Library of PyMOL Python snippets for installing and running Open Source PyMOL on Google Colab via a Colab notebook
Click here for the notebook for the Incentive PyMOL.
Click on Colab badge to open the notebook on Colab:
Note that on 2023 May 14, Colab was using Python3.10. I changed the path in the script.
You will have to create a python env using python3.10 if you install open source pymol locally:
conda create -n pymol310 python=3.10 conda -c conda install -c conda-forge pymol-open-source
See the first cell in the notebook for install instructions. I checked that this still works on 1 September 2022.
The installPyMOL snippet will install PyMOL with one click of a button.
The installation process takes 5-10 minutes, so be patient.
A progress bar monitors the progress of the installation.
This readme file is a work in progress.
Pre-requisite: a Google Drive account.
This action will open the snippet notebook on Colab. The top of the screen should look like the following:
Use the File/Save copy in Drive pulldown menu item.
If you run some code cells, you might get a message like the following:
Ignore this warning. Click on run anyway.
Paste the URL onto the line Custom snippet notebook URL:
This step takes 5-10 minutes. Ignore this warning:
The result looks like the following image:
- easypymol
- pymolshortcuts
- pymolsnips
- orgpymolpysnips
- rstudiopymolpysnips
- taggedpymolpysnips
- jupyterlabpymolpysnips
- colabPyMOLpySnips
- PyMOLwallhangings
| Version | Changes | Date |
|---|---|---|
| Version 0.2 | Added badges, funding, and update table | 2024 May 8 |
- NIH: R01 CA242845, R01 AI088011
- NIH: P30 CA225520 (PI: R. Mannel); P20GM103640 and P30GM145423 (PI: A. West)