Sequence filename : 		 /auto/dufayard/res/parc_wim/nucleic_M2928_81x1651_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: 31  N_GLOBL: 15  MAX_DIST: 15


. Log(lk) :               * ->    -7616.585976 
. Log(lk) :    -7616.585976 ->    -7567.471832  15 swaps done 
. Log(lk) :    -7567.471832 ->    -7563.119915   7 swaps done 
. Log(lk) :    -7563.119915 ->    -7562.542687   4 swaps done 

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -6733.608566 ->    -6724.229071   6 swaps done 
. Log(lk) :    -6724.229071 ->    -6721.210714   3 swaps done 
. Log(lk) :    -6721.210714 ->    -6720.375855   1 swap  done
. Log(lk) :    -6720.375855 ->    -6719.817637   1 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -6715.704069 ->    -6715.214331   0 swap  done
. Log(lk) :    -6715.214331 ->    -6715.036454   0 swap  done
. Log(lk) :    -6715.036454 ->    -6714.961119   0 swap  done
. Log(lk) :    -6714.961119 ->    -6714.927691   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -6714.915006 ->    -6714.896589   0 swap  done
. Log(lk) :    -6714.896589 ->    -6714.888398   1 swap  done
. Log(lk) :    -6714.888398 ->    -6714.884652   2 swaps done 
. Log(lk) :    -6714.884652 ->    -6714.882891   1 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -6714.882668 ->    -6714.881302   1 swap  done
. Log(lk) :    -6714.881302 ->    -6714.880706   1 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  making move: 36 -> 20 (0.078477)
  making move: 104 -> 110 (0.073531)
  making move: 109 -> 111 (0.002052)
Log (lk): -6714.716627

. Log(lk) :    -6714.716627 ->    -6714.712962   2 swaps done 
. Log(lk) :    -6714.712962 ->    -6714.711561   2 swaps done 

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -6714.711546 ->    -6714.707173   3 swaps done 
. Log(lk) :    -6714.707173 ->    -6714.706913   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
  making move: 2 -> 150 (0.000393)
Log (lk): -6714.705910

. Log(lk) :    -6714.705910 ->    -6714.705624   1 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
  making move: 2 -> 150 (0.000337)
Log (lk): -6714.704975

. Log(lk) :    -6714.704975 ->    -6714.704778   1 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
  making move: 2 -> 150 (0.000183)
Log (lk): -6714.704253


. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -6714.704248 ->    -6714.704069   1 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
  making move: 2 -> 150 (0.000202)
Log (lk): -6714.703495

. Log(lk) :    -6714.703495 ->    -6714.703315   2 swaps done 
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
  making move: 2 -> 150 (0.000222)
Log (lk): -6714.702689

. Log(lk) :    -6714.702689 ->    -6714.702513   1 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
  making move: 2 -> 150 (0.000230)
Log (lk): -6714.701913

. Log(lk) :    -6714.701913 ->    -6714.701803   2 swaps done 
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
  making move: 2 -> 150 (0.000010)
Log (lk): -6714.701792


. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -6714.701791 ->    -6714.701782   1 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
Log (lk): -6714.701782
nr_d_L:  203730
nr_d_lk: 49825
nr_loc:  800
nr_glb:  22



. Time used 0h4m58s

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

294.59user 0.00system 4:58.32elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k
0inputs+0outputs (0major+0minor)pagefaults 0swaps