Hi, 

I sent this to the Bioconductor mailing list (q.v.), replies recommended this forum. Here it is: 
A suggestion. Typically a package provides documentation of two types, one or more vignettes and a reference manual; and they have the same file name, PackageName.pdf.  When downloaded some file name manipulation is required, or accept PackageName(1).pdf.

I suggest the documents be given different names, for example the reference manual could be named PackageNameRefMan.pdf. Package checking could enforce the rule. 
Jerry 


	[[alternative HTML version deleted]]

