An HP 2D Lattice Model for python, based on the hydrophobic-polar two-dimensional lattice model (Lau and Dill's, 1989).
For you to be able to run this program you need python (preferably Python 3.10) and the numpy (preferably Python 1.24) package.
The code is widely commented and any reader with enough python experience, time and attention should be able to understand. But it would be wise to first run the pre-made available codes:
python src/main.py data/instances/instance1.dat
For running the instance in the instance1.dat file. The model best solution to this instance will be save under: data/solutions/instance1-DD-MM-YYYY-HH-MM-SS.dat
Inside src folder is all the source code for the project, the file main.py holds the main script that creates the model, runs the SA and saves the best model and the ica.py has the Simulated Annealing Algorithm.
Everything inside the src/lib folder is about the library utils made to fit the HP 2D Lattice models, they should not be ignored in this report because they're very important and all of them must fit the SA algorithm. The library utils were made to be generic enough to be able to run in any heuristic.
Inside the data folder there is the used problems instances and the solutions the model was able to find.
The used SA algorithm is described in the report and is on the src/ICA.py file.