.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2675_51x1537_2006.phy . Data type : dna . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : GTR . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Nucleotide equilibrium frequencies : empirical . Optimise tree topology : yes . Tree topology search : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 607 patterns found. (out of a total of 1537 sites) . 978 sites without polymorphism (63.63%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 16Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 3 sec) [ -8178.2748] [GTR parameters ] . ( 3 sec) [ -8087.4232] [Alpha ][ 0.500960] . ( 9 sec) [ -8087.0972] [ 1200] [depth= 1] . ( 17 sec) [ -8084.7754] [ 1202] [depth= 1] . ( 17 sec) [ -8082.7059] [ 1201] [depth= 1] . ( 17 sec) [ -8082.5110] [ 1201] [depth= 1] . ( 18 sec) [ -8082.2716] [ 1201] [depth= 1] . ( 19 sec) [ -8081.9018] [ 1200] [depth= 2] . ( 21 sec) [ -8079.7678] [ 1200] [depth= 1] . ( 21 sec) [ -8078.9041] [ 1200] [depth= 1] . ( 21 sec) [ -8078.5930] [ 1200] [depth= 1] . ( 21 sec) [ -8078.4987] [ 1200] [depth= 1] . ( 23 sec) [ -8078.4207] [ 1200] [depth= 2] . ( 31 sec) [ -8069.1232] [ 1200] [depth= 1] . ( 32 sec) [ -8055.0493] [ 1198] [depth= 1] . ( 32 sec) [ -8053.5396] [ 1198] [depth= 2] . ( 32 sec) [ -8053.5137] [ 1198] [depth= 2] . ( 32 sec) [ -8049.2586] [ 1197] [depth= 1] . ( 32 sec) [ -8047.0850] [ 1197] [depth= 1] . ( 34 sec) [ -8046.9941] [ 1197] [depth= 2] . ( 34 sec) [ -8046.6394] [ 1197] [depth= 2] . ( 34 sec) [ -8046.5629] [ 1197] [depth= 1] . ( 35 sec) [ -8043.9070] [ 1197] [depth= 5] . ( 36 sec) [ -8034.1401] [ 1195] [depth= 2] . ( 36 sec) [ -8029.8403] [ 1195] [depth= 1] . ( 36 sec) [ -7981.5911] [ 1193] [depth= 1] . ( 37 sec) [ -7981.2213] [ 1193] [depth= 1] . ( 44 sec) [ -7979.5751] [ 1194] [depth= 1] . ( 46 sec) [ -7973.7832] [ 1193] [depth= 1] . ( 46 sec) [ -7973.5404] [ 1193] [depth= 1] . ( 46 sec) [ -7973.5261] [ 1193] [depth= 1] . ( 47 sec) [ -7954.2323] [ 1201] [depth= 1] . ( 48 sec) [ -7953.2675] [ 1202] [depth= 2] . ( 48 sec) [ -7951.8497] [ 1204] [depth= 1] . ( 48 sec) [ -7949.4161] [ 1202] [depth= 1] . ( 48 sec) [ -7942.7037] [ 1201] [depth= 1] . ( 51 sec) [ -7941.8535] [ 1201] [depth= 2] . ( 57 sec) [ -7936.2058] [ 1193] [depth= 1] . ( 58 sec) [ -7929.6872] [ 1192] [depth= 2] . ( 63 sec) [ -7929.6752] [ 1192] [depth= 1] . ( 63 sec) [ -7929.6434] [ 1192] [depth= 2] . ( 70 sec) [ -7929.0723] [ 1192] [depth= 1] . ( 70 sec) [ -7902.7152] [Branch lengths ] . ( 73 sec) [ -7901.2669] [GTR parameters ] . ( 73 sec) [ -7861.2592] [Alpha ][ 0.264044] . ( 81 sec) [ -7861.2490] [ 1192] [depth= 1] . ( 86 sec) [ -7861.1443] [ 1190] [depth= 1] . ( 94 sec) [ -7861.0911] [ 1190] [depth= 2] . ( 108 sec) [ -7860.9953] [ 1190] [depth= 1] . ( 150 sec) [ -7859.7277] [ 1190] [depth= 1] . ( 164 sec) [ -7856.7396] [Branch lengths ] . ( 165 sec) [ -7856.2157] [GTR parameters ] . ( 166 sec) [ -7856.0277] [Alpha ][ 0.253416] . ( 215 sec) [ -7856.0165] [ 1190] [depth= 1] . ( 261 sec) [ -7855.8353] [Branch lengths ] . ( 263 sec) [ -7855.8266] [GTR parameters ] . ( 263 sec) [ -7855.8264] [Alpha ][ 0.253774] . ( 311 sec) [ -7855.8081] [Branch lengths ] . ( 311 sec) [ -7855.8081] [Topology ] . ( 313 sec) [ -7855.8066] [Topology ] . ( 314 sec) [ -7855.8062] [Topology ] . ( 314 sec) [ -7855.8060] [GTR parameters ] . ( 314 sec) [ -7855.8058] [Alpha ][ 0.254136] . ( 314 sec) [ -7855.8058] [Topology ] . ( 316 sec) [ -7855.8055] [Topology ] . ( 316 sec) [ -7855.8055] [GTR parameters ] . ( 317 sec) [ -7855.8055] [Alpha ][ 0.254136] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7855.805506. . Printing the most likely tree in file 'nucleic_M2675_51x1537_2006.phy_phyml_tree.txt'... . Time used 0h5m28s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 326.61user 0.00system 5:28.24elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps