.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1508_22x431_2003.phy . Data type : aa . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . 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 : yes . Tree topology search : Best of NNIs and SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 172 patterns found. (out of a total of 431 sites) . 298 sites without polymorphism (69.14%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 9Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 0 sec) [ -3189.9244] [Alpha ][ 0.500960] . ( 0 sec) [ -3189.9244] [Topology ] . ( 1 sec) [ -3169.1490] [Topology ] . ( 2 sec) [ -3166.4088] [Topology ] . ( 3 sec) [ -3166.3187] [Topology ] . ( 4 sec) [ -3165.6320] [Topology ] . ( 5 sec) [ -3165.9418] [Topology ] . Moving backward . ( 5 sec) [ -3164.4686] [Topology ] . ( 6 sec) [ -3164.3597] [Topology ] . ( 7 sec) [ -3164.3433] [Topology ] . ( 8 sec) [ -3164.3398] [Topology ] . Checking for NNIs, optimizing five branches... . ( 15 sec) [ -3155.1388] [Alpha ][ 0.275768] . ( 15 sec) [ -3155.1388] [Topology ] . ( 16 sec) [ -3155.0993] [Topology ] . ( 17 sec) [ -3155.0947] [Topology ] . ( 18 sec) [ -3155.0933] [Topology ] . ( 19 sec) [ -3155.0929] [Topology ] . Checking for NNIs, optimizing five branches... . ( 25 sec) [ -3155.0918] [Alpha ][ 0.274054] . ( 25 sec) [ -3155.0918] [Topology ] . ( 26 sec) [ -3155.0915] [Topology ] . Checking for NNIs, optimizing five branches... . ( 33 sec) [ -3155.0915] [Alpha ][ 0.274054] . ( 33 sec) [ -3155.0915] [Topology ] . ( 34 sec) [ -3155.0913] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 46 sec) [ -3189.9244] [Alpha ][ 0.500960] . ( 50 sec) [ -3187.2806] [ 315] [depth= 1] . ( 55 sec) [ -3185.8706] [ 319] [depth= 4] . ( 55 sec) [ -3184.0076] [ 319] [depth= 1] . ( 55 sec) [ -3182.5111] [ 319] [depth= 1] . ( 56 sec) [ -3181.7331] [ 319] [depth= 1] . ( 58 sec) [ -3181.5180] [ 319] [depth= 1] . ( 58 sec) [ -3181.2264] [ 319] [depth= 1] . ( 59 sec) [ -3181.0679] [ 319] [depth= 1] . ( 60 sec) [ -3180.6103] [ 320] [depth= 2] . ( 60 sec) [ -3176.1281] [ 320] [depth= 4] . ( 66 sec) [ -3173.0154] [ 320] [depth= 1] . ( 67 sec) [ -3172.6462] [ 320] [depth= 1] . ( 67 sec) [ -3172.3535] [ 320] [depth= 1] . ( 67 sec) [ -3171.5527] [ 320] [depth= 1] . ( 67 sec) [ -3170.6153] [ 320] [depth= 1] . ( 82 sec) [ -3163.4617] [Branch lengths ] . ( 82 sec) [ -3153.5686] [Alpha ][ 0.268252] . ( 107 sec) [ -3153.5475] [ 320] [depth= 1] . ( 137 sec) [ -3153.0856] [Branch lengths ] . ( 137 sec) [ -3153.0852] [Alpha ][ 0.269228] . ( 137 sec) [ -3153.0852] [Topology ] . ( 138 sec) [ -3153.0791] [Topology ] . ( 139 sec) [ -3153.0783] [Topology ] . ( 139 sec) [ -3153.0783] [Alpha ][ 0.269517] . ( 139 sec) [ -3153.0783] [Topology ] . ( 140 sec) [ -3153.0780] [Topology ] . ( 140 sec) [ -3153.0780] [Alpha ][ 0.269517] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -3155.091315 . Log likelihood obtained after SPR moves : -3153.078044 . Log likelihood of the current tree: -3153.078044. . Printing the most likely tree in file 'proteic_M1508_22x431_2003.phy_phyml_tree.txt'... . Time used 0h2m27s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 143.36user 0.00system 2:27.11elapsed 97%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps