"R session aborted - R encountered a fatal error" trying to run Tutorial 1 with own data

[Smoellmund]

Hey there. So I created a simple/hypothetical raster with habitat categories and a species distribution raster that goes with it (see attachment). I tried to work these through the code of "tutorial 1" but got stuck (R gave me a fatal error and terminated the session) when I wanted to run the simulation as follows:

# Carrying capacities and landscape parameter object
carrycap <- c(0, 0, 0, 5, 0, 0, 0, 0) #adjusted to 8 habitat types
land <- ImportedLandscape(
  LandscapeFile = "habitatTest1.txt", 
  Resolution = 1, 
  Nhabitats = 8, 
  K_or_DensDep = carrycap, 
  SpDistFile = "SpeciesTest1.txt", 
  SpDistResolution = 1
)

################################
## further species parameters ##
################################

#growth rate
demo <- Demography(Rmax = 1.5)

#dispersal ability
disp <-  Dispersal(Emigration = Emigration(EmigProb = 0.1), 
                   Transfer = DispersalKernel(Distances = 2000), 
                   Settlement = Settlement() )

#initialisation parameters
init <- Initialise(InitType = 1, # = initialisation from a loaded species distribution map
                   SpType = 0,   # = all suitable cells within all distribution presence cells
                   InitDens = 0) # = at carrying capacity

#simulation parameters
simtest <- Simulation(Simulation = 0, 
                      Replicates = 20, 
                      Years = 100,
                      OutIntPop = 5,
                      OutIntOcc = 5,
                      OutIntRange = 5)

#parameter master
s <- RSsim(land = land, demog = demo, dispersal = disp, simul = simtest, init = init)
s

#######################
## running simulation ##
#######################

RunRS(s, dirpath)

Until then everything went fine with own raster files (loading and plotting).
Maybe you have insight why this is happening?

habitatTest1.txt
SpeciesTest1.txt

[JetteReeg]

Hey,
there are two issues with your input files. The first issue is causing R to crash.

1. RangeShiftR expects the NA values in your landscape files to be integers and not character strings (e.g. -999 instead of nan) So you would need to replace all nan strings in your files with a number (I advise to take a negative number like -999)
2. Your species distribution file should only contain either 0 (species absent) or 1 (species present) (see ?ImportedLandscape) but not double values (1.0 in your case). The NAs seem not to be a problem if you don't use strings for NAs.

[Smoellmund]

Thanks so much, this fixed the issue.