Sequence filename : /auto/dufayard/res/parc_wim/proteic_M1993_28x93_2004.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: 10 N_GLOBL: 5 MAX_DIST: 5 . Log(lk) : * -> -2052.769656 . Log(lk) : -2052.769656 -> -2035.635417 3 swaps done . Log(lk) : -2035.635417 -> -2026.941682 3 swaps done . Log(lk) : -2026.941682 -> -2024.371943 3 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -2010.592949 -> -2007.446307 2 swaps done . Log(lk) : -2007.446307 -> -2006.812975 1 swap done . Log(lk) : -2006.812975 -> -2006.689746 0 swap done . Log(lk) : -2006.689746 -> -2006.631932 0 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -2006.629629 -> -2006.592416 0 swap done . Log(lk) : -2006.592416 -> -2006.567484 0 swap done . Log(lk) : -2006.567484 -> -2006.550439 0 swap done . Log(lk) : -2006.550439 -> -2006.538829 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods making move: 38 -> 36 (0.085991) Log (lk): -2005.467926 . Optimisation of the gamma shape parameter... . Log(lk) : -2005.467583 -> -2005.380615 1 swap done . Log(lk) : -2005.380615 -> -2005.164041 0 swap done . Log(lk) : -2005.164041 -> -2005.107787 0 swap done . Log(lk) : -2005.107787 -> -2005.093063 0 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -2005.093008 -> -2005.088629 0 swap done . Log(lk) : -2005.088629 -> -2005.087120 0 swap done . Log(lk) : -2005.087120 -> -2005.086525 0 swap done Trying SPR moves -calculating tree distances and estimating likelihoods -performing local edge length optimizations -performing global edge length optimization Log (lk): -2005.086108 . Last optimization step... . Log(lk) : * -> -2005.086108 . Optimisation of the gamma shape parameter... . Log(lk) : -2005.086108 -> -2005.086107 . Optimisation of the gamma shape parameter... nr_d_L: 2824 nr_d_lk: 1256 nr_loc: 100 nr_glb: 5 . Time used 0h0m39s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 34.00user 0.00system 0:38.95elapsed 87%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps