| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-07-22 12:10 -0400 (Tue, 22 Jul 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4791 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4527 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4572 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4513 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4510 |
| 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 70/2311 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| annotate 1.87.0 (landing page) Bioconductor Package Maintainer
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the annotate package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/annotate.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: annotate |
| Version: 1.87.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data annotate |
| StartedAt: 2025-07-21 15:36:08 -0400 (Mon, 21 Jul 2025) |
| EndedAt: 2025-07-21 15:36:38 -0400 (Mon, 21 Jul 2025) |
| EllapsedTime: 29.3 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 annotate
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* checking for file ‘annotate/DESCRIPTION’ ... OK
* preparing ‘annotate’:
* checking DESCRIPTION meta-information ... OK
* installing the package 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
Read 3402 items
--- finished 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:grid’:
pattern
The following object is masked from ‘package:graph’:
complement
The following object is masked from ‘package:base’:
strsplit
Error: processing vignette 'useProbeInfo.Rnw' failed with diagnostics:
chunk 4 (label = getRev)
Error in file(con, "r") :
cannot open the connection to 'https://www.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=nucleotide&rettype=fasta&id=AI406693'
--- failed re-building ‘useProbeInfo.Rnw’
SUMMARY: processing the following file failed:
‘useProbeInfo.Rnw’
Error: Vignette re-building failed.
In addition: Warning message:
In file(con, "r") :
cannot open URL 'https://www.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=nucleotide&rettype=fasta&id=AI406693': HTTP status was '429 Unknown Error'
Execution halted