Multiple platform build/check report for BioC 3.22 - BUILD results for hca on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4818
lconway	macOS 12.7.1 Monterey	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4596
kjohnson3	macOS 13.7.7 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4538
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4535
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 hca on kjohnson3

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

Version: 1.17.0

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

StartedAt: 2025-08-17 16:36:23 -0400 (Sun, 17 Aug 2025)

EndedAt: 2025-08-17 16:36:44 -0400 (Sun, 17 Aug 2025)

EllapsedTime: 21.2 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data hca
###
##############################################################################
##############################################################################


* checking for file ‘hca/DESCRIPTION’ ... OK
* preparing ‘hca’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘hca_manifest_vignette.Rmd’ using rmarkdown

Quitting from hca_manifest_vignette.Rmd:130-137 [unnamed-chunk-10]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.local()`:
! file.exists(con) is not TRUE
---
Backtrace:
    ▆
 1. ├─LoomExperiment::import(file_location)
 2. └─LoomExperiment::import(file_location)
 3.   ├─BiocIO::import(FileForFormat(con), ...)
 4.   └─LoomExperiment::import(FileForFormat(con), ...)
 5.     └─LoomExperiment (local) .local(con, ...)
 6.       └─base::stopifnot(file.exists(con))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'hca_manifest_vignette.Rmd' failed with diagnostics:
file.exists(con) is not TRUE
--- failed re-building ‘hca_manifest_vignette.Rmd’

--- re-building ‘hca_vignette.Rmd’ using rmarkdown

Quitting from hca_vignette.Rmd:131-136 [unnamed-chunk-7]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.local()`:
! file.exists(con) is not TRUE
---
Backtrace:
    ▆
 1. ├─LoomExperiment::import(unname(file_locations[1]), type = "SingleCellLoomExperiment")
 2. └─LoomExperiment::import(unname(file_locations[1]), type = "SingleCellLoomExperiment")
 3.   ├─BiocIO::import(FileForFormat(con), ...)
 4.   └─LoomExperiment::import(FileForFormat(con), ...)
 5.     └─LoomExperiment (local) .local(con, ...)
 6.       └─base::stopifnot(file.exists(con))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'hca_vignette.Rmd' failed with diagnostics:
file.exists(con) is not TRUE
--- failed re-building ‘hca_vignette.Rmd’

SUMMARY: processing the following files failed:
  ‘hca_manifest_vignette.Rmd’ ‘hca_vignette.Rmd’

Error: Vignette re-building failed.
Execution halted