| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-05-05 11:37 -0400 (Tue, 05 May 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4989 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 Patched (2026-04-24 r89963) -- "Because it was There" | 4719 |
| 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 1075/2418 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| imcRtools 1.18.0 (landing page) Daniel Schulz
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| See other builds for imcRtools in R Universe. | ||||||||||||||
|
To the developers/maintainers of the imcRtools package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/imcRtools.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. |
| Package: imcRtools |
| Version: 1.18.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data imcRtools |
| StartedAt: 2026-05-04 16:47:06 -0400 (Mon, 04 May 2026) |
| EndedAt: 2026-05-04 16:47:46 -0400 (Mon, 04 May 2026) |
| EllapsedTime: 40.4 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data imcRtools
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* checking for file ‘imcRtools/DESCRIPTION’ ... OK
* preparing ‘imcRtools’:
* checking DESCRIPTION meta-information ... OK
Warning: bad markup (extra space?) at readSCEfromTIFF.Rd:27:79
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘imcRtools.Rmd’ using rmarkdown
proj_create: /opt/R/arm64/share/proj/proj.db contains DATABASE.LAYOUT.VERSION.MINOR = 2 whereas a number >= 4 is expected. It comes from another PROJ installation.
proj_create: no database context specified
Quitting from imcRtools.Rmd:403-405 [plotSpotHeatmap]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `colnames<-`:
! attempt to set 'colnames' on an object with less than two dimensions
---
Backtrace:
▆
1. └─imcRtools::plotSpotHeatmap(sce)
2. └─base::`colnames<-`(`*tmp*`, value = rowData(object)$marker_name)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'imcRtools.Rmd' failed with diagnostics:
attempt to set 'colnames' on an object with less than two dimensions
--- failed re-building ‘imcRtools.Rmd’
SUMMARY: processing the following file failed:
‘imcRtools.Rmd’
Error: Vignette re-building failed.
Execution halted