Multiple platform build/check report for BioC 3.21 - BUILD results for ggbio on kunpeng2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4827
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4608
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4549
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4581
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 ggbio on kunpeng2

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

Version: 1.56.0

Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data ggbio

StartedAt: 2025-09-23 01:53:55 -0000 (Tue, 23 Sep 2025)

EndedAt: 2025-09-23 01:55:37 -0000 (Tue, 23 Sep 2025)

EllapsedTime: 102.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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


* 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/biocbuild/R/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 margin_auto(0.5, unit = "lines") : 
  could not find function "margin_auto"
Calls: knit2pdf ... theme -> find_args -> mget -> element_text -> structure

Quitting from ggbio.Rnw:107-114 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `margin_auto()`:
! could not find function "margin_auto"
---
Backtrace:
    x
 1. \-ggbio::Ideogram(genome = "hg19")
 2.   \-ggbio:::applyTheme(p, xlabel, subchr, aspect.ratio)
 3.     \-ggbio::theme_alignment(grid = FALSE, ylabel = TRUE, border = FALSE)
 4.       +-ggplot2::theme(...)
 5.       | \-ggplot2:::find_args(..., complete = NULL, validate = NULL)
 6.       |   \-base::mget(args, envir = env)
 7.       \-ggplot2::element_text(margin = margin_auto(0.5, unit = "lines"))
 8.         \-base::structure(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

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