Error(s) in re-building vignettes:
--- re-building ‘pcalgDoc.Rnw’ using Sweave
Loading required package: Rgraphviz
Loading required package: graph
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,
    which.max, which.min

Loading required package: grid
Error: package or namespace load failed for ‘Rgraphviz’:
 .onLoad failed in loadNamespace() for 'Rgraphviz', details:
  call: value[[3L]](cond)
  error: unable to load shared object '/data/gannet/ripley/R/test-clang/Rgraphviz/libs/Rgraphviz.so':
  /data/gannet/ripley/R/test-clang/Rgraphviz/libs/Rgraphviz.so: undefined symbol: __hypot_finite

  Rgraphviz is unable to be loaded.  This typically is a symptom
  of an installation problem.  From 2.x.x onwards, Graphviz ought
  to come bundled with Rgraphviz.

  If you are trying to use an external Graphviz, see additional
  instructions in the 'README' file of the Rgraphviz 'source'
  distribution, available at

  http://bioconductor.org/packages/release/bioc/html/Rgraphviz.html

  Ask further questions on the Bioconductor mailing list

  http://bioconductor.org/docs/mailList.html


  Rgraphviz is unable to be loaded.  This typically is a symptom
  of an installation problem.  From 2.x.x onwards, Graphviz ought
  to come bundled with Rgraphviz.

  If you are trying to use an external Graphviz, see additional
  instructions in the 'README' file of the Rgraphviz 'source'
  distribution, available at

  http://bioconductor.org/packages/release/bioc/html/Rgraphviz.html

  Ask further questions on the Bioconductor mailing list

  http://bioconductor.org/docs/mailList.html



Error: processing vignette 'pcalgDoc.Rnw' failed with diagnostics:
 chunk 6 (label = exIntroPlot) 
Error : require(Rgraphviz) is not TRUE

--- failed re-building ‘pcalgDoc.Rnw’

--- re-building ‘vignette2018.Rnw’ using Sweave
Loading required package: Rgraphviz
Loading required package: graph
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, which.max, which.min

Loading required package: grid
Error: package or namespace load failed for 'Rgraphviz':
 .onLoad failed in loadNamespace() for 'Rgraphviz', details:
  call: value[[3L]](cond)
  error: unable to load shared object '/data/gannet/ripley/R/test-clang/Rgraphviz/libs/Rgraphviz.so':
  /data/gannet/ripley/R/test-clang/Rgraphviz/libs/Rgraphviz.so: undefined symbol: __hypot_finite

  Rgraphviz is unable to be loaded.  This typically is a symptom of an
  installation problem.  From 2.x.x onwards, Graphviz ought to come
  bundled with Rgraphviz.

  If you are trying to use an external Graphviz, see additional
  instructions in the 'README' file of the Rgraphviz 'source'
  distribution, available at

  http://bioconductor.org/packages/release/bioc/html/Rgraphviz.html

  Ask further questions on the Bioconductor mailing list

  http://bioconductor.org/docs/mailList.html


  Rgraphviz is unable to be loaded.  This typically is a symptom of an
  installation problem.  From 2.x.x onwards, Graphviz ought to come
  bundled with Rgraphviz.

  If you are trying to use an external Graphviz, see additional
  instructions in the 'README' file of the Rgraphviz 'source'
  distribution, available at

  http://bioconductor.org/packages/release/bioc/html/Rgraphviz.html

  Ask further questions on the Bioconductor mailing list

  http://bioconductor.org/docs/mailList.html



Error: processing vignette 'vignette2018.Rnw' failed with diagnostics:
 chunk 2 (label = loadPackage) 
Error : require(Rgraphviz) is not TRUE

--- failed re-building 'vignette2018.Rnw'

SUMMARY: processing the following files failed:
  ‘pcalgDoc.Rnw’ ‘vignette2018.Rnw’

Error: Vignette re-building failed.
Execution halted