[BioC] problem with "just.gcrma" and a fix

[Jenny Bryan]

Thanks for your reply.  My inspiration for using the pre-computed
affinities was the Example given in the gcrma help file (and the
slowness of my machine!). I'm not where I can test this right now, but
given your response, maybe that example would fail too?

(from gcrma help)
Examples:

     if(require(affydata) & require(hgu95av2probe)){
          data(Dilution)
          ai <- compute.affinities(cdfName(Dilution))
          Dil.expr<-gcrma(Dilution,affinity.info=ai,type="affinities")
     }

Jenny

James W. MacDonald writes:
 > Thanks for the bug report. Neither just.gcrma nor gcrma will currently 
 > accept a pre-computed affinity.info object. The fix is actually simpler 
 > than what you suggest, and should be in place for the 1.5 release.
 > 
 > Best,
 > 
 > Jim