affyPara 1.11.5
Markus Schmidberger
| Snapshot Date: 2011-03-17 11:16:30 -0700 (Thu, 17 Mar 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/affyPara | | Last Changed Rev: 53815 / Revision: 53825 | | Last Changed Date: 2011-03-17 01:16:12 -0700 (Thu, 17 Mar 2011) |
| lamb1 | Linux (openSUSE 11.3) / x86_64 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | WARNINGS | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | WARNINGS | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
| petty | Mac OS X Snow Leopard (10.6.6) / i386 | OK | [ WARNINGS ] | OK |
* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/affyPara.Rcheck'
* using R version 2.13.0 Under development (unstable) (2011-03-06 r54683)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'affyPara/DESCRIPTION' ... OK
* this is package 'affyPara' version '1.11.5'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'affyPara' can be installed ... OK
* checking installed package size ... 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 package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... 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 metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'preproPara':
preproPara
Code: function(object, cluster, bgcorrect = TRUE, bgcorrect.method =
NULL, bgcorrect.param = list(), normalize = TRUE,
normalize.method = NULL, normalize.param = list(),
pmcorrect.method = NULL, pmcorrect.param = list(),
summary.method = NULL, summary.param = list(), ids =
NULL, phenoData = new("AnnotatedDataFrame"), cdfname =
NULL, verbose = getOption("verbose"), ...)
Docs: function(object, cluster, bgcorrect = TRUE, bgcorrect.method =
NULL, bgcorrect.param = list(), normalize = TRUE,
normalize.method = NULL, normalize.param = list(),
pmcorrect.method = NULL, pmcorrect.param = list(),
summary.method = NULL, summary.param = list(), ids =
NULL, phenoData = new("AnnotatedDataFrame"), cdfname =
NULL, verbose = getOption("verbose"))
Argument names in code not in docs:
...
Codoc mismatches from documentation object 'vsnPara':
justvsnPara
Code: function(object, ..., cluster, verbose = getOption("verbose"))
Docs: function(object, cluster, ..., verbose = getOption("verbose"))
Mismatches in argument names:
Position: 2 Code: ... Docs: cluster
Position: 3 Code: cluster Docs: ...
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There was 1 warning, see
'/Users/biocbuild/bbs-2.8-bioc/meat/affyPara.Rcheck/00check.log'
for details
* installing *source* package 'affyPara' ...
** R
** inst
** preparing package for lazy loading
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")'.
Attaching package: 'snow'
The following object(s) are masked from 'package:base':
enquote
Loading required package: tcltk
Loading Tcl/Tk interface ... done
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
* DONE (affyPara)