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### Running command:
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###   chmod a+r geNetClassifier -R && F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data geNetClassifier
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* checking for file 'geNetClassifier/DESCRIPTION' ... OK
* preparing 'geNetClassifier':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'geNetClassifier-vignette.Rnw' using Sweave
Loading required package: Biobase
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

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, aperm, 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, table, tapply,
    union, unique, unsplit, which.max, which.min

Welcome to Bioconductor

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

Loading required package: EBarrays
Loading required package: lattice
Loading required package: minet
Coefficients for assignment: Minimum Probability to be assigned = 0.4(default).
 Minimum difference between the probabilities of first and second most likely classes  = 0.16
Warning in externalValidation.probMatrix(queryResult, leukemiasEset[, testSamples]$LeukemiaType,  :
  The real data labels vector is not named, it will be assumed the labels are in order: the first label applies to the first predicted sample... 
Coefficients for assignment: Minimum Probability to be assigned = 0.
 Minimum difference between the probabilities of first and second most likely classes  = 0
Coefficients for assignment: Minimum Probability to be assigned = 0.6.
 Minimum difference between the probabilities of first and second most likely classes  = 0.2(default)
Coefficients for assignment: Minimum Probability to be assigned = 0.4(default).
 Minimum difference between the probabilities of first and second most likely classes  = 0.16
The query contains 10 samples. 10 were assigned to a class resulting on a call rate of 100%. 

Warning in system(paste(shQuote(texi2dvi), "--version"), intern = TRUE) :
  running command '"C:\PROGRA~1\MiKTeX\miktex\bin\x64\texify.exe" --version' had status 1033
Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "",  :
  running command '"C:\PROGRA~1\MiKTeX\miktex\bin\x64\texify.exe" --quiet --pdf "geNetClassifier-vignette.tex" ' had status 1033
Error: processing vignette 'geNetClassifier-vignette.Rnw' failed with diagnostics:
Failed to locate 'texi2pdf' output file 'geNetClassifier-vignette.pdf' for vignette with name 'geNetClassifier-vignette' and engine 'utils::Sweave'. The following files exist in working directory 'F:\biocbuild\bbs-3.19-bioc\tmpdir\RtmpyUo0G9\Rbuild1e3439c63129\geNetClassifier\vignettes': 'Fig11plotNtwALL9g.png' (127009 bytes), 'Fig12plotNtwAML30g.png' (281041 bytes), 'Fig13plotNtwAML100g.pdf' (85914 bytes), 'Fig1intro.png' (196633 bytes), 'Fig2significantGeneswithoutNoL.pdf' (158969 bytes), 'Fig3overlap.png' (94331 bytes), 'Fig4-5geneSelection.pdf' (118858 bytes), 'Fig6leukemiasClassifierAssingorNotAssing.pdf' (65581 bytes), 'Fig7significantGenes.pdf' (68016 bytes), 'Fig8expressionProfilePlot_2g.pdf' (6428 bytes), 'Fig9expressionProfilePlot_B.pdf' (6397 bytes), 'Rplots.pdf' (0 bytes), 'geNetClassifier-vignette-077.pdf' (4941 bytes), 'geNetClassifier-vignette-079.pdf' (6957 bytes), 'geNetClassifier-vignette-concordance.tex' (1578 bytes), 'geNetClassifier-vignette.Rnw' (64308 bytes), 'geNetClassifier-vignette.tex' (86521 bytes)
--- failed re-building 'geNetClassifier-vignette.Rnw'

SUMMARY: processing the following file failed:
  'geNetClassifier-vignette.Rnw'

Error: Vignette re-building failed.
Execution halted