| Back to Build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-03-24 11:57 -0400 (Tue, 24 Mar 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4893 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 1500/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| OmicsMLRepoR 1.4.6 (landing page) Sehyun Oh
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for OmicsMLRepoR in R Universe. | ||||||||||||||
|
To the developers/maintainers of the OmicsMLRepoR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/OmicsMLRepoR.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: OmicsMLRepoR |
| Version: 1.4.6 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 OmicsMLRepoR |
| StartedAt: 2026-03-23 19:06:07 -0400 (Mon, 23 Mar 2026) |
| EndedAt: 2026-03-23 19:06:47 -0400 (Mon, 23 Mar 2026) |
| EllapsedTime: 40.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 OmicsMLRepoR
###
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* checking for file ‘OmicsMLRepoR/DESCRIPTION’ ... OK
* preparing ‘OmicsMLRepoR’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘Quickstart.Rmd’ using rmarkdown
Quitting from Quickstart.Rmd:109-112 [not_case_sensitive]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'x' in selecting a method for function 'nrow': error in evaluating the argument 'x' in selecting a method for function 'unique': HTTP 503 Service Unavailable.
---
Backtrace:
▆
1. ├─base::nrow(tree_filter(cmd, disease, "Colorectal Carcinoma"))
2. ├─OmicsMLRepoR::tree_filter(cmd, disease, "Colorectal Carcinoma")
3. │ ├─base::lapply(...)
4. │ └─base::lapply(...)
5. │ └─OmicsMLRepoR (local) FUN(X[[i]], ...)
6. │ ├─base::unique(.getAllTargetForms(x, ontoDBs, "obo_id"))
7. │ └─OmicsMLRepoR:::.getAllTargetForms(x, ontoDBs, "obo_id")
8. │ ├─lapply(query, getOntoInfo, ontology) %>% ...
9. │ ├─base::lapply(query, getOntoInfo, ontology)
10. │ └─base::lapply(query, getOntoInfo, ontology)
11. │ └─OmicsMLRepoR (local) FUN(X[[i]], ...)
12. │ └─rols::OlsSearch(...)
13. │ ├─httr2::resp_body_json(req_perform(request(url)))
14. │ │ └─httr2:::check_response(resp)
15. │ │ └─httr2:::is_response(resp)
16. │ └─httr2::req_perform(request(url))
17. │ └─httr2:::handle_resp(req, resp, error_call = error_call)
18. │ └─rlang::cnd_signal(cnd)
19. │ └─rlang:::signal_abort(cnd)
20. │ └─base::signalCondition(cnd)
21. ├─dplyr::bind_rows(., .id = colnames(.))
22. │ └─rlang::list2(...)
23. ├─base (local) `<fn>`(`<ht2__503>`)
24. └─base::.handleSimpleError(...)
25. └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'Quickstart.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'nrow': error in evaluating the argument 'x' in selecting a method for function 'unique': HTTP 503 Service Unavailable.
--- failed re-building ‘Quickstart.Rmd’
SUMMARY: processing the following file failed:
‘Quickstart.Rmd’
Error: Vignette re-building failed.
Execution halted