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


* checking for file ‘pgxRpi/DESCRIPTION’ ... OK
* preparing ‘pgxRpi’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘Introduction_1_loadmetadata.Rmd’ using rmarkdown
--- finished re-building ‘Introduction_1_loadmetadata.Rmd’

--- re-building ‘Introduction_2_loadvariants.Rmd’ using rmarkdown

Quitting from lines 169-170 [unnamed-chunk-12] (Introduction_2_loadvariants.Rmd)
Error: processing vignette 'Introduction_2_loadvariants.Rmd' failed with diagnostics:
cannot open the connection to 'http://progenetix.org/services/samplematrix/?filters=NCIT:C2948&limit=0'
--- failed re-building ‘Introduction_2_loadvariants.Rmd’

--- re-building ‘Introduction_3_loadfrequency.Rmd’ using rmarkdown
--- finished re-building ‘Introduction_3_loadfrequency.Rmd’

--- re-building ‘Introduction_4_process_pgxseg.Rmd’ using rmarkdown
--- finished re-building ‘Introduction_4_process_pgxseg.Rmd’

SUMMARY: processing the following file failed:
  ‘Introduction_2_loadvariants.Rmd’

Error: Vignette re-building failed.
Execution halted