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### Running command:
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###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data GenomicDataCommons
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* checking for file ‘GenomicDataCommons/DESCRIPTION’ ... OK
* preparing ‘GenomicDataCommons’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘overview.Rmd’ using rmarkdown
Loading required package: magrittr

Attaching package: 'GenomicDataCommons'

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

    filter

Quitting from lines 127-134 (overview.Rmd) 
Error: processing vignette 'overview.Rmd' failed with diagnostics:
'{"data": {"hits": [], "pagination": {"count": 0, "total": 0, "size": 0, "from": 0, "sort": "", "page": 0, "pages": 0}}, "warnings": {}}' does not exist in current working directory ('/tmp/Rtmp8ucfAk/Rbuild1684825f1b172/GenomicDataCommons/vignettes').
--- failed re-building ‘overview.Rmd’

--- re-building ‘questions-and-answers.Rmd’ using rmarkdown
--- finished re-building ‘questions-and-answers.Rmd’

--- re-building ‘somatic_mutations.Rmd’ using rmarkdown
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

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

    combine, intersect, setdiff, union

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.max, which.min

Loading required package: MatrixGenerics
Loading required package: matrixStats

Attaching package: 'matrixStats'

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

    count

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

    count


Attaching package: 'MatrixGenerics'

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

    colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
    colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
    colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
    colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
    colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
    colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
    colWeightedMeans, colWeightedMedians, colWeightedSds,
    colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
    rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
    rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
    rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
    rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
    rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
    rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
    rowWeightedSds, rowWeightedVars

Loading required package: GenomeInfoDb
Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

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

    first, rename

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

    expand

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

    I, expand.grid, unname

Loading required package: IRanges

Attaching package: 'IRanges'

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

    collapse, desc, slice

Loading required package: GenomicRanges
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")'.


Attaching package: 'Biobase'

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

    rowMedians

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

    anyMissing, rowMedians

Loading required package: Rsamtools
Loading required package: Biostrings
Loading required package: XVector

Attaching package: 'Biostrings'

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

    strsplit


Attaching package: 'VariantAnnotation'

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

    tabulate

Quitting from lines 107-112 (somatic_mutations.Rmd) 
Error: processing vignette 'somatic_mutations.Rmd' failed with diagnostics:
'{"data": {"hits": [], "pagination": {"count": 0, "total": 0, "size": 0, "from": 0, "sort": "", "page": 0, "pages": 0}}, "warnings": {}}' does not exist in current working directory ('/tmp/Rtmp8ucfAk/Rbuild1684825f1b172/GenomicDataCommons/vignettes').
--- failed re-building ‘somatic_mutations.Rmd’

SUMMARY: processing the following files failed:
  ‘overview.Rmd’ ‘somatic_mutations.Rmd’

Error: Vignette re-building failed.
Execution halted