Rapid builds (Linux only) of a subset of BioC 3.22<BR>Report updated every 6 hours

Hostname	OS	Arch (*)	R version	Installed pkgs
teran2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	912
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BUILD results for ggbio on teran2

To the developers/maintainers of the ggbio 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: ggbio

Version: 1.57.1

Command: /home/rapidbuild/bbs-3.22-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data ggbio

StartedAt: 2025-06-28 12:54:33 -0400 (Sat, 28 Jun 2025)

EndedAt: 2025-06-28 12:55:38 -0400 (Sat, 28 Jun 2025)

EllapsedTime: 64.2 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /home/rapidbuild/bbs-3.22-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data ggbio
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* checking for file ‘ggbio/DESCRIPTION’ ... OK
* preparing ‘ggbio’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘ggbio.Rnw’ using Sweave
--- finished re-building ‘ggbio.Rnw’

cp realvignettes/*.Rnw .
/home/rapidbuild/bbs-3.22-bioc-rapid/R/bin/Rscript -e "library(knitr); knit2pdf('ggbio.Rnw')"


processing file: ggbio.Rnw
1/125                        
2/125 [style-knitr]          
3/125                        
4/125 [setup]                
5/125                        
6/125 [citation]             
7/125                        
8/125 [unnamed-chunk-1]      
9/125                        
10/125 [unnamed-chunk-2]      
11/125                        
12/125 [unnamed-chunk-3]      
13/125                        
14/125 [unnamed-chunk-4]      
Error in validObject(.Object) : 
  invalid class "GGbio" object: invalid object for slot "ggplot" in class "GGbio": got class "ggplot2::ggplot", should be or extend class "gg_OR_NULL"
Calls: knit2pdf ... <Anonymous> -> initialize -> initialize -> validObject

Quitting from ggbio.Rnw:107-114 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `validObject()`:
! invalid class "GGbio" object: invalid object for slot "ggplot" in class "GGbio": got class "ggplot2::ggplot", should be or extend class "gg_OR_NULL"
---
Backtrace:
     x
  1. \-ggbio::Ideogram(genome = "hg19")
  2.   +-methods::new(...)
  3.   | +-methods::initialize(value, ...)
  4.   | \-methods::initialize(value, ...)
  5.   \-ggbio::ggbio(p, data = obj.ori, ...)
  6.     +-BiocGenerics::do.call(...)
  7.     +-base::do.call(...)
  8.     \-methods (local) `<fn>`(...)
  9.       +-methods::initialize(value, ...)
 10.       \-methods::initialize(value, ...)
 11.         \-methods::validObject(.Object)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Execution halted
make: *** [Makefile:15: ggbio.pdf] Error 1
Error in tools::buildVignettes(dir = ".", tangle = TRUE) : 
  running 'make' failed
Execution halted