Last updated on 2023-03-31 08:54:00 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.5.0-9.1 | 52.36 | 360.17 | 412.53 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 1.5.0-9.1 | 39.10 | 275.20 | 314.30 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.5.0-9.1 | 507.82 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 1.5.0-9.1 | 492.35 | NOTE | |||
| r-devel-windows-x86_64 | 1.5.0-9.1 | 67.00 | 0.00 | 67.00 | ERROR | |
| r-patched-linux-x86_64 | 1.5.0-9.1 | 41.02 | 341.95 | 382.97 | NOTE | |
| r-release-linux-x86_64 | 1.5.0-9.1 | 44.31 | 340.48 | 384.79 | OK | |
| r-release-macos-arm64 | 1.5.0-9.1 | 104.00 | OK | |||
| r-release-macos-x86_64 | 1.5.0-9.1 | 152.00 | OK | |||
| r-release-windows-x86_64 | 1.5.0-9.1 | 68.00 | 363.00 | 431.00 | NOTE | |
| r-oldrel-macos-arm64 | 1.5.0-9.1 | 112.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.5.0-9.1 | 144.00 | OK | |||
| r-oldrel-windows-ix86+x86_64 | 1.5.0-9.1 | 126.00 | 441.00 | 567.00 | NOTE |
Version: 1.5.0-9.1
Check: C++ specification
Result: NOTE
Specified C++11: please drop specification unless essential
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64
Version: 1.5.0-9.1
Check: installed package size
Result: NOTE
installed size is 5.1Mb
sub-directories of 1Mb or more:
extdata 3.0Mb
Flavors: r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.5.0-9.1
Check: examples
Result: ERROR
Running examples in 'gdm-Ex.R' failed
The error most likely occurred in:
> ### Name: formatsitepair
> ### Title: Combines Biological and Environmental Data to Produce a
> ### GDM-formatted Site-Pair Table
> ### Aliases: formatsitepair
> ### Keywords: gdm
>
> ### ** Examples
>
> ## tabular data
> # start with the southwest data table
> head(southwest)
species site awcA phTotal sandA shcA solumDepth bio5 bio6
1 spp1 1066 14.4725 546.1800 71.3250 178.8650 875.1725 31.43824 5.058823
2 spp1 1026 16.2575 470.9950 68.8975 105.8400 928.4925 33.14412 4.852941
3 spp1 1025 23.1375 459.7425 71.4700 88.3550 892.2275 32.84000 4.817143
4 spp1 1026 16.2575 470.9950 68.8975 105.8400 928.4925 33.14412 4.852941
5 spp1 1027 17.0175 489.3950 74.6775 147.2125 951.9050 33.17813 4.590625
6 spp1 1047 17.3625 515.0825 75.7525 164.1875 981.4750 32.61579 4.676316
bio15 bio18 bio19 Lat Long
1 40.38235 0 132.6471 -32.99425 118.7573
2 48.20588 0 140.2941 -32.04285 118.3495
3 53.88571 43 145.0571 -31.99067 117.8260
4 48.20588 0 140.2941 -32.04285 118.3495
5 44.00000 0 135.6875 -32.09326 118.8736
6 42.00000 0 134.0263 -32.54354 118.8157
> sppData <- southwest[c(1,2,13,14)]
> envTab <- southwest[c(2:ncol(southwest))]
>
> #########table type 1
> ## site-species table without coordinates
> testData1a <- reshape2::dcast(sppData, site~species)
Using Long as value column: use value.var to override.
Aggregation function missing: defaulting to length
> ##site-species table with coordinates
> coords <- unique(sppData[, 2:ncol(sppData)])
> testData1b <- merge(testData1a, coords, by="site")
> ## site-species, table-table
> exFormat1a <- formatsitepair(testData1a, 1, siteColumn="site", XColumn="Long",
+ YColumn="Lat", predData=envTab)
>
> #' # next, let's try environmental raster data
> ## not run
> # rastFile <- system.file("./extdata/swBioclims.grd", package="gdm")
> # envRast <- stack(rastFile)
>
> ## site-species, table-raster
> ## not run
> # exFormat1b <- formatsitepair(testData1b, 1, siteColumn="site", XColumn="Long",
> # YColumn="Lat", predData=envRast)
>
> #########table type 2
> ## site xy spp list, table-table
> exFormat2a <- formatsitepair(sppData, 2, XColumn="Long", YColumn="Lat",
+ sppColumn="species", siteColumn="site", predData=envTab)
Warning in formatsitepair(sppData, 2, XColumn = "Long", YColumn = "Lat", :
No abundance column was specified, so the species data are
assumed to be presences.
Aggregation function missing: defaulting to length
Error: cannot allocate vector of size 7 Kb
Execution halted
Flavor: r-devel-windows-x86_64
Version: 1.5.0-9.1
Check: PDF version of manual
Result: WARN
LaTeX errors when creating PDF version.
This typically indicates Rd problems.
Flavor: r-devel-windows-x86_64
Version: 1.5.0-9.1
Check: PDF version of manual without index
Result: ERROR
Re-running with no redirection of stdout/stderr.
Flavor: r-devel-windows-x86_64