##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data GDCRNATools
###
##############################################################################
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* checking for file ‘GDCRNATools/DESCRIPTION’ ... OK
* preparing ‘GDCRNATools’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘GDCRNATools.Rmd’ using rmarkdown


Registered S3 method overwritten by 'ggtree':
  method      from 
  identify.gg ggfun
##############################################################################
Pathview is an open source software package distributed under GNU General
Public License version 3 (GPLv3). Details of GPLv3 is available at
http://www.gnu.org/licenses/gpl-3.0.html. Particullary, users are required to
formally cite the original Pathview paper (not just mention it) in publications
or products. For details, do citation("pathview") within R.

The pathview downloads and uses KEGG data. Non-academic uses may require a KEGG
license agreement (details at http://www.kegg.jp/kegg/legal.html).
##############################################################################
Removed 0 samples
Removed 0 samples
Quitting from lines 110-125 (GDCRNATools.Rmd) 
Error: processing vignette 'GDCRNATools.Rmd' failed with diagnostics:
contrasts can be applied only to factors with 2 or more levels
--- failed re-building ‘GDCRNATools.Rmd’

--- re-building ‘index.Rmd’ using rmarkdown
--- finished re-building ‘index.Rmd’

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

Error: Vignette re-building failed.
Execution halted