Sequence filename : /auto/dufayard/res/parc_wim/nucleic_M2696_50x1472_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: 19 N_GLOBL: 9 MAX_DIST: 9 . Log(lk) : * -> -6332.040453 . Log(lk) : -6332.040453 -> -6300.104883 7 swaps done . Log(lk) : -6300.104883 -> -6283.079341 4 swaps done . Log(lk) : -6283.079341 -> -6272.707450 3 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6183.486039 -> -6175.779777 3 swaps done . Log(lk) : -6175.779777 -> -6175.059250 2 swaps done . Log(lk) : -6175.059250 -> -6174.922503 1 swap done . Log(lk) : -6174.922503 -> -6174.974067 1 swap done . Moving backward (topology + branch lengths) . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -6174.922503 -> -6174.813651 1 swap done . Log(lk) : -6174.813651 -> -6174.766500 0 swap done . Log(lk) : -6174.766500 -> -6174.761014 0 swap done . Log(lk) : -6174.761014 -> -6174.760055 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods making move: 15 -> 24 (4.791301) Log (lk): -6169.337639 . Log(lk) : -6169.337639 -> -6169.335784 2 swaps done . Log(lk) : -6169.335784 -> -6169.335208 1 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization Log (lk): -6169.335216 nr_d_L: 14094 nr_d_lk: 4181 nr_loc: 100 nr_glb: 9 . Time used 0h0m38s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 35.75user 0.00system 0:38.45elapsed 92%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps