| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-04-13 11:36 -0400 (Mon, 13 Apr 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 alpha (2026-04-05 r89794) | 4919 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 alpha (2026-04-08 r89818) | 4632 |
| 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 2172/2390 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| STRINGdb 2.23.0 (landing page) Damian Szklarczyk
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| See other builds for STRINGdb in R Universe. | ||||||||||||||
|
To the developers/maintainers of the STRINGdb package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/STRINGdb.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: STRINGdb |
| Version: 2.23.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data STRINGdb |
| StartedAt: 2026-04-12 18:00:38 -0400 (Sun, 12 Apr 2026) |
| EndedAt: 2026-04-12 18:02:43 -0400 (Sun, 12 Apr 2026) |
| EllapsedTime: 124.3 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 STRINGdb
###
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* checking for file ‘STRINGdb/DESCRIPTION’ ... OK
* preparing ‘STRINGdb’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘STRINGdb.Rnw’ using Sweave
Registered S3 method overwritten by 'bit64':
method from
print.bitstring tools
trying URL 'https://stringdb-downloads.org/download/protein.aliases.v12.0/9606.protein.aliases.v12.0.txt.gz'
Content type 'application/octet-stream' length 19777800 bytes (18.9 MB)
==================================================
downloaded 18.9 MB
trying URL 'https://stringdb-downloads.org/download/protein.info.v12.0/9606.protein.info.v12.0.txt.gz'
Content type 'application/octet-stream' length 1970090 bytes (1.9 MB)
==================================================
downloaded 1.9 MB
trying URL 'https://stringdb-downloads.org/download/stream/protein.links.detailed.v12.0/9606.protein.links.detailed.v12.0.min400.txt.gz'
downloaded 21.9 MB
Error: processing vignette 'STRINGdb.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'STRINGdb.tex' failed.
LaTeX errors:
! Undefined control sequence.
l.68 ... the R session is closed. By setting \code
{link_data="detailed"} we ...
?
! Emergency stop.
l.68
End of file on the terminal!
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘STRINGdb.Rnw’
SUMMARY: processing the following file failed:
‘STRINGdb.Rnw’
Error: Vignette re-building failed.
Execution halted