Similar question was answered here; however, this problem is a bit different for which I cannot apply that solution. I have fitted maxent using site-with-data format. The problem is I cannot project the fitted model. The output of m1 in the path D:/maxent looks fine. I suspect this two error (below) is related with rJava, but I don't know the solution. Please see my codes below:
> m1 <- maxent(x = d, p = id, path = "D:/maxent",
args = c("-P", "noautofeature", "nolinear", "noquadratic", "nothreshold",
"noproduct", "betamultiplier=1", "replicates=10", "crossvalidate"))
# here d is a dataframe containing 11213 rows and 20 predictor columns (with numeric values), id is a vector containing numeric values of 1 and 0 (representing species presence and absence)
Loading required namespace: rJava
> plot(m1, xlim=c(0,100))
Error in as.double(y) :
cannot coerce type 'S4' to vector of type 'double'> ras <- raster("E:/bio12.tif") # raster to project the fitted model 'm1'> pred.m1 <- raster::predict(m1, ras)
Error in .local(object, ...) : missing layers (or wrong names)
Here is the properties of raster file
> ras
class : RasterLayer
dimensions : 4292, 4936, 21185312 (nrow, ncol, ncell)
resolution : 0.008333333, 0.008333333 (x, y)
extent : 112.8917, 154.025, -43.75833, -7.991667 (xmin, xmax, ymin, ymax)
coord. ref. : +proj=longlat +datum=WGS84 +no_defs +ellps=WGS84 +towgs84=0,0,0
data source : E:/Predictors_grasshoppers/selected.predictors/bio12.tif
names : bio12
values : 79, 7625 (min, max)
Update: I have tried using single quote in m1 and the problem is still there.
> m2 <- maxent(x = d, p = id, path = 'D:/PhD related/Historic climate data Australia/maxent2',
args = c('-P', 'noautofeature', 'nolinear', 'noquadratic', 'nothreshold',
'noproduct', 'betamultiplier=1', 'replicates=10', 'crossvalidate'))