From d97d55afcd7db3cdedbefcb1017c8b8842be5154 Mon Sep 17 00:00:00 2001 From: Stephane Guindon Date: Tue, 25 Jan 2022 13:02:31 +0100 Subject: [PATCH] Changed boundaries for GTR param values --- doc/phyml-manual.tex | 4 ++-- src/utilities.h | 4 ++-- 2 files changed, 4 insertions(+), 4 deletions(-) diff --git a/doc/phyml-manual.tex b/doc/phyml-manual.tex index 0f4006aa..af862ff2 100755 --- a/doc/phyml-manual.tex +++ b/doc/phyml-manual.tex @@ -606,9 +606,9 @@ \subsection{Command-line interface} \item \x{--free\_rates} or \x{--freerates} \index{command-line options!\x{--free\_rates}}\\ As an alternative to the discrete gamma model, it is possible to estimate the (relative) rate in each class of the (mixture) model and the corresponding frequencies directly from the data. This -model, called the FreeRate model, has more parameters +model, called FreeRate, has more parameters than the discrete gamma one but usually provides a significantly better fit to the data. See -\cite{soubrier12} for more information about this model and an illustration of its use. +\cite{soubrier12} for more information about this model and an illustration of its use. \item \x{--il} \index{command-line options!\x{--il}}\\ \x{il} stands here for integrated (branch) length. This model, described in \cite{guindon13} in the context of molecular dating, provides an diff --git a/src/utilities.h b/src/utilities.h index 6a8fb929..e160b48f 100644 --- a/src/utilities.h +++ b/src/utilities.h @@ -171,8 +171,8 @@ static inline int isinf_ld (long double x) { return isnan (x - x); } #define PINV_MIN 0.00001 #define PINV_MAX 0.99999 -#define RR_MIN 0.01 -#define RR_MAX 100.0 +#define RR_MIN 0.001 +#define RR_MAX 1000.0 #define UNSCALED_RR_MIN log(RR_MIN) #define UNSCALED_RR_MAX log(RR_MAX)