Sequence filename : /auto/dufayard/res/bigdatasets_2.4.5_prot/proteic_M3756_77x11234_2008.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 Starting tree : BIONJ Optimise tree topology : yes Optimise branch lengths and rate parameters : yes . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... . Nbytes = -2081347160 . Log(lk) : * -> -446912.578625 . Log(lk) : -446912.578625 -> -442650.773645 12 swaps done . Log(lk) : -442650.773645 -> -441010.543232 11 swaps done . Log(lk) : -441010.543232 -> -440899.166754 8 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -437764.406194 -> -437294.752553 7 swaps done . Log(lk) : -437294.752553 -> -437241.660204 6 swaps done . Log(lk) : -437241.660204 -> -437005.941151 6 swaps done . Log(lk) : -437005.941151 -> -436775.279155 7 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -436774.834174 -> -436601.507763 9 swaps done . Log(lk) : -436601.507763 -> -436602.571103 9 swaps done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -436601.507763 -> -436328.299747 9 swaps done . Log(lk) : -436328.299747 -> -436156.177003 7 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -436156.176973 -> -436250.590189 7 swaps done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -436156.176973 -> -435984.885386 7 swaps done . Log(lk) : -435984.885386 -> -435807.705211 8 swaps done . Log(lk) : -435807.705211 -> -435677.641062 6 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -435677.631280 -> -435510.843924 6 swaps done . Log(lk) : -435510.843924 -> -435543.626517 3 swaps done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -435510.843924 -> -435379.716463 3 swaps done . Log(lk) : -435379.716463 -> -435368.637272 3 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -435368.635645 -> -435381.233886 3 swaps done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -435368.635645 -> -435324.973134 3 swaps done . Log(lk) : -435324.973134 -> -435303.250595 3 swaps done . Log(lk) : -435303.250595 -> -435280.716648 4 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -435280.715307 -> -435260.907983 3 swaps done . Log(lk) : -435260.907983 -> -435278.248179 4 swaps done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -435260.907983 -> -435161.614022 4 swaps done . Log(lk) : -435161.614022 -> -435139.642281 2 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -435139.638685 -> -435156.575580 3 swaps done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -435139.638685 -> -435098.982588 3 swaps done . Log(lk) : -435098.982588 -> -435100.649893 3 swaps done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -435098.982588 -> -435082.177851 3 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -435082.177851 -> -435094.881410 3 swaps done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -435082.177851 -> -435071.542370 3 swaps done . Log(lk) : -435071.542370 -> -435031.388625 2 swaps done . Log(lk) : -435031.388625 -> -435002.758100 2 swaps done . Optimisation of the gamma shape parameter... . Log(lk) : -435002.757915 -> -434953.696272 1 swap done . Log(lk) : -434953.696272 -> -434922.201733 2 swaps done . Log(lk) : -434922.201733 -> -434913.236159 0 swap done . Log(lk) : -434913.236159 -> -434910.059023 0 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -434910.058573 -> -434908.326346 0 swap done . Log(lk) : -434908.326346 -> -434907.323040 0 swap done . Log(lk) : -434907.323040 -> -434904.497631 1 swap done . Log(lk) : -434904.497631 -> -434897.616216 1 swap done . Optimisation of the gamma shape parameter... . Log(lk) : -434897.615930 -> -434895.311898 1 swap done . Log(lk) : -434895.311898 -> -434885.382152 1 swap done . Log(lk) : -434885.382152 -> -434877.204422 1 swap done . Log(lk) : -434877.204422 -> -434880.455930 1 swap done . Moving backward (topology + branch lengths) . Optimisation of the gamma shape parameter... . Log(lk) : -434877.204422 -> -434867.152158 1 swap done . Log(lk) : -434867.152158 -> -434864.773713 0 swap done . Log(lk) : -434864.773713 -> -434863.904571 0 swap done . Log(lk) : -434863.904571 -> -434863.444617 0 swap done . Log(lk) : -434863.444617 -> -434863.174383 0 swap done . Log(lk) : -434863.174383 -> -434863.004099 0 swap done . Log(lk) : -434863.004099 -> -434862.894746 0 swap done . Last optimization step... . Log(lk) : * -> -434862.783440 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.783440 -> -434862.730131 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.730131 -> -434862.701705 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.701705 -> -434862.686492 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.686492 -> -434862.677958 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.677958 -> -434862.673286 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.673286 -> -434862.670630 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.670630 -> -434862.669167 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.669167 -> -434862.668329 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.668329 -> -434862.667867 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667867 -> -434862.667601 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667601 -> -434862.667453 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667453 -> -434862.667368 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667368 -> -434862.667321 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667321 -> -434862.667294 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667294 -> -434862.667278 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667278 -> -434862.667269 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667269 -> -434862.667264 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667264 -> -434862.667261 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667261 -> -434862.667259 . Optimisation of the gamma shape parameter... . Log(lk) : -434862.667259 -> -434862.667258 . Optimisation of the gamma shape parameter... . Final Log(lk) : -434862.667258 . Time used 11h13m0s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 40211.87user 0.00system 11:13:03elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps