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

                . Sequence filename : 				 proteic_M2363_38x251_2004.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 (RAxML_result.proteic_M2363_38x251_2004.phy_RAXML_CAT)"
                . Optimise branch lengths : 			 yes
                . Optimise substitution model parameters : 	 yes
                . Run ID : 					 none

 oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo



. Compressing sequences...

. 244 patterns found. (out of a total of 251 sites) 

. 24 sites without polymorphism (9.56%).

. Reading tree...

. This analysis requires at least 23Mo of memory space.

. (    1 sec) [    -11778.6755] [Branch lengths     ]
. (    2 sec) [    -11734.4412] [Alpha              ][  1.996970]
. (    3 sec) [    -11732.8052] [Branch lengths     ]
. (    4 sec) [    -11715.1798] [Alpha              ][  3.988242]
. (    5 sec) [    -11713.2080] [Branch lengths     ]
. (    5 sec) [    -11711.4215] [Alpha              ][  5.354891]
. (    6 sec) [    -11710.5093] [Branch lengths     ]
. (    7 sec) [    -11710.3470] [Alpha              ][  5.893262]
. (    8 sec) [    -11710.1661] [Branch lengths     ]
. (    8 sec) [    -11710.1484] [Alpha              ][  6.090045]
. (    9 sec) [    -11710.1102] [Branch lengths     ]
. (   10 sec) [    -11710.1080] [Alpha              ][  6.162999]
. (   11 sec) [    -11710.0949] [Branch lengths     ]
. (   11 sec) [    -11710.0947] [Alpha              ][  6.185259]
. (   12 sec) [    -11710.0883] [Branch lengths     ]
. (   13 sec) [    -11710.0883] [Alpha              ][  6.197314]
. (   14 sec) [    -11710.0839] [Branch lengths     ]
. (   14 sec) [    -11710.0839] [Alpha              ][  6.203512]
. (   15 sec) [    -11710.0808] [Branch lengths     ]
. (   16 sec) [    -11710.0808] [Alpha              ][  6.209715]
. (   17 sec) [    -11710.0783] [Branch lengths     ]
. (   17 sec) [    -11710.0783] [Alpha              ][  6.209715]
. (   18 sec) [    -11710.0764] [Branch lengths     ]
. (   18 sec) [    -11710.0764] [Alpha              ][  6.209715]
. (   19 sec) [    -11710.0749] [Branch lengths     ]
. (   20 sec) [    -11710.0749] [Alpha              ][  6.209715]
. (   21 sec) [    -11710.0736] [Branch lengths     ]
. (   21 sec) [    -11710.0736] [Alpha              ][  6.215925]
. (   22 sec) [    -11710.0726] [Branch lengths     ]
. (   23 sec) [    -11710.0726] [Alpha              ][  6.215925]
. (   24 sec) [    -11710.0718] [Branch lengths     ]
. (   24 sec) [    -11710.0718] [Alpha              ][  6.215925]
. (   25 sec) [    -11710.0718] [Alpha              ][  6.215925]
. Log likelihood of the current tree: -11710.071832.

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

. Printing the most likely tree in file 'proteic_M2363_38x251_2004.phy_phyml_tree.txt'...


. Time used 0h0m53s

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)