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BioC 3.5: BUILD report for coRNAi on tokay2

This page was generated on 2017-10-18 14:20:47 -0400 (Wed, 18 Oct 2017).

Package 282/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
coRNAi 1.26.0
Elin Axelsson
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/coRNAi
Branch: RELEASE_3_5
Last Commit: ae6e8f9
Last Changed Date: 2017-04-24 15:45:44 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded [ ERROR ] skipped  skipped 
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  ERROR  skipped  skipped 

Summary

Package: coRNAi
Version: 1.26.0
Command: chmod a+r coRNAi -R && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data coRNAi
StartedAt: 2017-10-17 19:24:37 -0400 (Tue, 17 Oct 2017)
EndedAt: 2017-10-17 19:26:08 -0400 (Tue, 17 Oct 2017)
EllapsedTime: 91.2 seconds
RetCode: 1
Status:  ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r coRNAi -R && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data coRNAi
###
##############################################################################
##############################################################################


* checking for file 'coRNAi/DESCRIPTION' ... OK
* preparing 'coRNAi':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ...Warning: running command '"C:/Users/biocbuild/bbs-3.5-bioc/R/bin/x64/Rscript" --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)"' had status 1
 ERROR
Loading required package: cellHTS2
Loading required package: RColorBrewer
Loading required package: Biobase
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, cbind, colMeans, colSums, colnames, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
    pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
    setdiff, sort, table, tapply, union, unique, unsplit, which,
    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: genefilter
Loading required package: splots
Loading required package: vsn
Loading required package: hwriter
Loading required package: locfit
locfit 1.5-9.1 	 2013-03-22
Loading required package: grid
Loading required package: limma

Attaching package: 'limma'

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

    plotMA

Warning: Package 'coRNAi' is deprecated and will be removed from Bioconductor
  version 3.6
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "add" is not a graphical parameter
Warning in lfproc(x, y, weights = weights, cens = cens, base = base, geth = geth,  :
  Estimated rdf < 1.0; not estimating variance
Warning: running command 'neato -Tpdf -o interactionGraph1.pdf interactionGraph1.dot' had status 127
Warning: running command 'neato -Tpdf -o interactionGraph2.pdf interactionGraph2.dot' had status 127
Warning: running command 'neato -Tpdf -o correlationGraph1.pdf correlationGraph1.dot' had status 127
Warning: running command 'neato -Tpdf -o correlationGraph2.pdf correlationGraph2.dot' had status 127
Warning: Data contains negative values.
Log transformation for those values resulted in NA
Warning: running command '"C:\PROGRA˜1\MIKTEX˜1.9\miktex\bin\x64\texify.exe" --quiet --pdf "coRNAi.tex" --max-iterations=20 -I "C:/Users/biocbuild/bbs-3.5-bioc/R/share/texmf/tex/latex" -I "C:/Users/biocbuild/bbs-3.5-bioc/R/share/texmf/bibtex/bst"' had status 1
Error: running 'texi2dvi' on 'coRNAi.tex' failed

LaTeX errors:
nettes/coRNAi.tex:558: Package pdftex.def Error: File `interactionGraph1.pdf' n
ot found.

See the pdftex.def package documentation for explanation.
Type  H <return>  for immediate help
nettes/coRNAi.tex:559: Package pdftex.def Error: File `correlationGraph1.pdf' n
ot found.

See the pdftex.def package documentation for explanation.
Type  H <return>  for immediate help
nettes/coRNAi.tex:565: Package pdftex.def Error: File `interactionGraph2.pdf' n
ot found.

See the pdftex.def package documentation for explanation.
Type  H <return>  for immediate help
nettes/coRNAi.tex:566: Package pdftex.def Error: File `correlationGraph2.pdf' n
ot found.

See the pdftex.def package documentation for explanation.
Type  H <return>  for immediate help
Execution halted