..........................                                      
 ooooooooooooooooooooooooooooo        CURRENT SETTINGS        ooooooooooooooooooooooooooooooooooo
                                 ..........................                                      

                . Sequence filename : 				 proteic_M1380_9x1558_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
                . 'Middle' of each rate class  : 		 mean
                . Amino acid equilibrium frequencies : 		 model
                . Optimise tree topology : 			 yes
                . Tree topology search : 			 NNIs
                . Starting tree : 				 BioNJ
                . Add random input tree : 			 no
                . Optimise branch lengths : 			 yes
                . Optimise substitution model parameters : 	 yes
                . Run ID : 					 none

 oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo



. Compressing sequences...

. 695 patterns found. (out of a total of 1558 sites) 

. 832 sites without polymorphism (53.40%).

. Computing pairwise distances...

. Building BioNJ tree...

. This analysis requires at least 12Mo of memory space.

. Maximizing likelihood (using NNI moves)...

. (    0 sec) [    -12075.2784] [Alpha              ][  0.513157]
. (    0 sec) [    -12075.2784] [Topology           ]
. (    1 sec) [    -12030.4573] [Topology           ]
. (    2 sec) [    -12025.7778] [Topology           ]
. (    3 sec) [    -12024.9274] [Topology           ]
. (    4 sec) [    -12024.6979] [Topology           ]
. (    5 sec) [    -12024.6300] [Topology           ]
. (    6 sec) [    -12024.6089] [Topology           ]
. (    6 sec) [    -12024.6021] [Topology           ]

. Checking for NNIs, optimizing five branches...

. (   14 sec) [    -12023.4325] [Alpha              ][  0.575059]
. (   14 sec) [    -12023.4325] [Topology           ]
. (   15 sec) [    -12023.4045] [Topology           ]
. (   16 sec) [    -12023.3999] [Topology           ]
. (   17 sec) [    -12023.3985] [Topology           ]
. (   18 sec) [    -12023.3981] [Topology           ]

. Checking for NNIs, optimizing five branches...

. (   26 sec) [    -12023.3976] [Alpha              ][  0.576478]
. (   26 sec) [    -12023.3976] [Topology           ]
. (   27 sec) [    -12023.3974] [Topology           ]

. Checking for NNIs, optimizing five branches...


. Checking for NNIs, optimizing five branches...


. Log likelihood of the current tree: -12023.397400.

. Printing the most likely tree in file 'proteic_M1380_9x1558_2003.phy_phyml_tree.txt'...


. Time used 0h0m44s

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
40.23user 0.00system 0:44.24elapsed 90%CPU (0avgtext+0avgdata 0maxresident)k
0inputs+0outputs (0major+0minor)pagefaults 0swaps