Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L [M] N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

BioC 3.4: BUILD report for MEAL on zin1

This page was generated on 2016-09-21 03:40:14 -0700 (Wed, 21 Sep 2016).

Package 706/1257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MEAL 1.3.7
Carlos Ruiz
Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/MEAL
Last Changed Rev: 120767 / Revision: 121152
Last Changed Date: 2016-09-06 08:41:01 -0700 (Tue, 06 Sep 2016)
zin1 Linux (Ubuntu 16.04 LTS) / x86_64  NotNeeded [ ERROR ] skipped 
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  NotNeeded  ERROR  skipped  skipped 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  ERROR  skipped  skipped 

Summary

Package: MEAL
Version: 1.3.7
Command: /home/biocbuild/bbs-3.4-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data MEAL
StartedAt: 2016-09-20 01:42:06 -0700 (Tue, 20 Sep 2016)
EndedAt: 2016-09-20 01:46:55 -0700 (Tue, 20 Sep 2016)
EllapsedTime: 289.9 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.4-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data MEAL
###
##############################################################################
##############################################################################


* checking for file ‘MEAL/DESCRIPTION’ ... OK
* preparing ‘MEAL’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... 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, 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, which, which.max,
    which.min

Welcome to Bioconductor

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

Loading required package: MultiDataSet
Setting options('download.file.method.GEOquery'='auto')
Setting options('GEOquery.inmemory.gpl'=FALSE)
Loading required package: minfi
Loading required package: lattice
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: S4Vectors

Attaching package: 'S4Vectors'

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

    colMeans, colSums, expand.grid, rowMeans, rowSums

Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: SummarizedExperiment
Loading required package: Biostrings
Loading required package: XVector
Loading required package: bumphunter
Loading required package: foreach
Loading required package: iterators
Loading required package: locfit
locfit 1.5-9.1 	 2013-03-22
Loading required package: IlluminaHumanMethylation450kmanifest
Loading required package: IlluminaHumanMethylation450kanno.ilmn12.hg19
Loading required package: rngtools
Loading required package: pkgmaker
Loading required package: registry

Attaching package: 'pkgmaker'

The following object is masked from 'package:S4Vectors':

    new2

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

    isNamespaceLoaded

Your contrast returned 2135 individually significant probes. We recommend the default setting of pcutoff in dmrcate().
Fitting chr1...
Fitting chr10...
Fitting chr11...
Fitting chr12...
Fitting chr13...
Fitting chr14...
Fitting chr15...
Fitting chr16...
Fitting chr17...
Fitting chr18...
Fitting chr19...
Fitting chr2...
Fitting chr20...
Fitting chr21...
Fitting chr22...
Fitting chr3...
Fitting chr4...
Fitting chr5...
Fitting chr6...
Fitting chr7...
Fitting chr8...
Fitting chr9...
Fitting chrX...
Fitting chrY...
Demarcating regions...
Done!
Quitting from lines 237-240 (caseExample.Rmd) 
Error: processing vignette 'caseExample.Rmd' failed with diagnostics:
'rowRanges' is not an exported object from 'namespace:MultiDataSet'
Execution halted