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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data trena
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* checking for file ‘trena/DESCRIPTION’ ... OK
* preparing ‘trena’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘TReNA_Vignette.Rmd’ using knitr
Loading required package: glmnet
Loading required package: Matrix
Loaded glmnet 4.1-2
Loading required package: MotifDb
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:Matrix':

    expand, unname

The following objects are masked from 'package:base':

    I, expand.grid, unname

Loading required package: IRanges
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Loading required package: Biostrings
Loading required package: XVector

Attaching package: 'Biostrings'

The following object is masked from 'package:base':

    strsplit

See system.file("LICENSE", package="MotifDb") for use restrictions.

--- finished re-building ‘TReNA_Vignette.Rmd’

--- re-building ‘caseStudyFour.Rmd’ using knitr
--- finished re-building ‘caseStudyFour.Rmd’

--- re-building ‘caseStudyOne.Rmd’ using knitr
--- finished re-building ‘caseStudyOne.Rmd’

--- re-building ‘caseStudyThree.Rmd’ using knitr
--- finished re-building ‘caseStudyThree.Rmd’

--- re-building ‘caseStudyTwo.Rmd’ using knitr
--- finished re-building ‘caseStudyTwo.Rmd’

--- re-building ‘overview.Rmd’ using knitr
Quitting from lines 187-192 (overview.Rmd) 
Error: processing vignette 'overview.Rmd' failed with diagnostics:
attempt to use zero-length variable name
--- failed re-building ‘overview.Rmd’

--- re-building ‘simple.Rmd’ using knitr

Attaching package: 'limma'

The following object is masked from 'package:BiocGenerics':

    plotMA

--- finished re-building ‘simple.Rmd’

--- re-building ‘tiny.Rmd’ using knitr
--- finished re-building ‘tiny.Rmd’

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

Error: Vignette re-building failed.
Execution halted