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### Running command:
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###   chmod a+r ShortRead -R && C:\Users\bioctesting\bbs-3.11-bioc-testing\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data ShortRead
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* checking for file 'ShortRead/DESCRIPTION' ... OK
* preparing 'ShortRead':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'Overview.Rnw' using Sweave
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: BiocParallel
Loading required package: Biostrings
Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

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

    expand.grid

Loading required package: IRanges

Attaching package: 'IRanges'

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

    windows

Loading required package: XVector

Attaching package: 'Biostrings'

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

    strsplit

Loading required package: Rsamtools
Loading required package: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: GenomicAlignments
Loading required package: SummarizedExperiment
Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: DelayedArray
Loading required package: matrixStats

Attaching package: 'matrixStats'

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

    anyMissing, rowMedians


Attaching package: 'DelayedArray'

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

    colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges

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

    aperm, apply, rowsum

Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "",  :
  running command '"C:\PROGRA~1\MIKTEX~1.9\miktex\bin\x64\texify.exe" --quiet --pdf "Overview.tex" --max-iterations=20 -I "C:/Users/bioctesting/bbs-3.11-bioc-testing/R/share/texmf/tex/latex" -I "C:/Users/bioctesting/bbs-3.11-bioc-testing/R/share/texmf/bibtex/bst"' had status 1
Error: processing vignette 'Overview.Rnw' failed with diagnostics:
Failed to locate 'texi2pdf' output file 'Overview.pdf' for vignette with name 'Overview' and engine 'utils::Sweave'. The following files exist in working directory 'C:\Users\bioctesting\bbs-3.11-bioc-testing\tmpdir\RtmpKET1wy\Rbuild11542988a72\ShortRead\vignettes': 'Overview.Rnw' (15627 bytes), 'Overview.tex' (24965 bytes), 'README' (650 bytes), 'ShortRead_and_HilbertVis.Rnw_' (40238 bytes), 'ShortRead_and_HilbertVis.pdf' (1.30809e+06 bytes), 'hilbert.bib' (3050 bytes), 'qa_E-MTAB-1147.Rda' (405819 bytes), 'simon2.bst' (42370 bytes)
--- failed re-building 'Overview.Rnw'

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

Error: Vignette re-building failed.
Execution halted