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This page was generated on 2025-03-20 11:45 -0400 (Thu, 20 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences" 4777
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences" 4545
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4576
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4528
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4458
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 1478/2313HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
openCyto 2.19.0  (landing page)
Mike Jiang
Snapshot Date: 2025-03-19 13:40 -0400 (Wed, 19 Mar 2025)
git_url: https://git.bioconductor.org/packages/openCyto
git_branch: devel
git_last_commit: d3a4d87
git_last_commit_date: 2024-10-29 09:48:49 -0400 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    ERROR  skipped
palomino7Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson3macOS 13.7.1 Ventura / arm64  OK    ERROR  skippedskipped
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped


BUILD results for openCyto on kjohnson3

To the developers/maintainers of the openCyto package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/openCyto.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: openCyto
Version: 2.19.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data openCyto
StartedAt: 2025-03-19 17:15:36 -0400 (Wed, 19 Mar 2025)
EndedAt: 2025-03-19 17:15:53 -0400 (Wed, 19 Mar 2025)
EllapsedTime: 17.2 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data openCyto
###
##############################################################################
##############################################################################


* checking for file ‘openCyto/DESCRIPTION’ ... OK
* preparing ‘openCyto’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘HowToAutoGating.Rmd’ using rmarkdown
2025-03-19 17:15:48.096 R[99213:759125071] XType: Using static font registry.
--- finished re-building ‘HowToAutoGating.Rmd’

--- re-building ‘HowToWriteCSVTemplate.Rmd’ using rmarkdown
--- finished re-building ‘HowToWriteCSVTemplate.Rmd’

--- re-building ‘openCytoVignette.Rmd’ using knitr

Quitting from openCytoVignette.Rmd:63-66 [plot-manual-GatingHierarchy]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `buildEdgeList()`:
! no slot of name "name" for this object of class "pEdge"
---
Backtrace:
    ▆
 1. ├─base::plot(gh)
 2. └─flowWorkspace::plot(gh)
 3.   └─flowWorkspace:::.layoutGraph(g, ...)
 4.     └─Rgraphviz::layoutGraph(...)
 5.       └─Rgraphviz (local) layoutFun(x, ...)
 6.         └─Rgraphviz::agopen(...)
 7.           └─Rgraphviz::buildEdgeList(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'openCytoVignette.Rmd' failed with diagnostics:
no slot of name "name" for this object of class "pEdge"
--- failed re-building ‘openCytoVignette.Rmd’

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

Error: Vignette re-building failed.
Execution halted