Multiple platform build/check report for BioC 3.21 - BUILD results for OncoSimulR on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences"	4777
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4545
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4576
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4528
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R 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*

BUILD results for OncoSimulR on palomino7

To the developers/maintainers of the OncoSimulR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/OncoSimulR.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: OncoSimulR

Version: 4.9.1

Command: chmod a+r OncoSimulR -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data OncoSimulR

StartedAt: 2025-03-19 20:33:08 -0400 (Wed, 19 Mar 2025)

EndedAt: 2025-03-19 20:38:08 -0400 (Wed, 19 Mar 2025)

EllapsedTime: 299.5 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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###
### Running command:
###
###   chmod a+r OncoSimulR -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data OncoSimulR
###
##############################################################################
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* checking for file 'OncoSimulR/DESCRIPTION' ... OK
* preparing 'OncoSimulR':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'OncoSimulR.Rmd' using rmarkdown
Warning: ggrepel: 12 unlabeled data points (too many overlaps). Consider increasing max.overlaps

Quitting from OncoSimulR.Rmd:1289-1292 [figfpancr1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `buildEdgeList()`:
! no slot of name "name" for this object of class "pEdge"
---
Backtrace:
    ▆
 1. ├─base::plot(pancr)
 2. ├─base::plot(pancr)
 3. └─OncoSimulR:::plot.fitnessEffects(pancr)
 4.   ├─base::plot(...)
 5.   └─Rgraphviz::plot(...)
 6.     └─Rgraphviz (local) .local(x, y, ...)
 7.       └─Rgraphviz::agopen(...)
 8.         └─Rgraphviz::buildEdgeList(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

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

SUMMARY: processing the following file failed:
  'OncoSimulR.Rmd'

Error: Vignette re-building failed.
Execution halted