First week of coding!

Welcome to the second weekly check-in. I’ll be sharing my progress for the first week of coding.

What did you do this week?

I implemented the space filling model for proteins and created a PR for the same. Preview:

(protein rendered: 3pgk)

The PR has:

1. Actor for space_filling_model.

2. Two examples where I show how to visualize the proteins:

   1. In example 1, I parse a PDBx file myself and extract the atomic info essential for constructing the model which is then used by the actor to visualize it.

   2. In example 2, I parse a PDB file by using Biopython module and extract the atomic info essential for constructing the model which is then used by the actor to visualize it.

I created a basic test for the actor which needs to be improved. I’ll discuss how to improve the test with the mentors.

What is coming up next week?

I have two major goals for the next week:

1. Make an actor for the space filling model of the proteins and make PR for the same which will also include the unit tests and a small tutorial for the users.

2. Try to understand the documentation of vtkProteinRibbonFilter which will prove beneficial in generating Ribbon diagrams.

Did you get stuck anywhere?

I tried to create a class in python which inherits from a vtk class called vtkMoleculeReaderBase but was unsucessful in this endeavour. I’ll try to find a workaround.

Au Revoir!