Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-09-18 12:03 -0400 (Thu, 18 Sep 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4808 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4597 |
kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4541 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4554 |
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 1316/2330 | 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: 2025-09-17 18:51:43 -0400 (Wed, 17 Sep 2025) |
EndedAt: 2025-09-17 18:52:18 -0400 (Wed, 17 Sep 2025) |
EllapsedTime: 35.0 seconds |
RetCode: 1 |
Status: ERROR |
PackageFile: None |
PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 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