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BioC 3.3: BUILD report for Guitar on morelia

This page was generated on 2015-10-22 17:55:09 -0400 (Thu, 22 Oct 2015).

Package 478/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Guitar 1.3.2
Jia Meng
Snapshot Date: 2015-10-21 20:20:05 -0400 (Wed, 21 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Guitar
Last Changed Rev: 109780 / Revision: 109826
Last Changed Date: 2015-10-19 23:53:30 -0400 (Mon, 19 Oct 2015)
linux2.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  ERROR  skipped 
windows2.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  ERROR  skipped  skipped 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded [ ERROR ] skipped  skipped 

Summary

Package: Guitar
Version: 1.3.2
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data Guitar
StartedAt: 2015-10-22 02:45:14 -0400 (Thu, 22 Oct 2015)
EndedAt: 2015-10-22 02:47:51 -0400 (Thu, 22 Oct 2015)
EllapsedTime: 156.7 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 Guitar
###
##############################################################################
##############################################################################


* checking for file ‘Guitar/DESCRIPTION’ ... OK
* preparing ‘Guitar’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
Loading required package: Rsamtools
Loading required package: S4Vectors
Loading required package: stats4
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


Attaching package: ‘S4Vectors’

The following object is masked from ‘package:base’:

    expand.grid

Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: XVector
Loading required package: Biostrings
Loading required package: GenomicFeatures
Loading required package: AnnotationDbi
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")'.

Loading required package: rtracklayer
Loading required package: GenomicAlignments
Loading required package: SummarizedExperiment
Loading required package: ggplot2
Loading required package: grid
Scale for 'x' is already present. Adding another scale for 'x', which will replace the existing scale.
Scale for 'x' is already present. Adding another scale for 'x', which will replace the existing scale.

Error: processing vignette 'Guitar-Overview.Rnw' failed with diagnostics:
 chunk 9 (label = mm10_example) 
Error in value[[3L]](cond) : 
  failed to open BamFile: file(s) do not exist:
  ''
Execution halted