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

                . Sequence filename : 				 proteic_M2624_139x348_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_M2624_139x348_2006.phy_FAST_TREE)"
                . Optimise branch lengths : 			 yes
                . Optimise substitution model parameters : 	 yes
                . Run ID : 					 none

 oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo



. Compressing sequences...

. 347 patterns found. (out of a total of 348 sites) 

. 60 sites without polymorphism (17.24%).

. Reading tree...

. WARNING: this analysis will use at least 120Mo of memory space...

. (    6 sec) [    -12961.6550] [Branch lengths     ]
. (   10 sec) [    -12949.5075] [Alpha              ][  0.728524]
. (   15 sec) [    -12947.7374] [Branch lengths     ]
. (   17 sec) [    -12947.7373] [Alpha              ][  0.727795]
. (   22 sec) [    -12947.1559] [Branch lengths     ]
. (   24 sec) [    -12947.1557] [Alpha              ][  0.728599]
. (   29 sec) [    -12946.8988] [Branch lengths     ]
. (   31 sec) [    -12946.8983] [Alpha              ][  0.729985]
. (   35 sec) [    -12946.8024] [Branch lengths     ]
. (   38 sec) [    -12946.8024] [Alpha              ][  0.729985]
. (   42 sec) [    -12946.7603] [Branch lengths     ]
. (   44 sec) [    -12946.7602] [Alpha              ][  0.730715]
. (   49 sec) [    -12946.7437] [Branch lengths     ]
. (   51 sec) [    -12946.7437] [Alpha              ][  0.730715]
. (   56 sec) [    -12946.7363] [Branch lengths     ]
. (   58 sec) [    -12946.7363] [Alpha              ][  0.730715]
. (   63 sec) [    -12946.7333] [Branch lengths     ]
. (   65 sec) [    -12946.7333] [Alpha              ][  0.730715]
. (   70 sec) [    -12946.7320] [Branch lengths     ]
. (   72 sec) [    -12946.7320] [Alpha              ][  0.730715]
. (   77 sec) [    -12946.7314] [Branch lengths     ]
. (   79 sec) [    -12946.7314] [Alpha              ][  0.730715]
. (   82 sec) [    -12946.7314] [Alpha              ][  0.730715]
. Log likelihood of the current tree: -12946.731384.

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

. Printing the most likely tree in file 'proteic_M2624_139x348_2006.phy_phyml_tree.txt'...


. Time used 0h3m4s

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)