.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1376_36x484_2003.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_M1376_36x484_2003.phy_RAXML_CAT)" . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 392 patterns found. (out of a total of 484 sites) . 132 sites without polymorphism (27.27%). . Reading tree... . This analysis requires at least 34Mo of memory space. . ( 1 sec) [ -11551.0570] [Branch lengths ] . ( 2 sec) [ -11531.5748] [Alpha ][ 0.657621] . ( 3 sec) [ -11531.2009] [Branch lengths ] . ( 4 sec) [ -11531.1910] [Alpha ][ 0.651297] . ( 5 sec) [ -11531.1215] [Branch lengths ] . ( 6 sec) [ -11531.1198] [Alpha ][ 0.648654] . ( 7 sec) [ -11531.1017] [Branch lengths ] . ( 7 sec) [ -11531.1012] [Alpha ][ 0.647275] . ( 9 sec) [ -11531.0958] [Branch lengths ] . ( 9 sec) [ -11531.0956] [Alpha ][ 0.646497] . ( 11 sec) [ -11531.0943] [Branch lengths ] . ( 11 sec) [ -11531.0943] [Alpha ][ 0.646497] . ( 13 sec) [ -11531.0939] [Branch lengths ] . ( 13 sec) [ -11531.0939] [Alpha ][ 0.645851] . ( 14 sec) [ -11531.0939] [Alpha ][ 0.645851] . Log likelihood of the current tree: -11531.093880. . Compute aLRT branch supports on the most likely tree... . Printing the most likely tree in file 'proteic_M1376_36x484_2003.phy_phyml_tree.txt'... . Time used 0h0m39s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo java.lang.NullPointerException at java.io.FileInputStream.(FileInputStream.java:103) at java.io.FileReader.(FileReader.java:55) at Recomp.(Recomp.java:114) at Recomp.main(Recomp.java:52)