| /dports/biology/phyml/phyml-3.3.20200621/src/ |
| H A D | simu.c | 45 Set_Both_Sides(NO,tree); in Simu()
112 Set_Both_Sides(YES,tree); in Simu_Pars()
132 Set_Both_Sides(YES,tree); in Simu_Pars()
451 Set_Both_Sides(NO,tree); in Mov_Backward_Topo_Bl()
465 Set_Both_Sides(NO,tree); in Mov_Backward_Topo_Bl()
516 Set_Both_Sides(NO,tree); in Mov_Backward_Topo_Pars()
529 Set_Both_Sides(NO,tree); in Mov_Backward_Topo_Pars()
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| H A D | alrt.c | 60 Set_Both_Sides(YES,tree); in Check_NNI_Five_Branches()
204 Set_Both_Sides(YES,tree); in aLRT()
491 Set_Both_Sides(YES,tree); in NNI_Neigh_BL()
590 Set_Both_Sides(YES,tree); in NNI_Neigh_BL()
644 Set_Both_Sides(YES,tree); in NNI_Neigh_BL()
824 Set_Both_Sides(YES,tree); in Make_Target_Swap()
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| H A D | spr.c | 128 Set_Both_Sides(YES,tree); in Spr()
265 Set_Both_Sides(YES,tree); in Spr_Subtree()
271 Set_Both_Sides(YES,tree); in Spr_Subtree()
286 Set_Both_Sides(YES,tree); in Spr_Subtree()
1042 Set_Both_Sides(NO,tree); in Speed_Spr()
1060 Set_Both_Sides(YES,tree); in Speed_Spr()
1867 Set_Both_Sides(YES,mixt_tree); in Spr_Shuffle()
1883 Set_Both_Sides(YES,mixt_tree); in Spr_Shuffle()
1974 Set_Both_Sides(NO,tree); in Spr_Random_Explore()
2033 Set_Both_Sides(YES,tree); in Spr_Random_Explore()
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| H A D | main.c | 200 Set_Both_Sides(YES,tree); in main()
258 Set_Both_Sides(YES,tree); in main()
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| H A D | stats.c | 2117 Set_Both_Sides(YES,tree); in Hessian()
2437 Set_Both_Sides(YES,tree); in Hessian()
2486 Set_Both_Sides(YES,tree); in Gradient()
2562 Set_Both_Sides(YES,tree); in Gradient()
2637 Set_Both_Sides(YES,tree); in Hessian_Seo()
2767 Set_Both_Sides(YES,tree); in Hessian_Seo()
2919 Set_Both_Sides(YES,tree); in Hessian_Log()
4079 Set_Both_Sides(YES,tree); in VarCov_Approx_Likelihood()
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| H A D | mpi_boot.c | 232 Set_Both_Sides(YES,boot_tree); in Bootstrap_MPI()
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| H A D | date.c | 761 Set_Both_Sides(YES,tree); in DATE_MCMC()
903 Set_Both_Sides(NO,tree); in DATE_MCMC()
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| H A D | pars.c | 449 Set_Both_Sides(YES,tree); in One_Pars_Step()
974 Set_Both_Sides(YES,tree); in Stepwise_Add_Pars()
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| H A D | m4.c | 123 Set_Both_Sides(YES,tree); in M4_main()
154 Set_Both_Sides(YES,tree); in M4_main()
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| H A D | utilities.c | 1559 Set_Both_Sides(YES,tree); in NNI()
1597 Set_Both_Sides(YES,tree); in NNI()
1636 Set_Both_Sides(YES,tree); in NNI()
1846 Set_Both_Sides(YES,tree); in NNI_Pars()
1853 Set_Both_Sides(YES,tree); in NNI_Pars()
1860 Set_Both_Sides(YES,tree); in NNI_Pars()
3219 Set_Both_Sides(YES,boot_tree); in Bootstrap()
8241 Set_Both_Sides(YES,tree); in Bootstrap_From_String()
8307 Set_Both_Sides(YES,tree); in aLRT_From_String()
10373 Set_Both_Sides(YES,tree); in Best_Root_Position_IL_Model()
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| H A D | ancestral.c | 60 Set_Both_Sides(YES,tree); in Sample_Ancestral_Seq()
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| H A D | optimiz.c | 732 Set_Both_Sides(NO,tree); in Optimize_Br_Len_Serie()
1012 Set_Both_Sides(NO,tree); in Optimiz_All_Free_Param()
1173 Set_Both_Sides(init_both_sides,tree); in Optimiz_All_Free_Param()
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| H A D | mcmc.c | 546 Set_Both_Sides(NO,tree); in MCMC_Rates_All()
1067 Set_Both_Sides(YES,tree); in MCMC_Times_All()
1069 Set_Both_Sides(NO,tree); in MCMC_Times_All()
3525 Set_Both_Sides(NO,tree); in MCMC_Scale_Br_Lens()
5105 Set_Both_Sides(NO,tree); in MCMC_Prune_Regraft()
5386 Set_Both_Sides(NO,tree); in MCMC_Prune_Regraft_Weighted()
5827 Set_Both_Sides(NO,tree); in MCMC_Prune_Regraft_Local()
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| H A D | utilities.h | 2301 void Set_Both_Sides(int yesno, t_tree *tree);
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| H A D | invitee.c | 552 Set_Both_Sides(YES, tree); in PhyTime_XML()
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| H A D | mixt.c | 3252 Set_Both_Sides(yesno,tree); in MIXT_Set_Both_Sides()
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| H A D | lk.c | 2757 Set_Both_Sides(YES,tree); in Stepwise_Add_Lk()
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| H A D | phyrex.c | 832 Set_Both_Sides(NO,tree); in PHYREX_MCMC()
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| H A D | io.c | 4452 Set_Both_Sides(YES,mixt_tree); in PhyML_XML()
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