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This page was generated on 2026-04-18 11:37 -0400 (Sat, 18 Apr 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.4 LTS)x86_644.6.0 alpha (2026-04-05 r89794) 4957
kjohnson3macOS 13.7.7 Venturaarm644.6.0 alpha (2026-04-08 r89818) 4686
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4627
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 462/2404HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
COTAN 2.11.4  (landing page)
Galfrè Silvia Giulia
Snapshot Date: 2026-04-17 13:40 -0400 (Fri, 17 Apr 2026)
git_url: https://git.bioconductor.org/packages/COTAN
git_branch: devel
git_last_commit: 3b79cc3
git_last_commit_date: 2026-03-19 05:12:28 -0400 (Thu, 19 Mar 2026)
nebbiolo1Linux (Ubuntu 24.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped
See other builds for COTAN in R Universe.

BUILD results for COTAN on kunpeng2

To the developers/maintainers of the COTAN package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/COTAN.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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: COTAN
Version: 2.11.4
Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data COTAN
StartedAt: 2026-04-16 23:05:28 -0000 (Thu, 16 Apr 2026)
EndedAt: 2026-04-16 23:25:01 -0000 (Thu, 16 Apr 2026)
EllapsedTime: 1173.4 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data COTAN
###
##############################################################################
##############################################################################


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

Quitting from Cleaning_GuidedTutorial.Rmd:220-222 [cells-size-plot]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `use_defaults()`:
! unused argument (theme = list(<object>, <object>, <object>, <object>, <object>, <object>, <object>, 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, <object>, <object>, NULL, <object>, NULL, <object>, <object>, <object>, <object>, NULL, <object>, NULL, <object>, NULL, <object>, <object>, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, <object>, NULL, NULL, NULL, NULL, NULL, 
    NULL, NULL, NULL, <object>, NULL, 2, NULL, NULL, <object>, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, <object>, NULL, <object>, NULL, "none", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(0, 0, 0, 0), <object>, 2, <object>, <object>, NULL, NULL, NULL, <object>, NULL, <object>, NULL, NULL, NULL, NULL, FALSE, NULL, NULL, <object>, <object>, "panel", <object>, <object>, "panel", <object>, "topleft", NULL, NULL, <object>, NULL, NULL, "on", "inside", 
    <object>, NULL, NULL, NULL, <object>, <object>, NULL, 2.75, 2.75))
---
Backtrace:
     ▆
  1. ├─base::plot(cellSizePlot(obj, condName = "origin"))
  2. └─ggplot2 (local) `plot.ggplot2::ggplot`(cellSizePlot(obj, condName = "origin"))
  3.   ├─ggplot2::ggplot_build(x)
  4.   └─ggplot2 (local) `ggplot_build.ggplot2::ggplot`(x)
  5.     └─plot@guides$build(npscales, plot@layers, plot@labels, data, plot@theme)
  6.       └─ggplot2 (local) build(..., self = self)
  7.         └─guides$process_layers(layers, layer_data, theme)
  8.           └─ggplot2 (local) process_layers(..., self = self)
  9.             └─base::Map(...)
 10.               └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
 11.                 └─ggplot2 (local) `<fn>`(guide = dots[[1L]][[2L]], param = dots[[2L]][[2L]])
 12.                   └─guide$process_layers(param, layers, data, theme)
 13.                     └─ggplot2 (local) process_layers(..., self = self)
 14.                       └─self$get_layer_key(params, layers[include], data[include], theme)
 15.                         └─ggplot2 (local) get_layer_key(...)
 16.                           └─base::Map(...)
 17.                             └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
 18.                               └─ggplot2 (local) `<fn>`(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]])
 19.                                 └─layer$compute_geom_2(key, single_params, theme)
 20.                                   └─ggplot2 (local) compute_geom_2(..., self = self)
 21.                                     └─self$geom$use_defaults(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'Cleaning_GuidedTutorial.Rmd' failed with diagnostics:
unused argument (theme = list(<object>, <object>, <object>, <object>, <object>, <object>, <object>, 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, <object>, <object>, NULL, <object>, NULL, <object>, <object>, <object>, <object>, NULL, <object>, NULL, <object>, NULL, <object>, <object>, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, <object>, NULL, NULL, NULL, NULL, NULL, 
    NULL, NULL, NULL, <object>, NULL, 2, NULL, NULL, <object>, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, <object>, NULL, <object>, NULL, "none", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(0, 0, 0, 0), <object>, 2, <object>, <object>, NULL, NULL, NULL, <object>, NULL, <object>, NULL, NULL, NULL, NULL, FALSE, NULL, NULL, <object>, <object>, "panel", <object>, <object>, "panel", <object>, "topleft", NULL, NULL, <object>, NULL, NULL, "on", "inside", 
    <object>, NULL, NULL, NULL, <object>, <object>, NULL, 2.75, 2.75))
--- failed re-building ‘Cleaning_GuidedTutorial.Rmd’

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

Quitting from DiffExprAnalysis_GuidedTutorial.Rmd:510-520 [cl-data-visualization_found-markers]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! invalid `%<-%` right-hand side, incorrect number of values
---
Backtrace:
    ▆
 1. └─c(mergeHeatmap, ..) %<-% ...
 2.   └─base::tryCatch(...)
 3.     └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 4.       └─base (local) tryCatchOne(...)
 5.         └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'DiffExprAnalysis_GuidedTutorial.Rmd' failed with diagnostics:
invalid `%<-%` right-hand side, incorrect number of values
--- failed re-building ‘DiffExprAnalysis_GuidedTutorial.Rmd’

--- re-building ‘GenesClustering_GuidedTutorial.Rmd’ using rmarkdown
Using method 'umap'
0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
--- finished re-building ‘GenesClustering_GuidedTutorial.Rmd’

--- re-building ‘UniformClustering_GuidedTutorial.Rmd’ using rmarkdown
Performing log-normalization
0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Calculating gene variances
0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Calculating feature variances of standardized and clipped values
0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Using method 'umap'
0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|

Quitting from UniformClustering_GuidedTutorial.Rmd:566-576 [clusterization-data-visualization_merge-vs-split}]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! invalid `%<-%` right-hand side, incorrect number of values
---
Backtrace:
    ▆
 1. └─c(mergeVsSplitHeatmap, ..) %<-% ...
 2.   └─base::tryCatch(...)
 3.     └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 4.       └─base (local) tryCatchOne(...)
 5.         └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'UniformClustering_GuidedTutorial.Rmd' failed with diagnostics:
invalid `%<-%` right-hand side, incorrect number of values
--- failed re-building ‘UniformClustering_GuidedTutorial.Rmd’

SUMMARY: processing the following files failed:
  ‘Cleaning_GuidedTutorial.Rmd’ ‘DiffExprAnalysis_GuidedTutorial.Rmd’
  ‘UniformClustering_GuidedTutorial.Rmd’

Error: Vignette re-building failed.
Execution halted