| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-09-20 12:03 -0400 (Sat, 20 Sep 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4814 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4603 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4547 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4553 |
| 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 1317/2333 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| mitology 1.1.0 (landing page) Stefania Pirrotta
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
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. |
| Package: mitology |
| Version: 1.1.0 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 mitology |
| StartedAt: 2025-09-19 18:39:50 -0400 (Fri, 19 Sep 2025) |
| EndedAt: 2025-09-19 18:40:28 -0400 (Fri, 19 Sep 2025) |
| EllapsedTime: 38.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 mitology
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* 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