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This page was generated on 2025-10-31 08:34 -0400 (Fri, 31 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R 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 995/2321HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
HubPub 1.19.0  (landing page)
Kayla Interdonato
Snapshot Date: 2025-10-30 13:40 -0400 (Thu, 30 Oct 2025)
git_url: https://git.bioconductor.org/packages/HubPub
git_branch: devel
git_last_commit: 78b6e76
git_last_commit_date: 2025-10-29 11:09:35 -0400 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped

BUILD results for HubPub on nebbiolo1

To the developers/maintainers of the HubPub package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/HubPub.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: HubPub
Version: 1.19.0
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data HubPub
StartedAt: 2025-10-30 17:31:15 -0400 (Thu, 30 Oct 2025)
EndedAt: 2025-10-30 17:31:37 -0400 (Thu, 30 Oct 2025)
EllapsedTime: 22.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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

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

Quitting from HubPub.Rmd:90-112 [resource]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! object 'microRNAs' is not exported by 'namespace:GenomicFeatures'
---
Backtrace:
    ▆
 1. ├─HubPub::add_resource(file.path(fl, "examplePkg"), metadata)
 2. └─base::loadNamespace(x)
 3.   ├─base::namespaceImport(...)
 4.   └─base::loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]])
 5.     ├─base::namespaceImport(...)
 6.     └─base::loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]])
 7.       └─base::namespaceImportFrom(...)
 8.         └─base::importIntoEnv(impenv, impnames, ns, impvars)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'HubPub.Rmd' failed with diagnostics:
object 'microRNAs' is not exported by 'namespace:GenomicFeatures'
--- failed re-building ‘HubPub.Rmd’

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

Error: Vignette re-building failed.
Execution halted