Last updated on 2025-11-03 03:49:38 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.2.0 | 13.99 | 325.96 | 339.95 | OK | |
| r-devel-linux-x86_64-debian-gcc | 2.2.0 | 9.75 | 220.89 | 230.64 | OK | |
| r-devel-linux-x86_64-fedora-clang | 2.2.0 | 55.00 | 487.77 | 542.77 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 2.2.0 | 63.00 | 492.58 | 555.58 | OK | |
| r-devel-windows-x86_64 | 2.2.0 | 17.00 | 276.00 | 293.00 | OK | |
| r-patched-linux-x86_64 | 2.2.0 | 14.56 | 279.87 | 294.43 | ERROR | |
| r-release-linux-x86_64 | 2.2.0 | 14.56 | 255.58 | 270.14 | ERROR | |
| r-release-macos-arm64 | 2.2.0 | 7.00 | 116.00 | 123.00 | OK | |
| r-release-macos-x86_64 | 2.2.0 | 11.00 | 213.00 | 224.00 | OK | |
| r-release-windows-x86_64 | 2.2.0 | 17.00 | 275.00 | 292.00 | OK | |
| r-oldrel-macos-arm64 | 2.2.0 | 5.00 | 118.00 | 123.00 | OK | |
| r-oldrel-macos-x86_64 | 2.2.0 | 13.00 | 215.00 | 228.00 | OK | |
| r-oldrel-windows-x86_64 | 2.2.0 | 23.00 | 373.00 | 396.00 | OK |
Version: 2.2.0
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘coord.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘coord.Rmd’
--- re-building ‘coord_geo.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘coord_geo.Rmd’
--- re-building ‘geo.Rmd’ using rmarkdown
Quitting from geo.Rmd:39-45 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `curl::curl_fetch_memory()`:
! Timeout was reached [macrostrat.org]:
Connection timed out after 10002 milliseconds
---
Backtrace:
▆
1. ├─rmacrostrat::get_units(column_id = 489, interval_name = "Cretaceous")
2. │ └─rmacrostrat:::GET_macrostrat(...)
3. │ └─httr::GET(url = root(), path = path, query = full_query)
4. │ └─httr:::request_perform(req, hu$handle$handle)
5. │ ├─httr:::request_fetch(req$output, req$url, handle)
6. │ └─httr:::request_fetch.write_memory(req$output, req$url, handle)
7. │ └─curl::curl_fetch_memory(url, handle = handle)
8. └─curl:::raise_libcurl_error(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'geo.Rmd' failed with diagnostics:
Timeout was reached [macrostrat.org]:
Connection timed out after 10002 milliseconds
--- failed re-building ‘geo.Rmd’
--- re-building ‘ggarrange2.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘ggarrange2.Rmd’
--- re-building ‘phylogenies.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘phylogenies.Rmd’
--- re-building ‘time.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘time.Rmd’
--- re-building ‘traits.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘traits.Rmd’
SUMMARY: processing the following file failed:
‘geo.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 2.2.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [45s/62s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(deeptime)
>
> test_check("deeptime")
NULL
NULL
NULL
[ FAIL 2 | WARN 0 | SKIP 38 | PASS 60 ]
══ Skipped tests (38) ══════════════════════════════════════════════════════════
• On CRAN (29): 'test-coord_geo.R:66:3', 'test-coord_geo.R:70:3',
'test-coord_geo.R:100:3', 'test-coord_geo.R:119:3', 'test-coord_geo.R:140:3',
'test-coord_geo.R:152:3', 'test-coord_trans_flip.R:10:3',
'test-coord_trans_xy.R:22:3', 'test-disparity_through_time.R:14:3',
'test-facet_color.R:27:3', 'test-facet_color.R:99:3',
'test-facet_color.R:145:3', 'test-facet_color.R:191:3',
'test-get_scale_data.R:2:3', 'test-ggarrange2.R:14:3',
'test-gggeo_scale.R:23:3', 'test-guides.R:38:3', 'test-guides.R:85:3',
