| Back to Build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-10-31 08:34 -0400 (Fri, 31 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" | 4428 |
| 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 250/2321 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| BubbleTree 2.41.0 (landing page) Todd Creasy
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
|
To the developers/maintainers of the BubbleTree package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BubbleTree.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: BubbleTree |
| Version: 2.41.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data BubbleTree |
| StartedAt: 2025-10-30 16:20:19 -0400 (Thu, 30 Oct 2025) |
| EndedAt: 2025-10-30 16:21:37 -0400 (Thu, 30 Oct 2025) |
| EllapsedTime: 78.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data BubbleTree
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* checking for file ‘BubbleTree/DESCRIPTION’ ... OK
* preparing ‘BubbleTree’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘BubbleTree-vignette.Rmd’ using rmarkdown
Quitting from BubbleTree-vignette.Rmd:125-206 [unnamed-chunk-7]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! c("assignment of an object of class \"ggplot2::ggplot\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE", "assignment of an object of class \"ggplot\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE", "assignment of an object of class \"ggplot2::gg\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE", "assignment of an object of class \"S7_object\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE",
"assignment of an object of class \"gg\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE")
---
Backtrace:
▆
1. └─methods::new("BTreePlotter", max.ploidy = 5, max.size = 10)
2. ├─methods::initialize(value, ...)
3. └─BubbleTree (local) initialize(value, ...)
4. └─BubbleTree (local) .local(.Object, ...)
5. └─methods (local) `<fn>`(`<chr>`, "branches", `<chr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'BubbleTree-vignette.Rmd' failed with diagnostics:
c("assignment of an object of class \"ggplot2::ggplot\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE", "assignment of an object of class \"ggplot\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE", "assignment of an object of class \"ggplot2::gg\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE", "assignment of an object of class \"S7_object\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE",
"assignment of an object of class \"gg\" is not valid for @'branches' in an object of class \"BTreePlotter\"; is(value, \"gg\") is not TRUE")
--- failed re-building ‘BubbleTree-vignette.Rmd’
SUMMARY: processing the following file failed:
‘BubbleTree-vignette.Rmd’
Error: Vignette re-building failed.
Execution halted