Last updated on 2026-04-16 10:50:51 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.3.5 | 65.88 | 412.10 | 477.98 | OK | |
| r-devel-linux-x86_64-debian-gcc | 2.3.5 | 43.25 | 353.46 | 396.71 | OK | |
| r-devel-linux-x86_64-fedora-clang | 2.3.5 | 103.00 | 732.90 | 835.90 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 2.3.5 | 126.00 | 731.38 | 857.38 | OK | |
| r-devel-macos-arm64 | 2.3.5 | 17.00 | 113.00 | 130.00 | OK | |
| r-devel-windows-x86_64 | 2.3.5 | 78.00 | 513.00 | 591.00 | ERROR | |
| r-patched-linux-x86_64 | 2.3.5 | 53.97 | 407.19 | 461.16 | OK | |
| r-release-linux-x86_64 | 2.3.5 | 50.32 | 398.69 | 449.01 | OK | |
| r-release-macos-arm64 | 2.3.5 | 16.00 | 173.00 | 189.00 | OK | |
| r-release-macos-x86_64 | 2.3.5 | 48.00 | 359.00 | 407.00 | OK | |
| r-release-windows-x86_64 | 2.3.5 | 68.00 | 432.00 | 500.00 | OK | |
| r-oldrel-macos-arm64 | 2.3.5 | 15.00 | 177.00 | 192.00 | NOTE | |
| r-oldrel-macos-x86_64 | 2.3.5 | 47.00 | 429.00 | 476.00 | NOTE | |
| r-oldrel-windows-x86_64 | 2.3.5 | 91.00 | 570.00 | 661.00 | NOTE |
Version: 2.3.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'myTAI.Rmd' using rmarkdown
--- finished re-building 'myTAI.Rmd'
--- re-building 'other-strata.Rmd' using rmarkdown
--- finished re-building 'other-strata.Rmd'
--- re-building 'phylo-expression-object.Rmd' using rmarkdown
Performing log-normalization
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Calculating gene variances
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Calculating feature variances of standardized and clipped values
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
|
| | 0%
|
|======================================================================| 100%
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
--- finished re-building 'phylo-expression-object.Rmd'
--- re-building 'phylostratigraphy.Rmd' using rmarkdown
--- finished re-building 'phylostratigraphy.Rmd'
--- re-building 'tai-breaker.Rmd' using rmarkdown
--- finished re-building 'tai-breaker.Rmd'
--- re-building 'tai-gallery.Rmd' using rmarkdown
--- finished re-building 'tai-gallery.Rmd'
--- re-building 'tai-stats.Rmd' using rmarkdown
--- finished re-building 'tai-stats.Rmd'
--- re-building 'tai-transform.Rmd' using rmarkdown
--- finished re-building 'tai-transform.Rmd'
--- re-building 'taxonomy.Rmd' using rmarkdown
Quitting from taxonomy.Rmd:307-311 [unnamed-chunk-13]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! Gateway Timeout (HTTP 504)
---
Backtrace:
▆
1. └─global taxonomy(organism = "Arabidopsis", db = "itis", output = "children")
2. ├─base::as.data.frame(taxize::children(organism, db = db)[[1]])
3. ├─taxize::children(organism, db = db)
4. └─taxize:::children.default(organism, db = db)
5. ├─stats::setNames(children(id, ...), sci_id)
6. ├─taxize::children(id, ...)
7. └─taxize:::children.tsn(id, ...)
8. └─base::lapply(sci_id, fun)
9. └─taxize (local) FUN(X[[i]], ...)
10. └─ritis::hierarchy_down(y, ...)
11. └─ritis:::itis_GET(...)
12. └─tt$raise_for_status()
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'taxonomy.Rmd' failed with diagnostics:
Gateway Timeout (HTTP 504)
--- failed re-building 'taxonomy.Rmd'
SUMMARY: processing the following file failed:
'taxonomy.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-x86_64
Version: 2.3.5
Check: installed package size
Result: NOTE
installed size is 11.0Mb
sub-directories of 1Mb or more:
doc 6.1Mb
libs 3.4Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64