Sequence filename : 		 /auto/dufayard/res/parc_wim/nucleic_M2702_54x886_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

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

. Compressing sequences...

. Computing pairwise distances...

. Building BIONJ tree...

N_RGRFT: 21  N_GLOBL: 10  MAX_DIST: 10


. Log(lk) :               * ->    -5959.360648 
. Log(lk) :    -5959.360648 ->    -5902.690683   3 swaps done 
. Log(lk) :    -5902.690683 ->    -5897.619477   1 swap  done
. Log(lk) :    -5897.619477 ->    -5896.777415   1 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -5414.806492 ->    -5402.973725   1 swap  done
. Log(lk) :    -5402.973725 ->    -5399.293011   1 swap  done
. Log(lk) :    -5399.293011 ->    -5396.486203   0 swap  done
. Log(lk) :    -5396.486203 ->    -5395.737276   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -5392.294459 ->    -5391.532546   1 swap  done
. Log(lk) :    -5391.532546 ->    -5391.025408   0 swap  done
. Log(lk) :    -5391.025408 ->    -5390.831351   0 swap  done
. Log(lk) :    -5390.831351 ->    -5390.644717   1 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -5390.588271 ->    -5390.207881   0 swap  done
. Log(lk) :    -5390.207881 ->    -5390.101835   0 swap  done
. Log(lk) :    -5390.101835 ->    -5390.057224   0 swap  done
. Log(lk) :    -5390.057224 ->    -5390.036358   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -5390.013748 ->    -5389.996201   0 swap  done
. Log(lk) :    -5389.996201 ->    -5389.987922   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
  making move: 15 -> 17 (0.000603)
Log (lk): -5389.987150

. Log(lk) :    -5389.987150 ->    -5389.982277   1 swap  done
. Log(lk) :    -5389.982277 ->    -5389.980850   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -5389.978390 ->    -5389.977071   0 swap  done
. Log(lk) :    -5389.977071 ->    -5389.976452   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
Log (lk): -5389.976463
nr_d_L:  15232
nr_d_lk: 5068
nr_loc:  200
nr_glb:  11



. Time used 0h0m43s

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

39.21user 0.00system 0:42.96elapsed 91%CPU (0avgtext+0avgdata 0maxresident)k
0inputs+0outputs (0major+0minor)pagefaults 0swaps