Package: altcdfenvs

Version: 2.4.0

Command: /Users/biocbuild/BBS/utils/build-universal.sh altcdfenvs_2.4.0.tar.gz /Library/Frameworks/R.framework/Versions/2.8/Resources/bin/R altcdfenvs.buildbin-libdir

StartedAt: 2009-04-18 18:22:19 -0700 (Sat, 18 Apr 2009)

EndedAt: 2009-04-18 18:22:33 -0700 (Sat, 18 Apr 2009)

EllapsedTime: 13.6 seconds

RetCode: 0

Status: OK

PackageFile: altcdfenvs_2.4.0.tgz

PackageFileSize: 378.4 KiB

                INSTALLATION WITH 'R CMD INSTALL --library=altcdfenvs.buildbin-libdir altcdfenvs_2.4.0.tar.gz'

* 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)