[Bioc-devel] exprSet and friends

I agree with Wolfgang. Don't make changes so close to a release.

I'm not sure what effect expunging all exprSet methods would have. I currently 
need the exprSet class definition and accessor methods to get expr and se.expr 
data from exprSet objects. Users may have saved there data previously using 
affylmGUI. A user may wish to open that data file again using a current version 
of affylmGUI. affylmGUI supports this by opening the old data file, getting the 
expr and se.expr data from the exprSet object. affylmGUI will then save the data 
in an updated version of the affylmGUI data object, if the user requests it. I 
don't wish to alter this process before the R 2.6.0 release date, as I would 
need to make several changes and need to do adequate testing of these changes,

cheers,

Keith

========================
Keith Satterley
Bioinformatics Division
The Walter and Eliza Hall Institute of Medical Research
Parkville, Melbourne,
Victoria, Australia
=======================

Hi Robert,

my vote would be to leave them around for this release and .Defunct them 
straight afterwards in the devel branch. We have 10 days until the 
release schedule says "Deadline for packages passing R CMD check without 
error". Many of the packages currently look quite good on the daily 
check page. Some authors might now be away or busy during the next ten 
days and it seems harsh to (possibly) impose making consequential 
changes to their packages within that deadline.

But I'll be happy to be convinced otherwise - progress is good and needs 
to encouraged

  Best wishes
	Wolfgang

Hi,
   I would like to get some comments on whether we can safely make all 
exprSet methods defunct, or of folks think we want yet one more cycle? 
I have found a few more lurking around recently, and I think it would 
help us to get them all expunged, sooner rather than later.

   thanks
    Robert

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