altcdfenvs 2.4.0
Laurent Gautier
| 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/altcdfenvs | | 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 | 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/altcdfenvs.Rcheck'
* using R version 2.8.1 Patched (2009-03-18 r48200)
* using session charset: ASCII
* checking for file 'altcdfenvs/DESCRIPTION' ... OK
* this is package 'altcdfenvs' version '2.4.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'altcdfenvs' 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 ... 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 altcdfenvs-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating altcdfenvs-manual.tex ... OK
* checking altcdfenvs-manual.tex using pdflatex ... OK
* Installing *source* package 'altcdfenvs' ...
** 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)'.
Loading required package: affy
Loading required package: matchprobes
Loading required package: makecdfenv
Loading required package: affyio
Loading required package: Biostrings
Loading required package: IRanges
Attaching package: 'IRanges'
The following object(s) are masked from package:Biobase :
annotation
The following object(s) are masked from package:base :
cbind,
rbind,
sapply
Attaching package: 'Biostrings'
The following object(s) are masked from package:base :
chartr,
order,
substr,
substring
Loading required package: hypergraph
Loading required package: graph
Attaching package: 'graph'
The following object(s) are masked from package:Biostrings :
complement
Attaching package: 'hypergraph'
The following object(s) are masked from package:Biostrings :
head,
tail
The following object(s) are masked from package:utils :
head,
tail
NOTE: arguments in definition for validity method for class 'AffyProbesMatch' changed from (obj) to (object)
Warning in matchSignature(signature, fdef, where) :
in the method signature for function "toHypergraph" no definition for class: "CdfEnvAffy"
Creating a new generic function for "plot" in "altcdfenvs"
** help
>>> Building/Updating help pages for package 'altcdfenvs'
Formats: text html latex example
AffyProbesMatch-class text html latex example
CdfEnvAffy-class text html latex example
appendCdfEnvAffy text html latex example
buildCdfEnv.biostrings text html latex
cdfenv text html latex example
cdfenvEx text html latex example
copyCdfEnvAffy text html latex
Note: removing empty section \details in file 'countduplicated.Rd'
Note: removing empty section \examples in file 'countduplicated.Rd'
countduplicated text html latex
geneNames text html latex
getxy.probeseq text html latex example
Note: removing empty section \details in file 'index2xy.Rd'
Note: removing empty section \section{Warning} in file 'index2xy.Rd'
index2xy text html latex example
Note: removing empty section \examples in file 'indexProbes.CdfEnvAffy.Rd'
indexProbes.CdfEnvAffy text html latex
Note: removing empty section \note in file 'matchAffyProbes.Rd'
matchAffyProbes text html latex example
plot.CdfEnvAffy text html latex example
removeIndex text html latex example
toHypergraph text html latex
unique.CdfEnvAffy text html latex example
utils.FASTA text html latex example
Note: removing empty section \value in file 'validAffyBatch.Rd'
validAffyBatch text html latex example
** building package indices ...
* DONE (altcdfenvs)