Chengcheng Ma
| Snapshot Date: 2025-04-10 13:40 -0400 (Thu, 10 Apr 2025) |
| git_url: https://git.bioconductor.org/packages/RGSEA |
| git_branch: devel |
| git_last_commit: f8d6d9d |
| git_last_commit_date: 2024-10-29 09:52:48 -0400 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-04-11 11:48 -0400 (Fri, 11 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4568 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4382 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4481 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4541 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4559 |
| 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 1767/2335 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| RGSEA 1.41.0 (landing page) Chengcheng Ma
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the RGSEA package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RGSEA.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: RGSEA |
| Version: 1.41.0 |
| Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data RGSEA |
| StartedAt: 2025-04-11 01:37:42 -0000 (Fri, 11 Apr 2025) |
| EndedAt: 2025-04-11 01:37:58 -0000 (Fri, 11 Apr 2025) |
| EllapsedTime: 16.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data RGSEA
###
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* checking for file ‘RGSEA/DESCRIPTION’ ... OK
* preparing ‘RGSEA’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘RGSEA.Rnw’ using knitr
Quitting from RGSEA.Rnw:83-87 [RGSEA-DOWNLOAD]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'x' in selecting a method for function 'colnames': error in evaluating the argument 'object' in selecting a method for function 'Table': HTTP 403 Forbidden.
---
Backtrace:
x
1. +-GEOquery::GDS2eSet(getGEO("GDS4100"))
2. | +-base::grep("GSM", colnames(Table(GDS)))
3. | | \-base::is.factor(x)
4. | +-BiocGenerics::colnames(Table(GDS))
5. | \-GEOquery::Table(GDS)
6. +-GEOquery::getGEO("GDS4100")
7. | \-GEOquery::getGEOfile(GEO, destdir = destdir, AnnotGPL = AnnotGPL)
8. | \-GEOquery:::downloadFile(myurl, destfile, mode)
9. | \-base::tryCatch(...)
10. | \-base (local) tryCatchList(expr, classes, parentenv, handlers)
11. | \-base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
12. | \-value[[3L]](cond)
13. | \-base::message(e)
14. | +-base::withRestarts(...)
15. | | \-base (local) withOneRestart(expr, restarts[[1L]])
16. | | \-base (local) doWithOneRestart(return(expr), restart)
17. | \-base::signalCondition(cond)
18. +-base (local) `<fn>`(`<ht2__403>`)
19. \-base::.handleSimpleError(...)
20. \-base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'RGSEA.Rnw' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'colnames': error in evaluating the argument 'object' in selecting a method for function 'Table': HTTP 403 Forbidden.
--- failed re-building ‘RGSEA.Rnw’
SUMMARY: processing the following file failed:
‘RGSEA.Rnw’
Error: Vignette re-building failed.
Execution halted