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BUILD report for MineICA on merida2

This page was generated on 2019-04-09 13:27:54 -0400 (Tue, 09 Apr 2019).

Package 984/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MineICA 1.23.0
Anne Biton
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/MineICA
Branch: master
Last Commit: 2a1745a
Last Changed Date: 2018-10-30 11:54:31 -0400 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  ERROR  skipped  skipped 
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK [ ERROR ] skipped  skipped 

Summary

Package: MineICA
Version: 1.23.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MineICA
StartedAt: 2019-04-08 20:32:28 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 20:33:32 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 63.0 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MineICA
###
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* checking for file ‘MineICA/DESCRIPTION’ ... OK
* preparing ‘MineICA’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
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, sd, var, xtabs

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

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colMeans, colSums, colnames,
    dirname, do.call, duplicated, eval, evalq, get, grep, grepl,
    intersect, is.unsorted, lapply, mapply, match, mget, order, paste,
    pmax, pmax.int, pmin, pmin.int, rank, rbind, rowMeans, rowSums,
    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")'.

Registered S3 methods overwritten by 'ggplot2':
  method         from 
  [.quosures     rlang
  c.quosures     rlang
  print.quosures rlang
Loading required package: Category
Loading required package: stats4
Loading required package: AnnotationDbi
Loading required package: IRanges
Loading required package: S4Vectors

Attaching package: ‘S4Vectors’

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

    rename

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

    expand.grid


Attaching package: ‘IRanges’

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

    desc

Loading required package: Matrix

Attaching package: ‘Matrix’

The following object is masked from ‘package:S4Vectors’:

    expand

Loading required package: graph

Attaching package: ‘graph’

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

    join



Attaching package: ‘GOstats’

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

    makeGOGraph

Loading required package: limma

Attaching package: ‘limma’

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

    plotMA

Package 'mclust' version 5.4.3
Type 'citation("mclust")' for citing this R package in publications.

Attaching package: ‘igraph’

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

    degree, edges, intersection, union

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

    union

The following object is masked from ‘package:S4Vectors’:

    union

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

    normalize, path, union

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

    decompose, spectrum

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

    union

Loading required package: grid

Attaching package: ‘Rgraphviz’

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

    from, to

The following objects are masked from ‘package:S4Vectors’:

    from, to

Loading required package: XML

Attaching package: ‘XML’

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

    addNode


Attaching package: ‘annotate’

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

    toFile


Attaching package: ‘gtools’

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

    permute

Loading required package: Hmisc
Loading required package: lattice
Loading required package: survival
Loading required package: Formula

Attaching package: ‘Hmisc’

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

    contents

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

    label, label<-

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

    is.discrete, summarize

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

    contents

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

    format.pval, units

Loading required package: fastICA
Loading required package: JADE
Number of selected genes is 10000

Max IQR is 0.89

Loading required package: org.Hs.eg.db



Error: processing vignette 'MineICA.Rnw' failed with diagnostics:
 chunk 10 (label = mart) 
Error in listMarts(host = host, path = path, port = port, includeHosts = TRUE,  : 
  Unexpected format to the list of available marts.
Please check the following URL manually, and try ?listMarts for advice.
http://www.ensembl.org:80/biomart/martservice?type=registry&requestid=biomaRt
Execution halted