Refactor: Move all general matrix util methods to MatrixTools
Remove unused matrixLogarithm
Refactor tests @ MatrixTools
Remove duplicate Apache Commons lib reference
Change maxIndex visibility (broken after refactor)
Giant refactor to use jungblut's Fmincg (-> necessary to replace Apache Commons with JBLAS)
Add reshape support for rectangular matrices
Add tests for MatrixTools
Neural network: allow input of y vector for binary-output applications
Bring in rectangular reshape
Training now running, but delta matrix always zero