##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r ELMER -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data ELMER
###
##############################################################################
##############################################################################


* checking for file 'ELMER/DESCRIPTION' ... OK
* preparing 'ELMER':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'analysis_data_input.Rmd' using rmarkdown
--- finished re-building 'analysis_data_input.Rmd'

--- re-building 'analysis_diff_meth.Rmd' using rmarkdown
--- finished re-building 'analysis_diff_meth.Rmd'

--- re-building 'analysis_get_pair.Rmd' using rmarkdown
--- finished re-building 'analysis_get_pair.Rmd'

--- re-building 'analysis_gui.Rmd' using rmarkdown
--- finished re-building 'analysis_gui.Rmd'

--- re-building 'analysis_motif_enrichment.Rmd' using rmarkdown
--- finished re-building 'analysis_motif_enrichment.Rmd'

--- re-building 'analysis_regulatory_tf.Rmd' using rmarkdown
--- finished re-building 'analysis_regulatory_tf.Rmd'

--- re-building 'index.Rmd' using rmarkdown
--- finished re-building 'index.Rmd'

--- re-building 'input.Rmd' using rmarkdown
--- finished re-building 'input.Rmd'

--- re-building 'pipe.Rmd' using rmarkdown
--- finished re-building 'pipe.Rmd'

--- re-building 'plots_TF.Rmd' using rmarkdown
Warning: ggrepel: 66 unlabeled data points (too many overlaps). Consider increasing max.overlaps
--- finished re-building 'plots_TF.Rmd'

--- re-building 'plots_heatmap.Rmd' using rmarkdown
--- finished re-building 'plots_heatmap.Rmd'

--- re-building 'plots_motif_enrichment.Rmd' using rmarkdown
--- finished re-building 'plots_motif_enrichment.Rmd'

--- re-building 'plots_scatter.Rmd' using rmarkdown
--- finished re-building 'plots_scatter.Rmd'

--- re-building 'plots_schematic.Rmd' using rmarkdown

Quitting from plots_schematic.Rmd:43-51 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `errorHandler()`:
! Internal Server Error
---
Backtrace:
     ▆
  1. └─ELMER::schematic.plot(...)
  2.   ├─base::suppressWarnings(...)
  3.   │ └─base::withCallingHandlers(...)
  4.   └─ELMER:::schematic(...)
  5.     └─Gviz::IdeogramTrack(genome = metadata(data)$genome, chromosome = chr)
  6.       └─methods::new(...)
  7.         ├─methods::initialize(value, ...)
  8.         └─Gviz::initialize(value, ...)
  9.           └─Gviz (local) .local(.Object, ...)
 10.             └─Gviz:::.cacheGenomes(genome = genome)
 11.               ├─Gviz::.doCache(...)
 12.               │ ├─BiocGenerics::eval(expression, envir = callEnv)
 13.               │ └─base::eval(expression, envir = callEnv)
 14.               │   └─base::eval(expression, envir = callEnv)
 15.               ├─rtracklayer::getTable(query)
 16.               └─rtracklayer::getTable(query)
 17.                 └─rtracklayer (local) .local(object, ...)
 18.                   ├─restfulr::read(url$getData$track, query)
 19.                   └─restfulr::read(url$getData$track, query)
 20.                     ├─base::tryCatch(...)
 21.                     │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 22.                     │   └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 23.                     │     └─base (local) doTryCatch(return(expr), name, parentenv, handler)
 24.                     └─x@protocol$read(x, cacheInfo)
 25.                       └─restfulr:::handleResponse(content, reader, cache.info, x@errorHandler)
 26.                         └─restfulr (local) errorHandler(responseError)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'plots_schematic.Rmd' failed with diagnostics:
Internal Server Error

--- failed re-building 'plots_schematic.Rmd'

--- re-building 'usecase.Rmd' using rmarkdown
--- finished re-building 'usecase.Rmd'

SUMMARY: processing the following file failed:
  'plots_schematic.Rmd'

Error: Vignette re-building failed.
Execution halted