| Back to Rapid builds (Linux only) of a subset of BioC 3.23 Report updated every 6 hours |
This page was generated on 2026-04-28 16:18 -0400 (Tue, 28 Apr 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-22 r89945) -- "Because it was There" | 919 |
| 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 11/231 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | |||||||
| annotate 1.91.0 (landing page) Bioconductor Package Maintainer
| teran2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | |||||||
|
To the developers/maintainers of the annotate package: - 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: annotate |
| Version: 1.91.0 |
| Command: /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data annotate |
| StartedAt: 2026-04-28 12:31:28 -0400 (Tue, 28 Apr 2026) |
| EndedAt: 2026-04-28 12:32:17 -0400 (Tue, 28 Apr 2026) |
| EllapsedTime: 49.5 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data annotate
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* checking for file ‘annotate/DESCRIPTION’ ... OK
* preparing ‘annotate’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘chromLOC.Rmd’ using rmarkdown
--- finished re-building ‘chromLOC.Rmd’
--- re-building ‘useDataPkgs.Rmd’ using rmarkdown
--- finished re-building ‘useDataPkgs.Rmd’
--- re-building ‘GOusage.Rnw’ using Sweave
Attaching package: ‘graph’
The following object is masked from ‘package:XML’:
addNode
Attaching package: ‘Rgraphviz’
The following object is masked from ‘package:annotate’:
toFile
The following objects are masked from ‘package:IRanges’:
from, to
The following objects are masked from ‘package:S4Vectors’:
from, to
--- finished re-building ‘GOusage.Rnw’
--- re-building ‘annotate.Rnw’ using Sweave
--- finished re-building ‘annotate.Rnw’
--- re-building ‘prettyOutput.Rnw’ using Sweave
--- finished re-building ‘prettyOutput.Rnw’
--- re-building ‘query.Rnw’ using Sweave
Read 4 items
Error: processing vignette 'query.Rnw' failed with diagnostics:
chunk 6
Error in file(file, "r") :
cannot open the connection to 'https://www.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?tool=bioconductor&rettype=xml&retmode=text&db=gene&id=1939271%2c2449431%2c7729427%2c7835343%2c7836461%2c7933101%2c8121496%2c8680883%2c8764009%2c8764062'
--- failed re-building ‘query.Rnw’
--- re-building ‘useProbeInfo.Rnw’ using Sweave
Loading required package: org.Rn.eg.db
Loading required package: XVector
Loading required package: Seqinfo
Attaching package: ‘Biostrings’
The following object is masked from ‘package:graph’:
complement
The following object is masked from ‘package:base’:
strsplit
--- finished re-building ‘useProbeInfo.Rnw’
SUMMARY: processing the following file failed:
‘query.Rnw’
Error: Vignette re-building failed.
In addition: Warning message:
In file(file, "r") :
cannot open URL 'https://www.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?tool=bioconductor&rettype=xml&retmode=text&db=gene&id=1939271%2c2449431%2c7729427%2c7835343%2c7836461%2c7933101%2c8121496%2c8680883%2c8764009%2c8764062': HTTP status was '400 Bad Request'
Execution halted