'test-guides.R:100:3', 'test-guides.R:122:3', 'test-guides.R:136:3',
'test-patterns.R:49:3', 'test-patterns.R:65:3', 'test-patterns.R:80:3',
'test-phylomorpho.R:22:3', 'test-points_range.R:14:3', 'test-scales.R:11:3',
'test-scales.R:24:3', 'test-scales.R:37:3'
• R.Version()$os != "mingw32" is TRUE (2): 'test-patterns.R:9:3',
'test-patterns.R:99:3'
• {ggtree} is not installed (7): 'test-coord_geo.R:161:3',
'test-coord_geo.R:173:3', 'test-coord_geo_polar.R:1:1',
'test-coord_geo_radial.R:1:1', 'test-geom_text_phylo.R:3:3',
'test-guides.R:149:3', 'test-guides.R:163:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-guides.R:184:3'): guide_geo works with coord_geo_radial ────────
Error in `revts(ggtree(tree))`: could not find function "revts"
── Error ('test-guides.R:200:3'): ggtree scale works with only fossil taxa ─────
Error in `ggtree(ceratopsianTreeRaia, position = position_nudge(x = -ceratopsianTreeRaia$root.time))`: could not find function "ggtree"
[ FAIL 2 | WARN 0 | SKIP 38 | PASS 60 ]
Deleting unused snapshots:
• coord_geo/scale-on-all-facets-new.svg
• 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
• coord_trans_flip/coord-trans-flip-with-diff-trans-new.svg
• coord_trans_xy/coord-trans-xy-with-expansion-new.svg
• coord_trans_xy/coord-trans-xy-with-no-trans-new.svg
• facet_color/facet-grid-color-blue-labels-new.svg
• facet_color/facet-grid-color-lab-colors-new.svg
• facet_color/facet-grid-color-triassic-blue-new.svg
• facet_color/facet-grid-color-with-function-new.svg
• facet_color/facet-grid-color-with-named-vector-new.svg
• facet_color/facet-wrap-color-blue-labels-new.svg
• geom_text_phylo/geom-text-phylo-new.svg
• ggarrange2/double-ggarrange2-layout-new.svg
• ggarrange2/double-ggarrange2-new.svg
• ggarrange2/ggarrange2-layout-new.svg
• ggarrange2/ggarrange2-no-dims-layout-new.svg
• ggarrange2/ggarrange2-no-dims-new.svg
• ggarrange2/ggarrange2-no-heights-layout-new.svg
• ggarrange2/ggarrange2-no-heights-new.svg
• ggarrange2/ggarrange2-with-layout-layout-new.svg
• ggarrange2/ggarrange2-with-layout-new.svg
• gggeo_scale/gggeo-scale-left-and-right-new.svg
• gggeo_scale/gggeo-scale-top-new.svg
• ggplot4/coord_geo/scale-on-all-facets-new.svg
• ggplot4/coord_geo/scale-on-fossil-ggtree-new.svg
• ggplot4/coord_geo/scale-on-ggtree-new.svg
• ggplot4/coord_geo/scales-on-different-sides1-new.svg
• ggplot4/coord_geo/scales-on-different-sides2-new.svg
• ggplot4/coord_geo_polar/coord-geo-polar-grey-new.svg
• ggplot4/coord_geo_polar/coord-geo-polar-new.svg
• ggplot4/coord_geo_polar/coord-geo-polar-pos-new.svg
• ggplot4/coord_geo_polar/scale-on-fossil-ggtree-new.svg
• ggplot4/coord_geo_polar/scale-on-fossil-ggtree-with-labels-new.svg
• ggplot4/coord_geo_polar/stacked-scales-new.svg
• ggplot4/coord_geo_radial/coord-geo-radial-new.svg
• ggplot4/coord_geo_radial/scale-on-fossil-ggtree-new.svg
• ggplot4/coord_geo_radial/scale-on-fossil-ggtree-with-labels-new.svg
• ggplot4/coord_geo_radial/stacked-scales-new.svg
• ggplot4/coord_trans_flip/coord-trans-flip-with-diff-trans-new.svg
• ggplot4/coord_trans_xy/coord-trans-xy-with-expansion-new.svg
• ggplot4/coord_trans_xy/coord-trans-xy-with-no-trans-new.svg
• ggplot4/facet_color/facet-grid-color-blue-labels-new.svg
• ggplot4/facet_color/facet-grid-color-lab-colors-new.svg
• ggplot4/facet_color/facet-grid-color-triassic-blue-new.svg
• ggplot4/facet_color/facet-grid-color-with-function-new.svg
• ggplot4/facet_color/facet-grid-color-with-named-vector-new.svg
