Random Networks¶

Early implementation

TAGS : "uniform compartment"¶

In [1]:

LAST_REVISED = "Feb. 16, 2026"
LIFE123_VERSION = "1.0.0rc7"         # Library version this experiment is based on

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#import set_path            # Using MyBinder?  Uncomment this before running the next cell!
                            # Importing this module will add the project's home directory to sys.path

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#import sys, os
#os.getcwd()
#sys.path.append("C:/some_path/my_env_or_install")   # CHANGE to the folder containing your venv or libraries installation!
# NOTE: If any of the imports below can't find a module, uncomment the lines above, or try:  import set_path

import ipynbname

from life123 import check_version, RandomReactionNetwork, UniformCompartment

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check_version(LIFE123_VERSION)    # To check compatibility

OK

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# Initialize the HTML logging (for the graphics)
log_file = ipynbname.name() + ".log.htm"    # Use the notebook base filename for the log file
                                            # IN CASE OF PROBLEMS, set manually to any desired name

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Set up Random Network (no thermodynamic nor kinetic data)¶

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net = RandomReactionNetwork(n_chems=4, n_rxns=6)

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net.chem_data.get_all_labels()

Out[7]:

['A', 'B', 'C', 'D']

The above chemical labels were auto-generated¶

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net.registry.number_of_reactions()

Out[8]:

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for i in range(net.registry.number_of_reactions()):
    rxn = net.registry.get_reaction(i)
    print(f"({i}) {rxn.describe(concise=False)}")

(0) D + B  <-> A  Elementary Synthesis reaction
(1) A + D  <-> B  Elementary Synthesis reaction
(2) C + A  <-> B  Elementary Synthesis reaction
(3) 2 A  <-> B  Elementary Synthesis reaction
(4) A + B  <-> C  Elementary Synthesis reaction
(5) C <-> A + D  Elementary Decomposition reaction

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# Instantiate the simulator with our chemicals and reactions
uc = UniformCompartment(reactions=net.registry)

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# Send a plot of the network of reactions to the HTML log file
uc.plot_reaction_network(log_file=log_file)

[GRAPHIC ELEMENT SENT TO FILE `random_networks_1.log.htm`]