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BioC 3.2: BUILD report for Rolexa on oaxaca

This page was generated on 2016-04-23 10:24:25 -0700 (Sat, 23 Apr 2016).

Package 905/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rolexa 1.26.2
Jacques Rougemont
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/Rolexa
Last Changed Rev: 115137 / Revision: 116712
Last Changed Date: 2016-03-22 13:06:16 -0700 (Tue, 22 Mar 2016)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  ERROR  skipped 
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  NotNeeded  ERROR  skipped  skipped 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded [ ERROR ] skipped  skipped 

Summary

Package: Rolexa
Version: 1.26.2
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data Rolexa
StartedAt: 2016-04-22 18:07:51 -0700 (Fri, 22 Apr 2016)
EndedAt: 2016-04-22 18:08:22 -0700 (Fri, 22 Apr 2016)
EllapsedTime: 31.0 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data Rolexa
###
##############################################################################
##############################################################################


* checking for file ‘Rolexa/DESCRIPTION’ ... OK
* preparing ‘Rolexa’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
Loading required package: ShortRead
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, as.vector, 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, unlist, unsplit

Loading required package: BiocParallel
Loading required package: Biostrings
Loading required package: S4Vectors
Loading required package: stats4
Loading required package: IRanges
Loading required package: XVector
Loading required package: Rsamtools
Loading required package: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: GenomicAlignments
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")'.

Warning: Package 'Rolexa' is deprecated and will be removed from Bioconductor
  version 3.3

Error: processing vignette 'Rolexa-vignette.Rnw' failed with diagnostics:
 chunk 6 (label = normalize) 
Error in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  : 
  invalid 'y'
Execution halted