Back to Multiple platform build/check report for BioC 3.20:   simplified   long
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2025-03-20 12:12 -0400 (Thu, 20 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4756
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4487
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4514
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4441
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4406
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 1336/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MsDataHub 1.6.0  (landing page)
Laurent Gatto
Snapshot Date: 2025-03-17 13:00 -0400 (Mon, 17 Mar 2025)
git_url: https://git.bioconductor.org/packages/MsDataHub
git_branch: RELEASE_3_20
git_last_commit: bceb0f3
git_last_commit_date: 2024-10-29 11:18:53 -0400 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

BUILD results for MsDataHub on taishan

To the developers/maintainers of the MsDataHub package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MsDataHub.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: MsDataHub
Version: 1.6.0
Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data MsDataHub
StartedAt: 2025-03-18 02:30:36 -0000 (Tue, 18 Mar 2025)
EndedAt: 2025-03-18 02:31:24 -0000 (Tue, 18 Mar 2025)
EllapsedTime: 48.0 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 MsDataHub
###
##############################################################################
##############################################################################


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

Quitting from MsDataHub.Rmd:70-73 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! BiocParallel errors
  1 remote errors, element index: 1
  0 unevaluated and other errors
  first remote error:
Error: Can not open file /home/biocbuild/.cache/R/ExperimentHub/3bc43e5654645f_7862! Original error was: Error in eval(expr, envir): [SAXParser::parse()] Empty tag at offset 23330813.

---
Backtrace:
     ▆
  1. ├─Spectra::Spectra(f)
  2. └─Spectra::Spectra(f)
  3.   └─Spectra (local) .local(object, ...)
  4.     └─Spectra:::.create_spectra(...)
  5.       ├─ProtGenerics::backendInitialize(...)
  6.       └─Spectra::backendInitialize(...)
  7.         └─Spectra (local) .local(object, ...)
  8.           ├─base::do.call(...)
  9.           ├─BiocParallel::bplapply(...)
 10.           └─BiocParallel::bplapply(...)
 11.             └─BiocParallel:::.bpinit(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MsDataHub.Rmd' failed with diagnostics:
BiocParallel errors
  1 remote errors, element index: 1
  0 unevaluated and other errors
  first remote error:
Error: Can not open file /home/biocbuild/.cache/R/ExperimentHub/3bc43e5654645f_7862! Original error was: Error in eval(expr, envir): [SAXParser::parse()] Empty tag at offset 23330813.


--- failed re-building ‘MsDataHub.Rmd’

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

Error: Vignette re-building failed.
Execution halted