BeadExplorer 1.4.0
Gareth Elvidge
| Snapshot Date: 2008-04-09 12:13:20 -0700 (Wed, 09 Apr 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_1/madman/Rpacks/BeadExplorer | | Last Changed Rev: 27709 / Revision: 30966 | | Last Changed Date: 2007-10-02 17:41:09 -0700 (Tue, 02 Oct 2007) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | OK | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | OK | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | [ OK ] | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| lemming | Windows Server 2003 (32-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | OK | OK |
* checking for working latex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.1-bioc/meat/BeadExplorer.Rcheck'
* using R version 2.6.2 (2008-02-08)
* checking for file 'BeadExplorer/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'BeadExplorer' version '1.4.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'BeadExplorer' 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 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
batchAnalysis: no visible binding for global variable 'output'
beadAnalysis: no visible binding for global variable 'examplebeadData'
beadAnalysis: no visible binding for global variable 'examplebeadQC'
boxplotArrays: no visible binding for global variable 'oqc'
getQC2: no visible binding for global variable 'HumWG6'
getQC2: no visible binding for global variable 'HumRef8'
Found possibly global 'T' or 'F' in the following function:
boxplotQC
* 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 BeadExplorer-Ex.R ... OK
* checking examples ... OK
* creating BeadExplorer-manual.tex ... OK
* checking BeadExplorer-manual.tex ... OK
* Installing *source* package 'BeadExplorer' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: widgetTools
Loading required package: tcltk
Loading Tcl/Tk interface ... done
Loading required package: affy
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: affyio
Loading required package: preprocessCore
Loading required package: R2HTML
Loading required package: tkWidgets
Loading required package: DynDoc
** help
Note: unmatched right brace in 'beadData-class' on or after line 61
Note: unmatched right brace in 'readQC' on or after line 23
Note: unmatched right brace in 'scatterPlot' on or after line 44
>>> Building/Updating help pages for package 'BeadExplorer'
Formats: text html latex example
HumRef8v1 text html latex example
HumWG6v1 text html latex example
addManifest text html latex example
batchAnalysis text html latex example
beadAnalysis text html latex example
beadData-accessor text html latex
beadData-class text html latex example
beadQC-class text html latex example
boxplotArrays text html latex example
boxplotQC text html latex example
clusterplot text html latex example
cutoff text html latex example
detectionCalls text html latex example
dotplotArrays text html latex example
dotplotQC text html latex example
examplebeadData text html latex example
examplebeadQC text html latex example
extract text html latex example
filterData text html latex example
getAnnot text html latex example
getArrayStats text html latex example
getDet text html latex example
getExprs text html latex example
getID text html latex example
getQC text html latex example
getQC2 text html latex example
htmloutput text html latex example
multiDensity text html latex example
multiecdf text html latex example
normalise text html latex example
pc text html latex example
plotSamples text html latex example
readBead text html latex example
readManifest text html latex example
readQC text html latex example
scatterPlot text html latex example
write.beadData text html latex example
writeQC text html latex example
** building package indices ...
* DONE (BeadExplorer)