Last updated on 2025-12-03 01:50:14 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.3 | 28.74 | 803.95 | 832.69 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.3 | 19.91 | 534.94 | 554.85 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.3 | 163.00 | 838.51 | 1001.51 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.3 | 141.00 | 1156.50 | 1297.50 | OK | |
| r-devel-windows-x86_64 | 1.0.3 | 33.00 | 660.00 | 693.00 | OK | |
| r-patched-linux-x86_64 | 1.0.3 | 30.54 | 749.09 | 779.63 | OK | |
| r-release-linux-x86_64 | 1.0.3 | 27.61 | 748.86 | 776.47 | OK | |
| r-release-macos-arm64 | 1.0.3 | OK | ||||
| r-release-macos-x86_64 | 1.0.3 | 29.00 | 425.00 | 454.00 | OK | |
| r-release-windows-x86_64 | 1.0.3 | 31.00 | 707.00 | 738.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.3 | OK | ||||
| r-oldrel-macos-x86_64 | 1.0.3 | 22.00 | 440.00 | 462.00 | OK | |
| r-oldrel-windows-x86_64 | 1.0.3 | 43.00 | 928.00 | 971.00 | ERROR |
Version: 1.0.3
Check: examples
Result: ERROR
Running examples in 'tidysdm-Ex.R' failed
The error most likely occurred in:
> ### Name: make_mask_from_presence
> ### Title: Make a mask from presence data
> ### Aliases: make_mask_from_presence
>
> ### ** Examples
>
> lacerta_sf <- lacerta %>%
+ sf::st_as_sf(coords = c("longitude", "latitude")) %>%
+ sf::st_set_crs(4326)
> land_mask <- terra::readRDS(system.file("extdata/lacerta_land_mask.rds",
+ package = "tidysdm"
+ ))
Warning: PROJ: proj_create_from_database: Cannot find proj.db (GDAL error 1)
Error: [rast] empty srs
Execution halted
Flavor: r-oldrel-windows-x86_64
Version: 1.0.3
Check: tests
Result: ERROR
Running 'spelling.R' [0s]
Running 'testthat.R' [91s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(tidysdm)
Loading required package: tidymodels
── Attaching packages ────────────────────────────────────── tidymodels 1.4.1 ──
✔ broom 1.0.10 ✔ recipes 1.3.1
✔ dials 1.4.2 ✔ rsample 1.3.1
✔ dplyr 1.1.4 ✔ tailor 0.1.0
✔ ggplot2 4.0.1 ✔ tidyr 1.3.1
✔ infer 1.0.9 ✔ tune 2.0.1
✔ modeldata 1.5.1 ✔ workflows 1.3.0
✔ parsnip 1.4.0 ✔ workflowsets 1.1.1
✔ purrr 1.2.0 ✔ yardstick 1.3.2
── Conflicts ───────────────────────────────────────── tidymodels_conflicts() ──
✖ purrr::discard() masks scales::discard()
✖ dplyr::filter() masks stats::filter()
✖ dplyr::lag() masks stats::lag()
✖ recipes::step() masks stats::step()
Loading required package: spatialsample
>
> test_check("tidysdm")
Saving _problems/test_blockcv2rsample-49.R
Attaching package: 'plotrix'
The following object is masked from 'package:scales':
rescale
Saving _problems/test_clamp_predictors-9.R
Saving _problems/test_clamp_predictors-73.R
i Creating pre-processing data to finalize 1 unknown parameter: "mtry"
Saving _problems/test_extrapol_mess-9.R
Saving _problems/test_extrapol_mess-76.R
Saving _problems/test_overlap_niche-7.R
Saving _problems/test_predict_raster-6.R
i Creating pre-processing data to finalize 1 unknown parameter: "mtry"
Saving _problems/test_thin_by_cell-8.R
Saving _problems/test_thin_by_cell_time-8.R
[ FAIL 9 | WARN 12 | SKIP 1 | PASS 270 ]
══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• On CRAN (1): 'test_filter_collinear.R:2:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_blockcv2rsample.R:42:3'): blockcv2rsample conversion ───────────
Error in `stats::kmeans(x_vals, centers = k, iter.max = 500, nstart = 25, ...)`: more cluster centers than distinct data points.
Backtrace:
▆
1. └─blockCV::cv_cluster(...) at test_blockcv2rsample.R:42:3
2. └─stats::kmeans(...)
