############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data SpatialDecon ### ############################################################################## ############################################################################## * checking for file ‘SpatialDecon/DESCRIPTION’ ... OK * preparing ‘SpatialDecon’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘SpatialDecon_vignette.Rmd’ using rmarkdown 2025-12-15 23:20:29.949 R[55286:128482647] XType: com.apple.fonts is not accessible. 2025-12-15 23:20:29.950 R[55286:128482647] XType: XTFontStaticRegistry is enabled. Quitting from SpatialDecon_vignette.Rmd:207-239 [createSeuratmatrix] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'SpatialDecon_vignette.Rmd' failed with diagnostics: The `slot` argument of `GetAssayData()` was deprecated in SeuratObject 5.0.0 and is now defunct. ℹ Please use the `layer` argument instead. --- failed re-building ‘SpatialDecon_vignette.Rmd’ --- re-building ‘SpatialDecon_vignette_NSCLC.Rmd’ using rmarkdown --- finished re-building ‘SpatialDecon_vignette_NSCLC.Rmd’ SUMMARY: processing the following file failed: ‘SpatialDecon_vignette.Rmd’ Error: Vignette re-building failed. Execution halted