Update parameter values to match those from the article

VEZY · Jun 12, 2019 · 6c8258a · 6c8258a
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Showing 2 changed files with 7 additions and 7 deletions.
diff --git a/R/0-Coffee.R b/R/0-Coffee.R
@@ -2,9 +2,9 @@
 #' @export
 coffee= function(){
   list(
-    Stocking_Coffee   = 6666,       # Coffee density at planting (plant ha-1)
+    Stocking_Coffee   = 5580,       # Coffee density at planting (plant ha-1)
     AgeCoffeeMin      = 1,          # minimum coffee stand age
-    AgeCoffeeMax      = 41,         # maximum coffee stand age (start a new rotation after)
+    AgeCoffeeMax      = 40,         # maximum coffee stand age (start a new rotation after)
     SLA               = 10.97,      # Specific Leaf Area (m-2 kg-1 dry mass)
     wleaf             = 0.068,      # Leaf width (m)
     DELM              = 7,          # Max leaf carbon demand (gC plant-1 d-1)
@@ -16,7 +16,7 @@ coffee= function(){
     WoodPruningRate   = 1/3,        # how much branches wood are pruned (ratio)
     k_Dif             = 0.4289,     # Light extinction coefficient for diffuse light (-), computed from MAESPA
     k_Dir             = 0.3579,     # Light extinction coefficient for direct light (-), computed from MAESPA
-    kres              = 0.33,       # Maximum carbon proportion extracted from reserves mass per day
+    kres              = 0.08,       # Maximum carbon proportion extracted from reserves mass per day
     DVG1              = 105,        # Day of year for the beginning of the Vegetative Growing Season
     DVG2              = 244,        # Day of year for the end of the Vegetative Growing Season
     MinTT             = 10,         # Minimum temperature threshold (deg C) for degree days computation
@@ -25,7 +25,7 @@ coffee= function(){
     VF_Flowering      = 5500,       # Very first flowering (dd), source: Rodriguez et al. (2001)
     F_buds1           = 840,        # Bud development stage 1 (2), source: PhD Louise Meylan p.58.
     F_buds2           = 2562,       # Bud development stage 2 (dd)
-    a_bud             = 0.004,    # Parameter for bud initiation from Eq. 12 in Rodriguez et al. (2001)
+    a_bud             = 0.004,      # Parameter for bud initiation from Eq. 12 in Rodriguez et al. (2001)
     b_bud             = -0.0000041, # Parameter for bud initiation from Eq. 12 in Rodriguez et al. (2001)
     F_Tffb            = 4000,       # Time of first floral buds (Rodriguez et al., 2001).
     a_p               = 5.78,       # Parameter for bud dormancy break from Rodriguez et al. (2011)

diff --git a/R/0-Site.R b/R/0-Site.R
@@ -17,11 +17,11 @@
 #'
 #' @section coffee:
 #' The default coffee parameters. It is essentially a high density plantation (6666 coffee plants
-#'  per hectares) of *Coffea arabica var. Caturra* that are pruned every year to sustain
+#'  per hectares) of \emph{Coffea arabica var. Caturra} that are pruned every year to sustain
 #'  three resprouts per stump in average.
 #' @section Tree:
-#' The default shade tree parameters. The shade trees in Aquiares were  *Erythrina poeppigiana*
-#' planted at high density (250 trees ha-1) and pruned to optimize light transmitted to the *Coffea*,
+#' The default shade tree parameters. The shade trees in Aquiares were  \emph{Erythrina poeppigiana}
+#' planted at high density (250 trees ha-1) and pruned to optimize light transmitted to the \emph{Coffea},
 #' and were depressed in 2000 to a low density of ~7.4 trees ha-1.
 #' From 2000, these trees made a relatively large crown with an average height of 26 m in 2018
 #' on this site. NB: the Tree parameter file is optional, and not needed