/biomolecular-programming

Primary LanguageJava

Biomolecular Programming Assignment

Clone the Repository

  • Select Code in the top right corner of this repository.
  • Click Download ZIP. This will download the application's files to your Downloads folder.
  • Navigate to your Downloads folder and unzip the file you just downloaded.

Run the Application

  • Open IntelliJ IDEA or the IDE (Integrated Development Environment) of your choice.
  • Select Open and select the file you just unzipped. This should load the project onto IntelliJ.
  • Once the project loads all the dependencies, navigate to the project on the left, and expand src.
  • Right click on Main, and then select Run 'Main.main()'. This should run the simulation.

Application Structure

Outlined below are the .java files that make up the application.

Main.java

This is the main class that initialises all the application's subclasses, which contain the bulk of the application's logic. This sets up the cells, and calls various methods that are stored in the subclasses. This class is accessed under src > Main.java.

Cells.java

This class handles the creation of cells, and any method related to the simulation as a whole. This includes storing the alpha source particles' coordinates and any information related to them. This class is accessed under src > cell > Cells.java.

Cell.java

This class handles all information and methods related to individual cells. This includes initialising the nucleus, and exposing the Cells class to its nucleus's methods. This class is accessed under src > cell > Cell.java.

Nucleus.java

This class handles the creation of the nucleus, as well as its DNA and repair particles and all their methods. The Nucleus exposes its methods to the Cell class. This class is accessed under src > cell > Nucleus.java.