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| Package 8/234 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
| affycoretools 1.10.0 James W. MacDonald Last Changed Date: 2007-10-02 17:41:09 -0700 Last Changed Rev: 27709 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
| wellington | Linux (SUSE 9.2) | i686 | OK | OK | ||
| liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | [ OK ] | OK | |
| pitt | Mac OS X (10.4.10) | i386 | OK | OK | OK |
| Package: affycoretools |
| Version: 1.10.0 |
| Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check affycoretools_1.10.0.tar.gz |
| RetCode: 0 |
| Time: 220.2 seconds |
| Status: OK |
| CheckDir: affycoretools.Rcheck |
| Warnings: 0 |
* checking for working latex ... OK * using log directory 'E:/biocbld/bbs-2.1-bioc/meat/affycoretools.Rcheck' * using R version 2.6.0 (2007-10-03) * checking for file 'affycoretools/DESCRIPTION' ... OK * this is package 'affycoretools' version '1.10.0' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'affycoretools' can be installed ... 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 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 limma2biomaRt: possible error in limma2biomaRt.na(eset = eset, fit = fit, design = design, contrast = contrast, species = species, links = links, otherdata = otherdata, ann.source = ann.source, adjust = adjust, number = number, pfilt = pfilt, fldfilt = fldfilt, tstat = tstat, pval = pval, FC = FC, expression = expression, html = html, save = save, addname = addname, affyid = affyid, mysql = mysql, affy.attr = affy.attr): unused argument(s) (affy.attr = affy.attr) limma2biomaRt: no visible binding for global variable 'affy.attr' linksBM: no visible binding for global variable 'affy.attr' probes2tableBM: no visible global function definition for 'listFilter' * 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 * creating affycoretools-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... OK * creating affycoretools-manual.tex ... OK * checking affycoretools-manual.tex ... OK
affycoretools.Rcheck/00install.out:
installing R.css in E:/biocbld/bbs-2.1-bioc/meat/affycoretools.Rcheck
---------- Making package affycoretools ------------
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
installing R files
installing inst files
installing man source files
installing indices
installing help
>>> Building/Updating help pages for package 'affycoretools'
Formats: text html latex example chm
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Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\bbs-2.1-bioc\meat\affycoretools.Rcheck\00_pkg_src\affycoretools\chm\affycoretools.chm
Compile time: 0 minutes, 0 seconds
33 Topics
53 Local links
0 Internet links
1 Graphic
Created e:\biocbld\bbs-2.1-bioc\meat\affycoretools.Rcheck\00_pkg_src\affycoretools\chm\affycoretools.chm, 62,988 bytes
Compression decreased file by 80,656 bytes.
preparing package affycoretools for lazy loading
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: limma
Loading required package: GOstats
Loading required package: graph
Loading required package: GO.db
Loading required package: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: annotate
Loading required package: xtable
Loading required package: RBGL
Loading required package: Category
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
Loading required package: biomaRt
Loading required package: RCurl
Attaching package: 'biomaRt'
The following object(s) are masked from package:annotate :
getGO
Loading required package: gcrma
Loading required package: matchprobes
Loading required package: annaffy
Loading required package: GO
Attaching package: 'GO'
The following object(s) are masked from package:GO.db :
GOBPANCESTOR,
GOBPCHILDREN,
GOBPOFFSPRING,
GOBPPARENTS,
GOCCANCESTOR,
GOCCCHILDREN,
GOCCOFFSPRING,
GOCCPARENTS,
GOMAPCOUNTS,
GOMFANCESTOR,
GOMFCHILDREN,
GOMFOFFSPRING,
GOMFPARENTS,
GOOBSOLETE,
GOSYNONYM,
GOTERM
Loading required package: KEGG
adding MD5 sums
* DONE (affycoretools)