Back to Multiple platform build/check report for BioC 3.11
ABCDEFGHIJKLMNOPQR[S]TUVWXYZ

BUILD report for splatter on celaya2

This page was generated on 2020-01-16 13:47:02 -0500 (Thu, 16 Jan 2020).

Package 1640/1818HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
splatter 1.11.0
Luke Zappia
Snapshot Date: 2020-01-15 16:46:30 -0500 (Wed, 15 Jan 2020)
URL: https://git.bioconductor.org/packages/splatter
Branch: master
Last Commit: c299ff2
Last Changed Date: 2019-12-13 05:13:48 -0500 (Fri, 13 Dec 2019)
malbec2 Linux (Ubuntu 18.04.3 LTS) / x86_64  OK  ERROR  skipped 
tokay2 Windows Server 2012 R2 Standard / x64  OK  ERROR  skipped  skipped 
celaya2 OS X 10.11.6 El Capitan / x86_64  OK [ ERROR ] skipped  skipped 

Summary

Package: splatter
Version: 1.11.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data splatter
StartedAt: 2020-01-15 23:15:53 -0500 (Wed, 15 Jan 2020)
EndedAt: 2020-01-15 23:17:04 -0500 (Wed, 15 Jan 2020)
EllapsedTime: 71.7 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

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


* checking for file ‘splatter/DESCRIPTION’ ... OK
* preparing ‘splatter’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘splat_params.Rmd’ using rmarkdown
Quitting from lines 141-147 (splat_params.Rmd) 
Error: processing vignette 'splat_params.Rmd' failed with diagnostics:
'normalize' is defunct.
Use ''normalize,SingleCellExperiment-method' is defunct.
Use 'logNormCounts' instead' instead.
See help("Defunct")
--- failed re-building ‘splat_params.Rmd’

--- re-building ‘splatter.Rmd’ using rmarkdown
Quitting from lines 228-232 (splatter.Rmd) 
Error: processing vignette 'splatter.Rmd' failed with diagnostics:
'normalize' is defunct.
Use ''normalize,SingleCellExperiment-method' is defunct.
Use 'logNormCounts' instead' instead.
See help("Defunct")
--- failed re-building ‘splatter.Rmd’

SUMMARY: processing the following files failed:
  ‘splat_params.Rmd’ ‘splatter.Rmd’

Error: Vignette re-building failed.
Execution halted