add 'leaf.bool' argument to optionally skip gating terminal bool gates to speed up parsing
document 'leaf.bool' argument
optimize boolean reference nodes searching process
extend to the routine to support finding common ancestor for multiple nodes
fix a bug in finding common ancestor
1.set flowJo counts to -1 when it is absent 2. fix a bug in getRefNodeID routine. 3. add c++ unit test case for ragon data set
Merge branch 'trunk'