############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data schex ### ############################################################################## ############################################################################## * checking for file ‘schex/DESCRIPTION’ ... OK * preparing ‘schex’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘Seurat_schex.Rmd’ using rmarkdown Warning: The vignette title specified in \VignetteIndexEntry{} is different from the title in the YAML metadata. The former is "Seurat_schex", and the latter is "Using schex with Seurat". If that is intentional, you may set options(rmarkdown.html_vignette.check_title = FALSE) to suppress this check. --- finished re-building ‘Seurat_schex.Rmd’ --- re-building ‘multi_modal_schex.Rmd’ using rmarkdown Warning: The vignette title specified in \VignetteIndexEntry{} is different from the title in the YAML metadata. The former is "multi_modal_schex", and the latter is "Exploring multi-modal single cell data with schex". If that is intentional, you may set options(rmarkdown.html_vignette.check_title = FALSE) to suppress this check. --- finished re-building ‘multi_modal_schex.Rmd’ --- re-building ‘picking_the_right_resolution.Rmd’ using rmarkdown Warning: The vignette title specified in \VignetteIndexEntry{} is different from the title in the YAML metadata. The former is "picking_the_right_resolution", and the latter is "Picking the right resolution". If that is intentional, you may set options(rmarkdown.html_vignette.check_title = FALSE) to suppress this check. --- finished re-building ‘picking_the_right_resolution.Rmd’ --- re-building ‘shiny_schex.Rmd’ using rmarkdown Warning: The vignette title specified in \VignetteIndexEntry{} is different from the title in the YAML metadata. The former is "shiny_schhex", and the latter is "Communicating results with schex and shinydashboard or iSEE". If that is intentional, you may set options(rmarkdown.html_vignette.check_title = FALSE) to suppress this check. --- finished re-building ‘shiny_schex.Rmd’ --- re-building ‘using_schex.Rmd’ using rmarkdown 2023-10-15 21:06:24.390 R[23074:971846025] XType: com.apple.fonts is not accessible. 2023-10-15 21:06:24.391 R[23074:971846025] XType: XTFontStaticRegistry is enabled. Quitting from lines 213-216 [unnamed-chunk-2] (using_schex.Rmd) Error: processing vignette 'using_schex.Rmd' failed with diagnostics: Problem while converting geom to grob. ℹ Error occurred in the 2nd layer. Caused by error in `match_font_c()`: ! bad value --- failed re-building ‘using_schex.Rmd’ SUMMARY: processing the following file failed: ‘using_schex.Rmd’ Error: Vignette re-building failed. Execution halted