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This page was generated on 2026-03-07 11:33 -0500 (Sat, 07 Mar 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences" 4453
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2026-02-28 r89501) -- "Unsuffered Consequences" 3376
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 72/2357HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
anndataR 1.1.2  (landing page)
Robrecht Cannoodt
Snapshot Date: 2026-03-06 13:40 -0500 (Fri, 06 Mar 2026)
git_url: https://git.bioconductor.org/packages/anndataR
git_branch: devel
git_last_commit: aa1d2a0
git_last_commit_date: 2026-02-26 16:29:10 -0500 (Thu, 26 Feb 2026)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    ERROR  skippedskipped
See other builds for anndataR in R Universe.

BUILD results for anndataR on kjohnson3

To the developers/maintainers of the anndataR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/anndataR.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: anndataR
Version: 1.1.2
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data anndataR
StartedAt: 2026-03-06 15:38:44 -0500 (Fri, 06 Mar 2026)
EndedAt: 2026-03-06 15:39:34 -0500 (Fri, 06 Mar 2026)
EllapsedTime: 50.7 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 anndataR
###
##############################################################################
##############################################################################


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

Quitting from anndataR.Rmd:16-26 [options]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'SeuratObject'
---
Backtrace:
    ▆
 1. └─base::library(SeuratObject)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'anndataR.Rmd' failed with diagnostics:
there is no package called 'SeuratObject'
--- failed re-building ‘anndataR.Rmd’

--- re-building ‘usage_python.Rmd’ using rmarkdown
Downloading h5py (2.9MiB)
 Downloading h5py
Installed 42 packages in 495ms

  0%|          | 0.00/23.5M [00:00<?, ?B/s]
 27%|██▋       | 6.32M/23.5M [00:00<00:00, 66.2MB/s]
 75%|███████▍  | 17.5M/23.5M [00:00<00:00, 96.3MB/s]
100%|██████████| 23.5M/23.5M [00:00<00:00, 96.8MB/s]
sys:1: UserWarning: Some cells have zero counts
/Users/biocbuild/Library/Caches/org.R-project.R/R/reticulate/uv/cache/archive-v0/VsRp2rAGKIbDysVpLqL5x/lib/python3.12/site-packages/scanpy/preprocessing/_simple.py:376: RuntimeWarning: invalid value encountered in log1p
  np.log1p(x, out=x)

Quitting from usage_python.Rmd:95-98 [convert_to_seurat]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `check_requires()`:
! Converting AnnData to Seurat requires the Seurat and SeuratObject
  packages
ℹ To continue, install them using `install.packages(c("Seurat",
  "SeuratObject"))`
---
Backtrace:
    ▆
 1. └─adata$as_Seurat()
 2.   └─anndataR:::as_Seurat(...)
 3.     └─anndataR:::check_requires("Converting AnnData to Seurat", c("Seurat", "SeuratObject"))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'usage_python.Rmd' failed with diagnostics:
Converting AnnData to Seurat requires the Seurat and SeuratObject
packages
ℹ To continue, install them using `install.packages(c("Seurat",
  "SeuratObject"))`
--- failed re-building ‘usage_python.Rmd’

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

Quitting from usage_seurat.Rmd:39-44 [prep-file]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'Seurat'
---
Backtrace:
    ▆
 1. └─base::library(Seurat)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'usage_seurat.Rmd' failed with diagnostics:
there is no package called 'Seurat'
--- failed re-building ‘usage_seurat.Rmd’

--- re-building ‘usage_singlecellexperiment.Rmd’ using rmarkdown
--- finished re-building ‘usage_singlecellexperiment.Rmd’

SUMMARY: processing the following files failed:
  ‘anndataR.Rmd’ ‘usage_python.Rmd’ ‘usage_seurat.Rmd’

Error: Vignette re-building failed.
Execution halted