| Back to Build/check report for BioC 3.23: simplified long |
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This page was generated on 2025-11-13 11:32 -0500 (Thu, 13 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4013 |
| 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 1311/2325 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| mitch 1.23.0 (landing page) Mark Ziemann
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | ||||||||
|
To the developers/maintainers of the mitch package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mitch.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: mitch |
| Version: 1.23.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data mitch |
| StartedAt: 2025-11-12 16:43:48 -0500 (Wed, 12 Nov 2025) |
| EndedAt: 2025-11-12 16:43:59 -0500 (Wed, 12 Nov 2025) |
| EllapsedTime: 11.1 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 mitch
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* checking for file ‘mitch/DESCRIPTION’ ... OK
* preparing ‘mitch’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘infiniumMethArrayWorkflow.Rmd’ using rmarkdown
Quitting from infiniumMethArrayWorkflow.Rmd:46-55 [lib]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'IlluminaHumanMethylation450kanno.ilmn12.hg19'
---
Backtrace:
▆
1. ├─base::suppressPackageStartupMessages(...)
2. │ └─base::withCallingHandlers(expr, packageStartupMessage = function(c) tryInvokeRestart("muffleMessage"))
3. └─base::library("IlluminaHumanMethylation450kanno.ilmn12.hg19")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'infiniumMethArrayWorkflow.Rmd' failed with diagnostics:
there is no package called 'IlluminaHumanMethylation450kanno.ilmn12.hg19'
--- failed re-building ‘infiniumMethArrayWorkflow.Rmd’
--- re-building ‘mitchWorkflow.Rmd’ using rmarkdown
trying URL 'https://reactome.org/download/current/ReactomePathways.gmt.zip'
Content type 'application/zip' length 286744 bytes (280 KB)
==================================================
downloaded 280 KB
2025-11-12 16:43:55.984 R[17404:2640911] XType: Using static font registry.
--- finished re-building ‘mitchWorkflow.Rmd’
SUMMARY: processing the following file failed:
‘infiniumMethArrayWorkflow.Rmd’
Error: Vignette re-building failed.
Execution halted