a4 1.1.1
Tobias Verbeke
| Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/a4 | | Last Changed Rev: 54827 / Revision: 55359 | | Last Changed Date: 2011-04-14 10:35:57 -0700 (Thu, 14 Apr 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | ERROR | skipped | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | ERROR | skipped | skipped |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | [ ERROR ] | skipped | skipped |
| pelham | Mac OS X Leopard (10.5.8) / i386 | ERROR | skipped | skipped |
* checking for file 'a4/DESCRIPTION' ... OK
* preparing 'a4':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
* creating vignettes ... ERROR
Loading required package: a4Base
Loading required package: grid
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation("pkgname")'.
Loading required package: AnnotationDbi
Loading required package: annaffy
Loading required package: GO.db
Loading required package: DBI
Loading required package: KEGG.db
Loading required package: mpm
Loading required package: MASS
Loading required package: KernSmooth
KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009
mpm version 1.0-17
Loading required package: genefilter
Attaching package: 'genefilter'
The following object(s) are masked from 'package:MASS':
area
Loading required package: limma
Loading required package: multtest
Loading required package: glmnet
Loading required package: Matrix
Loading required package: lattice
Attaching package: 'Matrix'
The following object(s) are masked from 'package:base':
det
Loading required package: a4Preproc
Loading required package: a4Core
Attaching package: 'a4Core'
The following object(s) are masked from 'package:limma':
topTable
Loading required package: gplots
Loading required package: gtools
Loading required package: gdata
File type 'perl' not found or no open command associated with it.
Warning: running command 'C:\Windows\system32\cmd.exe /c ftype perl' had status 2
File type 'perl' not found or no open command associated with it.
Warning: running command 'C:\Windows\system32\cmd.exe /c ftype perl' had status 2
gdata: read.xls support for 'XLS' (Excel
gdata: 97-2004) files ENABLED.
gdata: Unable to load perl libaries needed
gdata: by read.xls()
gdata: to support 'XLSX' (Excel 2007+)
gdata: files.
gdata: Run the function
gdata: 'installXLSXsupport()'
gdata: to automatically download and install
gdata: the perl
gdata: libaries needed to support Excel XLS
gdata: and XLSX formats.
Attaching package: 'gdata'
The following object(s) are masked from 'package:Biobase':
combine
The following object(s) are masked from 'package:stats':
nobs
The following object(s) are masked from 'package:utils':
object.size
Loading required package: caTools
Loading required package: bitops
Attaching package: 'gplots'
The following object(s) are masked from 'package:multtest':
wapply
The following object(s) are masked from 'package:stats':
lowess
a4Base version 1.1.1
Loading required package: a4Classif
Loading required package: MLInterfaces
Loading required package: rpart
Loading required package: rda
Loading required package: annotate
Loading required package: cluster
Loading required package: ROCR
Loading required package: pamr
Loading required package: survival
Loading required package: splines
Loading required package: varSelRF
Loading required package: randomForest
randomForest 4.6-2
Type rfNews() to see new features/changes/bug fixes.
Attaching package: 'randomForest'
The following object(s) are masked from 'package:gdata':
combine
The following object(s) are masked from 'package:Biobase':
combine
Loading required package: a4Reporting
Attaching package: 'a4'
The following object(s) are masked from 'package:gdata':
.onAttach
Loading required package: ALL
Loading required package: nlcv
Loading required package: RColorBrewer
Loading required package: xtable
Attaching package: 'xtable'
The following object(s) are masked from 'package:a4Reporting':
xtable
Loading required package: ipred
Loading required package: mlbench
Loading required package: nnet
Loading required package: class
Attaching package: 'ipred'
The following object(s) are masked from 'package:genefilter':
cv
nlcv version 0.2-0
Loading required package: hgu95av2.db
Loading required package: org.Hs.eg.db
Error: processing vignette 'a4vignette.Rnw' failed with diagnostics:
chunk 25 (label = lasso)
Error in function (classes, fdef, mtable) :
unable to find an inherited method for function "topTable", for signature "lognet"
Execution halted