Back to Multiple platform build/check report for BioC 3.21:   simplified   long
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2025-10-16 11:41 -0400 (Thu, 16 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4833
merida1macOS 12.7.6 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4614
kjohnson1macOS 13.7.5 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4555
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4586
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 1315/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
mitology 1.0.0  (landing page)
Stefania Pirrotta
Snapshot Date: 2025-10-13 13:40 -0400 (Mon, 13 Oct 2025)
git_url: https://git.bioconductor.org/packages/mitology
git_branch: RELEASE_3_21
git_last_commit: db56417
git_last_commit_date: 2025-04-15 13:52:21 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped
merida1macOS 12.7.6 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson1macOS 13.7.5 Ventura / arm64  OK    ERROR  skippedskipped
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

BUILD results for mitology on kunpeng2

To the developers/maintainers of the mitology package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mitology.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: mitology
Version: 1.0.0
Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data mitology
StartedAt: 2025-10-14 02:35:00 -0000 (Tue, 14 Oct 2025)
EndedAt: 2025-10-14 02:35:49 -0000 (Tue, 14 Oct 2025)
EllapsedTime: 49.0 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 mitology
###
##############################################################################
##############################################################################


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

Quitting from mitology.Rmd:135-139 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! <ggtree> object properties are invalid:
- @mapping must be <ggplot2::mapping>, not S3<data.frame>
---
Backtrace:
     ▆
  1. └─mitology::mitoTreeHeatmap(...)
  2.   └─S7:::Ops.S7_object(...)
  3.     ├─base::tryCatch(return(base_ops[[.Generic]](e1, e2)), S7_error_method_not_found = function(cnd) cnd)
  4.     │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
  5.     │   └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
  6.     │     └─base (local) doTryCatch(return(expr), name, parentenv, handler)
  7.     └─base_ops[[.Generic]](e1, e2)
  8.       ├─S7::S7_dispatch()
  9.       └─ggplot2 (local) `method(+, list(ggplot2::ggplot, class_any))`(...)
 10.         └─ggplot2:::add_ggplot(e1, e2, e2name)
 11.           ├─ggplot2::ggplot_add(object, p, objectname)
 12.           └─ggplot2:::ggplot_add.default(object, p, objectname)
 13.             └─ggplot2::update_ggplot(object = object, plot = plot, ...)
 14.               ├─S7::S7_dispatch()
 15.               └─ggplot2 (local) `method(update_ggplot, list(ggplot2::theme, ggplot2::ggplot))`(...)
 16.                 └─S7::set_props(plot, theme = add_theme(plot@theme, object))
 17.                   └─S7::`props<-`(`*tmp*`, value = list(...))
 18.                     └─S7::validate(object)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'mitology.Rmd' failed with diagnostics:
<ggtree> object properties are invalid:
- @mapping must be <ggplot2::mapping>, not S3<data.frame>
--- failed re-building ‘mitology.Rmd’

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

Error: Vignette re-building failed.
Execution halted