############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data concordexR ### ############################################################################## ############################################################################## * checking for file ‘concordexR/DESCRIPTION’ ... OK * preparing ‘concordexR’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘concordex-nonspatial.Rmd’ using rmarkdown Quitting from lines 45-53 [setup] (concordex-nonspatial.Rmd) Error: processing vignette 'concordex-nonspatial.Rmd' failed with diagnostics: there is no package called 'scater' --- failed re-building ‘concordex-nonspatial.Rmd’ --- re-building ‘overview.Rmd’ using rmarkdown Quitting from lines 46-50 [example] (overview.Rmd) Error: processing vignette 'overview.Rmd' failed with diagnostics: failed to load resource name: EH7561 title: Small demo subset of mouse skeletal muscle Visium data reason: require("SpatialFeatureExperiment") failed: use BiocManager::install() to install package? --- failed re-building ‘overview.Rmd’ SUMMARY: processing the following files failed: ‘concordex-nonspatial.Rmd’ ‘overview.Rmd’ Error: Vignette re-building failed. Execution halted