[Bioc-devel] affy's cleancdfname

Rafael A. Irizarry ririzarr at jhsph.edu
Tue Sep 27 02:20:34 CEST 2005

i believe that is what was intended. if the cdf name comes from an 
enviromnent or an object in the workspace then it is assumed that the 
correct name is given and it does not have to be inferred from the 
information in the celfile.

is someone having problems because of this?

On Mon, 26 Sep 2005, Seth Falcon wrote:

> There seems to be some inconsistencies in when cleancdfname is called
> in getCDFenv.R.
> getCdfInfo() calls the following helpers:
>  cdfFromEnvironment() ## no call to cleancdfname
>  cdfFromData()        ## no call to cleancdfname
>  cdfFromLibPath()     ## calls cleancdfname
>  cdfFromBioC()        ## calls cleancdfname
> I have two alternatives to propose and would like comments:
> 1. remove cleancdfname calls from cdfFrom* funcs and put the call in
>   getCdfInfo().  This feels right in that we call the func once, but
>   it changes the behavior of two of the cdfFrom* funcs where to use
>   them a user would now have to call cleancdfname themselves.
> 2. Change behavior of cleancdfname so that repeated calls don't add
>   additional "cdf" to the end.  This would make the assumption that
>   no valid cdf package name ends "cdfcdf".
> + seth
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