Last updated on 2025-12-03 05:50:54 CET.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| diseasemapping | 2 | 11 | |
| geostatsp | 3 | 2 | 8 |
| mapmisc | 1 | 12 |
Current CRAN status: NOTE: 2, OK: 11
Version: 2.0.6
Check: package dependencies
Result: NOTE
Package which this enhances but not available for checking: ‘INLA’
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Current CRAN status: ERROR: 3, NOTE: 2, OK: 8
Version: 2.0.8
Check: examples
Result: ERROR
Running examples in ‘geostatsp-Ex.R’ failed
The error most likely occurred in:
> ### Name: RFsimulate
> ### Title: Simulation of Random Fields
> ### Aliases: RFsimulate modelRandomFields RFsimulate RFsimulate-methods
> ### RFsimulate,ANY,SpatRaster-method RFsimulate,numeric,SpatRaster-method
> ### RFsimulate,numeric,SpatVector-method
> ### RFsimulate,RMmodel,SpatVector-method
> ### RFsimulate,RMmodel,SpatRaster-method
> ### RFsimulate,matrix,SpatRaster-method
> ### RFsimulate,matrix,SpatVector-method RFsimulate,data.frame,ANY-method
> ### Keywords: spatial
>
> ### ** Examples
>
> library('geostatsp')
>
> # exclude this line to use the RandomFields package
> options(useRandomFields = FALSE)
>
> model1 <- c(var=5, range=1,shape=0.5)
>
>
> myraster = rast(nrows=20,ncols=30,extent = ext(0,6,0,4),
+ crs="+proj=utm +zone=17 +datum=NAD27 +units=m +no_defs")
>
> set.seed(0)
>
> simu <- RFsimulate(model1, x=myraster, n=3)
install the RandomFields package for faster simulations
OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.0.8
Check: tests
Result: ERROR
Running ‘RFsimulate.R’ [89m/58m]
Running ‘krige.R’ [22s/32s]
Running ‘lgcp.R’ [20s/26s]
Running ‘lgm.R’ [74s/73s]
Running ‘lgmRaster.R’ [0m/30m]
Running ‘likfitLgm.R’
Running the tests in ‘tests/RFsimulate.R’ failed.
Complete output:
> library("geostatsp")
Loading required package: Matrix
Loading required package: terra
terra 1.8.86
>
> model <- c(var=5, range=20,shape=0.5)
>
> # any old crs
> theCrs = "+proj=utm +zone=17 +datum=NAD27 +units=m +no_defs"
>
> # don't test using the randomFields package, it's currently broken on some R builds
> options(useRandomFields = FALSE)
>
> myraster = rast(nrows=20,ncols=20,extent = ext(100,110,100,110),
+ crs=theCrs)
>
> set.seed(0)
> simu = RFsimulate(model = rbind(a=model, b=model+0.1),
+ x=myraster, n=4
+ )
OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
Running the tests in ‘tests/lgmRaster.R’ failed.
Complete output:
> #+ setup
> library('geostatsp')
Loading required package: Matrix
Loading required package: terra
terra 1.8.86
> #'
>
> #' # simulated data
>
> # exclude this line to use the RandomFields package
> options(useRandomFields = FALSE)
>
> Ncell = 40
>
> myRaster = squareRaster(ext(0,6000,0,6000), Ncell)
>
> myParam=c(oneminusar=0.1, conditionalVariance=2.5^2,shape=2)
> myQ = maternGmrfPrec(myRaster, param=myParam)
> attributes(myQ)$info$optimalShape
shape variance range cellSize
4.092496 110.524266 900.000000 150.000000
> set.seed(0)
> mySim = RFsimulate(attributes(myQ)$info$optimalShape, myRaster)
install the RandomFields package for faster simulations
OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.0.8
Check: examples
Result: ERROR
Running examples in ‘geostatsp-Ex.R’ failed
The error most likely occurred in:
> ### Name: RFsimulate
> ### Title: Simulation of Random Fields
> ### Aliases: RFsimulate modelRandomFields RFsimulate RFsimulate-methods
> ### RFsimulate,ANY,SpatRaster-method RFsimulate,numeric,SpatRaster-method
> ### RFsimulate,numeric,SpatVector-method
> ### RFsimulate,RMmodel,SpatVector-method
> ### RFsimulate,RMmodel,SpatRaster-method
> ### RFsimulate,matrix,SpatRaster-method
> ### RFsimulate,matrix,SpatVector-method RFsimulate,data.frame,ANY-method
> ### Keywords: spatial
>
> ### ** Examples
>
> library('geostatsp')
>
> # exclude this line to use the RandomFields package
> options(useRandomFields = FALSE)
>
> model1 <- c(var=5, range=1,shape=0.5)
>
>
> myraster = rast(nrows=20,ncols=30,extent = ext(0,6,0,4),
+ crs="+proj=utm +zone=17 +datum=NAD27 +units=m +no_defs")
>
> set.seed(0)
>
> simu <- RFsimulate(model1, x=myraster, n=3)
install the RandomFields package for faster simulations
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 2.0.8
Check: tests
Result: ERROR
Running ‘RFsimulate.R’ [89m/58m]
Running ‘krige.R’ [21s/25s]
Running ‘lgcp.R’ [70s/74s]
Running ‘lgm.R’ [69s/82s]
Running ‘lgmRaster.R’ [0m/29m]
Running ‘likfitLgm.R’
Running the tests in ‘tests/RFsimulate.R’ failed.
