############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 cageminer ### ############################################################################## ############################################################################## * checking for file ‘cageminer/DESCRIPTION’ ... OK * preparing ‘cageminer’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘cageminer.Rmd’ using rmarkdown Loading required namespace: cageminer Quitting from cageminer.Rmd:105-107 [snp_circos] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `validObject()`: ! invalid class "GGbio" object: invalid object for slot "ggplot" in class "GGbio": got class "ggplot2::ggplot", should be or extend class "gg_OR_NULL" --- Backtrace: ▆ 1. └─cageminer::plot_snp_circos(chr_length, gene_ranges, snp_pos) 2. └─ggbio::ggbio() 3. ├─BiocGenerics::do.call(...) 4. ├─base::do.call(...) 5. └─methods (local) ``(...) 6. ├─methods::initialize(value, ...) 7. └─methods::initialize(value, ...) 8. └─methods::validObject(.Object) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'cageminer.Rmd' failed with diagnostics: invalid class "GGbio" object: invalid object for slot "ggplot" in class "GGbio": got class "ggplot2::ggplot", should be or extend class "gg_OR_NULL" --- failed re-building ‘cageminer.Rmd’ SUMMARY: processing the following file failed: ‘cageminer.Rmd’ Error: Vignette re-building failed. Execution halted