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


* checking for file ‘piano/DESCRIPTION’ ... OK
* preparing ‘piano’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘Running_gene-set_analysis_with_piano.Rmd’ using rmarkdown
Running gene set analysis:
Final gene/gene-set association: 1136 genes and 50 gene sets
  Details:
  Calculating gene set statistics from 1136 out of 2000 gene-level statistics
  Using all 2000 gene-level statistics for significance estimation
  Removed 0 genes from GSC due to lack of matching gene statistics
  Removed 0 gene sets containing no genes after gene removal
  Removed additionally 0 gene sets not matching the size limits
  Loaded additional information for 0 gene sets
--- finished re-building ‘Running_gene-set_analysis_with_piano.Rmd’

--- re-building ‘piano-vignette.Rnw’ using Sweave

Error: processing vignette 'piano-vignette.Rnw' failed with diagnostics:
 chunk 4 
Error in loadMAdata(datadir = dataPath, dataNorm = "norm_data.txt.gz",  : 
  package affy is missing

--- failed re-building ‘piano-vignette.Rnw’

SUMMARY: processing the following file failed:
  ‘piano-vignette.Rnw’

Error: Vignette re-building failed.
Execution halted