PhyloSignal algorithm in R (picante) is working!  This commit has one-way conversion to R but uses an external R class library.  Saved this before modifying to use any character.
Previous commit fixed floating points and integers as strings.  Started work in phylogenetic_signal to allow for changes to the character used to test.
Fixed Pictante Phylosignal algorithm;  added Geiger fitContinuous; add tree_interchange utility to contain algorithms for mapping to/from APE trees and Arbor treestore collections.  Added start of speciation_algorithm, but this isn't finished yet.   Had a lot of trouble reading APE trees back from geiger.transform() because the order of the tuples (edge, leaves, count, lengths) is not the same and the count returns as a float vector (e.g. [99.0 ]) instead of an integer count.
Merge /Users/clisle/Projects/SpyderWorkspace/ArborProjMgrExtended

This merge brings in Curt's changes to add rpy2-based algorithims and server-based workflows to the current master on 1/14/14.
Adding commit with update of rpy2 algorithms and adding server-based workflows (workflows function, but the only work steps are simple table queries).
Merge /Users/clisle/Projects/SpyderWorkspace/ArborProjMgrExtended

Previous commit didn't include the workflow manager and worksteps definitions (in commit SHA: dfe8c6a611248961b6ac5c90d886891a98fe44cc)
Added ability to change mongo backing database and prefix string dynamically. Added test for if Arbor API was initialized by a Qt interface or not, so signals are not emitted if the API is called from python directly.  Also changed location of arbor2apeTreeHandler.R to be in home directory where the app is run.  This will still be a problem for hosted Arbor installations, but allows algorithms to be run .
Merge /Users/clisle/Projects/SpyderWorkspace/ArborProjMgrExtended

Conflicts:
	tangelo/ArborFileManagerAPI.py

Merged Curt's rpy2 algorithms and partial workflow,workstep solution in the Arbor core API.  This
version supports dynamic changes to the backing mongo database by calling setDatabaseInfo() (see new
change database button on the main GUI).