############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data OmnipathR ### ############################################################################## ############################################################################## * checking for file ‘OmnipathR/DESCRIPTION’ ... OK * preparing ‘OmnipathR’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘bioc_workshop.Rmd’ using rmarkdown Error: processing vignette 'bioc_workshop.Rmd' failed with diagnostics: Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. --- failed re-building ‘bioc_workshop.Rmd’ --- re-building ‘cosmos.Rmd’ using rmarkdown Error: processing vignette 'cosmos.Rmd' failed with diagnostics: Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. --- failed re-building ‘cosmos.Rmd’ --- re-building ‘db_manager.Rmd’ using rmarkdown Error: processing vignette 'db_manager.Rmd' failed with diagnostics: Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. --- failed re-building ‘db_manager.Rmd’ --- re-building ‘drug_targets.Rmd’ using rmarkdown Error: processing vignette 'drug_targets.Rmd' failed with diagnostics: Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. --- failed re-building ‘drug_targets.Rmd’ --- re-building ‘extra_attrs.Rmd’ using rmarkdown Error: processing vignette 'extra_attrs.Rmd' failed with diagnostics: Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. --- failed re-building ‘extra_attrs.Rmd’ --- re-building ‘nichenet.Rmd’ using rmarkdown Error: processing vignette 'nichenet.Rmd' failed with diagnostics: Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. --- failed re-building ‘nichenet.Rmd’ --- re-building ‘omnipath_intro.Rmd’ using rmarkdown Error: processing vignette 'omnipath_intro.Rmd' failed with diagnostics: Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. --- failed re-building ‘omnipath_intro.Rmd’ --- re-building ‘paths.Rmd’ using rmarkdown Error: processing vignette 'paths.Rmd' failed with diagnostics: Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. --- failed re-building ‘paths.Rmd’ SUMMARY: processing the following files failed: ‘bioc_workshop.Rmd’ ‘cosmos.Rmd’ ‘db_manager.Rmd’ ‘drug_targets.Rmd’ ‘extra_attrs.Rmd’ ‘nichenet.Rmd’ ‘omnipath_intro.Rmd’ ‘paths.Rmd’ Error: Vignette re-building failed. Execution halted