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Searched refs:log_site_lk (Results 1 – 2 of 2) sorted by relevance

/dports/biology/phyml/phyml-3.3.20200621/src/
H A Dlk.c767 phydbl site_lk,res,*pi,*site_lk_cat,log_site_lk; in Lk_Core() local
848 tree->c_lnL_sorted[site] = log_site_lk; in Lk_Core()
849 tree->c_lnL += tree->data->wght[site] * log_site_lk; in Lk_Core()
850 …tree->cur_site_lk[site] = exp(log_site_lk); // note to self : add opt out option to avoid calculat… in Lk_Core()
861 phydbl site_lk,res,*site_lk_cat,log_site_lk; in Lk_Core_Eigen_Lr() local
938 tree->c_lnL_sorted[site] = log_site_lk; in Lk_Core_Eigen_Lr()
939 tree->c_lnL += tree->data->wght[site] * log_site_lk; in Lk_Core_Eigen_Lr()
1910 phydbl site_lk,log_site_lk; in Lk_Given_Two_Seq() local
1970 site_lk = log_site_lk = .0; in Lk_Given_Two_Seq()
2010 log_site_lk += (phydbl)log(site_lk); in Lk_Given_Two_Seq()
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H A Dmixt.c662 phydbl site_lk_cat,site_lk,log_site_lk,inv_site_lk; in MIXT_Lk() local
1037 log_site_lk = log(site_lk); in MIXT_Lk()
1044 mixt_tree->cur_site_lk[site] = exp(log_site_lk); in MIXT_Lk()
1053 mixt_tree->c_lnL_sorted[site] = mixt_tree->data->wght[site]*log_site_lk; in MIXT_Lk()
1056 mixt_tree->c_lnL += mixt_tree->data->wght[site]*log_site_lk; in MIXT_Lk()
2805 phydbl log_site_lk,inv_site_lk; in MIXT_dLk() local
3107 log_site_lk = log(site_lk); in MIXT_dLk()
3109 if(isinf(log_site_lk) || isnan(log_site_lk)) in MIXT_dLk()
3114 PhyML_Fprintf(stderr,"\n. lk = %G log(lk) = %f < %G",site_lk,log_site_lk,-BIG); in MIXT_dLk()
3123 mixt_tree->c_lnL += mixt_tree->data->wght[site] * log_site_lk; in MIXT_dLk()