Instructions to generate frames of array assembly which can be used to create cool videos as shown in: https://twitter.com/Arielbs100/status/1346931500336365570

1. Create conda environment: a. Add repository to conda config file: conda config --add channels schrodinger b. Create a new environment: conda env create -f pymolVid.yml c. Activate the environemt: conda activate pymolVid37

2. Updating pymol for production: a. Open the file bashCMD.txt: vi bashCMD.txt b. Update line 2 with the correct path to the relevant pymol and project c. Add alias to .bashrc: head -3 bashCMD.txt >> ~/.bashrc d. source ~/.bashrc

3. run example (this can be time consuming process in which it will dump .png files by default to outputSlides/test/ unless specified otherwise ): pmlVid Acomp.pdb Bcomp.pdb

4. Create .mp4 file from a folder containing the enumerated file created in step 3 (path to input slides and output video file are specified in source/slides2videoRev.py [lines 22, 23]): python source/slides2videoRev.py
   To see the result open output/Vid/test.mp4

Note: This project is purposed to aid beginers in simulation based mulecular visualization, please contact with any bugs in running the example.

Related work: This video was purposed to visualize mulecular assembly of de novo designed binary protein arrays (https://www.nature.com/articles/s41586-020-03120-8)