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BioC experimental data: BUILD report for leeBamViews on moscato1

This page was generated on 2016-04-20 20:26:27 -0700 (Wed, 20 Apr 2016).

Package 141/257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
leeBamViews 1.6.0
VJ Carey
Snapshot Date: 2016-04-20 09:20:20 -0700 (Wed, 20 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_2/experiment/pkgs/leeBamViews
Last Changed Rev: 3460 / Revision: 3730
Last Changed Date: 2015-10-13 13:14:23 -0700 (Tue, 13 Oct 2015)
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 

Summary

Package: leeBamViews
Version: 1.6.0
Command: chmod a+r leeBamViews -R && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data leeBamViews
StartedAt: 2016-04-20 10:42:02 -0700 (Wed, 20 Apr 2016)
EndedAt: 2016-04-20 10:43:48 -0700 (Wed, 20 Apr 2016)
EllapsedTime: 106.2 seconds
RetCode: 1
Status:  ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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### Running command:
###
###   chmod a+r leeBamViews -R && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data leeBamViews
###
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* checking for file 'leeBamViews/DESCRIPTION' ... OK
* preparing 'leeBamViews':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ...Warning: running command '"D:/biocbld/bbs-3.2-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, 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

Welcome to Bioconductor

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

Loading required package: Rsamtools
Loading required package: S4Vectors
Loading required package: stats4
Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: XVector
Loading required package: Biostrings
Loading required package: BSgenome
Loading required package: rtracklayer
Loading required package: SummarizedExperiment
Loading required package: biomaRt
Loading required package: grid

Error: processing vignette 'leeViews.Rnw' failed with diagnostics:
 chunk 4 (label = addso) 
Error : 1: Space required after the Public Identifier
2: SystemLiteral " or ' expected
3: SYSTEM or PUBLIC, the URI is missing
4: Entity 'nbsp' not defined

Execution halted