Multiple platform build/check report for BioC 3.23 - BUILD results for BatchSVG on kjohnson3

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"	4827
lconway	macOS 12.7.6 Monterey	x86_64	R Under development (unstable) (2025-10-21 r88958) -- "Unsuffered Consequences"	4600
kjohnson3	macOS 13.7.7 Ventura	arm64	R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences"	4564
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 BatchSVG on kjohnson3

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

Version: 1.3.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BatchSVG

StartedAt: 2025-11-18 15:52:18 -0500 (Tue, 18 Nov 2025)

EndedAt: 2025-11-18 15:52:46 -0500 (Tue, 18 Nov 2025)

EllapsedTime: 28.3 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BatchSVG
###
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* checking for file ‘BatchSVG/DESCRIPTION’ ... OK
* preparing ‘BatchSVG’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘spe.Rmd’ using rmarkdown

Quitting from spe.Rmd:65-68 [load data]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `open.connection()`:
! cannot open the connection to 'https://raw.githubusercontent.com/LieberInstitute/HumanPilot/master/10X/151507/scalefactors_json.json'
---
Backtrace:
     ▆
  1. └─spatialLIBD::fetch_data(type = "spe")
  2.   └─spatialLIBD::sce_to_spe(...)
  3.     └─base::lapply(url_scaleFactors, jsonlite::read_json)
  4.       └─jsonlite (local) FUN(X[[i]], ...)
  5.         └─jsonlite::parse_json(...)
  6.           └─jsonlite:::parse_and_simplify(...)
  7.             └─jsonlite:::parseJSON(txt, bigint_as_char)
  8.               └─jsonlite:::parse_con(txt, bigint_as_char)
  9.                 ├─base::open(con, "rb")
 10.                 └─base::open.connection(con, "rb")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'spe.Rmd' failed with diagnostics:
cannot open the connection to 'https://raw.githubusercontent.com/LieberInstitute/HumanPilot/master/10X/151507/scalefactors_json.json'
--- failed re-building ‘spe.Rmd’

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

Error: Vignette re-building failed.
Execution halted