Updated for real input

This version allows for user input of the exact amino acid structure using standardised abbreviations. Additionally, users can now use the energy matrix calculated by Miyazawa and Jernigan (1985) which is commonly used in the literature.

Minor fix to 2D makefile

Sets standard compiler for c++ to g++

Initial release with 2D, 3D and batch capabilities

-Release combines together previously separate v1.0.0 versions dealing with different lattice dimensions and the batch system.
-Updates batch system to corrected version.