| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-03-09 11:33 -0400 (Mon, 09 Mar 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences" | 4508 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-02-28 r89501) -- "Unsuffered Consequences" | 3381 |
| 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 1354/2360 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Moonlight2R 1.9.1 (landing page) Matteo Tiberti
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | ERROR | ERROR | skipped | skipped | |||||||||
| See other builds for Moonlight2R in R Universe. | ||||||||||||||
|
To the developers/maintainers of the Moonlight2R package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Moonlight2R.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: Moonlight2R |
| Version: 1.9.1 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data Moonlight2R |
| StartedAt: 2026-03-08 18:49:30 -0400 (Sun, 08 Mar 2026) |
| EndedAt: 2026-03-08 18:50:41 -0400 (Sun, 08 Mar 2026) |
| EllapsedTime: 71.1 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 Moonlight2R
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* checking for file ‘Moonlight2R/DESCRIPTION’ ... OK
* preparing ‘Moonlight2R’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘Moonlight2R.Rmd’ using rmarkdown
Quitting from Moonlight2R.Rmd:610-612 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `open.connection()`:
! cannot open the connection
---
Backtrace:
▆
1. └─Moonlight2R::getDataGEO(GEOobject = "GSE20347", platform = "GPL571")
2. └─GEOquery::getGEO(GEOobject, GSEMatrix = TRUE, AnnotGPL = TRUE)
3. └─GEOquery:::getAndParseGSEMatrices(...)
4. └─GEOquery:::getDirListing(sprintf(gdsurl, stub, GEO))
5. ├─xml2::read_html(url)
6. └─xml2:::read_html.default(url)
7. ├─base::suppressWarnings(...)
8. │ └─base::withCallingHandlers(...)
9. ├─xml2::read_xml(x, encoding = encoding, ..., as_html = TRUE, options = options)
10. └─xml2:::read_xml.character(...)
11. └─xml2:::read_xml.connection(...)
12. ├─base::open(x, "rb")
13. └─base::open.connection(x, "rb")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'Moonlight2R.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘Moonlight2R.Rmd’
SUMMARY: processing the following file failed:
‘Moonlight2R.Rmd’
Error: Vignette re-building failed.
Execution halted