| Back to Build/check report for BioC 3.24: simplified long |
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This page was generated on 2026-05-21 11:33 -0400 (Thu, 21 May 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4936 |
| 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 969/2378 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| h5vc 2.47.0 (landing page) Paul Theodor Pyl
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for h5vc in R Universe. | ||||||||||||||
|
To the developers/maintainers of the h5vc package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/h5vc.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: h5vc |
| Version: 2.47.0 |
| Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 h5vc |
| StartedAt: 2026-05-20 18:11:19 -0400 (Wed, 20 May 2026) |
| EndedAt: 2026-05-20 18:12:16 -0400 (Wed, 20 May 2026) |
| EllapsedTime: 57.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 h5vc
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* checking for file ‘h5vc/DESCRIPTION’ ... OK
* preparing ‘h5vc’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘h5vc.simple.genome.browser.Rmd’ using rmarkdown
[WARNING] This document format requires a nonempty <title> element.
Please specify either 'title' or 'pagetitle' in the metadata,
e.g. by using --metadata pagetitle="..." on the command line.
Falling back to 'h5vc.simple.genome.browser.knit'
--- finished re-building ‘h5vc.simple.genome.browser.Rmd’
--- re-building ‘h5vc.tour.Rmd’ using rmarkdown
Quitting from h5vc.tour.Rmd:233-254 [unnamed-chunk-1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `checkDataset()`:
! The given dataset: hsapiens_gene_ensembl, is not valid. Correct dataset names can be obtained with the listDatasets() function.
---
Backtrace:
▆
1. └─biomaRt::useDataset(dataset = "hsapiens_gene_ensembl", mart = useMart("ENSEMBL_MART_ENSEMBL"))
2. └─biomaRt:::checkDataset(dataset = dataset, mart = mart)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'h5vc.tour.Rmd' failed with diagnostics:
The given dataset: hsapiens_gene_ensembl, is not valid. Correct dataset names can be obtained with the listDatasets() function.
--- failed re-building ‘h5vc.tour.Rmd’
SUMMARY: processing the following file failed:
‘h5vc.tour.Rmd’
Error: Vignette re-building failed.
Execution halted