I have 20 rasters stored in a list called allrasters. They have different extents (see below). I want to stack them so first I use lapply to crop all list items to the raster with the smallest extent - the 10th list item.
library(raster)
rastlist <- list.files(path = "C:/Users/bhauptman/Box/Ch2/R/data/tif_shp", pattern='.tif$', all.files=TRUE, full.names=T)
allrasters <- lapply(rastlist, raster)
crop_allrasters <-lapply(allrasters, FUN = crop, allrasters[[10]])
It runs but when I check to see if they all now have the same extent, no:
compareRaster(crop_allrasters)
>Error in compareRaster(crop_allrasters) : different extent
Here are the original extents of the 20 rasters:
> extent(allrasters[[1]])
class : Extent
xmin : -223287.4
xmax : 122512.6
ymin : -340387.9
ymax : 298012.1
> extent(allrasters[[2]])
class : Extent
xmin : -459600.8
xmax : 335249.2
ymin : -503894.5
ymax : 449855.5
> extent(allrasters[[3]])
class : Extent
xmin : -459600.8
xmax : 335249.2
ymin : -503894.5
ymax : 449855.5
> extent(allrasters[[4]])
class : Extent
xmin : -260723.4
xmax : 150713.8
ymin : -350863.2
ymax : 305266.8
> extent(allrasters[[5]])
class : Extent
xmin : -260740.3
xmax : 150709.6
ymin : -350843.9
ymax : 305286.1
> extent(allrasters[[6]])
class : Extent
xmin : -223300
xmax : 129000
ymin : -344600
ymax : 298550
> extent(allrasters[[7]])
class : Extent
xmin : -223300
xmax : 129000
ymin : -344600
ymax : 298550
> extent(allrasters[[8]])
class : Extent
xmin : -223300
xmax : 129000
ymin : -344600
ymax : 298550
> extent(allrasters[[9]])
class : Extent
xmin : -223300
xmax : 129000
ymin : -344600
ymax : 298550
> extent(allrasters[[10]])
class : Extent
xmin : -223300
xmax : 129000
ymin : -344600
ymax : 298550
> extent(allrasters[[11]])
class : Extent
xmin : -223300
xmax : 129000
ymin : -344600
ymax : 298550
> extent(allrasters[[12]])
class : Extent
xmin : -223300
xmax : 129000
ymin : -344600
ymax : 298550
> extent(allrasters[[13]])
class : Extent
xmin : -223300
xmax : 129000
ymin : -344600
ymax : 298550
> extent(allrasters[[14]])
class : Extent
xmin : -223300
xmax : 129000
ymin : -344600
ymax : 298550
> extent(allrasters[[15]])
class : Extent
xmin : -421253.8
xmax : 293346.2
ymin : -463338.6
ymax : 411561.4
> extent(allrasters[[16]])
class : Extent
xmin : -421253.8
xmax : 293346.2
ymin : -463338.6
ymax : 411561.4
> extent(allrasters[[17]])
class : Extent
xmin : -260776
xmax : 150724
ymin : -350868.1
ymax : 305331.9
> extent(allrasters[[18]])
class : Extent
xmin : -260776
xmax : 150724
ymin : -350868.1
ymax : 305331.9
> extent(allrasters[[19]])
class : Extent
xmin : -260776
xmax : 150724
ymin : -350868.1
ymax : 305331.9
> extent(allrasters[[20]])
class : Extent
xmin : -260776
xmax : 150724
ymin : -350868.1
ymax : 305331.9
In principle that should work, illustrated here with some example data and with terra instead of raster
library(terra)
f <- system.file("ex/elev.tif", package="terra")
x = list(r, r, crop(r, c(5,6,49,50)))
y = lapply(x, crop, y=x[[3]])
sapply(x, \(i) as.vector(ext(i))) |> t()
# xmin xmax ymin ymax
#[1,] 5.741667 6.533333 49.44167 50.19167
#[2,] 5.741667 6.533333 49.44167 50.19167
#[3,] 5.741667 6.000000 49.44167 50.00000
sapply(y, \(i) as.vector(ext(i))) |> t()
# xmin xmax ymin ymax
#[1,] 5.741667 6 49.44167 50
#[2,] 5.741667 6 49.44167 50
#[3,] 5.741667 6 49.44167 50
It seems that this does not work for some of the input rasters in your case. You could try to use crop directly on those rasters to find out why.