Paul J. McMurdie
| Snapshot Date: 2025-11-10 13:45 -0500 (Mon, 10 Nov 2025) |
| git_url: https://git.bioconductor.org/packages/phyloseq |
| git_branch: RELEASE_3_22 |
| git_last_commit: 457587e |
| git_last_commit_date: 2025-10-29 10:10:12 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-11-11 12:03 -0500 (Tue, 11 Nov 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" | 4902 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4638 |
| 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 1597/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| phyloseq 1.54.0 (landing page) Paul J. McMurdie
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
|
To the developers/maintainers of the phyloseq package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/phyloseq.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: phyloseq |
| Version: 1.54.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data phyloseq |
| StartedAt: 2025-11-10 17:21:22 -0500 (Mon, 10 Nov 2025) |
| EndedAt: 2025-11-10 17:22:03 -0500 (Mon, 10 Nov 2025) |
| EllapsedTime: 40.4 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data phyloseq ### ############################################################################## ############################################################################## * checking for file ‘phyloseq/DESCRIPTION’ ... OK * preparing ‘phyloseq’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘phyloseq-FAQ.Rmd’ using rmarkdown 2025-11-10 17:21:36.091 R[23032:677290461] XType: Using static font registry. --- finished re-building ‘phyloseq-FAQ.Rmd’ --- re-building ‘phyloseq-analysis.Rmd’ using rmarkdown --- finished re-building ‘phyloseq-analysis.Rmd’ --- re-building ‘phyloseq-basics.Rmd’ using rmarkdown YAML parse exception at line 2, column 6, while scanning a block scalar: did not find expected comment or line break Error: processing vignette 'phyloseq-basics.Rmd' failed with diagnostics: pandoc document conversion failed with error 64 --- failed re-building ‘phyloseq-basics.Rmd’ --- re-building ‘phyloseq-mixture-models.Rmd’ using rmarkdown --- finished re-building ‘phyloseq-mixture-models.Rmd’ SUMMARY: processing the following file failed: ‘phyloseq-basics.Rmd’ Error: Vignette re-building failed. Execution halted