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### Running command:
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###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data pgxRpi
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* 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_load_metadata.Rmd’ using rmarkdown
Warning: program compiled against libxml 212 using older 211

Quitting from lines 60-62 [unnamed-chunk-2] (Introduction_1_load_metadata.Rmd)
Error: processing vignette 'Introduction_1_load_metadata.Rmd' failed with diagnostics:
No data retrieved
--- failed re-building ‘Introduction_1_load_metadata.Rmd’

--- re-building ‘Introduction_2_query_variants.Rmd’ using rmarkdown

Quitting from lines 65-71 [unnamed-chunk-2] (Introduction_2_query_variants.Rmd)
Error: processing vignette 'Introduction_2_query_variants.Rmd' failed with diagnostics:
No data retrieved
--- failed re-building ‘Introduction_2_query_variants.Rmd’

--- re-building ‘Introduction_3_access_cnv_frequency.Rmd’ using rmarkdown

Quitting from lines 50-54 [unnamed-chunk-2] (Introduction_3_access_cnv_frequency.Rmd)
Error: processing vignette 'Introduction_3_access_cnv_frequency.Rmd' failed with diagnostics:
$ operator is invalid for atomic vectors
--- failed re-building ‘Introduction_3_access_cnv_frequency.Rmd’

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

SUMMARY: processing the following files failed:
  ‘Introduction_1_load_metadata.Rmd’
  ‘Introduction_2_query_variants.Rmd’
  ‘Introduction_3_access_cnv_frequency.Rmd’

Error: Vignette re-building failed.
Execution halted