I wouldn't use any yeast at all from the secondary- only from the primary! The yeast in the secondary appears cleaner, but it's the most stressed and least flocculant yeast and not recommended for reuse.
What I would do is make a starter, and use it for a batch. Then do yeast washing: http://www.homebrewtalk.com/f13/yeas...strated-41768/
Then, save the yeast in sterilized jars and use when needed. Simply make a starter and go. One batch of yeast washing usually gives me about 6 baby food jars full of yeast.