.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1990_35x153_2004.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 . 5 sites are made from completely undetermined states ('X', '-', '?')... . Compressing sequences... . 104 patterns found. (out of a total of 153 sites) . 83 sites without polymorphism (54.25%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 9Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -1475.6886] [Alpha ][ 0.500960] . ( 12 sec) [ -1475.5479] [ 181] [depth= 1] . ( 14 sec) [ -1474.1794] [ 180] [depth= 2] . ( 33 sec) [ -1473.3210] [ 180] [depth= 2] . ( 33 sec) [ -1468.9409] [ 183] [depth= 1] . ( 33 sec) [ -1466.3719] [ 180] [depth= 1] . ( 33 sec) [ -1466.1893] [ 180] [depth= 2] . ( 33 sec) [ -1465.7909] [ 180] [depth= 2] . ( 82 sec) [ -1465.7130] [ 180] [depth= 1] . ( 147 sec) [ -1465.4483] [ 181] [depth= 1] . ( 147 sec) [ -1464.5404] [ 180] [depth= 1] . ( 147 sec) [ -1464.1279] [ 180] [depth= 1] . ( 160 sec) [ -1464.0944] [ 180] [depth= 1] . ( 168 sec) [ -1463.9398] [ 180] [depth= 1] . ( 168 sec) [ -1463.2948] [ 180] [depth= 1] . ( 197 sec) [ -1458.0849] [Branch lengths ] . ( 197 sec) [ -1457.8962] [Alpha ][ 0.446406] . ( 234 sec) [ -1457.8769] [ 180] [depth= 2] . ( 240 sec) [ -1457.8074] [ 185] [depth= 3] . ( 248 sec) [ -1457.7805] [ 185] [depth= 2] . ( 274 sec) [ -1457.1222] [ 185] [depth= 1] . ( 287 sec) [ -1456.9249] [ 185] [depth= 1] . ( 407 sec) [ -1454.4562] [Branch lengths ] . ( 407 sec) [ -1454.3192] [Alpha ][ 0.406113] . ( 724 sec) [ -1454.1176] [Branch lengths ] . ( 724 sec) [ -1454.1176] [Topology ] . ( 725 sec) [ -1454.0674] [Topology ] . ( 726 sec) [ -1454.0310] [Topology ] . ( 727 sec) [ -1454.0017] [Topology ] . ( 728 sec) [ -1453.9747] [Topology ] . ( 729 sec) [ -1453.9504] [Topology ] . ( 730 sec) [ -1453.9314] [Topology ] . ( 730 sec) [ -1453.9279] [Alpha ][ 0.399938] . ( 730 sec) [ -1453.9279] [Topology ] . ( 731 sec) [ -1453.9193] [Topology ] . ( 732 sec) [ -1453.9172] [Topology ] . ( 733 sec) [ -1453.9166] [Topology ] . ( 734 sec) [ -1453.9166] [Alpha ][ 0.398949] . ( 734 sec) [ -1453.9166] [Topology ] . ( 735 sec) [ -1453.9164] [Topology ] . ( 735 sec) [ -1453.9164] [Alpha ][ 0.398949] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -1453.916361. . Printing the most likely tree in file 'proteic_M1990_35x153_2004.phy_phyml_tree.txt'... . Time used 0h12m22s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 639.08user 0.00system 12:22.53elapsed 86%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps