| Back to Build/check report for BioC 3.23: simplified long |
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This page was generated on 2025-10-31 08:34 -0400 (Fri, 31 Oct 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" | 4428 |
| 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 100/2321 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| arrayQualityMetrics 3.67.0 (landing page) Mike Smith
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
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To the developers/maintainers of the arrayQualityMetrics package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/arrayQualityMetrics.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: arrayQualityMetrics |
| Version: 3.67.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data arrayQualityMetrics |
| StartedAt: 2025-10-30 16:03:03 -0400 (Thu, 30 Oct 2025) |
| EndedAt: 2025-10-30 16:03:55 -0400 (Thu, 30 Oct 2025) |
| EllapsedTime: 52.1 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 arrayQualityMetrics
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* checking for file ‘arrayQualityMetrics/DESCRIPTION’ ... OK
* preparing ‘arrayQualityMetrics’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘aqm.Rnw’ using knitr
--- finished re-building ‘aqm.Rnw’
--- re-building ‘arrayQualityMetrics.Rnw’ using knitr
Quitting from arrayQualityMetrics.Rnw:139-145 [AffyBatchQM]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `getCdfInfo()`:
! Could not obtain CDF environment, problems encountered:
Specified environment does not contain HG-U133A
Library - package hgu133acdf not installed
Bioconductor - hgu133acdf not available
---
Backtrace:
x
1. \-arrayQualityMetrics::arrayQualityMetrics(...)
2. \-arrayQualityMetrics::prepaffy(expressionset, x)
3. \-affyPLM::fitPLM(expressionset)
4. +-affy::geneNames(object)
5. \-affy::geneNames(object)
6. \-affy::getCdfInfo(object)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'arrayQualityMetrics.Rnw' failed with diagnostics:
Could not obtain CDF environment, problems encountered:
Specified environment does not contain HG-U133A
Library - package hgu133acdf not installed
Bioconductor - hgu133acdf not available
--- failed re-building ‘arrayQualityMetrics.Rnw’
SUMMARY: processing the following file failed:
‘arrayQualityMetrics.Rnw’
Error: Vignette re-building failed.
Execution halted