lumi 1.8.3
Pan Du
| 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/lumi | | Last Changed Rev: 35146 / Revision: 38965 | | Last Changed Date: 2008-11-07 07:52:42 -0800 (Fri, 07 Nov 2008) |
| wilson2 | Linux (openSUSE 11.1) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| 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/lumi.Rcheck'
* using R version 2.8.1 Patched (2009-03-18 r48200)
* using session charset: ASCII
* checking for file 'lumi/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'lumi' version '1.8.3'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'lumi' 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 ... OK
* 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 lumi-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating lumi-manual.tex ... OK
* checking lumi-manual.tex using pdflatex ... OK
* Installing *source* package 'lumi' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: annotate
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)'.
Loading required package: AnnotationDbi
Loading required package: xtable
Loading required package: affy
Loading required package: mgcv
This is mgcv 1.5-2 . For overview type `help("mgcv-package")'.
Loading required package: preprocessCore
Loading required package: RSQLite
Loading required package: DBI
Creating a new generic function for "density" in "lumi"
Creating a new generic function for "pairs" in "lumi"
Creating a new generic function for "plot" in "lumi"
** help
>>> Building/Updating help pages for package 'lumi'
Formats: text html latex example
Note: removing empty section \examples in file 'IlluminaID2nuID.Rd'
IlluminaID2nuID text html latex
LumiBatch-class text html latex example
MAplot-methods text html latex example
Note: removing empty section \references in file 'addControlData2lumi.Rd'
addControlData2lumi text html latex example
addNuID2lumi text html latex example
Note: removing empty section \references in file 'affyExpresso.Rd'
Note: removing empty section \examples in file 'affyExpresso.Rd'
affyExpresso text html latex
Note: removing empty section \references in file 'affyVstRma.Rd'
Note: removing empty section \examples in file 'affyVstRma.Rd'
affyVstRma text html latex
bgAdjust text html latex example
boxplot-methods text html latex example
density-methods text html latex example
detectOutlier text html latex example
detectionCall text html latex example
estimateLumiCV text html latex example
example.lumi text html latex example
Note: removing empty section \references in file 'getChipInfo.Rd'
getChipInfo text html latex example
Note: removing empty section \details in file 'getControlData.Rd'
Note: removing empty section \references in file 'getControlData.Rd'
getControlData text html latex example
Note: removing empty section \details in file 'getControlProbe.Rd'
Note: removing empty section \references in file 'getControlProbe.Rd'
getControlProbe text html latex example
Note: removing empty section \details in file 'getControlType.Rd'
Note: removing empty section \references in file 'getControlType.Rd'
getControlType text html latex example
getNuIDMappingInfo text html latex example
hist-methods text html latex example
id2seq text html latex example
inverseVST text html latex example
is.nuID text html latex example
Note: removing empty section \seealso in file 'lumi.package.Rd'
Note: removing empty section \examples in file 'lumi.package.Rd'
lumi.package text html latex
lumiB text html latex example
lumiExpresso text html latex example
Note: removing empty section \note in file 'lumiN.Rd'
Note: removing empty section \references in file 'lumiN.Rd'
lumiN text html latex example
lumiQ text html latex example
lumiR text html latex example
lumiR.batch text html latex example
lumiT text html latex example
Note: removing empty section \examples in file 'monoSmu.Rd'
monoSmu text html latex
Note: removing empty section \references in file 'monoSpline.Rd'
Note: removing empty section \examples in file 'monoSpline.Rd'
monoSpline text html latex
nuID2EntrezID text html latex example
nuID2IlluminaID text html latex example
nuID2RefSeqID text html latex example
nuID2probeID text html latex example
nuID2targetID text html latex example
pairs-methods text html latex example
plot-methods text html latex example
Note: removing empty section \references in file 'plotControlData.Rd'
plotControlData text html latex example
Note: removing empty section \details in file 'plotHousekeepingGene.Rd'
Note: removing empty section \references in file 'plotHousekeepingGene.Rd'
plotHousekeepingGene text html latex example
plotSampleRelation text html latex example
Note: removing empty section \details in file 'plotStringencyGene.Rd'
Note: removing empty section \references in file 'plotStringencyGene.Rd'
plotStringencyGene text html latex example
Note: removing empty section \details in file 'plotVST.Rd'
plotVST text html latex example
probeID2nuID text html latex example
Note: removing empty section \examples in file 'produceGEOPlatformFile.Rd'
produceGEOPlatformFile text html latex
Note: removing empty section \examples in file 'produceGEOSampleInfoTemplate.Rd'
produceGEOSampleInfoTemplate text html latex
produceGEOSubmissionFile text html latex example
Note: removing empty section \note in file 'rsn.Rd'
Note: removing empty section \references in file 'rsn.Rd'
Note: removing empty section \examples in file 'rsn.Rd'
rsn text html latex
seq2id text html latex example
Note: removing empty section \references in file 'ssn.Rd'
Note: removing empty section \examples in file 'ssn.Rd'
ssn text html latex
targetID2nuID text html latex example
vst text html latex example
** building package indices ...
* DONE (lumi)