Complete output:
> library("geostatsp")
Loading required package: Matrix
Loading required package: terra
terra 1.8.80
>
> model <- c(var=5, range=20,shape=0.5)
>
> # any old crs
> theCrs = "+proj=utm +zone=17 +datum=NAD27 +units=m +no_defs"
>
> # don't test using the randomFields package, it's currently broken on some R builds
> options(useRandomFields = FALSE)
>
> myraster = rast(nrows=20,ncols=20,extent = ext(100,110,100,110),
+ crs=theCrs)
>
> set.seed(0)
> simu = RFsimulate(model = rbind(a=model, b=model+0.1),
+ x=myraster, n=4
+ )
Running the tests in ‘tests/lgmRaster.R’ failed.
Complete output:
> #+ setup
> library('geostatsp')
Loading required package: Matrix
Loading required package: terra
terra 1.8.80
> #'
>
> #' # simulated data
>
> # exclude this line to use the RandomFields package
> options(useRandomFields = FALSE)
>
> Ncell = 40
>
> myRaster = squareRaster(ext(0,6000,0,6000), Ncell)
>
> myParam=c(oneminusar=0.1, conditionalVariance=2.5^2,shape=2)
> myQ = maternGmrfPrec(myRaster, param=myParam)
> attributes(myQ)$info$optimalShape
shape variance range cellSize
4.092496 110.524266 900.000000 150.000000
> set.seed(0)
> mySim = RFsimulate(attributes(myQ)$info$optimalShape, myRaster)
install the RandomFields package for faster simulations
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 2.0.8
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘RandomFields’
Package which this enhances but not available for checking: ‘INLA’
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 2.0.8
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: 'RandomFields'
Flavor: r-oldrel-windows-x86_64
Version: 2.0.8
Check: examples
Result: ERROR
Running examples in 'geostatsp-Ex.R' failed
The error most likely occurred in:
> ### Name: simLgcp
> ### Title: Simulate a log-Gaussian Cox process
> ### Aliases: simLgcp simPoissonPP
>
> ### ** Examples
>
> mymodel = c(mean=-0.5, variance=1,
+ range=2, shape=2)
>
> myraster = rast(nrows=15,ncols=20,xmin=0,xmax=10,ymin=0,ymax=7.5)
>
> # some covariates, deliberately with a different resolution than myraster
> covA = covB = myoffset = rast(ext(myraster), 10, 10)
> values(covA) = as.vector(matrix(1:10, 10, 10))
> values(covB) = as.vector(matrix(1:10, 10, 10, byrow=TRUE))
> values(myoffset) = round(seq(-1, 1, len=ncell(myoffset)))
>
> myCovariate = list(a=covA, b=covB, offsetFooBar = myoffset)
>
> myLgcp=simLgcp(param=mymodel,
+ covariates=myCovariate,
+ betas=c(a=-0.1, b=0.25),
+ offset='offsetFooBar',
+ rasterTemplate=myraster)
Warning: PROJ: proj_create: no database context specified (GDAL error 1)
Warning: PROJ: proj_create: no database context specified (GDAL error 1)
Warning: PROJ: proj_create: no database context specified (GDAL error 1)
Flavor: r-oldrel-windows-x86_64
Version: 2.0.8
Check: tests
Result: ERROR
Running 'RFsimulate.R' [18s]
Running 'krige.R' [15s]
Running 'lgcp.R' [14s]
Running 'lgm.R' [42s]
Running 'lgmRaster.R' [103s]
Running 'likfitLgm.R' [13s]
Running 'matern.R' [11s]
Running 'maternGmrfPrec.R' [14s]
Running 'profLlgm.R' [18s]
Running 'simLgcp.R' [10s]
Running 'stackRasterList.R' [10s]
Running the tests in 'tests/matern.R' failed.
