| Back to Build/check report for BioC 3.22: simplified long |
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This page was generated on 2026-02-19 11:57 -0500 (Thu, 19 Feb 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" | 4890 |
| 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 436/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| concordexR 1.10.0 (landing page) Kayla Jackson
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for concordexR in R Universe. | ||||||||||||||
|
To the developers/maintainers of the concordexR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/concordexR.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: concordexR |
| Version: 1.10.0 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 concordexR |
| StartedAt: 2026-02-18 17:28:41 -0500 (Wed, 18 Feb 2026) |
| EndedAt: 2026-02-18 17:29:49 -0500 (Wed, 18 Feb 2026) |
| EllapsedTime: 68.1 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 concordexR
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* checking for file ‘concordexR/DESCRIPTION’ ... OK
* preparing ‘concordexR’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘concordex-nonspatial.Rmd’ using rmarkdown
Quitting from concordex-nonspatial.Rmd:61-63 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `value[[3L]]()`:
! failed to connect
reason: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Timeout was reached [bioconductor.org]:
SSL connection timeout
Consider rerunning with 'localHub=TRUE'
---
Backtrace:
▆
1. └─TENxPBMCData::TENxPBMCData("pbmc3k")
2. └─ExperimentHub::ExperimentHub()
3. └─AnnotationHub::.Hub(...)
4. └─base::tryCatch(...)
5. └─base (local) tryCatchList(expr, classes, parentenv, handlers)
6. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
7. └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'concordex-nonspatial.Rmd' failed with diagnostics:
failed to connect
reason: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Timeout was reached [bioconductor.org]:
SSL connection timeout
Consider rerunning with 'localHub=TRUE'
--- failed re-building ‘concordex-nonspatial.Rmd’
--- re-building ‘overview.Rmd’ using rmarkdown
--- finished re-building ‘overview.Rmd’
SUMMARY: processing the following file failed:
‘concordex-nonspatial.Rmd’
Error: Vignette re-building failed.
Execution halted