https://github.com/zachcp/molnodes-utils
Utilities and experiments with blender and Molecular Nodes
https://github.com/zachcp/molnodes-utils
Last synced: 28 days ago
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Utilities and experiments with blender and Molecular Nodes
- Host: GitHub
- URL: https://github.com/zachcp/molnodes-utils
- Owner: zachcp
- Created: 2024-08-09T23:50:49.000Z (10 months ago)
- Default Branch: main
- Last Pushed: 2024-09-10T16:46:52.000Z (9 months ago)
- Last Synced: 2025-04-26T04:55:58.997Z (about 1 month ago)
- Language: Python
- Size: 4.07 MB
- Stars: 2
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: Readme.md
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README
# Molnodes
Explorations in Blender + Molecular Nodes.
Motivation:
- Molecular Nodes is awesome but I'd like to do a bitmore with code.
- I want to programatically build up more complicated VIZ on top of Molecular Nodes.
- idea 1: script to load a PDB, split by style and apply a color scheme or maybe make the ligand glow
- idea 2: take a PDB and an MSA and make a video/viz where conservation is moving sidechaines
- idea 3: create an interatomic nodetype that can be used to express inter-atomic or inter-residue connections for things like NMR Noesy, evolutionary coupling relationships etc.
- main need: be able to create Nodes programatically and connect them together with code.
Approach:
- load all deps and the environment in code. used pixi for its awesomeness.
- try to convert all of the MN nodes to code with the idea that that opens up CI/CD etc.
- create some simple end-to-end viz that can be invoked as a pixi task
- create some more complicated viz that links nodes together.
## Handy Scripts
```sh
## Runs Blender with an open basilisp repl
pixi run repl
## Build Molecular Node Nodes
# this will convert each GeometryNode class found in assets/MN_data_file_4.2.blend to a pythonclass
pixi run convert-MN
# create a python wheel of MolecularNodes nodes
pixi run build-wheel
# Example Script
pixi run python scripts/blendersynth/04_molnodes.py
```
## WIP Example
The wiggle in this gif is due to tow of Brady's Molecular Nodes - [animate value](https://bradyajohnston.github.io/MolecularNodes/nodes/animate.html#animate-value) and [res wiggle](https://bradyajohnston.github.io/MolecularNodes/nodes/animate.html#res-wiggle) - whicha re making this
protein wiggle based on B-factor. We could use the B-factor field to hold something else - e.g. sequence conservation in an MSA, etc.
Current workflow:
1. Load up the Network Editor in Molecular Nodes
2. When things look good, save the NodeGroup as a python class.
3. Put the class in its own package, `usernodes` which depends on `molnodes` and `molecularnodes`.
4. Load in my protein and swap Brady's Nodetree for me own.
5. Use any tool - I am trying [BlenderSynth](https://www.ollieboyne.com/BlenderSynth/) - to stage and capture the images.
Once this is in place, I can make a cli rendered for any protein of interest.
