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

                . Sequence filename : 				 proteic_M2512_14x717_2006.phy
                . Data type :             			 aa
                . Sequence format : 				 interleaved
                . Number of data sets : 			 1
                . Nb of bootstrapped data sets : 		 0
                . Compute approximate likelihood ratio test : 	 yes (SH-like branch supports)
                . 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 : 			 no
                . Evaluted tree : 				 file "user tree (proteic_M2512_14x717_2006.phy_FAST_TREE)"
                . Optimise branch lengths : 			 yes
                . Optimise substitution model parameters : 	 yes
                . Run ID : 					 none

 oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo



. Compressing sequences...

. 703 patterns found. (out of a total of 717 sites) 

. 39 sites without polymorphism (5.44%).

. Reading tree...

. This analysis requires at least 21Mo of memory space.

. (    1 sec) [    -20116.1161] [Branch lengths     ]
. (    1 sec) [    -20109.8918] [Alpha              ][  1.226076]
. (    2 sec) [    -20101.6641] [Branch lengths     ]
. (    3 sec) [    -20101.5391] [Alpha              ][  1.259984]
. (    4 sec) [    -20100.4564] [Branch lengths     ]
. (    5 sec) [    -20100.4550] [Alpha              ][  1.256198]
. (    6 sec) [    -20100.1805] [Branch lengths     ]
. (    6 sec) [    -20100.1803] [Alpha              ][  1.257454]
. (    7 sec) [    -20100.0573] [Branch lengths     ]
. (    8 sec) [    -20100.0565] [Alpha              ][  1.254614]
. (    9 sec) [    -20099.9826] [Branch lengths     ]
. (    9 sec) [    -20099.9826] [Alpha              ][  1.254614]
. (   10 sec) [    -20099.9373] [Branch lengths     ]
. (   10 sec) [    -20099.9371] [Alpha              ][  1.253135]
. (   11 sec) [    -20099.9054] [Branch lengths     ]
. (   11 sec) [    -20099.9054] [Alpha              ][  1.253135]
. (   12 sec) [    -20099.8857] [Branch lengths     ]
. (   12 sec) [    -20099.8857] [Alpha              ][  1.253135]
. (   13 sec) [    -20099.8720] [Branch lengths     ]
. (   13 sec) [    -20099.8720] [Alpha              ][  1.253135]
. (   14 sec) [    -20099.8634] [Branch lengths     ]
. (   15 sec) [    -20099.8633] [Alpha              ][  1.251882]
. (   15 sec) [    -20099.8574] [Branch lengths     ]
. (   16 sec) [    -20099.8574] [Alpha              ][  1.251882]
. (   17 sec) [    -20099.8537] [Branch lengths     ]
. (   17 sec) [    -20099.8537] [Alpha              ][  1.251882]
. (   18 sec) [    -20099.8510] [Branch lengths     ]
. (   18 sec) [    -20099.8510] [Alpha              ][  1.251882]
. (   19 sec) [    -20099.8494] [Branch lengths     ]
. (   19 sec) [    -20099.8494] [Alpha              ][  1.251882]
. (   20 sec) [    -20099.8482] [Branch lengths     ]
. (   20 sec) [    -20099.8482] [Alpha              ][  1.251882]
. (   21 sec) [    -20099.8475] [Branch lengths     ]
. (   21 sec) [    -20099.8475] [Alpha              ][  1.251882]
. (   22 sec) [    -20099.8475] [Alpha              ][  1.251882]
. Log likelihood of the current tree: -20099.847494.

. Compute aLRT branch supports on the most likely tree...

. Printing the most likely tree in file 'proteic_M2512_14x717_2006.phy_phyml_tree.txt'...


. Time used 0h0m46s

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
java.lang.NullPointerException
	at java.io.FileInputStream.<init>(FileInputStream.java:103)
	at java.io.FileReader.<init>(FileReader.java:55)
	at Recomp.<init>(Recomp.java:114)
	at Recomp.main(Recomp.java:52)