Pierrick Roger
| Snapshot Date: 2025-04-22 13:40 -0400 (Tue, 22 Apr 2025) |
| git_url: https://git.bioconductor.org/packages/biodbNcbi |
| git_branch: RELEASE_3_21 |
| git_last_commit: eff8ab9 |
| git_last_commit_date: 2025-04-15 12:47:49 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-04-24 13:02 -0400 (Thu, 24 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4831 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4573 |
| 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 208/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbNcbi 1.12.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
|
To the developers/maintainers of the biodbNcbi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbNcbi.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: biodbNcbi |
| Version: 1.12.0 |
| Command: chmod a+r biodbNcbi -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data biodbNcbi |
| StartedAt: 2025-04-22 17:49:55 -0400 (Tue, 22 Apr 2025) |
| EndedAt: 2025-04-22 17:50:33 -0400 (Tue, 22 Apr 2025) |
| EllapsedTime: 37.8 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### chmod a+r biodbNcbi -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data biodbNcbi
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* checking for file 'biodbNcbi/DESCRIPTION' ... OK
* preparing 'biodbNcbi':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'biodbNcbi.Rmd' using rmarkdown
Quitting from biodbNcbi.Rmd:72-74 [unnamed-chunk-5]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `XML::xmlInternalTreeParse()`:
! empty or no content specified
---
Backtrace:
▆
1. └─gene$getNbEntries()
2. └─private$doGetNbEntries(count = count)
3. └─self$wsEinfo(retfmt = "parsed")
4. └─XML::xmlInternalTreeParse(results, asText = TRUE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'biodbNcbi.Rmd' failed with diagnostics:
empty or no content specified
--- failed re-building 'biodbNcbi.Rmd'
SUMMARY: processing the following file failed:
'biodbNcbi.Rmd'
Error: Vignette re-building failed.
Execution halted