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```
#' Function that loads forcings data for Clam individual bioenergetic model (alternative version) and performs the interpolation
#'
#' @param userpath the path where folder containing model inputs and outputs is located
#' @return a list containing the time series in the odd positions and realted forcings in the even positions. Forcings returned are: Water temperature [Celsius degrees], Chlorophyll a concentration [mgChl-a/m^3]
#' @export
#'
#' @import matrixStats plotrix rstudioapi
#'
#' @import stats utils
#'
ClamF_ind_dataloader<-function(userpath) {
# Reads forcing files
Ttem=read.csv(paste0(userpath,"/ClamF_individual/Inputs/Forcings//Water_temperature.csv"),sep=",",header=FALSE) # Reading the temperature time series (daily series) data
Chlatem=read.csv(paste0(userpath,"/ClamF_individual/Inputs/Forcings//Chlorophyll_a.csv"),sep=",",header=FALSE) # Reading the Chlorophyll_a (daily series) data
# Reads integration extremes
Param_matrix=read.csv(paste0(userpath,"/ClamF_individual/Inputs/Parameters//Parameters.csv"),sep=",") # Reading the matrix containing parameters and their description
#Extracts vectors from the forcing files
Dates=Param_matrix[27:28,3] # Vector containing the starting and ending date of teh simulation
timeT=as.matrix(Ttem[,1]) # Vector of the times of Temperature measurements
Temperature=as.double(as.matrix(Ttem[,2])) # Vector of water temperature time series (daily series)
timeChla=as.matrix(Chlatem[,1]) #Vector of the times of Chlorophyll a measurements
Chla=as.double(as.matrix(Chlatem[,2])) # Vector of Chlorophyll a time series (daily series)
# Times needed to perform interpolation
t0=min(as.numeric(as.Date(timeT[1], "%d/%m/%Y")), as.numeric(as.Date(timeChla[1], "%d/%m/%Y")), as.numeric(as.Date(Dates[1], "%d/%m/%Y"))) # starting minimum starting date for forcings and observations
ti=as.numeric(as.Date(Dates[1], "%d/%m/%Y"))-t0 # Start of integration [day]
tf=as.numeric(as.Date(Dates[2], "%d/%m/%Y"))-t0 # End of integration [day]
# Prepare t data for Temperature and Feeding interpolation
timeTseries=as.numeric(as.Date(timeT, "%d/%m/%Y"))-t0 # Days at which temperature measurements are available
timeChlaseries=as.numeric(as.Date(timeChla, "%d/%m/%Y"))-t0 # Days at which CHL measurements are available
# Interpolation of forcings
Ttem=as.vector(matrix(0,nrow=ti-1)) # Initialize vector Tint
Chltem=as.vector(matrix(0,nrow=ti-1)) # Initialize vector Chlint
i=ti:tf # Interpolation base points
Ttem2=approx(timeTseries,Temperature,xout=i) # T interpolation according to base points
Chltem2=approx(timeChlaseries,Chla,xout=i) # Chl interpolation according to base points
Tint=c(Ttem, Ttem2$y) # Interpolated T values starting at t0
Chlint=c(Chltem, Chltem2$y) # Interpolated Chl values starting at t0
# Prepare dates vector
daysT <- seq(as.Date(timeT[1], format = "%d/%m/%Y"), by = "days", length = length(Tint))
daysChl <- seq(as.Date(timeChla[1], format = "%d/%m/%Y"), by = "days", length = length(Chlint))
# Check if forcings are Ok with integration extremes
if ((ti<(as.numeric(as.Date(timeT[1], "%d/%m/%Y"))-t0))|(ti<(as.numeric(as.Date(timeChla[1], "%d/%m/%Y"))-t0))) {
cat("ERROR: forcings are beginning after the specified integration start\n")
cat("Impossible to proceed with interpolation\n")
}
if ((ti>(as.numeric(as.Date(timeT[length(timeT)], "%d/%m/%Y"))-t0))|(ti>(as.numeric(as.Date(timeChla[length(timeChla)], "%d/%m/%Y"))-t0))) {
cat("ERROR: forcing are ending before the specified integration end\n")
cat("Impossible to proceed with interpolation\n")
}
forcings=list(daysT,Tint,daysChl,Chlint)
return(forcings)
}
```

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