Error(s) in re-building vignettes:
--- re-building 'article.Rnw' using Sweave
Setting levels: control = No, case = Yes
Loading required package: glmnet
Loading required package: Matrix
Loaded glmnet 3.0-2

Setting levels: control = No, case = Yes
Setting levels: control = No, case = Yes
Loading required package: Biostrings
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 object is masked from 'package:Matrix':

    which

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, which.max, which.min

Loading required package: S4Vectors
Loading required package: stats4
Error: package or namespace load failed for 'S4Vectors':
 .onLoad failed in loadNamespace() for 'S4Vectors', details:
  call: validObject(.Object)
  error: invalid class "LLint" object: superclass "integer_OR_LLint" not defined in the environment of the object's class
Failed with error:  'package 'S4Vectors' could not be loaded'
Loading required package: BiocManager
Bioconductor version 3.11 (BiocManager 1.30.10),
  ?BiocManager::install for help
Bioconductor version 3.11 (BiocManager 1.30.10), R Under development
  (unstable) (2020-03-11 r77925)
Installing package(s) 'BiocVersion', 'Biostrings'
trying URL 'https://bioconductor.org/packages/3.11/bioc/bin/windows/contrib/4.0/BiocVersion_3.11.1.zip'
Content type 'application/zip' length 8896 bytes
==================================================
downloaded 8896 bytes

trying URL 'https://bioconductor.org/packages/3.11/bioc/bin/windows/contrib/4.0/Biostrings_2.55.5.zip'
Content type 'application/zip' length 14463515 bytes (13.8 MB)
==================================================
downloaded 13.8 MB

Warning: cannot remove prior installation of package 'Biostrings'
Warning: restored 'Biostrings'
Old packages: 'S4Vectors', 'XVector'

Error: processing vignette 'article.Rnw' failed with diagnostics:
 chunk 30 (label = biostrings) 
Error : .onLoad failed in loadNamespace() for 'S4Vectors', details:
  call: validObject(.Object)
  error: invalid class "LLint" object: superclass "integer_OR_LLint" not defined in the environment of the object's class

--- failed re-building 'article.Rnw'

SUMMARY: processing the following file failed:
  'article.Rnw'

Error: Vignette re-building failed.
Execution halted