Last updated on 2025-12-07 07:50:24 CET.
| Package | ERROR | WARN | OK |
|---|---|---|---|
| phyloregion | 1 | 1 | 11 |
Current CRAN status: ERROR: 1, WARN: 1, OK: 11
Version: 1.0.9
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'knitr', 'rmarkdown', 'rJava'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0.9
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0.9
Check: examples
Result: ERROR
Running examples in 'phyloregion-Ex.R' failed
The error most likely occurred in:
> ### Name: rast2comm
> ### Title: Convert raw input distribution data to community
> ### Aliases: rast2comm polys2comm points2comm
>
> ### ** Examples
>
>
>
> library(terra)
terra 1.8.86
> s <- vect(system.file("ex/nigeria.json", package="phyloregion"))
> set.seed(1)
> m <- as.data.frame(spatSample(s, 1000, method = "random"),
+ geom = "XY")[-1]
> names(m) <- c("lon", "lat")
> species <- paste0("sp", sample(1:100))
> m$taxon <- sample(species, size = nrow(m), replace = TRUE)
>
> pt <- points2comm(dat = m, res = 0.5) # This generates a list of two objects
Warning: PROJ: proj_create_from_database: Cannot find proj.db (GDAL error 1)
Warning: [crs<-] Cannot set raster SRS: empty srs
Error: [project] output crs is not valid
Execution halted
Flavor: r-oldrel-windows-x86_64
Version: 1.0.9
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'Benchmark.Rmd' using rmarkdown
--- finished re-building 'Benchmark.Rmd'
--- re-building 'ed.Rmd' using rmarkdown
--- finished re-building 'ed.Rmd'
--- re-building 'phyloregion-intro.Rmd' using rmarkdown
Quitting from phyloregion-intro.Rmd:74-87 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! [project] output crs is not valid
---
Backtrace:
▆
1. └─phyloregion::points2comm(...)
2. ├─base::suppressWarnings(invisible(project(m, "epsg:4326")))
3. │ └─base::withCallingHandlers(...)
4. ├─terra::project(m, "epsg:4326")
5. └─terra::project(m, "epsg:4326")
6. └─terra (local) .local(x, ...)
7. └─terra:::messages(x, "project")
8. └─terra:::error(f, x@pntr$getError())
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'phyloregion-intro.Rmd' failed with diagnostics:
[project] output crs is not valid
--- failed re-building 'phyloregion-intro.Rmd'
SUMMARY: processing the following file failed:
'phyloregion-intro.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-windows-x86_64