Multiple platform build/check report for BioC 3.22 - BUILD results for biodbChebi on palomino8

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.2 LTS)	x86_64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4810
palomino8	Windows Server 2022 Datacenter	x64	4.5.0 (2025-04-11 ucrt) -- "How About a Twenty-Six"	4548
kjohnson3	macOS 13.7.1 Ventura	arm64	4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six"	4528
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4493
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*

BUILD results for biodbChebi on palomino8

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

Version: 1.15.0

Command: chmod a+r biodbChebi -R && F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data biodbChebi

StartedAt: 2025-06-18 17:43:16 -0400 (Wed, 18 Jun 2025)

EndedAt: 2025-06-18 17:43:42 -0400 (Wed, 18 Jun 2025)

EllapsedTime: 25.8 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   chmod a+r biodbChebi -R && F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data biodbChebi
###
##############################################################################
##############################################################################


* checking for file 'biodbChebi/DESCRIPTION' ... OK
* preparing 'biodbChebi':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'biodbChebi.Rmd' using rmarkdown

Quitting from biodbChebi.Rmd:63-65 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `FUN()`:
! object 'BiodbUrl' not found
---
Backtrace:
     ▆
  1. └─chebi$getEntry(c("2528", "17053", "15440"))
  2.   └─private$bdb$getFactory()$getEntry(self$getId(), id = id, drop = drop)
  3.     └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
  4.       └─conn$getEntryContent(ids)
  5.         └─self$getEntryContentFromDb(ch.missing.ids)
  6.           └─private$doGetEntryContentFromDb(entry.id)
  7.             └─private$doGetEntryContentOneByOne(id)
  8.               └─self$getEntryContentRequest(entry.id, concatenate = FALSE)
  9.                 └─private$doGetEntryContentRequest(entry.id, concatenate = concatenate)
 10.                   └─base::vapply(...)
 11.                     └─biodbChebi (local) FUN(X[[i]], ...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'biodbChebi.Rmd' failed with diagnostics:
object 'BiodbUrl' not found
--- failed re-building 'biodbChebi.Rmd'

SUMMARY: processing the following file failed:
  'biodbChebi.Rmd'

Error: Vignette re-building failed.
Execution halted