##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data MesKit
###
##############################################################################
##############################################################################


* checking for file ‘MesKit/DESCRIPTION’ ... OK
* preparing ‘MesKit’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MesKit.Rmd’ using rmarkdown

Quitting from MesKit.Rmd:433-449 [unnamed-chunk-25]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `file()`:
! cannot open the connection to 'https://rest.kegg.jp/link/hsa/pathway'
---
Backtrace:
     ▆
  1. └─clusterProfiler::enrichKEGG(...)
  2.   └─clusterProfiler:::prepare_KEGG(species, "KEGG", keyType)
  3.     └─clusterProfiler::download_KEGG(species, KEGG_Type, keyType)
  4.       └─clusterProfiler:::download.KEGG.Path(species)
  5.         └─clusterProfiler:::kegg_link(species, "pathway")
  6.           └─clusterProfiler:::kegg_rest(url)
  7.             └─yulab.utils::yread(rest_url)
  8.               ├─base::do.call(reader, args = c(file, params))
  9.               └─base (local) `<fn>`("https://rest.kegg.jp/link/hsa/pathway")
 10.                 └─base::file(con, "r")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MesKit.Rmd' failed with diagnostics:
cannot open the connection to 'https://rest.kegg.jp/link/hsa/pathway'
--- failed re-building ‘MesKit.Rmd’

SUMMARY: processing the following file failed:
  ‘MesKit.Rmd’

Error: Vignette re-building failed.
Execution halted