mutual_traps

You can download the script here.

Used for making mutual trap external force file.

Usage:

python mutual_traps.py monomer_conf_file monomer_top_file virt2nuc polymer_conf_file polymer_top_file

Args:

• monomer_conf_file: monomer configuration file
• monomer_top_file: monomer topology file
• virt2nuc: virt2nuc file (can be generated from cadnano_interface.py with a cadnano json file)
• polymer_conf_file: polymer configuration file
• polymer_top_file: polymer topology file

Notes:

You can change the pairs variable at line 20 to select the pairs to apply traps as needed.