Sequence filename : /auto/dufayard/res/bigdatasets_2.4.5_nucl/nucleic_M3862_362x1207_2008.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 Starting tree : BIONJ Optimise tree topology : yes Optimise branch lengths and rate parameters : yes . 1 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... . Nbytes = 243109664 . Log(lk) : * -> -108768.687591 . Log(lk) : -108768.687591 -> -106149.356687 48 swaps done . Log(lk) : -106149.356687 -> -105778.379559 30 swaps done . Log(lk) : -105778.379559 -> -105685.300367 15 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -95421.345749 -> -95260.215104 21 swaps done . Log(lk) : -95260.215104 -> -95203.812755 8 swaps done . Log(lk) : -95203.812755 -> -95158.877170 9 swaps done . Log(lk) : -95158.877170 -> -95128.214019 5 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -95082.504222 -> -95030.478231 7 swaps done . Log(lk) : -95030.478231 -> -95000.924800 8 swaps done . Log(lk) : -95000.924800 -> -94978.325615 6 swaps done . Log(lk) : -94978.325615 -> -94966.678611 3 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94964.285032 -> -94955.995935 2 swaps done . Log(lk) : -94955.995935 -> -94951.245661 0 swap done . Log(lk) : -94951.245661 -> -94948.189249 1 swap done . Log(lk) : -94948.189249 -> -94946.362842 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94945.496031 -> -94943.998220 3 swaps done . Log(lk) : -94943.998220 -> -94941.807573 2 swaps done . Log(lk) : -94941.807573 -> -94941.286769 0 swap done . Log(lk) : -94941.286769 -> -94941.084248 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.942747 -> -94940.803950 0 swap done . Log(lk) : -94940.803950 -> -94940.735270 0 swap done . Log(lk) : -94940.735270 -> -94940.699901 0 swap done . Log(lk) : -94940.699901 -> -94940.681437 0 swap done . Last optimization step... . Log(lk) : * -> -94940.666890 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.666890 -> -94940.637286 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.637286 -> -94940.632641 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.632641 -> -94940.631174 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.631174 -> -94940.630781 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630781 -> -94940.630669 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630669 -> -94940.630613 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630613 -> -94940.630581 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630581 -> -94940.630553 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630553 -> -94940.630536 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630536 -> -94940.630521 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630521 -> -94940.630511 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630511 -> -94940.630501 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630501 -> -94940.630495 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630495 -> -94940.630488 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630488 -> -94940.630483 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630483 -> -94940.630480 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630480 -> -94940.630478 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630478 -> -94940.630475 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630475 -> -94940.630474 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630474 -> -94940.630472 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -94940.630472 -> -94940.630471 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -94940.630470 . Time used 0h15m0s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 900.52user 0.00system 15:01.32elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps