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BioC 3.3: BUILD report for Gviz on zin2

This page was generated on 2016-10-13 12:43:06 -0700 (Thu, 13 Oct 2016).

Package 531/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Gviz 1.16.5
Florian Hahne
Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/Gviz
Last Changed Rev: 120731 / Revision: 122332
Last Changed Date: 2016-09-05 08:21:01 -0700 (Mon, 05 Sep 2016)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK [ ERROR ] skipped 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: Gviz
Version: 1.16.5
Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data Gviz
StartedAt: 2016-10-12 20:15:14 -0700 (Wed, 12 Oct 2016)
EndedAt: 2016-10-12 20:15:49 -0700 (Wed, 12 Oct 2016)
EllapsedTime: 35.4 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data Gviz
###
##############################################################################
##############################################################################


* checking for file ‘Gviz/DESCRIPTION’ ... OK
* preparing ‘Gviz’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
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, 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


Attaching package: ‘S4Vectors’

The following objects are masked from ‘package:base’:

    colMeans, colSums, expand.grid, rowMeans, rowSums

Loading required package: IRanges
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Loading required package: grid

Error: processing vignette 'Gviz.Rnw' failed with diagnostics:
 chunk 9 (label = doIdeogramTrack) 
Error in `genome<-`(`*tmp*`, value = structure("hg19", .Names = "chr7")) : 
  Failed to set session genome to 'hg19'
Execution halted