• ggplot4/facet_color/facet-wrap-color-blue-labels-new.svg
• ggplot4/geom_text_phylo/geom-text-phylo-new.svg
• ggplot4/ggarrange2/double-ggarrange2-layout-new.svg
• ggplot4/ggarrange2/double-ggarrange2-new.svg
• ggplot4/ggarrange2/ggarrange2-layout-new.svg
• ggplot4/ggarrange2/ggarrange2-no-dims-layout-new.svg
• ggplot4/ggarrange2/ggarrange2-no-dims-new.svg
• ggplot4/ggarrange2/ggarrange2-no-heights-layout-new.svg
• ggplot4/ggarrange2/ggarrange2-no-heights-new.svg
• ggplot4/ggarrange2/ggarrange2-with-layout-layout-new.svg
• ggplot4/ggarrange2/ggarrange2-with-layout-new.svg
• ggplot4/gggeo_scale/gggeo-scale-left-and-right-new.svg
• ggplot4/gggeo_scale/gggeo-scale-top-new.svg
• ggplot4/guides/guide-on-fossil-coord-geo-radial-new.svg
• ggplot4/guides/guide-on-ggtree-new.svg
• ggplot4/guides/guide-with-coord-geo-radial-new.svg
• ggplot4/guides/guides-on-fossil-ggtree-new.svg
• ggplot4/patterns/geo-pattern2-new.svg
• ggplot4/patterns/ggpattern-new.svg
• ggplot4/patterns/scale-fill-geopattern-labels-new.svg
• ggplot4/patterns/scale-fill-geopattern-limits-new.svg
• ggplot4/patterns/scale-fill-geopattern-na-new.svg
• ggplot4/patterns/scale-fill-geopattern-na2-new.svg
• ggplot4/patterns/scale-fill-geopattern-new.svg
• ggplot4/points_range/geom-points-range-aes-new.svg
• ggplot4/points_range/geom-points-range-bg-new.svg
• ggplot4/points_range/geom-points-range-h-new.svg
• guides/guide-on-fossil-coord-geo-radial-new.svg
• guides/guide-on-ggtree-new.svg
• guides/guide-with-coord-geo-radial-new.svg
• guides/guides-on-fossil-ggtree-new.svg
• patterns/geo-pattern2-new.svg
• patterns/ggpattern-new.svg
• patterns/scale-fill-geopattern-labels-new.svg
• patterns/scale-fill-geopattern-limits-new.svg
• patterns/scale-fill-geopattern-na-new.svg
• patterns/scale-fill-geopattern-na2-new.svg
• patterns/scale-fill-geopattern-new.svg
• points_range/geom-points-range-aes-new.svg
• points_range/geom-points-range-bg-new.svg
• points_range/geom-points-range-h-new.svg
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64
Version: 2.2.0
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘coord.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘coord.Rmd’
--- re-building ‘coord_geo.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘coord_geo.Rmd’
--- re-building ‘geo.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘geo.Rmd’
--- re-building ‘ggarrange2.Rmd’ using rmarkdown
Quitting from ggarrange2.Rmd:14-23 [setup]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'ggtree'
---
Backtrace:
▆
1. └─base::library(ggtree)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'ggarrange2.Rmd' failed with diagnostics:
there is no package called 'ggtree'
--- failed re-building ‘ggarrange2.Rmd’
--- re-building ‘phylogenies.Rmd’ using rmarkdown
Quitting from phylogenies.Rmd:18-32 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'ggtree'
---
Backtrace:
▆
1. └─base::library(ggtree)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'phylogenies.Rmd' failed with diagnostics:
there is no package called 'ggtree'
--- failed re-building ‘phylogenies.Rmd’
--- re-building ‘time.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘time.Rmd’
--- re-building ‘traits.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘traits.Rmd’
SUMMARY: processing the following files failed:
‘ggarrange2.Rmd’ ‘phylogenies.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-linux-x86_64