Sequence filename : 		 /auto/dufayard/res/parc_wim/nucleic_M2944_80x1495_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

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

. Compressing sequences...

. Computing pairwise distances...

. Building BIONJ tree...

N_RGRFT: 31  N_GLOBL: 15  MAX_DIST: 15


. Log(lk) :               * ->    -9735.728897 
. Log(lk) :    -9735.728897 ->    -9622.956039  12 swaps done 
. Log(lk) :    -9622.956039 ->    -9603.197180   8 swaps done 
. Log(lk) :    -9603.197180 ->    -9595.755206   3 swaps done 

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -9068.888400 ->    -9044.675711   6 swaps done 
. Log(lk) :    -9044.675711 ->    -9030.141494   5 swaps done 
. Log(lk) :    -9030.141494 ->    -9025.955525   2 swaps done 
. Log(lk) :    -9025.955525 ->    -9024.303491   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -9022.500894 ->    -9021.425165   1 swap  done
. Log(lk) :    -9021.425165 ->    -9020.783356   0 swap  done
. Log(lk) :    -9020.783356 ->    -9020.386942   0 swap  done
. Log(lk) :    -9020.386942 ->    -9020.137464   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -9020.125578 ->    -9019.960393   0 swap  done
. Log(lk) :    -9019.960393 ->    -9019.854127   0 swap  done
. Log(lk) :    -9019.854127 ->    -9019.785318   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  making move: 38 -> 135 (11.589565)
  making move: 39 -> 14 (4.850086)
Log (lk): -8998.422265

. Log(lk) :    -8998.422265 ->    -8997.759578   1 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -8997.724161 ->    -8997.530603   0 swap  done
. Log(lk) :    -8997.530603 ->    -8997.477534   0 swap  done
. Log(lk) :    -8997.477534 ->    -8997.461778   0 swap  done
. Log(lk) :    -8997.461778 ->    -8997.455647   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -8997.455320 ->    -8997.453115   0 swap  done
. Log(lk) :    -8997.453115 ->    -8997.451960   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  making move: 138 -> 141 (0.040898)
Log (lk): -8997.393565

. Log(lk) :    -8997.393565 ->    -8997.381459   0 swap  done
. Log(lk) :    -8997.381459 ->    -8997.379650   0 swap  done

. Optimisation of the GTR parameters...

. Optimisation of the gamma shape parameter...

. Log(lk) :    -8997.376447 ->    -8997.375252   0 swap  done
. Log(lk) :    -8997.375252 ->    -8997.374598   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
Log (lk): -8997.374805
nr_d_L:  69512
nr_d_lk: 16289
nr_loc:  101
nr_glb:  15



. Time used 0h2m4s

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

99.95user 0.00system 2:03.91elapsed 80%CPU (0avgtext+0avgdata 0maxresident)k
0inputs+0outputs (0major+0minor)pagefaults 0swaps