I keep my personal overlay in a subversion repository. Subversion works with .svn directories which have the same function as the CVS directories with CVS. This patch will make those directories ignored when cvs would, this means a.o. that I get clean manifests.
Created attachment 15269 [details, diff] portage.diff ( a patch to portage.py to have it check for .svn besides CVS dirs )
Fixed for 2.,0.49-r8