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This page was generated on 2025-09-29 11:40 -0400 (Mon, 29 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4827
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4608
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4549
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4580
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 312/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cellxgenedp 1.12.1  (landing page)
Martin Morgan
Snapshot Date: 2025-09-25 13:40 -0400 (Thu, 25 Sep 2025)
git_url: https://git.bioconductor.org/packages/cellxgenedp
git_branch: RELEASE_3_21
git_last_commit: 14ad312
git_last_commit_date: 2025-07-08 13:23:02 -0400 (Tue, 08 Jul 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    ERROR  skippedskipped
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  

BUILD results for cellxgenedp on kjohnson1

To the developers/maintainers of the cellxgenedp package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cellxgenedp.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: cellxgenedp
Version: 1.12.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data cellxgenedp
StartedAt: 2025-09-25 20:51:49 -0400 (Thu, 25 Sep 2025)
EndedAt: 2025-09-25 20:52:12 -0400 (Thu, 25 Sep 2025)
EllapsedTime: 22.9 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 cellxgenedp
###
##############################################################################
##############################################################################


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

Quitting from a_using_cellxgenedp.Rmd:89-91 [unnamed-chunk-6]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.cellxgene_cache_get()`:
! Internal Server Error (HTTP 500).
---
Backtrace:
    ▆
 1. └─cellxgenedp::db()
 2.   └─cellxgenedp:::.db(overwrite)
 3.     └─cellxgenedp:::.cellxgene_cache_get(...)
 4.       └─httr::stop_for_status(response)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'a_using_cellxgenedp.Rmd' failed with diagnostics:
Internal Server Error (HTTP 500).
--- failed re-building ‘a_using_cellxgenedp.Rmd’

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

Quitting from b_case_studies.Rmd:68-76 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.cellxgene_cache_get()`:
! Internal Server Error (HTTP 500).
---
Backtrace:
     ▆
  1. ├─dplyr::left_join(...)
  2. └─cellxgenedp::authors()
  3.   ├─rjsoncons::j_query(cellxgene_db, "[?not_null(publisher_metadata)]")
  4.   │ ├─rjsoncons:::.j_valid(...)
  5.   │ │ ├─base::stopifnot(...)
  6.   │ │ └─rjsoncons:::.is_j_data_type(data_type)
  7.   │ └─rjsoncons::j_data_type(data)
  8.   └─cellxgenedp::db()
  9.     └─cellxgenedp:::.db(overwrite)
 10.       └─cellxgenedp:::.cellxgene_cache_get(...)
 11.         └─httr::stop_for_status(response)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'b_case_studies.Rmd' failed with diagnostics:
Internal Server Error (HTTP 500).
--- failed re-building ‘b_case_studies.Rmd’

SUMMARY: processing the following files failed:
  ‘a_using_cellxgenedp.Rmd’ ‘b_case_studies.Rmd’

Error: Vignette re-building failed.
Execution halted