Multiple platform build/check report for BioC 3.23 - BUILD results for updateObject on kunpeng2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.4 LTS)	x86_64	4.6.0 alpha (2026-04-05 r89794)	4961
kjohnson3	macOS 13.7.7 Ventura	arm64	4.6.0 alpha (2026-04-08 r89818)	4690
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4627
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 updateObject on kunpeng2

To the developers/maintainers of the updateObject package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/updateObject.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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results

Summary

Package: updateObject

Version: 1.15.0

Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data updateObject

StartedAt: 2026-04-17 02:23:22 -0000 (Fri, 17 Apr 2026)

EndedAt: 2026-04-17 02:23:48 -0000 (Fri, 17 Apr 2026)

EllapsedTime: 25.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data updateObject
###
##############################################################################
##############################################################################


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

Quitting from updateObject.Rmd:136-139 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! class "Seqinfo" is not exported by 'namespace:GenomeInfoDb'
---
Backtrace:
     ▆
  1. └─updateObject::updateBiocPackageRepoObjects(...)
  2.   └─updateObject::updatePackageObjects(...)
  3.     └─updateObject::updateSerializedObjects(...)
  4.       └─updateObject::update_rda_file(filepath, filter = filter, dry.run = dry.run)
  5.         └─BiocGenerics:::attach_classdef_and_updateobjdef_pkgs(class(x))
  6.           └─BiocGenerics:::.attach_namespace(classdef_pkg)
  7.             ├─base::suppressMessages(suppressWarnings(suppressPackageStartupMessages(attachNamespace(pkg))))
  8.             │ └─base::withCallingHandlers(...)
  9.             ├─base::suppressWarnings(suppressPackageStartupMessages(attachNamespace(pkg)))
 10.             │ └─base::withCallingHandlers(...)
 11.             ├─base::suppressPackageStartupMessages(attachNamespace(pkg))
 12.             │ └─base::withCallingHandlers(expr, packageStartupMessage = function(c) tryInvokeRestart("muffleMessage"))
 13.             └─base::attachNamespace(pkg)
 14.               └─base::asNamespace(ns, base.OK = FALSE)
 15.                 └─base::getNamespace(ns)
 16.                   ├─.Internal(getRegisteredNamespace(name)) %||% ...
 17.                   └─base::loadNamespace(name)
 18.                     ├─base::namespaceImportFrom(...)
 19.                     │ └─base::asNamespace(ns)
 20.                     └─base::loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]])
 21.                       ├─base::namespaceImportFrom(...)
 22.                       │ └─base::asNamespace(ns)
 23.                       └─base::loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]])
 24.                         └─base::namespaceImportClasses(...)
 25.                           └─base::namespaceImportFrom(self, asNamespace(ns), vars, from = from)
 26.                             └─base::importIntoEnv(impenv, impnames, ns, impvars)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'updateObject.Rmd' failed with diagnostics:
class "Seqinfo" is not exported by 'namespace:GenomeInfoDb'
--- failed re-building ‘updateObject.Rmd’

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

Error: Vignette re-building failed.
Execution halted