Sequence filename : 		 /auto/dufayard/res/parc_wim/proteic_M1372_23x394_2003.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

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

. Compressing sequences...

. Computing pairwise distances...

. Building BIONJ tree...

N_RGRFT: 8  N_GLOBL: 4  MAX_DIST: 4


. Log(lk) :               * ->    -4539.245496 
. Log(lk) :    -4539.245496 ->    -4506.045641   3 swaps done 
. Log(lk) :    -4506.045641 ->    -4501.907349   2 swaps done 
. Log(lk) :    -4501.907349 ->    -4499.506079   0 swap  done

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4466.762357 ->    -4465.903930   0 swap  done
. Log(lk) :    -4465.903930 ->    -4465.804615   0 swap  done
. Log(lk) :    -4465.804615 ->    -4465.777163   0 swap  done
. Log(lk) :    -4465.777163 ->    -4465.767053   0 swap  done

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4465.762623 ->    -4465.758585   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  making move: 8 -> 2 (1.221872)
  making move: 38 -> 8 (0.210641)
Log (lk): -4462.422490

. Log(lk) :    -4462.422490 ->    -4462.351302   0 swap  done
. Log(lk) :    -4462.351302 ->    -4462.336219   0 swap  done
. Log(lk) :    -4462.336219 ->    -4462.330491   0 swap  done

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4462.330179 ->    -4462.325529   0 swap  done
. Log(lk) :    -4462.325529 ->    -4462.322163   0 swap  done
. Log(lk) :    -4462.322163 ->    -4462.320820   0 swap  done
Trying SPR moves
  -calculating tree distances and estimating likelihoods
  -performing local edge length optimizations
  -performing global edge length optimization
Log (lk): -4462.321005


. Last optimization step...

. Log(lk) :               * ->    -4462.317133 

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4462.317133 ->    -4462.309257 

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4462.309257 ->    -4462.287947 

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4462.287947 ->    -4462.239681 

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4462.239681 ->    -4462.129612 

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4462.129612 ->    -4462.018000 

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4462.018000 ->    -4462.009926 

. Optimisation of the gamma shape parameter...

. Log(lk) :    -4462.009926 ->    -4462.009926 

. Optimisation of the gamma shape parameter...
nr_d_L:  1552
nr_d_lk: 819
nr_loc:  100
nr_glb:  4


. Time used 0h1m17s

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

66.22user 0.00system 1:17.07elapsed 85%CPU (0avgtext+0avgdata 0maxresident)k
0inputs+0outputs (0major+0minor)pagefaults 0swaps