[BioC] qc function missing in Linux version of simpleaffy

[James W. MacDonald]

Hi Wolfgang,

Wolfgang Raffelsberger wrote:
> Dear List,
> 
> when using the simpleaffy package on Linux I don't have the qc function 
> available (while the Windows version works well).
> 
> Any suggestions how to solve this ?

You probably need to re-install.

 > library(simpleaffy)
Loading required package: affy
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

	Vignettes contain introductory material.
	To view, simply type 'openVignette()' or start with 'help(Biobase)'.
	For details on reading vignettes, see the openVignette help page.

Loading required package: affyio
Loading required package: genefilter
Loading required package: survival
Loading required package: splines

Attaching package: 'simpleaffy'


	The following object(s) are masked _by_ .GlobalEnv :

	 getBioC

 > qc
standardGeneric for "qc" defined from package "simpleaffy"

function (unnormalised, ...)
standardGeneric("qc")
<environment: 0xbf2ba8>
Methods may be defined for arguments: unnormalised

 > sessionInfo()
Version 2.3.0 beta (2006-04-10 r37717)
x86_64-unknown-linux-gnu

attached base packages:
[1] "splines"   "tools"     "methods"   "stats"     "graphics"  "grDevices"
[7] "utils"     "datasets"  "base"

other attached packages:
simpleaffy genefilter   survival       affy     affyio    Biobase
    "2.6.0"    "1.9.6"     "2.23"   "1.9.15"   "0.99.1"   "1.9.15"


HTH,

Jim


> 
> Thank you very much,
> Wolfgang Raffelsberger
> 
> 
>  > sessionInfo()
> Version 2.3.1 (2006-06-01)
> x86_64-unknown-linux-gnu
> 
> attached base packages:
> [1] "splines"   "tools"     "methods"   "stats"     "graphics"  "grDevices"
> [7] "utils"     "datasets"  "base"    
> 
> other attached packages:
>  hgu95av2cdf affyQCReport   simpleaffy   genefilter     survival   
> reposTools
>     "1.12.0"     "1.10.0"      "2.6.0"     "1.10.1"       "2.26"      
> "1.8.0"
>     affydata         affy       affyio      Biobase
>      "1.8.0"     "1.10.0"      "1.0.0"     "1.10.0"
>  > R.version   
>                _                        
> platform       x86_64-unknown-linux-gnu 
> arch           x86_64                   
> os             linux-gnu                
> system         x86_64, linux-gnu        
> status                                  
> major          2                        
> minor          3.1                      
> year           2006                     
> month          06                       
> day            01                       
> svn rev        38247                    
> language       R                        
> version.string Version 2.3.1 (2006-06-01)
>  >
>  > help(qc)
> No documentation for 'qc' in specified packages and libraries:
> you could try 'help.search("qc")'
>  >
>  > qc
> Error: object "qc" not found
> 
>  
> 
> . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 
> . . . . .
> 
> Wolfgang Raffelsberger, PhD
> Laboratoire de BioInformatique et Génomique Intégrative
> IGBMC
> 1 rue Laurent Fries,  67404 Illkirch  Strasbourg,  France
> Tel (+33) 388 65 3301         Fax (+33) 388 65 3276
> wolfgang.raffelsberger at igbmc.u-strasbg.fr
> 
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor


-- 
James W. MacDonald, M.S.
Biostatistician
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623


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