a4 1.1.2
Tobias Verbeke
| Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/a4 | | Last Changed Rev: 56260 / Revision: 56603 | | Last Changed Date: 2011-06-16 18:18:20 -0700 (Thu, 16 Jun 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | [ WARNINGS ] | OK |
| moscato1 | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/a4.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56036)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'a4/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'a4' version '1.1.2'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'a4' can be installed ... WARNING
Found the following significant warnings:
Warning: running command 'C:\Windows\system32\cmd.exe /c ftype perl' had status 2
Warning: running command 'C:\Windows\system32\cmd.exe /c ftype perl' had status 2
See 'D:/biocbld/bbs-2.9-bioc/meat/a4.Rcheck/00install.out' for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... WARNING
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... WARNING
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
See section 'Generic functions and methods' of the 'Writing R
Extensions' manual.
* checking replacement functions ... WARNING
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
The argument of a replacement function which corresponds to the right
hand side must be named 'value'.
* checking foreign function calls ... WARNING
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
See the chapter 'System and foreign language interfaces' of the
'Writing R Extensions' manual.
* checking R code for possible problems ... NOTE
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
* checking for missing documentation entries ... WARNING
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
All user-level objects in a package should have documentation entries.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking examples ... NONE
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: 'Cairo'
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There were 6 warnings, see
'D:/biocbld/bbs-2.9-bioc/meat/a4.Rcheck/00check.log'
for details
* installing *source* package 'a4' ...
** R
** inst
** preparing package for lazy loading
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
Loaded glmnet 1.7
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 97-2004) files ENABLED.
gdata: Unable to load perl libaries needed by read.xls()
gdata: to support 'XLSX' (Excel 2007+) files.
gdata: Run the function 'installXLSXsupport()'
gdata: to automatically download and install the perl
gdata: libaries needed to support Excel XLS 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 1.1.3
Loading required package: MLInterfaces
Loading required package: rpart
Loading required package: rda
Loading required package: annotate
Loading required package: cluster
Loading required package: sfsmisc
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
** help
No man pages found in package 'a4'
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'a4vignette.Rnw'
** testing if installed package can be loaded
mpm version 1.0-17
Loaded glmnet 1.7
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
a4Base version 1.1.3
Warning messages:
1: running command 'C:\Windows\system32\cmd.exe /c ftype perl' had status 2
2: running command 'C:\Windows\system32\cmd.exe /c ftype perl' had status 2
* DONE (a4)