── Error ('test_clamp_predictors.R:5:3'): clamping_predictor works on SpatRasters ──
Error: [rast] empty srs
Backtrace:
▆
1. ├─terra::readRDS(...) at test_clamp_predictors.R:5:3
2. └─terra::readRDS(...)
3. ├─terra::unwrap(x)
4. └─terra::unwrap(x)
5. └─terra (local) .local(x, ...)
6. ├─base::eval(parse(text = x@definition))
7. │ └─base::eval(parse(text = x@definition))
8. ├─terra::rast(...)
9. └─terra::rast(...)
10. └─terra (local) .local(x = x, ...)
11. └─terra:::new_rast(...)
12. └─terra:::messages(r, "rast")
13. └─terra:::error(f, x@pntr$getError())
── Error ('test_clamp_predictors.R:69:3'): clamping_predictor works on stars ───
Error: [rast] empty srs
Backtrace:
▆
1. ├─terra::readRDS(...) at test_clamp_predictors.R:69:3
2. └─terra::readRDS(...)
3. ├─terra::unwrap(x)
4. └─terra::unwrap(x)
5. └─terra (local) .local(x, ...)
6. ├─base::eval(parse(text = x@definition))
7. │ └─base::eval(parse(text = x@definition))
8. ├─terra::rast(...)
9. └─terra::rast(...)
10. └─terra (local) .local(x = x, ...)
11. └─terra:::new_rast(...)
12. └─terra:::messages(r, "rast")
13. └─terra:::error(f, x@pntr$getError())
── Error ('test_extrapol_mess.R:5:3'): mess_predictor works on SpatRasters and df ──
Error: [rast] empty srs
Backtrace:
▆
1. ├─terra::readRDS(...) at test_extrapol_mess.R:5:3
2. └─terra::readRDS(...)
3. ├─terra::unwrap(x)
4. └─terra::unwrap(x)
5. └─terra (local) .local(x, ...)
6. ├─base::eval(parse(text = x@definition))
7. │ └─base::eval(parse(text = x@definition))
8. ├─terra::rast(...)
9. └─terra::rast(...)
10. └─terra (local) .local(x = x, ...)
11. └─terra:::new_rast(...)
12. └─terra:::messages(r, "rast")
13. └─terra:::error(f, x@pntr$getError())
── Error ('test_extrapol_mess.R:71:3'): mess_predictor works on stars ──────────
Error: [rast] empty srs
Backtrace:
▆
1. ├─... %>% stars::st_as_stars(as_attributes = TRUE) at test_extrapol_mess.R:71:3
2. ├─stars::st_as_stars(., as_attributes = TRUE)
3. ├─terra::readRDS(...)
4. └─terra::readRDS(...)
5. ├─terra::unwrap(x)
6. └─terra::unwrap(x)
7. └─terra (local) .local(x, ...)
8. ├─base::eval(parse(text = x@definition))
9. │ └─base::eval(parse(text = x@definition))
10. ├─terra::rast(...)
11. └─terra::rast(...)
12. └─terra (local) .local(x = x, ...)
13. └─terra:::new_rast(...)
14. └─terra:::messages(r, "rast")
15. └─terra:::error(f, x@pntr$getError())
── Error ('test_overlap_niche.R:3:3'): niche_overlap quantifies difference between rasters ──
Error: [rast] empty srs
Backtrace:
▆
1. ├─terra::readRDS(...) at test_overlap_niche.R:3:3
2. └─terra::readRDS(...)
3. ├─terra::unwrap(x)
4. └─terra::unwrap(x)
5. └─terra (local) .local(x, ...)
6. ├─base::eval(parse(text = x@definition))
7. │ └─base::eval(parse(text = x@definition))
8. ├─terra::rast(...)
9. └─terra::rast(...)
10. └─terra (local) .local(x = x, ...)
11. └─terra:::new_rast(...)
12. └─terra:::messages(r, "rast")
13. └─terra:::error(f, x@pntr$getError())
── Error ('test_predict_raster.R:2:1'): (code run outside of `test_that()`) ────
Error: [rast] empty srs
Backtrace:
▆
1. ├─terra::readRDS(...) at test_predict_raster.R:2:1
2. └─terra::readRDS(...)
3. ├─terra::unwrap(x)
4. └─terra::unwrap(x)
5. └─terra (local) .local(x, ...)
6. ├─base::eval(parse(text = x@definition))
7. │ └─base::eval(parse(text = x@definition))
8. ├─terra::rast(...)
