Build/check report for BioC 3.24 - BUILD results for weitrix on nebbiolo2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.4 LTS)	x86_64	4.6.0 RC (2026-04-17 r89917) -- "Because it was There"	4844
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BUILD results for weitrix on nebbiolo2

To the developers/maintainers of the weitrix package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/weitrix.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.

raw results

Summary

Package: weitrix

Version: 1.25.0

Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 weitrix

StartedAt: 2026-05-04 20:50:21 -0400 (Mon, 04 May 2026)

EndedAt: 2026-05-04 20:55:23 -0400 (Mon, 04 May 2026)

EllapsedTime: 302.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 weitrix
###
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* checking for file ‘weitrix/DESCRIPTION’ ... OK
* preparing ‘weitrix’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘V1_overview.Rmd’ using rmarkdown
--- finished re-building ‘V1_overview.Rmd’

--- re-building ‘V2_tail_length.Rmd’ using rmarkdown
--- finished re-building ‘V2_tail_length.Rmd’

--- re-building ‘V3_shift.Rmd’ using rmarkdown
--- finished re-building ‘V3_shift.Rmd’

--- re-building ‘V4_airway.Rmd’ using rmarkdown

Quitting from V4_airway.Rmd:69-78 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'x' in selecting a method for function 'mcols': unable to open database file
---
Backtrace:
     ▆
  1. ├─S4Vectors::mcols(genes(EnsDb.Hsapiens.v86))
  2. ├─GenomicFeatures::genes(EnsDb.Hsapiens.v86)
  3. ├─ensembldb::genes(EnsDb.Hsapiens.v86)
  4. │ └─ensembldb (local) .local(x, ...)
  5. │   ├─ensembldb:::getWhat(...)
  6. │   └─ensembldb:::getWhat(...)
  7. │     └─ensembldb (local) .local(x, ...)
  8. │       └─ensembldb:::.getWhat(...)
  9. │         ├─DBI::dbGetQuery(dbconn(x), Q)
 10. │         └─DBI::dbGetQuery(dbconn(x), Q)
 11. │           └─DBI (local) .local(conn, statement, ...)
 12. │             ├─DBI::dbFetch(rs, n = n, ...)
 13. │             └─RSQLite::dbFetch(rs, n = n, ...)
 14. │               └─RSQLite (local) .local(res, n, ...)
 15. │                 └─RSQLite:::result_fetch(res@ptr, n = n)
 16. └─base::.handleSimpleError(...)
 17.   └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'V4_airway.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'mcols': unable to open database file
--- failed re-building ‘V4_airway.Rmd’

--- re-building ‘V5_slam_seq.Rmd’ using rmarkdown
--- finished re-building ‘V5_slam_seq.Rmd’

SUMMARY: processing the following file failed:
  ‘V4_airway.Rmd’

Error: Vignette re-building failed.
Execution halted