.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1499_22x513_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... . 440 patterns found. (out of a total of 513 sites) . 87 sites without polymorphism (16.96%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 22Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -12557.6395] [Alpha ][ 0.856477] . ( 1 sec) [ -12557.6395] [Topology ] . ( 3 sec) [ -12484.9190] [Topology ] . ( 4 sec) [ -12478.1976] [Topology ] . ( 6 sec) [ -12476.2470] [Topology ] . ( 8 sec) [ -12475.3143] [Topology ] . ( 10 sec) [ -12474.7983] [Topology ] . ( 12 sec) [ -12474.4984] [Topology ] . Checking for NNIs, optimizing five branches... . ( 28 sec) [ -12472.2624] [Alpha ][ 0.994811] . ( 28 sec) [ -12472.2624] [Topology ] . ( 30 sec) [ -12471.9802] [Topology ] . ( 32 sec) [ -12471.8311] [Topology ] . ( 34 sec) [ -12471.7482] [Topology ] . ( 36 sec) [ -12471.7019] [Topology ] . ( 37 sec) [ -12471.6755] [Topology ] . ( 39 sec) [ -12471.6607] [Topology ] . Checking for NNIs, optimizing five branches... . ( 55 sec) [ -12471.6582] [Alpha ][ 0.999840] . ( 56 sec) [ -12471.6582] [Topology ] . ( 57 sec) [ -12471.6496] [Topology ] . ( 59 sec) [ -12471.6447] [Topology ] . ( 61 sec) [ -12471.6419] [Topology ] . ( 63 sec) [ -12471.6404] [Topology ] . ( 65 sec) [ -12471.6395] [Topology ] . Checking for NNIs, optimizing five branches... . ( 81 sec) [ -12471.6395] [Alpha ][ 0.999840] . ( 81 sec) [ -12471.6395] [Topology ] . ( 83 sec) [ -12471.6389] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 115 sec) [ -12557.6395] [Alpha ][ 0.856477] . ( 119 sec) [ -12555.7312] [ 2338] [depth= 1] . ( 120 sec) [ -12555.3621] [ 2338] [depth= 1] . ( 121 sec) [ -12552.4390] [ 2338] [depth= 1] . ( 121 sec) [ -12543.7453] [ 2338] [depth= 1] . ( 122 sec) [ -12536.4678] [ 2338] [depth= 1] . ( 123 sec) [ -12533.0242] [ 2339] [depth= 1] . ( 123 sec) [ -12530.6027] [ 2340] [depth= 1] . ( 124 sec) [ -12525.0215] [ 2339] [depth= 1] . ( 126 sec) [ -12524.3564] [ 2343] [depth= 1] . ( 126 sec) [ -12513.4581] [ 2339] [depth= 1] . ( 129 sec) [ -12509.8724] [ 2341] [depth= 1] . ( 132 sec) [ -12507.5321] [ 2339] [depth= 1] . ( 134 sec) [ -12481.1962] [Branch lengths ] . ( 134 sec) [ -12479.6864] [Alpha ][ 0.969158] . ( 157 sec) [ -12475.3112] [Branch lengths ] . ( 157 sec) [ -12475.3112] [Topology ] . ( 159 sec) [ -12473.0541] [Topology ] . ( 160 sec) [ -12472.0492] [Topology ] . ( 162 sec) [ -12471.8833] [Topology ] . ( 164 sec) [ -12471.8153] [Topology ] . ( 166 sec) [ -12471.7806] [Topology ] . ( 168 sec) [ -12471.7614] [Topology ] . ( 170 sec) [ -12471.7506] [Topology ] . ( 170 sec) [ -12471.6554] [Alpha ][ 0.999427] . ( 170 sec) [ -12471.6554] [Topology ] . ( 172 sec) [ -12471.6478] [Topology ] . ( 174 sec) [ -12471.6437] [Topology ] . ( 176 sec) [ -12471.6414] [Topology ] . ( 178 sec) [ -12471.6401] [Topology ] . ( 179 sec) [ -12471.6393] [Topology ] . ( 180 sec) [ -12471.6393] [Alpha ][ 1.000426] . ( 180 sec) [ -12471.6393] [Topology ] . ( 182 sec) [ -12471.6388] [Topology ] . ( 182 sec) [ -12471.6388] [Alpha ][ 1.000426] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -12471.638936 . Log likelihood obtained after SPR moves : -12471.638827 . Log likelihood of the current tree: -12471.638827. . Printing the most likely tree in file 'proteic_M1499_22x513_2003.phy_phyml_tree.txt'... . Time used 0h3m18s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 193.11user 0.00system 3:18.21elapsed 97%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps