1986] [depth= 1] . ( 275 sec) [ -11576.9045] [ 1987] [depth= 1] . ( 284 sec) [ -11575.7663] [ 1986] [depth= 1] . ( 290 sec) [ -11538.2300] [Branch lengths ] . ( 291 sec) [ -11535.8415] [Alpha ][ 0.600355] . ( 295 sec) [ -11535.3104] [ 1985] [depth= 1] . ( 325 sec) [ -11534.6567] [ 1985] [depth= 1] . ( 336 sec) [ -11534.4673] [ 1985] [depth= 1] . ( 361 sec) [ -11530.7399] [Branch lengths ] . ( 362 sec) [ -11530.6210] [Alpha ][ 0.620040] . ( 436 sec) [ -11530.0763] [Branch lengths ] . ( 436 sec) [ -11530.0763] [Topology ] . ( 439 sec) [ -11530.0026] [Topology ] . ( 442 sec) [ -11529.9748] [Topology ] . ( 446 sec) [ -11529.9604] [Topology ] . ( 449 sec) [ -11529.9526] [Topology ] . ( 452 sec) [ -11529.9483] [Topology ] . ( 455 sec) [ -11529.9460] [Topology ] . ( 456 sec) [ -11529.8830] [Alpha ][ 0.635152] . ( 456 sec) [ -11529.8830] [Topology ] . ( 459 sec) [ -11529.8730] [Topology ] . ( 462 sec) [ -11529.8682] [Topology ] . ( 465 sec) [ -11529.8656] [Topology ] . ( 469 sec) [ -11529.8641] [Topology ] . ( 472 sec) [ -11529.8633] [Topology ] . ( 472 sec) [ -11529.8621] [Alpha ][ 0.637238] . ( 473 sec) [ -11529.8621] [Topology ] . ( 476 sec) [ -11529.8613] [Topology ] . ( 476 sec) [ -11529.8613] [Alpha ][ 0.637238] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -11531.229874 . Log likelihood obtained after SPR moves : -11529.861279 . Log likelihood of the current tree: -11529.861279. . Printing the most likely tree in file 'proteic_M1376_36x484_2003.phy_phyml_tree.txt'... . Time used 0h8m21s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 495.50user 0.00system 8:22.68elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps