* using log directory 'd:/Rcompile/CRANpkg/local/4.4/phyloregion.Rcheck'
* using R version 4.4.3 (2025-02-28 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'phyloregion/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'phyloregion' version '1.0.9'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'phyloregion' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [11s] OK
* checking whether the package can be loaded with stated dependencies ... [12s] OK
* checking whether the package can be unloaded cleanly ... [12s] OK
* checking whether the namespace can be loaded with stated dependencies ... [12s] OK
* checking whether the namespace can be unloaded cleanly ... [12s] OK
* checking loading without being on the library search path ... [12s] OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [37s] OK
* checking Rd files ... [1s] OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... [2s] OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [39s] 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
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [15s] OK
  Running 'tinytest.R' [14s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [20s] 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

* checking PDF version of manual ... [21s] OK
* checking HTML version of manual ... [10s] OK
* DONE
Status: 2 ERRORs