| Back to Multiple platform build/check report for BioC 3.23: simplified long |
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This page was generated on 2025-12-17 11:34 -0500 (Wed, 17 Dec 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" | 4875 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4589 |
| 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 1739/2332 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ReducedExperiment 1.3.0 (landing page) Jack Gisby
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
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To the developers/maintainers of the ReducedExperiment package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ReducedExperiment.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: ReducedExperiment |
| Version: 1.3.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data ReducedExperiment |
| StartedAt: 2025-12-16 19:31:59 -0500 (Tue, 16 Dec 2025) |
| EndedAt: 2025-12-16 19:34:01 -0500 (Tue, 16 Dec 2025) |
| EllapsedTime: 122.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data ReducedExperiment
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* checking for file ‘ReducedExperiment/DESCRIPTION’ ... OK
* preparing ‘ReducedExperiment’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘ReducedExperiment.Rmd’ using rmarkdown
Quitting from ReducedExperiment.Rmd:503-520 [run-enrich]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! object 'load_OrgDb' is not exported by 'namespace:GOSemSim'
---
Backtrace:
▆
1. ├─ReducedExperiment::runEnrich(...)
2. ├─ReducedExperiment::runEnrich(...)
3. │ └─ReducedExperiment (local) .local(object, ...)
4. │ └─ReducedExperiment:::reducedOA(factor_features, ...)
5. └─base::loadNamespace(x)
6. ├─base::namespaceImportFrom(...)
7. │ └─base::asNamespace(ns)
8. └─base::loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]])
9. └─base::namespaceImportFrom(...)
10. └─base::importIntoEnv(impenv, impnames, ns, impvars)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'ReducedExperiment.Rmd' failed with diagnostics:
object 'load_OrgDb' is not exported by 'namespace:GOSemSim'
--- failed re-building ‘ReducedExperiment.Rmd’
SUMMARY: processing the following file failed:
‘ReducedExperiment.Rmd’
Error: Vignette re-building failed.
Execution halted