9. └─terra::rast(...)
10. └─terra (local) .local(x = x, ...)
11. └─terra:::new_rast(...)
12. └─terra:::messages(r, "rast")
13. └─terra:::error(f, x@pntr$getError())
── Error ('test_thin_by_cell.R:6:3'): thin_by_cell respects projections ────────
Error: [rast] empty srs
Backtrace:
▆
1. ├─terra::readRDS(system.file("extdata/lacerta_land_mask.rds", package = "tidysdm")) at test_thin_by_cell.R:6:3
2. └─terra::readRDS(system.file("extdata/lacerta_land_mask.rds", package = "tidysdm"))
3. ├─terra::unwrap(x)
4. └─terra::unwrap(x)
5. └─terra (local) .local(x, ...)
6. ├─base::eval(parse(text = x@definition))
7. │ └─base::eval(parse(text = x@definition))
8. ├─terra::rast(...)
9. └─terra::rast(...)
10. └─terra (local) .local(x = x, ...)
11. └─terra:::new_rast(...)
12. └─terra:::messages(r, "rast")
13. └─terra:::error(f, x@pntr$getError())
── Error ('test_thin_by_cell_time.R:5:1'): (code run outside of `test_that()`) ──
Error: [rast] empty srs
Backtrace:
▆
1. ├─terra::rast(...) at test_thin_by_cell_time.R:5:1
2. └─terra::rast(...)
3. └─terra (local) .local(x, ...)
4. ├─terra::rast(nrows = nrow(x), ncols = ncol(x), crs = crs, extent = extent)
5. └─terra::rast(nrows = nrow(x), ncols = ncol(x), crs = crs, extent = extent)
6. └─terra (local) .local(x = x, ...)
7. └─terra:::new_rast(...)
8. └─terra:::messages(r, "rast")
9. └─terra:::error(f, x@pntr$getError())
[ FAIL 9 | WARN 12 | SKIP 1 | PASS 270 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-windows-x86_64
Version: 1.0.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'a0_tidysdm_overview.Rmd' using rmarkdown
Quitting from a0_tidysdm_overview.Rmd:156-171 [land_mask_load]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! [rast] empty srs
---
Backtrace:
▆
1. ├─terra::readRDS(system.file("extdata/lacerta_land_mask.rds", package = "tidysdm"))
2. └─terra::readRDS(system.file("extdata/lacerta_land_mask.rds", package = "tidysdm"))
3. ├─terra::unwrap(x)
4. └─terra::unwrap(x)
5. └─terra (local) .local(x, ...)
6. ├─base::eval(parse(text = x@definition))
7. │ └─base::eval(parse(text = x@definition))
8. ├─terra::rast(...)
9. └─terra::rast(...)
10. └─terra (local) .local(x = x, ...)
11. └─terra:::new_rast(...)
12. └─terra:::messages(r, "rast")
13. └─terra:::error(f, x@pntr$getError())
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a0_tidysdm_overview.Rmd' failed with diagnostics:
[rast] empty srs
--- failed re-building 'a0_tidysdm_overview.Rmd'
--- re-building 'a1_palaeodata_application.Rmd' using rmarkdown
--- finished re-building 'a1_palaeodata_application.Rmd'
--- re-building 'a2_tidymodels_additions.Rmd' using rmarkdown
Quitting from a2_tidymodels_additions.Rmd:318-328 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! [rast] empty srs
---
Backtrace:
▆
1. ├─terra::readRDS(...)
2. └─terra::readRDS(...)
3. ├─terra::unwrap(x)
4. └─terra::unwrap(x)
5. └─terra (local) .local(x, ...)
6. ├─base::eval(parse(text = x@definition))
7. │ └─base::eval(parse(text = x@definition))
8. ├─terra::rast(...)
9. └─terra::rast(...)
10. └─terra (local) .local(x = x, ...)
11. └─terra:::new_rast(...)
12. └─terra:::messages(r, "rast")
13. └─terra:::error(f, x@pntr$getError())
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'a2_tidymodels_additions.Rmd' failed with diagnostics:
[rast] empty srs
--- failed re-building 'a2_tidymodels_additions.Rmd'
--- re-building 'a3_troubleshooting.Rmd' using rmarkdown
--- finished re-building 'a3_troubleshooting.Rmd'
SUMMARY: processing the following files failed:
'a0_tidysdm_overview.Rmd' 'a2_tidymodels_additions.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-windows-x86_64