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

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"	4779
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4550
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4578
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4530
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4461
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 MEAL on kunpeng2

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

Version: 1.37.0

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

StartedAt: 2025-03-24 00:09:15 -0000 (Mon, 24 Mar 2025)

EndedAt: 2025-03-24 00:17:34 -0000 (Mon, 24 Mar 2025)

EllapsedTime: 499.1 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 MEAL
###
##############################################################################
##############################################################################


* checking for file ‘MEAL/DESCRIPTION’ ... OK
* preparing ‘MEAL’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MEAL.Rmd’ using rmarkdown

Quitting from MEAL.Rmd:193-196 [Regional plot 1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `errorHandler()`:
! Internal Server Error
---
Backtrace:
     ▆
  1. └─MEAL::plotRegion(resAdj, targetRange)
  2.   └─Gviz::IdeogramTrack(genome = genome, chromosome = as.character(seqnames(range)))
  3.     └─methods::new(...)
  4.       ├─methods::initialize(value, ...)
  5.       └─Gviz::initialize(value, ...)
  6.         └─Gviz (local) .local(.Object, ...)
  7.           └─Gviz:::.cacheGenomes(genome = genome)
  8.             ├─Gviz::.doCache(...)
  9.             │ ├─BiocGenerics::eval(expression, envir = callEnv)
 10.             │ └─base::eval(expression, envir = callEnv)
 11.             │   └─base::eval(expression, envir = callEnv)
 12.             ├─rtracklayer::getTable(query)
 13.             └─rtracklayer::getTable(query)
 14.               └─rtracklayer (local) .local(object, ...)
 15.                 ├─restfulr::read(url$getData$track, query)
 16.                 └─restfulr::read(url$getData$track, query)
 17.                   ├─base::tryCatch(...)
 18.                   │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 19.                   │   └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 20.                   │     └─base (local) doTryCatch(return(expr), name, parentenv, handler)
 21.                   └─x@protocol$read(x, cacheInfo)
 22.                     └─restfulr:::handleResponse(content, reader, cache.info, x@errorHandler)
 23.                       └─restfulr (local) errorHandler(responseError)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MEAL.Rmd' failed with diagnostics:
Internal Server Error

--- failed re-building ‘MEAL.Rmd’

--- re-building ‘caseExample.Rmd’ using rmarkdown
Warning: ggrepel: 8 unlabeled data points (too many overlaps). Consider increasing max.overlaps

Quitting from caseExample.Rmd:156-158 [Regional plot 2 exp]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `errorHandler()`:
! Internal Server Error
---
Backtrace:
     ▆
  1. └─MEAL::plotRegion(rset = methRes, rset2 = gexpRes, range = targetRange)
  2.   └─Gviz::IdeogramTrack(genome = genome, chromosome = as.character(seqnames(range)))
  3.     └─methods::new(...)
  4.       ├─methods::initialize(value, ...)
  5.       └─Gviz::initialize(value, ...)
  6.         └─Gviz (local) .local(.Object, ...)
  7.           └─Gviz:::.cacheGenomes(genome = genome)
  8.             ├─Gviz::.doCache(...)
  9.             │ ├─BiocGenerics::eval(expression, envir = callEnv)
 10.             │ └─base::eval(expression, envir = callEnv)
 11.             │   └─base::eval(expression, envir = callEnv)
 12.             ├─rtracklayer::getTable(query)
 13.             └─rtracklayer::getTable(query)
 14.               └─rtracklayer (local) .local(object, ...)
 15.                 ├─restfulr::read(url$getData$track, query)
 16.                 └─restfulr::read(url$getData$track, query)
 17.                   ├─base::tryCatch(...)
 18.                   │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 19.                   │   └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 20.                   │     └─base (local) doTryCatch(return(expr), name, parentenv, handler)
 21.                   └─x@protocol$read(x, cacheInfo)
 22.                     └─restfulr:::handleResponse(content, reader, cache.info, x@errorHandler)
 23.                       └─restfulr (local) errorHandler(responseError)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'caseExample.Rmd' failed with diagnostics:
Internal Server Error

--- failed re-building ‘caseExample.Rmd’

SUMMARY: processing the following files failed:
  ‘MEAL.Rmd’ ‘caseExample.Rmd’

Error: Vignette re-building failed.
Execution halted