Vinh Tran
| Snapshot Date: 2026-02-27 13:40 -0500 (Fri, 27 Feb 2026) |
| git_url: https://git.bioconductor.org/packages/PhyloProfile |
| git_branch: devel |
| git_last_commit: 818033a |
| git_last_commit_date: 2026-02-23 05:29:24 -0500 (Mon, 23 Feb 2026) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-02-28 11:35 -0500 (Sat, 28 Feb 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4877 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4570 |
| 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 1595/2357 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| PhyloProfile 2.3.3 (landing page) Vinh Tran
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| See other builds for PhyloProfile in R Universe. | ||||||||||||||
|
To the developers/maintainers of the PhyloProfile package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/PhyloProfile.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: PhyloProfile |
| Version: 2.3.3 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data PhyloProfile |
| StartedAt: 2026-02-27 17:19:40 -0500 (Fri, 27 Feb 2026) |
| EndedAt: 2026-02-27 17:19:54 -0500 (Fri, 27 Feb 2026) |
| EllapsedTime: 13.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data PhyloProfile
###
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* checking for file ‘PhyloProfile/DESCRIPTION’ ... OK
* preparing ‘PhyloProfile’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘PhyloProfile-vignette.Rmd’ using rmarkdown
2026-02-27 17:19:52.530 R[47108:41619573] XType: Using static font registry.
Quitting from PhyloProfile-vignette.Rmd:388-438 [profile-plot]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 12/12 in VECTOR_ELT
---
Backtrace:
▆
1. └─PhyloProfile::dataMainPlot(finalProcessedProfile)
2. ├─dataHeatTb[, `:=`(paralogNew, .N), by = c("geneID", "supertaxon")]
3. └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'PhyloProfile-vignette.Rmd' failed with diagnostics:
attempt access index 12/12 in VECTOR_ELT
--- failed re-building ‘PhyloProfile-vignette.Rmd’
SUMMARY: processing the following file failed:
‘PhyloProfile-vignette.Rmd’
Error: Vignette re-building failed.
Execution halted