Git install scripts

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Manual download of scripts

If you don't have the option or want't to install git on your system, then go to

Click the "ZIP" button, near the top left corner. Now unpack the files to a directory. For example:




Now go to: Adding Pymol-script-repo to PyMOL search path [1]

Git install instructions

For windows users

  1. Install Git for Windows.

Use following settings in options, (You can read more here).

  • Windows Explorer Integration -> Context Menu Entries -> Git Bash Here + Git GUI here
  • Run Git and included Unix tools from Windows Command prompts
  • Checkout Windows style, commit Unix-style endings
  1. Navigate to: C:\Users\YOURNAME\Documents
  2. Right click in folder -> Select: Git Gui -> Clone Existing Repository
  3. Source Location: git://
  4. Target Directory: C:\\Users\\YOURNAME\\Documents\\Pymol-script-repo

You now have all the scripts available in your directory.

For Ubuntu/Mint users

  1. Install git
sudo apt-get install git
  1. Navigate to desired folder:
cd /home/YOURNAME/Software/pymol
git clone git://

You now have all the scripts available in: /home/YOURNAME/Software/pymol/Pymol-script-repo

Adding Pymol-script-repo to PyMOL search path

You now have to add the "Pymol-script-repo" directory to the PyMOL search path.

The project also have automatically plugin installer:
This is activated with: import plugins

For windows users

  1. Open notepad
  2. Write (Remember forward slashes)
import sys
import plugins

Save under: C:/Users/YOURNAME/pymolrc.pym (Set: "Save as type" to "All files")

For Ubuntu/Mint users

gedit ~/.pymolrc


import sys
import plugins

Save and exit

Test the Scripts

Now start PyMOL, and test in PyMOL.

print sys.path
import colorbydisplacement

Get latest changes to scripts

If new scripts are available or changes have been made, then:

For windows users

  1. Navigate to C:/Users/YOURNAME/Documents/Pymol-script-repo
  2. Right click in folder -> Select: Git Bash
  3. Write in terminal
git pull origin master

For Ubuntu/Mint users

  1. Navigate to /home/YOURNAME/Software/pymol/Pymol-script-repo
  2. Write in terminal.
git pull origin master

Do you want to contribute with a script?

Information how to contribute scripts to the repository. It's easy!