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This page was generated on 2025-03-20 12:11 -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 422/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
concordexR 1.6.0  (landing page)
Kayla Jackson
Snapshot Date: 2025-03-17 13:00 -0400 (Mon, 17 Mar 2025)
git_url: https://git.bioconductor.org/packages/concordexR
git_branch: RELEASE_3_20
git_last_commit: c65a946
git_last_commit_date: 2024-10-29 11:20:08 -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 concordexR on taishan

To the developers/maintainers of the concordexR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/concordexR.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: concordexR
Version: 1.6.0
Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data concordexR
StartedAt: 2025-03-18 00:07:40 -0000 (Tue, 18 Mar 2025)
EndedAt: 2025-03-18 00:10:06 -0000 (Tue, 18 Mar 2025)
EllapsedTime: 146.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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


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

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

Quitting from overview.Rmd:45-50 [example]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! failed to load resource
  name: EH7561
  title: Small demo subset of mouse skeletal muscle Visium data
  reason: require("SpatialFeatureExperiment") failed: use BiocManager::install() to install package?
---
Backtrace:
     ▆
  1. └─SFEData::McKellarMuscleData("small")
  2.   ├─ds[[id, force = force, verbose = verbose]]
  3.   └─ds[[id, force = force, verbose = verbose]]
  4.     └─ExperimentHub (local) .local(x, i, j = j, ...)
  5.       ├─methods::callNextMethod(x, i, j, ..., force = force, verbose = verbose)
  6.       │ └─base::eval(call, callEnv)
  7.       │   └─base::eval(call, callEnv)
  8.       └─AnnotationHub (local) .nextMethod(x, i, j, ..., force = force, verbose = verbose)
  9.         └─AnnotationHub (local) .local(x, i, j = j, ...)
 10.           └─AnnotationHub:::.Hub_get1(x[idx], force = force, verbose = verbose)
 11.             └─base::tryCatch(...)
 12.               └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 13.                 └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 14.                   └─value[[3L]](cond)
 15.                     └─base::tryCatch(...)
 16.                       └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 17.                         └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 18.                           └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'overview.Rmd' failed with diagnostics:
failed to load resource
  name: EH7561
  title: Small demo subset of mouse skeletal muscle Visium data
  reason: require("SpatialFeatureExperiment") failed: use BiocManager::install() to install package?
--- failed re-building ‘overview.Rmd’

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

Error: Vignette re-building failed.
Execution halted