############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data org.Mxanthus.db ### ############################################################################## ############################################################################## * checking for file ‘org.Mxanthus.db/DESCRIPTION’ ... OK * preparing ‘org.Mxanthus.db’: * checking DESCRIPTION meta-information ... OK * installing the package (it is needed to build vignettes) * creating vignettes ... ERROR --- re-building ‘org.Mxanthus.db.Rmd’ using rmarkdown Quitting from org.Mxanthus.db.Rmd:109-115 [11] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: ! package or namespace load failed for 'clusterProfiler': object 'load_OrgDb' is not exported by 'namespace:GOSemSim' --- Backtrace: ▆ 1. └─base::library(clusterProfiler) 2. └─base::tryCatch(...) 3. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 4. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 5. └─value[[3L]](cond) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'org.Mxanthus.db.Rmd' failed with diagnostics: package or namespace load failed for 'clusterProfiler': object 'load_OrgDb' is not exported by 'namespace:GOSemSim' --- failed re-building ‘org.Mxanthus.db.Rmd’ SUMMARY: processing the following file failed: ‘org.Mxanthus.db.Rmd’ Error: Vignette re-building failed. Execution halted