############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BiocParallel ### ############################################################################## ############################################################################## * checking for file ‘BiocParallel/DESCRIPTION’ ... OK * preparing ‘BiocParallel’: * checking DESCRIPTION meta-information ... OK * cleaning src * running ‘cleanup’ * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘BiocParallel_BatchtoolsParam.Rmd’ using rmarkdown Quitting from BiocParallel_BatchtoolsParam.Rmd:36-50 [intro_example] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `BatchtoolsParam()`: ! BatchtoolsParam() requires 'batchtools' package --- Backtrace: ▆ 1. └─BiocParallel::BatchtoolsParam() ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'BiocParallel_BatchtoolsParam.Rmd' failed with diagnostics: BatchtoolsParam() requires 'batchtools' package --- failed re-building ‘BiocParallel_BatchtoolsParam.Rmd’ --- re-building ‘Errors_Logs_And_Debugging.Rmd’ using rmarkdown --- finished re-building ‘Errors_Logs_And_Debugging.Rmd’ --- re-building ‘Introduction_To_BiocParallel.Rmd’ using rmarkdown Quitting from Introduction_To_BiocParallel.Rmd:260-263 [register_BatchtoolsParam] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `BatchtoolsParam()`: ! BatchtoolsParam() requires 'batchtools' package --- Backtrace: ▆ 1. ├─BiocParallel::register(BatchtoolsParam(workers = 10), default = TRUE) 2. │ └─BiocParallel:::.register(BPPARAM, default = default) 3. │ └─base::eval(BPPARAM) 4. └─BiocParallel::BatchtoolsParam(workers = 10) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Introduction_To_BiocParallel.Rmd' failed with diagnostics: BatchtoolsParam() requires 'batchtools' package --- failed re-building ‘Introduction_To_BiocParallel.Rmd’ --- re-building ‘Random_Numbers.Rmd’ using rmarkdown --- finished re-building ‘Random_Numbers.Rmd’ SUMMARY: processing the following files failed: ‘BiocParallel_BatchtoolsParam.Rmd’ ‘Introduction_To_BiocParallel.Rmd’ Error: Vignette re-building failed. Execution halted