Build/check report for BioC 3.23 - BUILD results for epiNEM on nebbiolo1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences"	4851
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BUILD results for epiNEM on nebbiolo1

To the developers/maintainers of the epiNEM package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/epiNEM.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.

raw results

Summary

Package: epiNEM

Version: 1.35.0

Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data epiNEM

StartedAt: 2026-01-28 18:25:41 -0500 (Wed, 28 Jan 2026)

EndedAt: 2026-01-28 18:27:51 -0500 (Wed, 28 Jan 2026)

EllapsedTime: 130.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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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 epiNEM
###
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* checking for file ‘epiNEM/DESCRIPTION’ ... OK
* preparing ‘epiNEM’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘epiNEM.Rmd’ using rmarkdown
trying URL 'https://stringdb-downloads.org/download/protein.links.v11.0/4932.protein.links.v11.0.txt.gz'
Content type 'application/octet-stream' length 10562593 bytes (10.1 MB)
==================================================
downloaded 10.1 MB

trying URL 'https://stringdb-downloads.org/download/protein.aliases.v11.0/4932.protein.aliases.v11.0.txt.gz'

Quitting from epiNEM.Rmd:265-349 [unnamed-chunk-14]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `download.file()`:
! cannot open URL 'https://stringdb-downloads.org/download/protein.aliases.v11.0/4932.protein.aliases.v11.0.txt.gz'
---
Backtrace:
     ▆
  1. ├─string_db$get_interactions(...)
  2. │ ├─igraph::get.data.frame(get_subnetwork(string_ids), c("edges"))
  3. │ │ └─igraph::as_data_frame(x = x, what = what)
  4. │ │   └─igraph:::ensure_igraph(x)
  5. │ └─STRINGdb (local) get_subnetwork(string_ids)
  6. │   ├─igraph::induced.subgraph(graph, which(V(graph)$name %in% string_ids))
  7. │   │ └─igraph::induced_subgraph(graph = graph, vids = vids, impl = impl)
  8. │   │   └─igraph:::as_igraph_vs(graph, vids)
  9. │   ├─base::which(V(graph)$name %in% string_ids)
 10. │   └─V(graph)$name %in% string_ids
 11. └─string_db$mp(unique(unlist(strsplit(colnames(dataWag), "\\."))))
 12.   └─STRINGdb (local) map(...)
 13.     └─STRINGdb (local) get_aliases(takeFirst)
 14.       └─STRINGdb::downloadAbsentFile(...)
 15.         └─utils::download.file(urlStr, temp)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'epiNEM.Rmd' failed with diagnostics:
cannot open URL 'https://stringdb-downloads.org/download/protein.aliases.v11.0/4932.protein.aliases.v11.0.txt.gz'
--- failed re-building ‘epiNEM.Rmd’

SUMMARY: processing the following file failed:
  ‘epiNEM.Rmd’

Error: Vignette re-building failed.
Execution halted