Last updated on 2025-12-07 07:50:46 CET.
| Package | ERROR | OK |
|---|---|---|
| deeptime | 1 | 12 |
| deeptimedata | 13 | |
| rphylopic | 1 | 12 |
| rredlist | 1 | 12 |
Current CRAN status: ERROR: 1, OK: 12
Version: 2.3.1
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'ggtree', 'knitr', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.3.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [41s/51s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(deeptime)
>
> test_check("deeptime")
viewport[GRID.VP.403]
viewport[GRID.VP.554]
Saving _problems/test-guides-194.R
Saving _problems/test-guides-210.R
NULL
NULL
NULL
[ FAIL 2 | WARN 0 | SKIP 37 | PASS 131 ]
══ Skipped tests (37) ══════════════════════════════════════════════════════════
• On CRAN (27): 'test-coord_geo.R:55:1', 'test-coord_geo.R:80:3',
'test-coord_geo.R:102:1', 'test-coord_geo.R:117:1', 'test-coord_geo.R:132:1',
'test-coord_geo.R:153:1', 'test-coord_trans_flip.R:1:1',
'test-coord_trans_xy.R:1:1', 'test-disparity_through_time.R:1:1',
'test-facet_color.R:1:1', 'test-facet_color.R:78:1',
'test-facet_color.R:121:1', 'test-facet_color.R:167:1',
'test-get_scale_data.R:14:3', 'test-guides.R:1:1', 'test-guides.R:73:1',
'test-guides.R:88:1', 'test-guides.R:103:1', 'test-guides.R:125:1',
'test-patterns.R:42:1', 'test-patterns.R:55:1', 'test-patterns.R:76:1',
'test-phylomorpho.R:1:1', 'test-points_range.R:1:1', 'test-scales.R:1:1',
'test-scales.R:14:1', 'test-scales.R:27:1'
• R.Version()$os != "mingw32" is TRUE (2): 'test-patterns.R:9:3',
'test-patterns.R:99:3'
• {ggtree} is not installed (8): 'test-coord_geo.R:171:3',
'test-coord_geo.R:183:3', 'test-coord_geo_polar.R:1:1',
'test-coord_geo_radial.R:1:1', 'test-geom_text_phylo.R:3:3',
'test-ggarrange2.R:25:3', 'test-guides.R:149:3', 'test-guides.R:163:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-guides.R:184:3'): guide_geo works with coord_geo_radial ────────
Error in `revts(ggtree(tree))`: could not find function "revts"
── Error ('test-guides.R:200:3'): ggtree scale works with only fossil taxa ─────
Error in `ggtree(ceratopsianTreeRaia, position = position_nudge(x = -ceratopsianTreeRaia$root.time))`: could not find function "ggtree"
[ FAIL 2 | WARN 0 | SKIP 37 | PASS 131 ]
Deleting unused snapshots: 'coord_geo/scale-on-fossil-ggtree-new.svg',
'coord_geo/scale-on-ggtree-new.svg',
'coord_geo/scales-on-different-sides1-new.svg',
'coord_geo/scales-on-different-sides2-new.svg',
'coord_geo_polar/coord-geo-polar-grey-new.svg',
'coord_geo_polar/coord-geo-polar-new.svg',
'coord_geo_polar/coord-geo-polar-pos-new.svg',
'coord_geo_polar/scale-on-fossil-ggtree-new.svg',
'coord_geo_polar/scale-on-fossil-ggtree-with-labels-new.svg',
'coord_geo_polar/stacked-scales-new.svg',
'coord_geo_radial/coord-geo-radial-new.svg',
'coord_geo_radial/scale-on-fossil-ggtree-new.svg',
'coord_geo_radial/scale-on-fossil-ggtree-with-labels-new.svg',
'coord_geo_radial/stacked-scales-new.svg',
'geom_text_phylo/geom-text-phylo-new.svg',
'ggarrange2/double-ggarrange2-layout-new.svg',
'ggarrange2/double-ggarrange2-new.svg',
'ggarrange2/ggarrange2-no-dims-layout-new.svg', …,
'patterns/scale-fill-geopattern-na2-new.svg', and
'patterns/scale-fill-geopattern-new.svg'
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.3.1
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
Current CRAN status: OK: 13
Current CRAN status: ERROR: 1, OK: 12
Version: 1.6.0
Check: package dependencies
Result: ERROR
Package required but not available: ‘knitr’
Packages suggested but not available for checking:
'rmarkdown', 'covr', 'ggtree'
VignetteBuilder package required for checking but not installed: ‘knitr’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-devel-linux-x86_64-debian-gcc
Current CRAN status: ERROR: 1, OK: 12
Version: 1.1.1
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'spelling', 'vcr', 'knitr', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.1.1
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/0s]
Running ‘test-all.R’ [1s/1s]
Running the tests in ‘tests/test-all.R’ failed.
Complete output:
> library(testthat)
> test_check("rredlist")
Loading required package: rredlist
Error in `source_dir()`:
! Failed to evaluate './helper-rredlist.R'.
Caused by error in `library()`:
! there is no package called 'vcr'
Backtrace:
▆
1. ├─testthat::test_check("rredlist")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_helpers(".", env)
7. │ └─testthat::source_dir(path, "^helper.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::library("vcr") at ./helper-rredlist.R:2:1
15. │ └─base::stop(packageNotFoundError(package, lib.loc, sys.call()))
16. └─testthat (local) `<fn>`(`<pckgNtFE>`)
17. └─cli::cli_abort(...)
18. └─rlang::abort(...)
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.1.1
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