Sequence filename : 		 /auto/dufayard/res/parc_wim/nucleic_M2662_60x1348_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

. 7 sites are made from completely undetermined states ('X', '-', '?' or 'N')...

. Compressing sequences...

. Computing pairwise distances...

. Building BIONJ tree...

N_RGRFT: 23  N_GLOBL: 11  MAX_DIST: 11


. Log(lk) :               * ->   -13643.585022 
. Log(lk) :   -13643.585022 ->   -13478.984020   7 swaps done 
. Log(lk) :   -13478.984020 ->   -13458.867724   3 swaps done 
. Log(lk) :   -13458.867724 ->   -13454.979920   2 swaps done 

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :   -12392.843204 ->   -12369.000133   3 swaps done 
. Log(lk) :   -12369.000133 ->   -12362.506770   0 swap  done
. Log(lk) :   -12362.506770 ->   -12359.537672   1 swap  done
. Log(lk) :   -12359.537672 ->   -12356.187056   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :   -12352.258643 ->   -12350.862768   0 swap  done
. Log(lk) :   -12350.862768 ->   -12350.224875   0 swap  done
. Log(lk) :   -12350.224875 ->   -12349.897249   0 swap  done
. Log(lk) :   -12349.897249 ->   -12349.722524   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :   -12349.670360 ->   -12349.553445   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 -> 19 (0.438092)
Log (lk): -12349.063925

. Log(lk) :   -12349.063925 ->   -12349.033591   0 swap  done
. Log(lk) :   -12349.033591 ->   -12349.029481   0 swap  done
. Log(lk) :   -12349.029481 ->   -12349.028094   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :   -12349.002136 ->   -12349.000850   0 swap  done
. Log(lk) :   -12349.000850 ->   -12349.000261   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
  making move: 1 -> 114 (0.084962)
Log (lk): -12348.915199

. Log(lk) :   -12348.915199 ->   -12348.901201   0 swap  done
. Log(lk) :   -12348.901201 ->   -12348.898970   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :   -12348.896668 ->   -12348.895687   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  making move: 108 -> 109 (1.032156)
Log (lk): -12347.349228

. Log(lk) :   -12347.349228 ->   -12347.325628   0 swap  done
. Log(lk) :   -12347.325628 ->   -12347.324099   0 swap  done
. Log(lk) :   -12347.324099 ->   -12347.323669   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
Log (lk): -12347.330348
nr_d_L:  49040
nr_d_lk: 12044
nr_loc:  301
nr_glb:  13



. Time used 0h1m44s

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

103.77user 0.00system 1:44.41elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k
0inputs+0outputs (0major+0minor)pagefaults 0swaps