Complete output:
> library("geostatsp")
Loading required package: Matrix
Loading required package: terra
terra 1.8.86
>
> param = c(range=1, shape=1.5, anisoRatio=2, anisoAngleDegrees=-25)
>
> matern(c(0, 0.001, 100000), param=param)
[1] 1.000000 0.999994 0.000000
attr(,"param")
range shape variance nugget
1.0000000 1.5000000 1.0000000 0.0000000
anisoRatio anisoAngleRadians anisoAngleDegrees
2.0000000 -0.4363323 -25.0000000
>
> #x=c(0, 0.001, 100000);param=c(param, variance=1)
>
> #resultFull = .C("matern", as.double(x), as.integer(length(x)),
> # as.double(param["range"]), as.double(param["shape"]),
> # as.double(param["variance"]))
>
>
> # example with raster
> myraster = rast(nrows=40,ncols=60,xmin=-3,xmax=3,ymin=-2,ymax=2)
>
> # plot correlation of each cell with the origin
> myMatern = matern(myraster, y=c(0,0), param=param)
> myMatern[1:3,1:3]
lyr.1
1 0.002385719
2 0.003084067
3 0.003973211
4 0.002349589
5 0.003047536
6 0.003940191
7 0.002302637
8 0.002996124
9 0.003886871
>
>
>
> bob = function(x) {
+ thepar = attributes(x)$param
+ pdf(tempfile("matern", tmpdir=".", fileext=".pdf"))
+ plot(x, main=
+ paste(
+ paste(names(thepar), thepar, sep="="),
+ collapse=", "),cex.main=0.5
+ )
+ dev.off()
+ }
>
> bob(myMatern)
null device
1
>
>
> bob(matern(myraster, y=c(1,-0.5),
+ param = c(range=1, shape=1.5, anisoRatio=2, anisoAngleDegrees=25)
+ )
+ )
null device
1
>
> bob(matern(myraster,y= c(0,0),
+ param = c(range=1, shape=25.1, anisoRatio=2, anisoAngleDegrees=-25)
+ )
+ )
null device
1
>
> bob(matern(myraster,y= c(0,0),
+ param = c(range=0, shape=1.5, anisoRatio=2, anisoAngleDegrees=-25)
+ )
+ )
null device
1
>
> bob(matern(myraster, y=c(0,0),
+ param = c(range=100000, shape=1.5, anisoRatio=2, anisoAngleDegrees=-25)
+ )
+ )
null device
1
>
>
>
>
>
> # correlation matrix for all cells with each other
> myraster = rast(nrows=4,ncols=6,xmin=-3,xmax=3,ymin=-2,ymax=2)
> myMatern = matern(myraster, param=c(range=0, shape=2))
>
> dim(myMatern)
[1] 24 24
> myMatern[1:3,1:3]
3 x 3 Matrix of class "dsyMatrix"
[,1] [,2] [,3]
[1,] 1 0 0
[2,] 0 1 0
[3,] 0 0 1
>
> param = c(range=0.2, shape=1.5)
> set.seed(0)
>
> mypoints = vect(cbind(runif(10), runif(10)),
+ crs = "epsg:2000",
+ atts=data.frame(id=1:10))
Warning messages:
1: PROJ: proj_create_from_database: Cannot find proj.db (GDAL error 1)
2: [crs<-] Cannot set SRS to vector: empty srs
>
> myDist = forceSymmetric(as.matrix(distance(mypoints)))
Error in h(simpleError(msg, call)) :
error in evaluating the argument 'x' in selecting a method for function 'forceSymmetric': error in evaluating the argument 'x' in selecting a method for function 'as.matrix': [distance] crs not defined
Calls: forceSymmetric ... distance -> distance -> .local -> messages -> error
Execution halted
Running the tests in 'tests/simLgcp.R' failed.
Complete output:
>
> if(requireNamespace("INLA", quietly=TRUE) ) {
+ INLA::inla.setOption(num.threads=2)
+ # not all versions of INLA support blas.num.threads
+ try(INLA::inla.setOption(blas.num.threads=2), silent=TRUE)
+ }
>
> library('geostatsp')
Loading required package: Matrix
Loading required package: terra
terra 1.8.86
>
> # exclude this line to use the RandomFields package
> options(useRandomFields = FALSE)
>
> mymodel = c(mean=-1.5, variance=1,
+ range=2, shape=2)
>
> myraster = rast(nrows=15,ncols=15,xmin=0,xmax=10,ymin=0,ymax=10)
>
> # some covariates, deliberately with a different resolution than myraster
> covA = covB = myoffset = rast(ext(myraster), 10, 10)
> values(covA) = as.vector(matrix(1:10, 10, 10))
> values(covB) = as.vector(matrix(1:10, 10, 10, byrow=TRUE))
> values(myoffset) = round(seq(-1, 1, len=ncell(myoffset)))
>
> myCovariate = list(a=covA, b=covB, offsetFooBar = myoffset)
>
> set.seed(0)
> myLgcp=simLgcp(mymodel, myCovariate,
+ betas=c(a=-0.1, b=0.25),
+ offset='offsetFooBar',
+ rasterTemplate=myraster)
Flavor: r-oldrel-windows-x86_64
Current CRAN status: ERROR: 1, OK: 12
Version: 2.1.0
Check: whether package can be installed
Result: ERROR
Installation failed.
Flavor: r-oldrel-windows-x86_64