BioC 3.2: BUILD report for MineICA on perceval

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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 MineICA
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* checking for file ‘MineICA/DESCRIPTION’ ... OK
* preparing ‘MineICA’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
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, xtabs

The following objects are masked from ‘package:base’:

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

Welcome to Bioconductor

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

Loading required package: Category
Loading required package: stats4
Loading required package: Matrix
Loading required package: AnnotationDbi
Loading required package: IRanges
Loading required package: S4Vectors

Attaching package: ‘S4Vectors’

The following object is masked from ‘package:plyr’:

    rename


Attaching package: ‘IRanges’

The following object is masked from ‘package:Matrix’:

    expand

The following object is masked from ‘package:plyr’:

    desc

Loading required package: GO.db
Loading required package: DBI

Loading required package: graph

Attaching package: ‘graph’

The following object is masked from ‘package:plyr’:

    join


Attaching package: ‘GOstats’

The following object is masked from ‘package:AnnotationDbi’:

    makeGOGraph

Loading required package: limma

Attaching package: ‘limma’

The following object is masked from ‘package:BiocGenerics’:

    plotMA

Package 'mclust' version 5.0.2
Type 'citation("mclust")' for citing this R package in publications.

Attaching package: ‘igraph’

The following objects are masked from ‘package:graph’:

    degree, edges, intersection, union

The following objects are masked from ‘package:IRanges’:

    compare, simplify, union

The following objects are masked from ‘package:S4Vectors’:

    compare, union

The following objects are masked from ‘package:BiocGenerics’:

    normalize, union

The following objects are masked from ‘package:stats’:

    decompose, spectrum

The following object is masked from ‘package:base’:

    union

Loading required package: grid
Loading required package: XML

Attaching package: ‘XML’

The following object is masked from ‘package:graph’:

    addNode


Attaching package: ‘annotate’

The following object is masked from ‘package:Rgraphviz’:

    toFile


Attaching package: ‘gtools’

The following object is masked from ‘package:igraph’:

    permute

Loading required package: Hmisc
Loading required package: lattice
Loading required package: survival
Loading required package: Formula

Attaching package: ‘Hmisc’

The following object is masked from ‘package:AnnotationDbi’:

    contents

The following objects are masked from ‘package:xtable’:

    label, label<-

The following objects are masked from ‘package:plyr’:

    is.discrete, summarize

The following objects are masked from ‘package:Biobase’:

    combine, contents

The following object is masked from ‘package:BiocGenerics’:

    combine

The following objects are masked from ‘package:base’:

    format.pval, round.POSIXt, trunc.POSIXt, units

Loading required package: fastICA
Loading required package: JADE
Number of selected genes is 10000

Max IQR is 0.89

Loading required package: org.Hs.eg.db



Error: processing vignette 'MineICA.Rnw' failed with diagnostics:
 chunk 10 (label = mart) 
Error : 1: Space required after the Public Identifier
2: SystemLiteral " or ' expected
3: SYSTEM or PUBLIC, the URI is missing
4: Opening and ending tag mismatch: hr line 7 and body
5: Opening and ending tag mismatch: body line 4 and html
6: Premature end of data in tag html line 2

Execution halted
BioC 3.2: BUILD report for MineICA on perceval

Summary

Command output
