Build/check report for BioC 3.23 experimental data - BUILD results for MetaScope on nebbiolo1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences"	4825
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*

BUILD results for MetaScope on nebbiolo1

To the developers/maintainers of the MetaScope 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.

raw results

Summary

Package: MetaScope

Version: 1.99.10

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

StartedAt: 2025-11-13 11:30:33 -0500 (Thu, 13 Nov 2025)

EndedAt: 2025-11-13 11:40:47 -0500 (Thu, 13 Nov 2025)

EllapsedTime: 614.2 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 MetaScope
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* checking for file ‘MetaScope/DESCRIPTION’ ... OK
* preparing ‘MetaScope’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘MetaScope_vignette.Rmd’ using rmarkdown

Quitting from MetaScope_vignette.Rmd:142-155 [target_lib]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `scan()`:
! cannot read from connection
---
Backtrace:
    ▆
 1. └─base::sapply(...)
 2.   └─base::lapply(X = X, FUN = FUN, ...)
 3.     └─MetaScope (local) FUN(X[[i]], ...)
 4.       └─MetaScope:::download_parentkingdom(parent_kingdom, quiet)
 5.         └─MetaScope:::get_table(parent_kingdom)
 6.           └─utils::read.table(...)
 7.             └─base::scan(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MetaScope_vignette.Rmd' failed with diagnostics:
cannot read from connection
--- failed re-building ‘MetaScope_vignette.Rmd’

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

Error: Vignette re-building failed.
Execution halted