Sequence filename : /auto/dufayard/res/parc_wim/nucleic_M2627_54x1915_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 . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... N_RGRFT: 21 N_GLOBL: 10 MAX_DIST: 10 . Log(lk) : * -> -38092.960410 . Log(lk) : -38092.960410 -> -37829.432935 4 swaps done . Log(lk) : -37829.432935 -> -37809.134730 2 swaps done . Log(lk) : -37809.134730 -> -37804.538196 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35353.923579 -> -35319.486461 2 swaps done . Log(lk) : -35319.486461 -> -35310.998737 1 swap done . Log(lk) : -35310.998737 -> -35309.336618 0 swap done . Log(lk) : -35309.336618 -> -35308.503249 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35271.040957 -> -35266.316953 0 swap done . Log(lk) : -35266.316953 -> -35264.085095 0 swap done . Log(lk) : -35264.085095 -> -35262.707459 0 swap done . Log(lk) : -35262.707459 -> -35261.812442 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization making move: 17 -> 16 (0.023533) Log (lk): -35261.225525 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35258.234258 -> -35256.714530 1 swap done . Log(lk) : -35256.714530 -> -35256.096298 0 swap done . Log(lk) : -35256.096298 -> -35255.786913 0 swap done . Log(lk) : -35255.786913 -> -35255.575451 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35255.435887 -> -35255.188299 0 swap done . Log(lk) : -35255.188299 -> -35255.011572 0 swap done . Log(lk) : -35255.011572 -> -35254.882553 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization Log (lk): -35254.539217 . Last optimization step... . Log(lk) : * -> -35254.530303 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.530303 -> -35254.310224 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.310224 -> -35254.263010 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.263010 -> -35254.217365 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.217365 -> -35254.203719 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.203719 -> -35254.199331 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.199331 -> -35254.198983 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198983 -> -35254.198961 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198961 -> -35254.198956 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198956 -> -35254.198953 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198953 -> -35254.198950 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198950 -> -35254.198948 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198948 -> -35254.198945 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198945 -> -35254.198943 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198943 -> -35254.198941 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198941 -> -35254.198939 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198939 -> -35254.198937 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198937 -> -35254.198935 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198935 -> -35254.198933 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198933 -> -35254.198931 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198931 -> -35254.198930 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198930 -> -35254.198928 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198928 -> -35254.198927 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198927 -> -35254.198925 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198925 -> -35254.198924 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198924 -> -35254.198922 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198922 -> -35254.198921 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198921 -> -35254.198920 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198920 -> -35254.198918 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198918 -> -35254.198917 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198917 -> -35254.198916 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198916 -> -35254.198914 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198914 -> -35254.198913 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198913 -> -35254.198912 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198912 -> -35254.198911 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198911 -> -35254.198909 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198909 -> -35254.198908 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198908 -> -35254.198907 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198907 -> -35254.198906 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -35254.198906 -> -35254.198905 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... nr_d_L: 16048 nr_d_lk: 5068 nr_loc: 200 nr_glb: 11 . Time used 0h4m26s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 225.93user 0.00system 4:26.64elapsed 84%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps