Last updated on 2026-05-30 03:53:10 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.3.5 | OK | ||||
| r-devel-linux-x86_64-debian-gcc | 2.3.6 | 40.65 | 339.16 | 379.81 | OK | |
| r-devel-linux-x86_64-fedora-clang | 2.3.6 | 95.00 | 662.50 | 757.50 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 2.3.6 | 115.00 | 430.51 | 545.51 | OK | |
| r-devel-windows-x86_64 | 2.3.6 | 74.00 | 402.00 | 476.00 | OK | |
| r-patched-linux-x86_64 | 2.3.5 | 59.89 | 411.97 | 471.86 | OK | |
| r-release-linux-x86_64 | 2.3.5 | 78.41 | 413.50 | 491.91 | OK | |
| r-release-macos-arm64 | 2.3.6 | 18.00 | 113.00 | 131.00 | OK | |
| r-release-macos-x86_64 | 2.3.6 | 48.00 | 680.00 | 728.00 | OK | |
| r-release-windows-x86_64 | 2.3.6 | 71.00 | 399.00 | 470.00 | OK | |
| r-oldrel-macos-arm64 | 2.3.6 | 15.00 | 112.00 | 127.00 | OK | |
| r-oldrel-macos-x86_64 | 2.3.6 | 47.00 | 671.00 | 718.00 | OK | |
| r-oldrel-windows-x86_64 | 2.3.5 | 96.00 | 678.00 | 774.00 | ERROR |
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 in `curl::curl_fetch_memory()`:
! Timeout was reached [www.itis.gov]:
Operation too slow. Less than 1 bytes/sec transferred the last 600 seconds
---
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. │ └─taxize:::process_children_ids(...)
6. │ └─eval(fxn)(input, ...)
7. │ └─ritis::terms(sci_com[i], what = searchtype, ...)
8. │ └─base::lapply(query, fun, wt = wt, raw = raw, ...)
9. │ └─ritis (local) FUN(X[[i]], ...)
10. │ └─ritis:::itis_GET(path, list(srchKey = x), wt, ...)
11. │ └─cli$get(query = args)
12. │ └─private$make_request(rr, mock)
13. │ └─crul:::crul_fetch(opts)
14. │ └─curl::curl_fetch_memory(x$url$url, handle = x$url$handle)
15. └─curl:::raise_libcurl_error(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'taxonomy.Rmd' failed with diagnostics:
Timeout was reached [www.itis.gov]:
Operation too slow. Less than 1 bytes/sec transferred the last 600 seconds
--- failed re-building 'taxonomy.Rmd'
SUMMARY: processing the following file failed:
'taxonomy.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-windows-x86_64