From e6fd6ff432b690e0f68225fe8b3179bef9384364 Mon Sep 17 00:00:00 2001
From: Craig Gower-Page <craig.gower-page@roche.com>
Date: Wed, 19 Jun 2024 17:18:33 +0100
Subject: [PATCH] Improve Stan Function Name(#363)

---
 inst/stan/base/functions.stan          | 8 ++++----
 inst/stan/lm-gsf/functions.stan        | 2 +-
 inst/stan/lm-gsf/link_dsld.stan        | 2 +-
 inst/stan/lm-stein-fojo/functions.stan | 2 +-
 inst/stan/lm-stein-fojo/link_dsld.stan | 2 +-
 5 files changed, 8 insertions(+), 8 deletions(-)

diff --git a/inst/stan/base/functions.stan b/inst/stan/base/functions.stan
index 2e2c1979a..387792699 100644
--- a/inst/stan/base/functions.stan
+++ b/inst/stan/base/functions.stan
@@ -84,19 +84,19 @@ functions {
 
     // Replaces the values of `y` with `replacement` if the corresponding value
     // of `x` is less than 0.
-    matrix if_lt0_else(matrix x, matrix y, real replacement) {
+    matrix if_gte0_else(matrix x, matrix y, real replacement) {
         matrix[rows(x), cols(x)] result;
         for (i in 1:rows(x)) {
             for (j in 1:cols(x)) {
-                result[i, j] = x[i, j] < 0 ? replacement : y[i, j];
+                result[i, j] = x[i, j] >= 0 ?  y[i, j] : replacement;
             }
         }
         return result;
     }
-    vector if_lt0_else(vector x, vector y, real replacement) {
+    vector if_gte0_else(vector x, vector y, real replacement) {
         vector[rows(x)] result;
         for (i in 1:rows(x)) {
-            result[i] = x[i] < 0 ? replacement : y[i];
+            result[i] = x[i] >= 0 ? y[i] : replacement;
         }
         return result;
     }
diff --git a/inst/stan/lm-gsf/functions.stan b/inst/stan/lm-gsf/functions.stan
index 140a9a076..0b71cbec4 100644
--- a/inst/stan/lm-gsf/functions.stan
+++ b/inst/stan/lm-gsf/functions.stan
@@ -12,7 +12,7 @@ functions {
         vector psi_phi
     ) {
         int nrow = rows(time);
-        vector[nrow] psi_phi_mod = if_lt0_else(time, psi_phi, 0);
+        vector[nrow] psi_phi_mod = if_gte0_else(time, psi_phi, 0);
 
         vector[nrow] result = fmin(
             8000.0,
diff --git a/inst/stan/lm-gsf/link_dsld.stan b/inst/stan/lm-gsf/link_dsld.stan
index 69c88b548..febb677d1 100644
--- a/inst/stan/lm-gsf/link_dsld.stan
+++ b/inst/stan/lm-gsf/link_dsld.stan
@@ -22,7 +22,7 @@ functions {
         matrix[nrows, ncols] psi_kg_matrix = rep_matrix(psi_kg, ncols);
         matrix[nrows, ncols] psi_phi_matrix = rep_matrix(psi_phi, ncols);
 
-        psi_phi_matrix = if_lt0_else(time, psi_phi_matrix, 0);
+        psi_phi_matrix = if_gte0_else(time, psi_phi_matrix, 0);
 
         matrix[nrows, ncols] result = fmin(
             8000.0,
diff --git a/inst/stan/lm-stein-fojo/functions.stan b/inst/stan/lm-stein-fojo/functions.stan
index 0f603560a..1c69244e1 100644
--- a/inst/stan/lm-stein-fojo/functions.stan
+++ b/inst/stan/lm-stein-fojo/functions.stan
@@ -11,7 +11,7 @@ functions {
         vector psi_kg
     ) {
         int n = rows(time);
-        vector[n] psi_ks_mod = if_lt0_else(time, psi_ks, 0);
+        vector[n] psi_ks_mod = if_gte0_else(time, psi_ks, 0);
         vector[n] result = fmin(
             8000.0,
             psi_bsld  .* (
diff --git a/inst/stan/lm-stein-fojo/link_dsld.stan b/inst/stan/lm-stein-fojo/link_dsld.stan
index 5dd260dbd..120b422d8 100644
--- a/inst/stan/lm-stein-fojo/link_dsld.stan
+++ b/inst/stan/lm-stein-fojo/link_dsld.stan
@@ -20,7 +20,7 @@ functions {
         matrix[nrows, ncols] psi_ks_matrix = rep_matrix(psi_ks, ncols);
         matrix[nrows, ncols] psi_kg_matrix = rep_matrix(psi_kg, ncols);
 
-        matrix[nrows, ncols] psi_ks_matrix_mod = if_lt0_else(time, psi_ks_matrix, 0);
+        matrix[nrows, ncols] psi_ks_matrix_mod = if_gte0_else(time, psi_ks_matrix, 0);
 
         matrix[nrows, ncols] result = fmin(
             8000.0,