Started building the framework to enable the use of different coding schemes in the group analysis model builder.
Assorted GUI fixes and improvements; resolution of several Github issues.
Changed some GUI defaults.
Updated the cpac_run.py script.
Enabled the ability to use selected functional timeseries volumes as the input for functional-to-anatomical registration, as an option. New branch.
Fixed a couple of errors.
Fixed a few more things.
Some changes in skullstripping code and GPA.
Fixed anatomical registration with skull on: it now uses the brain-only input and reference for the linear part of registration like it should.
Fully implemented Treatment coding in the group analysis model builder, at least for most standard models; some expansion may be necessary for when people want to get really creative.
Started changes to output SCA correlations as 4D files.
Merge branch '0.3.8_development' into 0.3.7_func-t1_mod

Conflicts:
	CPAC/__init__.py
Merge branch '0.3.7_func-t1_mod' into 0.3.8_development
Major fixes for bugs in dual regression and SCA warp applications to standard space.
Started the process of streamlining the QA interface generation code.
Merge pull request #402 from dclark87/master

Pull in dclark87's changes to 0.3.8 development.
Fixed the warp application transform ordering after certain registration issues, and also removed an unnecessary print statement.
Fixed CompCor to include variance normalization.
Cleaned up the functional registration tabs in the GUI a little bit.
Fixed warp ordering in other ANTS registration calculations.