##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data methylPipe
###
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##############################################################################


* checking for file ‘methylPipe/DESCRIPTION’ ... OK
* preparing ‘methylPipe’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘methylPipe.rnw’ using knitr
Warning in in_dir(input_dir(), expr) :
  You changed the working directory to /private/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/Rtmp98VZaL (probably via setwd()). It will be restored to /private/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/RtmpEOtZAk/Rbuild79f94cf8e089/methylPipe/vignettes. See the Note section in ?knitr::knit

Quitting from methylPipe.rnw:239-245 [pmeth]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `errorHandler()`:
! Internal Server Error
---
Backtrace:
     x
  1. \-methylPipe::plotMeth(...)
  2.   \-Gviz::IdeogramTrack(genome = gen, chromosome = chr)
  3.     \-methods::new(...)
  4.       +-methods::initialize(value, ...)
  5.       \-Gviz::initialize(value, ...)
  6.         \-Gviz (local) .local(.Object, ...)
  7.           \-Gviz:::.cacheGenomes(genome = genome)
  8.             +-Gviz::.doCache(...)
  9.             | +-BiocGenerics::eval(expression, envir = callEnv)
 10.             | \-base::eval(expression, envir = callEnv)
 11.             |   \-base::eval(expression, envir = callEnv)
 12.             +-rtracklayer::getTable(query)
 13.             \-rtracklayer::getTable(query)
 14.               \-rtracklayer (local) .local(object, ...)
 15.                 +-restfulr::read(url$getData$track, query)
 16.                 \-restfulr::read(url$getData$track, query)
 17.                   +-base::tryCatch(...)
 18.                   | \-base (local) tryCatchList(expr, classes, parentenv, handlers)
 19.                   |   \-base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 20.                   |     \-base (local) doTryCatch(return(expr), name, parentenv, handler)
 21.                   \-x@protocol$read(x, cacheInfo)
 22.                     \-restfulr:::handleResponse(content, reader, cache.info, x@errorHandler)
 23.                       \-restfulr (local) errorHandler(responseError)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'methylPipe.rnw' failed with diagnostics:
Internal Server Error

--- failed re-building ‘methylPipe.rnw’

SUMMARY: processing the following file failed:
  ‘methylPipe.rnw’

Error: Vignette re-building failed.
Execution halted