.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1504_37x547_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... . 429 patterns found. (out of a total of 547 sites) . 136 sites without polymorphism (24.86%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 38Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -12688.8590] [Alpha ][ 0.659988] . ( 2 sec) [ -12688.8590] [Topology ] . ( 5 sec) [ -12601.2388] [Topology ] . ( 9 sec) [ -12591.8603] [Topology ] . ( 13 sec) [ -12590.3330] [Topology ] . ( 17 sec) [ -12589.7518] [Topology ] . ( 20 sec) [ -12589.4532] [Topology ] . ( 24 sec) [ -12589.2792] [Topology ] . ( 28 sec) [ -12589.1721] [Topology ] . Checking for NNIs, optimizing five branches... . ( 57 sec) [ -12586.5064] [Alpha ][ 0.768607] . ( 57 sec) [ -12586.5064] [Topology ] . ( 61 sec) [ -12586.1292] [Topology ] . ( 64 sec) [ -12585.9206] [Topology ] . ( 68 sec) [ -12585.7972] [Topology ] . ( 72 sec) [ -12585.7230] [Topology ] . ( 75 sec) [ -12585.6778] [Topology ] . ( 79 sec) [ -12585.6500] [Topology ] . Checking for NNIs, optimizing five branches... . ( 108 sec) [ -12585.6047] [Alpha ][ 0.784498] . ( 108 sec) [ -12585.6047] [Topology ] . ( 112 sec) [ -12585.5782] [Topology ] . ( 115 sec) [ -12585.5622] [Topology ] . ( 119 sec) [ -12585.5523] [Topology ] . ( 123 sec) [ -12585.5463] [Topology ] . ( 127 sec) [ -12585.5425] [Topology ] . ( 130 sec) [ -12585.5402] [Topology ] . Checking for NNIs, optimizing five branches... . ( 159 sec) [ -12585.5386] [Alpha ][ 0.787411] . ( 159 sec) [ -12585.5386] [Topology ] . ( 163 sec) [ -12585.5367] [Topology ] . ( 166 sec) [ -12585.5356] [Topology ] . ( 170 sec) [ -12585.5348] [Topology ] . Checking for NNIs, optimizing five branches... . ( 199 sec) [ -12585.5348] [Alpha ][ 0.788198] . ( 199 sec) [ -12585.5348] [Topology ] . ( 203 sec) [ -12585.5343] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 262 sec) [ -12688.8590] [Alpha ][ 0.659988] . ( 272 sec) [ -12684.2203] [ 2077] [depth= 1] . ( 273 sec) [ -12676.3688] [ 2073] [depth= 1] . ( 273 sec) [ -12674.9374] [ 2075] [depth= 1] . ( 274 sec) [ -12673.8585] [ 2073] [depth= 1] . ( 275 sec) [ -12665.9111] [ 2074] [depth= 2] . ( 275 sec) [ -12660.8542] [ 2079] [depth= 1] . ( 276 sec) [ -12660.0933] [ 2079] [depth= 1] . ( 276 sec) [ -12659.7274] [ 2074] [depth= 1] . ( 282 sec) [ -12659.6120] [ 2075] [depth= 1] . ( 282 sec) [ -12656.1804] [ 2074] [depth= 1] . ( 284 sec) [ -12655.2707] [ 2079] [depth= 1] . ( 286 sec) [ -12651.6896] [ 2069] [depth= 2] . ( 288 sec) [ -12638.6803] [ 2072] [depth= 1] . ( 289 sec) [ -12636.7169] [ 2068] [depth= 1] . ( 290 sec) [ -12633.4255] [ 2074] [depth= 1] . ( 290 sec) [ -12627.7603] [ 2068] [depth= 1] . ( 291 sec) [ -12627.6648] [ 2069] [depth= 3] . ( 294 sec) [ -12604.8636] [Branch lengths ] . ( 294 sec) [ -12602.7370] [Alpha ][ 0.756529] . ( 306 sec) [ -12600.2376] [ 2076] [depth= 1] . ( 312 sec) [ -12599.6229] [ 2078] [depth= 1] . ( 326 sec) [ -12599.4021] [ 2075] [depth= 1] . ( 327 sec) [ -12599.3808] [ 2078] [depth= 1] . ( 328 sec) [ -12599.0854] [ 2078] [depth= 1] . ( 335 sec) [ -12599.0589] [ 2074] [depth= 1] . ( 337 sec) [ -12592.7926] [Branch lengths ] . ( 338 sec) [ -12592.7654] [Alpha ][ 0.768650] . ( 347 sec) [ -12591.2793] [ 2067] [depth= 1] . ( 363 sec) [ -12590.9233] [ 2069] [depth= 2] . ( 366 sec) [ -12590.8398] [ 2071] [depth= 1] . ( 369 sec) [ -12590.6237] [ 2072] [depth= 2] . ( 370 sec) [ -12590.2591] [ 2069] [depth= 1] . ( 374 sec) [ -12585.8948] [Branch lengths ] . ( 374 sec) [ -12585.8629] [Alpha ][ 0.781989] . ( 421 sec) [ -12585.5989] [Branch lengths ] . ( 421 sec) [ -12585.5989] [Topology ] . ( 425 sec) [ -12585.5703] [Topology ] . ( 430 sec) [ -12585.5588] [Topology ] . ( 435 sec) [ -12585.5520] [Topology ] . ( 440 sec) [ -12585.5478] [Topology ] . ( 444 sec) [ -12585.5452] [Topology ] . ( 449 sec) [ -12585.5436] [Topology ] . ( 450 sec) [ -12585.5381] [Alpha ][ 0.787518] . ( 450 sec) [ -12585.5381] [Topology ] . ( 455 sec) [ -12585.5364] [Topology ] . ( 460 sec) [ -12585.5353] [Topology ] . ( 464 sec) [ -12585.5346] [Topology ] . ( 465 sec) [ -12585.5346] [Alpha ][ 0.788305] . ( 465 sec) [ -12585.5346] [Topology ] . ( 469 sec) [ -12585.5342] [Topology ] . ( 469 sec) [ -12585.5342] [Alpha ][ 0.788305] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -12585.534289 . Log likelihood obtained after SPR moves : -12585.534159 . Log likelihood of the current tree: -12585.534159. . Printing the most likely tree in file 'proteic_M1504_37x547_2003.phy_phyml_tree.txt'... . Time used 0h8m19s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 475.92user 0.00system 8:19.81elapsed 95%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps