8.4.1.0

.vscode/settings.json

@@ -4,6 +4,7 @@
         "CRS",
         "Dypsis",
         "Epanechnikov",
+        "geostatistical",
         "mapset",
         "unprojected"
     ]

DESCRIPTION

@@ -1,8 +1,8 @@
 Package: fasterRaster
 Type: Package
-Title: Faster Raster and Spatial Vector Processing Using 'GRASS GIS'
-Version: 8.4.0.7
-Date: 2025-04-24
+Title: Faster Raster and Spatial Vector Processing Using 'GRASS'
+Version: 8.4.1.0
+Date: 2025-06-19
 Authors@R: 
 	c(
 		person(
@@ -15,12 +15,12 @@ Authors@R:
 	)
 Maintainer: Adam B. Smith <adam.smith@mobot.org>
 Description: Processing of large-in-memory/large-on disk rasters and spatial
-	vectors using 'GRASS GIS' <https://grass.osgeo.org/>. Most functions in
-	the 'terra' package are	recreated. Processing of medium-sized and smaller
+	vectors using 'GRASS' <https://grass.osgeo.org/>. Most functions in the
+	'terra' package are	recreated. Processing of medium-sized and smaller
 	spatial objects will nearly always be faster using 'terra' or 'sf', but
 	for large-in-memory/large-on-disk objects, 'fasterRaster' may be faster.
 	To use most of the functions, you must have the stand-alone version (not
-	the 'OSGeoW4' installer version) of 'GRASS GIS' 8.0 or higher.
+	the 'OSGeoW4' installer version) of 'GRASS' 8.0 or higher.
 Depends:
 	R (>= 4.0.0)
 Imports:

NAMESPACE

@@ -9,10 +9,12 @@ export(faster)
 export(grassHelp)
 export(grassInfo)
 export(grassStarted)
+export(installAddon)
 export(is.polygons)
 export(mow)
 export(pcs)
 export(print)
+export(removeAddon)
 export(seqToSQL)
 export(st_coordinates)
 export(st_crs)
@@ -172,12 +174,15 @@ exportMethods(minmax)
 exportMethods(missing.cases)
 exportMethods(missingCats)
 exportMethods(mmode)
+exportMethods(multivarEnvSim)
 exportMethods(nacell)
 exportMethods(names)
 exportMethods(ncell)
 exportMethods(ncell3d)
 exportMethods(ncol)
 exportMethods(ndepth)
+exportMethods(neighborhoodMatrix)
+exportMethods(neighbourhoodMatrix)
 exportMethods(ngeom)
 exportMethods(nlevels)
 exportMethods(nlyr)
@@ -194,7 +199,10 @@ exportMethods(predict)
 exportMethods(princomp)
 exportMethods(project)
 exportMethods(quantile)
+exportMethods(rNormRast)
 exportMethods(rSpatialDepRast)
+exportMethods(rUnifRast)
+exportMethods(rWalkRast)
 exportMethods(range)
 exportMethods(rast)
 exportMethods(rasterize)
@@ -212,10 +220,8 @@ exportMethods(replaceNAs)
 exportMethods(res)
 exportMethods(res3d)
 exportMethods(resample)
-exportMethods(rnormRast)
 exportMethods(round)
 exportMethods(ruggedness)
-exportMethods(runifRast)
 exportMethods(rvoronoi)
 exportMethods(sampleRast)
 exportMethods(scale)

NEWS.md

@@ -1,8 +1,27 @@
+# fasterRaster 8.4.1.0 (2025-06-17)
+
+### Code-breaking changes
+o `rnormRast()` is now `rNormRast()`.  
+o `runifRast()` is now `rUnifRast()`.  
+
+### New functions and functionality
+o `addons()` now reports the names of all installed addons or whether a given addon is installed.  
+o `installAddon()` installs an addon.  
+o `removeAddon()` deletes an addon.  
+o `centroids()` now calculates centroids of clumps in a `GRaster`.  
+o `multivarEnvSim()` calculates multivariate environmental similarity (MESS).  
+o `neighborhoodMatrix()` generates a neighborhood matrix from a polygons `GVector`.  
+o `rWalkRast()` creates a raster with the path of random walkers.  
+o `ruggedness()` now allows for calculation of the terrain ruggedness index across user-defined windows with distance-based weighting.  
+
+### Minor fixes
+o Rebranding as per **GRASS** re-brand (haromonized logo with **GRASS** April 2025 branding guidelines, "GRASS GIS" --> just "GRASS", "modules" --> "tools).  
+
 # fasterRaster 8.4.0.7 (2025-04-24)
 o Removed dependency on **rpanel** because its dependency on **tclk** did not work with **Docker** images. Replaced with version dependency on **omnibus**'s `screenRes()` function.  
 
 # fasterRaster 8.4.0.6 (2025-03-26)
-o `faster(debug = TRUE)` displays the **GRASS** command for each **GRASS** module called in a **fasterRaster** function.  
+o `faster(debug = TRUE)` displays the **GRASS** command for each **GRASS** tool called in a **fasterRaster** function.  
 o `GVector[i]` works for cases with long `i`s.  
 o Fixes to help pages.  
 
@@ -84,7 +103,7 @@ o `pca()` has been renamed `princomp()`.
 ### Enhanced functionality and new functions
 o `extract()` now automatically projects a `GVector` to match the CRS of a `GRaster` from which extraction is being made.  
 o `grassGUI()` allows users to start the **GRASS** GUI.  
-o `grassHelp()` shows the manual page for a **GRASS** module.  
+o `grassHelp()` shows the manual page for a **GRASS** tool.  
 o `layerIndex()` allows a `negate` argument to get the "opposite" indices of a `GRaster`.  
 o `init()` assigns to `GRaster` cells the value of their coordinates, rows, columns, or values in a regular or chessboard-like pattern.  
 o `regress()` replaces individual functions `intercept()`, `slope()`, `r2()`, and `tvalue()`.  
@@ -238,8 +257,8 @@ o `activeCat()`: Correct output when `names = TRUE`.
 o `expanse()`: Expanded list of units; correct assignation of units to **GRASS** unit format.  
 o `extract()`: Extracting from a `GRaster` to a `lines` or `polygons` `GVector` works.  
 o `fast()`: Fixed bug arising when reading vector saved by `writeRaster()`.  
-o + `global()`: Removed functions `"countNA"` and `"countNonNA"` from `global()` since **GRASS** module `r.report` can be mistaken.  
-o `nacell()` and `nonnacell()`: Correct (but slow~~~) reporting of `NA` and non-`NA` cells (workaround of error in **GRASS**'s `r.report` module).
+o + `global()`: Removed functions `"countNA"` and `"countNonNA"` from `global()` since **GRASS** tool `r.report` can be mistaken.  
+o `nacell()` and `nonnacell()`: Correct (but slow~~~) reporting of `NA` and non-`NA` cells (workaround of error in **GRASS**'s `r.report` tool).
 
 # fasterRaster 8.3.0.7016 (2024-05-27)
 

R/00e_GVector_class.r

@@ -54,7 +54,7 @@ methods::setValidity("GVector",
 #'
 #' @param table A `data.table`, `data.frame`, `GVector` with a table, or character. This can be `data.table(NULL)` or `data.frame(NULL)` if there is no table associated with the vector. If a character, this is interpreted as the name of the table in **GRASS**.
 #'
-#' @param build Logical: If `TRUE` (default), build topology using **GRASS** module `v.build`.
+#' @param build Logical: If `TRUE` (default), build topology using **GRASS** tool `v.build`.
 #'
 #' @param extensive Logical: If `TRUE`, do extensive topological checks using `v.build`. The default is `FALSE`.
 #'

R/01_generics.r

@@ -128,8 +128,8 @@ methods::setGeneric(name = "dropTable", def = function(x, ...) standardGeneric("
 
 methods::setGeneric(name = "E", def = function(x, ...) standardGeneric("E"))
 # methods::setGeneric(name = "elide", def = function(x, ...) standardGeneric("elide"))
-methods::setGeneric(name = "erase", package = "terra") 
-methods::setGeneric(name = "ext", package = "terra") 
+methods::setGeneric(name = "erase", package = "terra")
+methods::setGeneric(name = "ext", package = "terra")
 methods::setGeneric(name = "extend", package = "terra")
 methods::setGeneric(name = "expanse", package = "terra")
 methods::setGeneric(name = "extract", package = "terra")
@@ -199,14 +199,17 @@ methods::setGeneric(name = "merge", package = "terra")
 #' @importFrom terra median
 methods::setGeneric(name = "median", def = function(x, na.rm) standardGeneric("median"))
 methods::setGeneric(name = "mmode", def = function(x, ...) package = "omnibus")
+methods::setGeneric(name = "multivarEnvSim", def = function(ref, proj, ...) standardGeneric("multivarEnvSim"))
 
