Sequence filename : /auto/dufayard/res/parc_wim/nucleic_M2845_68x1715_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 . 18 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... N_RGRFT: 26 N_GLOBL: 13 MAX_DIST: 13 . Log(lk) : * -> -12316.792079 . Log(lk) : -12316.792079 -> -12196.482138 9 swaps done . Log(lk) : -12196.482138 -> -12175.118887 6 swaps done . Log(lk) : -12175.118887 -> -12168.955465 4 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11418.497885 -> -11388.565334 6 swaps done . Log(lk) : -11388.565334 -> -11374.708651 3 swaps done . Log(lk) : -11374.708651 -> -11369.532787 2 swaps done . Log(lk) : -11369.532787 -> -11367.377621 1 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11365.623552 -> -11363.958453 2 swaps done . Log(lk) : -11363.958453 -> -11362.590730 2 swaps done . Log(lk) : -11362.590730 -> -11362.041773 0 swap done . Log(lk) : -11362.041773 -> -11361.773236 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11361.733440 -> -11361.574964 0 swap done . Log(lk) : -11361.574964 -> -11361.485880 0 swap done . Log(lk) : -11361.485880 -> -11361.435476 0 swap done . Log(lk) : -11361.435476 -> -11361.406836 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization Log (lk): -11361.387670 . Last optimization step... . Log(lk) : * -> -11361.372468 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11361.372468 -> -11361.368596 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11361.368596 -> -11361.368482 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11361.368482 -> -11361.368472 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11361.368472 -> -11361.368468 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11361.368468 -> -11361.368466 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11361.368466 -> -11361.368465 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -11361.368465 -> -11361.368464 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... nr_d_L: 13656 nr_d_lk: 3956 nr_loc: 100 nr_glb: 13 . Time used 0h1m25s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 76.21user 0.00system 1:24.28elapsed 90%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps