Growing grid helper function (#12)

* Documentation and pkgdown addition

* Adding datapaths as entry

* 🚀 negated in function

* Small updates and convenience stuff (#8) (#9)

* Documentation and pkgdown addition

* Adding datapaths as entry

* 🚀 negated in function

* 🚀 Function to export raster to netcdf files

* Transferred object size function from ibis

* Updated docs, code and downscalr conversion code

* Small typo 🐛 in tests

* 🐛 fix nr 2 for dependencies

* 🚀 grow grid function

BNRTools.Rproj

@@ -1,4 +1,5 @@
 Version: 1.0
+ProjectId: 3ed6f0ab-539e-414c-ac67-f900618cf932
 
 RestoreWorkspace: No
 SaveWorkspace: No

NAMESPACE

@@ -5,6 +5,7 @@ export(conv_downscalr2ibis)
 export(misc_objectSize)
 export(misc_sanitizeNames)
 export(spl_exportNetCDF)
+export(spl_growGrid)
 export(spl_replaceGriddedNA)
 export(spl_resampleRas)
 importFrom(utils,object.size)

R/spl_growGrid.R

@@ -0,0 +1,78 @@
+#' Grow a categorical SpatRaster by certain amount of pixels or distance.
+#'
+#' @description
+#' A common issue in aggregating categorical rasters is that coastal and boundary
+#' gridcells tend to decrease owing to aggregation effects. This can cause issues
+#' of non-matching grid cells later on.
+#' This simple function takes a categorical [`SpatRaster`] object and grows it
+#' into no-data areas (those with \code{NA} values) within an optionally provided
+#' distance.
+#'
+#' @note
+#' Only \code{NA} grid cells will be filled!
+#'
+#' @param x A categorical [`SpatRaster`] to be grown.
+#' @param iter A [`numeric`] values of the maximum number of iterations from the grid
+#' cell border of which \code{x} should be grown (Default: \code{2}).
+#'
+#' @returns [`SpatRaster`]
+#'
+#' @keywords spatial
+#'
+#' @seealso
+#' \code{\link[terra]{buffer}},
+#' \code{\link[terra]{focal}}
+#'
+#' @examples
+#' set.seed(42)
+#' ras <- terra::rast(ncol = 100, nrow = 100, xmin = 0, xmax = 100,
+#' ymin = 0, ymax = 100, resolution = 10, crs = NA)
+#'
+#' # Fill with dummy values but keep half as NA
+#' terra::values(ras) <- c(rep(NA,50),rbinom(terra::ncell(ras)/2, 10, 0.5))
+#'
+#' # Convert to factor
+#' ras <- terra::as.factor(ras)
+#' assertthat::assert_that(terra::is.factor(ras))
+#'
+#' ras_nona <- spl_growGrid(x = ras, iter = 10)
+#' terra::plot(ras_nona)
+#'
+#' @export
+spl_growGrid <- function(x, iter = 2) {
+
+  assertthat::assert_that(
+    inherits(x, "SpatRaster"),
+    is.numeric(iter) && iter > 0
+  )
+
+  # Check if there is any NA, otherwise return
+  if(!terra::global(x, "anyNA")[,1]) return(x)
+
+  # Save categories
+  if(terra::is.factor(x)) cats <- terra::cats(x) else cats <- NULL
+
+  # Create dummy and progress per iteration
+  new <- x
+  pb <- progress::progress_bar$new(total = iter)
+
+  for(i in 1:iter){
+    pb$tick()
+
+    # Check if no-data is still present. If no, skip
+    if(!terra::global(new, "anyNA")[,1]) next()
+
+    # Buffer
+    new <- terra::focal(x = new,
+                      w = 3,
+                      fun = "modal",
+                      na.policy = "only"
+    )
+  }
+
+  # Convert to factor again
+  if(terra::is.factor(x)) new <- terra::as.factor(new)
+
+  # Return output
+  return(new)
+}

_pkgdown.yml

@@ -43,6 +43,7 @@ reference:
       - spl_resampleRas
       - spl_exportNetCDF
       - spl_replaceGriddedNA
+      - spl_growGrid
       - has_keyword("spatial")
 
   - title: Miscellaneous functions

tests/testthat/test-spl_tests.R

@@ -22,6 +22,4 @@ test_that("Spatial object modifications", {
   )
   expect_s4_class(r1_filled2, "SpatRaster")
   # --- #
-
-
 })

tests/testthat/test_spl_growGrid.R

@@ -0,0 +1,25 @@
+test_that("Testing to grow a grid", {
+
+  suppressWarnings(requireNamespace("terra", quietly = TRUE))
+
+  set.seed(42)
+  ras <- terra::rast(ncol = 100, nrow = 100, xmin = 0, xmax = 100,
+  ymin = 0, ymax = 100, resolution = 10, crs = NA)
+
+  # Fill with dummy values but keep half as NA
+  terra::values(ras) <- c(rep(NA,50),rbinom(terra::ncell(ras)/2, 10, 0.5))
+
+  # Convert to factor
+  ras <- terra::as.factor(ras)
+  # Check
+  testthat::expect_s4_class(ras, "SpatRaster")
+  testthat::expect_true(terra::is.factor(ras))
+
+  # Grow grid
+  testthat::expect_no_error(
+    ras_nona <- spl_growGrid(x = ras, iter = 10)
+  )
+  testthat::expect_s4_class(ras_nona, "SpatRaster")
+  # Expect no NA to remain
+  testthat::expect_false( terra::global(ras_nona, "anyNA")[,1] )
+})