Sequence filename : /auto/dufayard/res/parc_wim/proteic_M1378_18x1561_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 Starting tree : BIONJ Optimise tree topology : yes Optimise branch lengths and rate parameters : yes . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... N_RGRFT: 6 N_GLOBL: 3 MAX_DIST: 3 . Log(lk) : * -> -16484.401716 . Log(lk) : -16484.401716 -> -16350.814474 2 swaps done . Log(lk) : -16350.814474 -> -16304.432378 2 swaps done . Log(lk) : -16304.432378 -> -16294.770310 0 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -16061.870927 -> -16057.175248 0 swap done . Log(lk) : -16057.175248 -> -16056.099246 0 swap done . Log(lk) : -16056.099246 -> -16055.684215 0 swap done . Log(lk) : -16055.684215 -> -16055.511070 0 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -16055.505508 -> -16055.427087 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods making move: 9 -> 10 (0.844137) making move: 25 -> 7 (5.119666) Log (lk): -16036.005322 . Log(lk) : -16036.005322 -> -16040.797819 1 swap done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -16036.005322 -> -16035.861381 1 swap done . Log(lk) : -16035.861381 -> -16035.600432 1 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -16035.600324 -> -16029.505445 2 swaps done . Log(lk) : -16029.505445 -> -16021.283679 3 swaps done . Log(lk) : -16021.283679 -> -16020.622885 0 swap done . Log(lk) : -16020.622885 -> -16020.558827 0 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -16020.555759 -> -16020.542625 0 swap done . Log(lk) : -16020.542625 -> -16020.539208 0 swap done . Log(lk) : -16020.539208 -> -16020.538182 0 swap done . Log(lk) : -16020.538182 -> -16020.537836 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations making move: 11 -> 3 (1.306199) Log (lk): -16017.935631 . Optimisation of the gamma shape parameter... . Log(lk) : -16017.932815 -> -16017.648268 0 swap done . Log(lk) : -16017.648268 -> -16017.629679 0 swap done . Log(lk) : -16017.629679 -> -16017.625355 0 swap done . Log(lk) : -16017.625355 -> -16017.623741 0 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -16017.623741 -> -16017.623063 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization Log (lk): -16017.631677 nr_d_L: 1268 nr_d_lk: 694 nr_loc: 125 nr_glb: 3 . Time used 0h3m11s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 189.75user 0.00system 3:10.61elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps