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BioC 3.4: BUILD report for sigaR on moscato1

This page was generated on 2016-09-21 03:43:59 -0700 (Wed, 21 Sep 2016).

Package 1110/1257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sigaR 1.20.0
Wessel N. van Wieringen
Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/sigaR
Last Changed Rev: 117267 / Revision: 121152
Last Changed Date: 2016-05-10 01:02:00 -0700 (Tue, 10 May 2016)
zin1 Linux (Ubuntu 16.04 LTS) / x86_64  OK  ERROR  skipped 
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  OK [ ERROR ] skipped  skipped 
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  ERROR  skipped  skipped 

Summary

Package: sigaR
Version: 1.20.0
Command: chmod a+r sigaR -R && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data sigaR
StartedAt: 2016-09-19 23:15:44 -0700 (Mon, 19 Sep 2016)
EndedAt: 2016-09-19 23:16:03 -0700 (Mon, 19 Sep 2016)
EllapsedTime: 18.5 seconds
RetCode: 1
Status:  ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r sigaR -R && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data sigaR
###
##############################################################################
##############################################################################


* checking for file 'sigaR/DESCRIPTION' ... OK
* preparing 'sigaR':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ...Warning: running command '"D:/biocbld/bbs-3.4-bioc/R/bin/x64/Rscript" --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)"' had status 1
 ERROR
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, xtabs

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

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, 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, 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: CGHbase
Loading required package: marray
Loading required package: limma

Attaching package: 'limma'

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

    plotMA

Loading required package: mvtnorm
Loading required package: CGHcall
Loading required package: impute
Loading required package: DNAcopy
Loading required package: snowfall
Loading required package: snow

Attaching package: 'snow'

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

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, clusterSplit, parApply, parCapply,
    parLapply, parRapply, parSapply

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

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, clusterSplit, makeCluster, parApply,
    parCapply, parLapply, parRapply, parSapply, splitIndices,
    stopCluster


Attaching package: 'CGHcall'

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

    normalize

Warning in cghCall2subset(pollackCN16, matchIDs[, 1], verbose = FALSE) :
  modified feature names are returned
Warning in cghCall2weightedSubset(pollackCN16, matchedIDsCN, 1, 2, 3, verbose = FALSE) :
  modified feature names are returned
Warning in cghCall2subset(CNdata, rep(geneId, 2), verbose) :
  modified feature names are returned

Error: processing vignette 'sigaR.Rnw' failed with diagnostics:
 chunk 14 
Error in .validate_assayDataElementReplace(obj, value) : 
  object and replacement value have different dimensions
Execution halted