Sequence filename : /auto/dufayard/res/parc_wim/nucleic_M2567_64x1044_2006.phy Data type : dna Sequence format : interleaved Number of data sets : 1 Nb of bootstrapped data sets : 0 Model name : GTR 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 . 1 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... N_RGRFT: 25 N_GLOBL: 12 MAX_DIST: 12 . Log(lk) : * -> -7313.053255 . Log(lk) : -7313.053255 -> -7245.595397 6 swaps done . Log(lk) : -7245.595397 -> -7229.532861 4 swaps done . Log(lk) : -7229.532861 -> -7228.149368 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6811.008074 -> -6803.118518 3 swaps done . Log(lk) : -6803.118518 -> -6799.999844 2 swaps done . Log(lk) : -6799.999844 -> -6798.753034 0 swap done . Log(lk) : -6798.753034 -> -6798.167705 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6797.464554 -> -6797.136337 0 swap done . Log(lk) : -6797.136337 -> -6796.973784 0 swap done . Log(lk) : -6796.973784 -> -6796.891649 0 swap done . Log(lk) : -6796.891649 -> -6796.849786 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations making move: 39 -> 47 (0.223383) Log (lk): -6796.594709 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6796.590050 -> -6796.574689 1 swap done . Log(lk) : -6796.574689 -> -6796.571882 0 swap done . Log(lk) : -6796.571882 -> -6796.570626 0 swap done . Log(lk) : -6796.570626 -> -6796.569996 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization Log (lk): -6796.569996 nr_d_L: 23376 nr_d_lk: 7144 nr_loc: 152 nr_glb: 12 . Time used 0h0m49s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 48.48user 0.00system 0:48.76elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps