| Back to Multiple platform build/check report for BioC 3.23: simplified long |
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This page was generated on 2025-12-31 11:34 -0500 (Wed, 31 Dec 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-12-22 r89219) -- "Unsuffered Consequences" | 4808 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4593 |
| 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 898/2332 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| goatea 1.1.3 (landing page) Maurits Unkel
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
|
To the developers/maintainers of the goatea package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/goatea.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: goatea |
| Version: 1.1.3 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data goatea |
| StartedAt: 2025-12-30 16:31:08 -0500 (Tue, 30 Dec 2025) |
| EndedAt: 2025-12-30 16:32:01 -0500 (Tue, 30 Dec 2025) |
| EllapsedTime: 53.6 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data goatea
###
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* checking for file ‘goatea/DESCRIPTION’ ... OK
* preparing ‘goatea’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘goatea.Rmd’ using rmarkdown
trying URL 'https://github.com/ftwkoopmans/goat/raw/main/analyses/goat_manuscript_datasets.rda'
Content type 'application/octet-stream' length 1074180 bytes (1.0 MB)
==================================================
downloaded 1.0 MB
2025-12-30 16:31:53.163 R[45171:584346344] XType: Using static font registry.
Warning: ggrepel: 2228 unlabeled data points (too many overlaps). Consider increasing max.overlaps
Quitting from goatea.Rmd:321-331 [tree_plot]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `if (i == j) ...`:
! the condition has length > 1
---
Backtrace:
▆
1. └─goatea::plot_termtree(...)
2. ├─enrichplot::pairwise_termsim(goatsea)
3. └─enrichplot::pairwise_termsim(goatsea)
4. └─enrichplot:::pairwise_termsim.enrichResult(...)
5. └─enrichplot:::get_similarity_matrix(...)
6. └─enrichplot:::.cal_jc_similarity(geneSets, id = id, name = y$Description)
7. └─base::outer(...)
8. └─enrichplot (local) FUN(X, Y, ...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'goatea.Rmd' failed with diagnostics:
the condition has length > 1
--- failed re-building ‘goatea.Rmd’
SUMMARY: processing the following file failed:
‘goatea.Rmd’
Error: Vignette re-building failed.
Execution halted