Rapid builds (Linux only) of a subset of BioC 3.23<BR>Report updated every 6 hours

Hostname	OS	Arch (*)	R version	Installed pkgs
teran2	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2025-10-28 r88973) -- "Unsuffered Consequences"	917
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BUILD results for S4Vectors on teran2

To the developers/maintainers of the S4Vectors package:
- 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.

raw results

Summary

Package: S4Vectors

Version: 0.49.0

Command: /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data S4Vectors

StartedAt: 2025-10-31 07:20:48 -0400 (Fri, 31 Oct 2025)

EndedAt: 2025-10-31 07:21:31 -0400 (Fri, 31 Oct 2025)

EllapsedTime: 43.3 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data S4Vectors
###
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* checking for file ‘S4Vectors/DESCRIPTION’ ... OK
* preparing ‘S4Vectors’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘RleTricks.Rmd’ using rmarkdown
--- finished re-building ‘RleTricks.Rmd’

--- re-building ‘S4QuickOverview.Rmd’ using rmarkdown

Quitting from S4QuickOverview.Rmd:19-27 [setup]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! package or namespace load failed for 'ShortRead':
 object 'pattern' is not exported by 'namespace:Biostrings'
---
Backtrace:
    ▆
 1. ├─base::suppressPackageStartupMessages(...)
 2. │ └─base::withCallingHandlers(expr, packageStartupMessage = function(c) tryInvokeRestart("muffleMessage"))
 3. └─base::library(ShortRead)
 4.   └─base::tryCatch(...)
 5.     └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 6.       └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 7.         └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'S4QuickOverview.Rmd' failed with diagnostics:
package or namespace load failed for 'ShortRead':
 object 'pattern' is not exported by 'namespace:Biostrings'
--- failed re-building ‘S4QuickOverview.Rmd’

--- re-building ‘S4VectorsOverview.Rmd’ using rmarkdown
--- finished re-building ‘S4VectorsOverview.Rmd’

SUMMARY: processing the following file failed:
  ‘S4QuickOverview.Rmd’

Error: Vignette re-building failed.
Execution halted