############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data scviR ### ############################################################################## ############################################################################## * checking for file ‘scviR/DESCRIPTION’ ... OK * preparing ‘scviR’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘citeseq_tut.Rmd’ using rmarkdown --- finished re-building ‘citeseq_tut.Rmd’ --- re-building ‘compch12.Rmd’ using rmarkdown /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.21.5/scviR/1.9.11/bsklenv/lib/python3.10/site-packages/anndata/__init__.py:42: FutureWarning: `anndata.read` is deprecated, use `anndata.read_h5ad` instead. `ad.read` will be removed in mid 2024. warnings.warn( 2025-07-07 17:31:08.063 R[37678:261633567] XType: Using static font registry. --- finished re-building ‘compch12.Rmd’ --- re-building ‘new_citeseq.Rmd’ using rmarkdown Quitting from new_citeseq.Rmd:41-48 [doe44] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `py_module_import()`: ! OSError: Could not find/load shared object file Run `reticulate::py_last_error()` for details. --- Backtrace: ▆ 1. └─scviR::muonR() 2. └─basilisk::basiliskRun(...) 3. └─scviR (local) fun(...) 4. └─reticulate::import("muon") 5. └─reticulate:::py_module_import(module, convert = convert) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'new_citeseq.Rmd' failed with diagnostics: OSError: Could not find/load shared object file Run `reticulate::py_last_error()` for details. --- failed re-building ‘new_citeseq.Rmd’ --- re-building ‘scviR.Rmd’ using rmarkdown --- finished re-building ‘scviR.Rmd’ SUMMARY: processing the following file failed: ‘new_citeseq.Rmd’ Error: Vignette re-building failed. Execution halted