CMA 1.0.0
Martin Slawski
| Bioconductor Changelog | | Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/CMA | | Last Changed Rev: 34811 / Revision: 38965 | | Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008) |
| wilson2 | Linux (openSUSE 11.1) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | N O T S U P P O R T E D |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | [ OK ] | OK |
| pelham | Mac OS X Leopard (10.5.6) / i386 | OK | OK | OK |
* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.3-bioc/meat/CMA.Rcheck'
* using R version 2.8.1 (2008-12-22)
* using session charset: ASCII
* checking for file 'CMA/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CMA' version '1.0.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'CMA' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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 name space can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
ROCinternal: no visible binding for global variable 'xlab'
ROCinternal: no visible binding for global variable 'ylab'
ROCinternal: no visible binding for global variable 'main'
ROCinternal: no visible binding for global variable 'lwd'
rfe: no visible binding for global variable 'cost'
boxplot,evaloutput: no visible binding for global variable 'main'
compare,list: no visible binding for global variable 'main'
gbmCMA,matrix-numeric-missing: no visible binding for global variable
'n.minobsinnode'
gbmCMA,matrix-numeric-missing: no visible binding for global variable
'bag.fraction'
gbmCMA,matrix-numeric-missing: no visible binding for global variable
'n.trees'
gbmCMA,matrix-numeric-missing: no visible binding for global variable
'verbose'
nnetCMA,matrix-numeric-missing: no visible binding for global variable
'size'
nnetCMA,matrix-numeric-missing: no visible binding for global variable
'MaxNWts'
svmCMA,matrix-numeric-missing: no visible binding for global variable
'cost'
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* creating CMA-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating CMA-manual.tex ... OK
* checking CMA-manual.tex using pdflatex ... OK
* Installing *source* package 'CMA' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: Biobase
Loading required package: tools
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'openVignette()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation(pkgname)'.
Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
In method for function "Planarplot": formal arguments in method and function do not appear in the same order
Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
In method for function "fdaCMA": formal arguments in method and function do not appear in the same order
Warning in rematchDefinition(definition, fdef, mnames, fnames, signature) :
Arguments of method and generic are not in the same order
Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
In method for function "flexdaCMA": formal arguments in method and function do not appear in the same order
** help
>>> Building/Updating help pages for package 'CMA'
Formats: text html latex example
CMA-package text html latex
ElasticNetCMA-methods text html latex
ElasticNetCMA text html latex example
GeneSelection-methods text html latex
GeneSelection text html latex example
GenerateLearningsets text html latex example
LassoCMA-methods text html latex
LassoCMA text html latex example
Planarplot-methods text html latex
Planarplot text html latex example
best text html latex
boxplot text html latex
classification-methods text html latex
classification text html latex example
cloutput-class text html latex
clvarseloutput-class text html latex
compBoostCMA-methods text html latex
compBoostCMA text html latex example
compare-methods text html latex
compare text html latex example
dldaCMA-methods text html latex
dldaCMA text html latex example
evaloutput-class text html latex
evaluation-methods text html latex
evaluation text html latex example
fdaCMA-methods text html latex
fdaCMA text html latex example
filter text html latex
flexdaCMA-methods text html latex
flexdaCMA text html latex example
ftable text html latex
gbmCMA-methods text html latex
gbmCMA text html latex example
genesel-class text html latex
golub text html latex example
internals text html latex
join-methods text html latex
join text html latex
khan text html latex example
knnCMA-methods text html latex
knnCMA text html latex example
ldaCMA-methods text html latex
ldaCMA text html latex example
learningsets-class text html latex
nnetCMA-methods text html latex
nnetCMA text html latex example
obsinfo text html latex
pknnCMA-methods text html latex
pknnCMA text html latex example
plot,cloutput-method text html latex
plot,genesel-method text html latex
plot,tuningresult-method text html latex
plrCMA-methods text html latex
plrCMA text html latex example
pls_ldaCMA-methods text html latex
pls_ldaCMA text html latex example
pls_lrCMA-methods text html latex
pls_lrCMA text html latex example
pls_rfCMA-methods text html latex
pls_rfCMA text html latex example
pnnCMA-methods text html latex
pnnCMA text html latex example
qdaCMA-methods text html latex
qdaCMA text html latex example
rfCMA-methods text html latex
rfCMA text html latex example
roc text html latex
scdaCMA-methods text html latex
scdaCMA text html latex example
shrinkldaCMA-methods text html latex
shrinkldaCMA text html latex example
summary text html latex
svmCMA-methods text html latex
svmCMA text html latex example
toplist text html latex
tune-methods text html latex
tune text html latex example
tuningresult-class text html latex
varseloutput-class text html latex
** building package indices ...
* DONE (CMA)