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BioC 2.14: BUILD report for fastLiquidAssociation on moscato2

This page was generated on 2014-10-08 08:56:48 -0700 (Wed, 08 Oct 2014).

Package 268/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
fastLiquidAssociation 1.0.2
Tina Gunderson
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/fastLiquidAssociation
Last Changed Rev: 93708 / Revision: 95116
Last Changed Date: 2014-08-29 15:05:49 -0700 (Fri, 29 Aug 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  ERROR  skipped 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded [ ERROR ] skipped  skipped 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  ERROR  skipped  skipped 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  ERROR  skipped  skipped 

Summary

Package: fastLiquidAssociation
Version: 1.0.2
Command: chmod a+r fastLiquidAssociation -R && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data fastLiquidAssociation
StartedAt: 2014-10-07 21:48:15 -0700 (Tue, 07 Oct 2014)
EndedAt: 2014-10-07 21:48:42 -0700 (Tue, 07 Oct 2014)
EllapsedTime: 26.8 seconds
RetCode: 1
Status:  ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r fastLiquidAssociation -R && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data fastLiquidAssociation
###
##############################################################################
##############################################################################


* checking for file 'fastLiquidAssociation/DESCRIPTION' ... OK
* preparing 'fastLiquidAssociation':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ...Warning: running command '"E:/biocbld/bbs-2.14-bioc/R/bin/i386/Rscript" --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)"' had status 1
 ERROR
Loading required package: dynamicTreeCut
Loading required package: flashClust

Attaching package: 'flashClust'

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

    hclust


Attaching package: 'WGCNA'

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

    cor

Loading required package: geepack
Loading required package: yeastCC
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 object is masked from 'package:stats':

    xtabs

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

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

Welcome to Bioconductor

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

Loading required package: org.Sc.sgd.db
Loading required package: AnnotationDbi
Loading required package: GenomeInfoDb
Loading required package: DBI

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

Attaching package: 'Hmisc'

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

    contents

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


Error: processing vignette 'fastLiquidAssociation.Rnw' failed with diagnostics:
 chunk 3 (label = calculate top MLA) 
Error in fastMLA(data = data, topn = 50, nvec = 1:5, rvalue = 0.5, cut = 4,  : 
  unused argument (threads = detectCores())
Execution halted