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### Running command:
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### /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data DECIPHER
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* checking for file ‘DECIPHER/DESCRIPTION’ ... OK
* preparing ‘DECIPHER’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘ArtOfAlignmentInR.Rnw’ using Sweave
Loading required package: Biostrings
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, sort, table,
tapply, union, unique, unsplit, which.max, which.min
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: ‘S4Vectors’
The following object is masked from ‘package:utils’:
findMatches
The following objects are masked from ‘package:base’:
I, expand.grid, unname
Loading required package: IRanges
Loading required package: XVector
Loading required package: GenomeInfoDb
Attaching package: ‘Biostrings’
The following object is masked from ‘package:base’:
strsplit
Loading required package: RSQLite
Loading required package: parallel
Error: processing vignette 'ArtOfAlignmentInR.Rnw' failed with diagnostics:
unable to run pdflatex on 'ArtOfAlignmentInR.tex'
LaTeX errors:
! LaTeX Error: File `wrapfig.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.12 \usepackage
{cite}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘ArtOfAlignmentInR.Rnw’
--- re-building ‘ClassifySequences.Rnw’ using Sweave
Warning in par(p) : argument 1 does not name a graphical parameter
--- finished re-building ‘ClassifySequences.Rnw’
--- re-building ‘ClusteringSequences.Rnw’ using Sweave
Error: processing vignette 'ClusteringSequences.Rnw' failed with diagnostics:
unable to run pdflatex on 'ClusteringSequences.tex'
LaTeX errors:
! LaTeX Error: File `wrapfig.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.12 \usepackage
{cite}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘ClusteringSequences.Rnw’
--- re-building ‘DECIPHERing.Rnw’ using Sweave
--- finished re-building ‘DECIPHERing.Rnw’
--- re-building ‘DesignMicroarray.Rnw’ using Sweave
--- finished re-building ‘DesignMicroarray.Rnw’
--- re-building ‘DesignPrimers.Rnw’ using Sweave
--- finished re-building ‘DesignPrimers.Rnw’
--- re-building ‘DesignProbes.Rnw’ using Sweave
--- finished re-building ‘DesignProbes.Rnw’
--- re-building ‘DesignSignatures.Rnw’ using Sweave
--- finished re-building ‘DesignSignatures.Rnw’
--- re-building ‘FindChimeras.Rnw’ using Sweave
--- finished re-building ‘FindChimeras.Rnw’
--- re-building ‘FindingGenes.Rnw’ using Sweave
Warning: call dbDisconnect() when finished working with a connection
--- finished re-building ‘FindingGenes.Rnw’
--- re-building ‘FindingNonCodingRNAs.Rnw’ using Sweave
--- finished re-building ‘FindingNonCodingRNAs.Rnw’
--- re-building ‘GrowingTrees.Rnw’ using Sweave
Error: processing vignette 'GrowingTrees.Rnw' failed with diagnostics:
unable to run pdflatex on 'GrowingTrees.tex'
LaTeX errors:
! LaTeX Error: File `wrapfig.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.12 \usepackage
{cite}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘GrowingTrees.Rnw’
--- re-building ‘RepeatRepeat.Rnw’ using Sweave
Error: processing vignette 'RepeatRepeat.Rnw' failed with diagnostics:
unable to run pdflatex on 'RepeatRepeat.tex'
LaTeX errors:
! LaTeX Error: File `wrapfig.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.12 \usepackage
{cite}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘RepeatRepeat.Rnw’
SUMMARY: processing the following files failed:
‘ArtOfAlignmentInR.Rnw’ ‘ClusteringSequences.Rnw’ ‘GrowingTrees.Rnw’
‘RepeatRepeat.Rnw’
Error: Vignette re-building failed.
Execution halted