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 | |  |
| 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 | |
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | [ ERROR ] | skipped | skipped | |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MineICA
###
##############################################################################
##############################################################################
* 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