Back to Workflows build report for BioC 3.19

This page was generated on 2024-06-25 16:30 -0400 (Tue, 25 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4760
palomino3Windows Server 2022 Datacenterx644.4.0 (2024-04-24 ucrt) -- "Puppy Cup" 4494
merida1macOS 12.7.4 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 4508
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 28/30HostnameOS / ArchINSTALLBUILD
spicyWorkflow 1.4.0  (landing page)
SOMS Maintainer
Snapshot Date: 2024-06-25 12:45 -0400 (Tue, 25 Jun 2024)
git_url: https://git.bioconductor.org/packages/spicyWorkflow
git_branch: RELEASE_3_19
git_last_commit: 1a9f963
git_last_commit_date: 2024-04-30 10:14:25 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  
palomino3Windows Server 2022 Datacenter / x64  OK    ERROR  
merida1macOS 12.7.4 Monterey / x86_64  OK    ERROR  

BUILD results for spicyWorkflow on nebbiolo1

To the developers/maintainers of the spicyWorkflow package:
- 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: spicyWorkflow
Version: 1.4.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data spicyWorkflow
StartedAt: 2024-06-25 13:09:48 -0400 (Tue, 25 Jun 2024)
EndedAt: 2024-06-25 13:54:55 -0400 (Tue, 25 Jun 2024)
EllapsedTime: 2706.5 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data spicyWorkflow
###
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* checking for file ‘spicyWorkflow/DESCRIPTION’ ... OK
* preparing ‘spicyWorkflow’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘spicyWorkflow.Rmd’ using rmarkdown

Quitting from lines 447-460 [unnamed-chunk-13] (spicyWorkflow.Rmd)
Error: processing vignette 'spicyWorkflow.Rmd' failed with diagnostics:
✖ Specified (x) is not in `cells`.
ℹ `names(cells)`: imageID, object_id, s.area, s.radius.mean, m.cx, m.cy,
  m.majoraxis, m.eccentricity, Patient_ID, Status, Age, SUBTYPE, PAM50,
  Treatment, DCIS_grade, Necrosis, objectNum, and clusters
--- failed re-building ‘spicyWorkflow.Rmd’

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

Error: Vignette re-building failed.
Execution halted