This is a virtual molecule, which enters in random chemical reactions in a soup of invisible enzymes.
Can you believe that such a complex, intricate sequence of hundreds of chemical reactions is possible, in the right order, in the presence of randomness and without any assistance from a human director? At a molecular level?
Yes, it is possible. Here is why.
All chemical reactions consist in the enzymes interacting with a small number of atoms (color coded in the video), in a random order, and facilitating certain, well chosen reactions.
Everything is purely local, there is nothing else behind the scenes.
And still it works.
What is different in this demo is that it is now possible to see the virtual molecules as made of "atoms" (they may be smaller, well chosen molecules themselves).
This is possible because of a modification of the script called by the sh script, i.e. the awk script check_1_mov2_rand_metabo.awk .
The visualization of the "true" virtual atoms is realized by representing the chemlambda nodes and their ports according to a color scheme which uses the "all_nodes_atom" field of the nodes and ports.