 # "names" (in base) is primitive
 methods::setGeneric(name = "N", def = function(x, ...) standardGeneric("N"))
 methods::setGeneric(name = "ncell", package = "terra")
 methods::setGeneric(name = "ncell3d", def = function(x) standardGeneric("ncell3d"))
 methods::setGeneric(name = "ncol", def = function(x) standardGeneric("ncol")) # in base
 methods::setGeneric(name = "ndepth", def = function(x) standardGeneric("ndepth"))
-methods::setGeneric(name = "new", package = "methods") 
+methods::setGeneric(name = "neighborhoodMatrix", def = function(x, ...) standardGeneric("neighborhoodMatrix"))
+methods::setGeneric(name = "neighbourhoodMatrix", def = function(x, ...) standardGeneric("neighbourhoodMatrix"))
+methods::setGeneric(name = "new", package = "methods")
 methods::setGeneric(name = "nlyr", package = "terra")
 methods::setGeneric(name = "nacell", def = function(x, ...) standardGeneric("nacell"))
 methods::setGeneric(name = "ngeom", def = function(x, ...) standardGeneric("ngeom"))
@@ -238,7 +241,6 @@ methods::setGeneric(name = "rasterize", package = "terra")
 # from https://stackoverflow.com/questions/27886535/proper-way-to-use-cbind-rbind-with-s4-classes-in-package
 methods::getGeneric("rbind")
 methods::setGeneric(name = "rbind", signature = "...")
-
 methods::setGeneric(name = "regress", package = "terra")
 methods::setGeneric(name = "remove0", def = function(x, ...) standardGeneric("remove0"))
 methods::setGeneric(name = "removeAngles", def = function(x, ...) standardGeneric("removeAngles"))
@@ -251,10 +253,11 @@ methods::setGeneric(name = "replaceNAs", def = function(x, ...) standardGeneric(
 methods::setGeneric(name = "res", package = "terra")
 methods::setGeneric(name = "res3d", def = function(x) standardGeneric("res3d"))
 methods::setGeneric(name = "resample", package = "terra")
-methods::setGeneric(name = "rnormRast", def = function(x, ...) standardGeneric("rnormRast"))
+methods::setGeneric(name = "rNormRast", def = function(x, ...) standardGeneric("rNormRast"))
 methods::setGeneric(name = "ruggedness", def = function(x, ...) standardGeneric("ruggedness"))
-methods::setGeneric(name = "runifRast", def = function(x, ...) standardGeneric("runifRast"))
+methods::setGeneric(name = "rUnifRast", def = function(x, ...) standardGeneric("rUnifRast"))
 methods::setGeneric(name = "rvoronoi", def = function(x, ...) standardGeneric("rvoronoi"))
+methods::setGeneric(name = "rWalkRast", def = function(x, ...) standardGeneric("rWalkRast"))
 
 methods::setGeneric(name = "S", def = function(x, ...) standardGeneric("S"))
 methods::setGeneric(name = "sampleRast", def = function(x, ...) standardGeneric("sampleRast"))

R/05_GRaster_functions_by_layer.r

@@ -383,7 +383,7 @@ setMethod(
 )
 
 #' Generic trigonometry function
-#' @param fx	Character: Name of the function in **GRASS** module `r.series`.
+#' @param fx	Character: Name of the function in **GRASS** tool `r.series`.
 #' @param x		A `GRaster`.
 #' @noRd
 .genericTrig <- function(fx, x) {
@@ -409,7 +409,7 @@ setMethod(
 }
 
 #' Generic "arc"-trigonometry function
-#' @param fx	Character: Name of the function in **GRASS** module `r.series`.
+#' @param fx	Character: Name of the function in **GRASS** tool `r.series`.
 #' @param x		A `GRaster`.
 #' @noRd
 .genericArcTrig <- function(fx, x) {
@@ -435,7 +435,7 @@ setMethod(
 }
 
 #' Generic function with one input (the GRaster)
-#' @param fx	Character: Name of the function in **GRASS** module `r.series`.
+#' @param fx	Character: Name of the function in **GRASS** tool `r.series`.
 #' @param x		A `GRaster`.
 #' @noRd
 .genericRastFx <- function(fx, x) {
@@ -464,7 +464,7 @@ setMethod(
 }
 
 #' Generic function with two inputs (GRaster and a numeric)
-#' @param fx	Character: Name of the function in **GRASS** module `r.series`.
+#' @param fx	Character: Name of the function in **GRASS** tool `r.series`.
 #' @param x		A `GRaster`.
 #' @param y		A numeric.
 #' @noRd