eureqa.py

import os
from argparse import ArgumentParser, ArgumentDefaultsHelpFormatter
from collections import namedtuple
import pathlib
import numpy as np
import pandas as pd


def eureqa(X=None, y=None, threads=4, parsimony=1e-3, alpha=10,
            maxsize=20, migration=True,
            hofMigration=True, fractionReplacedHof=0.1,
            shouldOptimizeConstants=True,
            binary_operators=["plus", "mult"],
            unary_operators=["cos", "exp", "sin"],
            niterations=20, npop=100, annealing=True,
            ncyclesperiteration=5000, fractionReplaced=0.1,
            topn=10, equation_file='hall_of_fame.csv',
            test='simple1',
            weightMutateConstant=4.0,
            weightMutateOperator=0.5,
            weightAddNode=0.5,
            weightDeleteNode=0.5,
            weightSimplify=0.05,
            weightRandomize=0.25,
            weightDoNothing=1.0,
            timeout=None,
        ):
    """ Runs symbolic regression in Julia, to fit y given X.
    Either provide a 2D numpy array for X, 1D array for y, or declare a test to run.

    Arguments:
    
     --threads THREADS     Number of threads (default: 4)
     --parsimony PARSIMONY
                           How much to punish complexity (default: 0.001)
     --alpha ALPHA         Scaling of temperature (default: 10)
     --maxsize MAXSIZE     Max size of equation (default: 20)
     --niterations NITERATIONS
                           Number of total migration periods (default: 20)
     --npop NPOP           Number of members per population (default: 100)
     --ncyclesperiteration NCYCLESPERITERATION
                           Number of evolutionary cycles per migration (default:
                           5000)
     --topn TOPN           How many best species to distribute from each
                           population (default: 10)
     --fractionReplacedHof FRACTIONREPLACEDHOF
                           Fraction of population to replace with hall of fame
                           (default: 0.1)
     --fractionReplaced FRACTIONREPLACED
                           Fraction of population to replace with best from other
                           populations (default: 0.1)
     --migration MIGRATION
                           Whether to migrate (default: True)
     --hofMigration HOFMIGRATION
                           Whether to have hall of fame migration (default: True)
     --shouldOptimizeConstants SHOULDOPTIMIZECONSTANTS
                           Whether to use classical optimization on constants
                           before every migration (doesn't impact performance
                           that much) (default: True)
     --annealing ANNEALING
                           Whether to use simulated annealing (default: True)
     --equation_file EQUATION_FILE
                           File to dump best equations to (default:
                           hall_of_fame.csv)
     --test TEST           Which test to run (default: simple1)
     --binary-operators BINARY_OPERATORS [BINARY_OPERATORS ...]
                           Binary operators. Make sure they are defined in
                           operators.jl (default: ['plus', 'mult'])
     --unary-operators UNARY_OPERATORS
                           Unary operators. Make sure they are defined in
                           operators.jl (default: ['exp', 'sin', 'cos'])

    Returns:
        Pandas dataset listing (complexity, MSE, equation string)
    """
    rand_string = f'{"".join([str(np.random.rand())[2] for i in range(20)])}'

    if isinstance(binary_operators, str): binary_operators = [binary_operators]
    if isinstance(unary_operators, str): unary_operators = [unary_operators]

    if X is None:
        if test == 'simple1':
            eval_str = "np.sign(X[:, 2])*np.abs(X[:, 2])**2.5 + 5*np.cos(X[:, 3]) - 5"
        elif test == 'simple2':
            eval_str = "np.sign(X[:, 2])*np.abs(X[:, 2])**3.5 + 1/np.abs(X[:, 0])"
        elif test == 'simple3':
            eval_str = "np.exp(X[:, 0]/2) + 12.0 + np.log(np.abs(X[:, 0])*10 + 1)"
        elif test == 'simple4':
            eval_str = "1.0 + 3*X[:, 0]**2 - 0.5*X[:, 0]**3 + 0.1*X[:, 0]**4"
        elif test == 'simple5':
            eval_str = "(np.exp(X[:, 3]) + 3)/(X[:, 1] + np.cos(X[:, 0]))"

        X = np.random.randn(100, 5)*3
        y = eval(eval_str)
        print("Running on", eval_str)

    def_hyperparams = f"""include("operators.jl")
const binops = {'[' + ', '.join(binary_operators) + ']'}
const unaops = {'[' + ', '.join(unary_operators) + ']'}
const ns=10;
const parsimony = {parsimony:f}f0
const alpha = {alpha:f}f0
const maxsize = {maxsize:d}
const migration = {'true' if migration else 'false'}
const hofMigration = {'true' if hofMigration else 'false'}
const fractionReplacedHof = {fractionReplacedHof}f0
const shouldOptimizeConstants = {'true' if shouldOptimizeConstants else 'false'}
const hofFile = "{equation_file}"
const nthreads = {threads:d}
const mutationWeights = [
    {weightMutateConstant:f},
    {weightMutateOperator:f},
    {weightAddNode:f},
    {weightDeleteNode:f},
    {weightSimplify:f},
    {weightRandomize:f},
    {weightDoNothing:f}
]
    """

    assert len(X.shape) == 2
    assert len(y.shape) == 1

    X_str = str(X.tolist()).replace('],', '];').replace(',', '')
    y_str = str(y.tolist())

    def_datasets = """const X = convert(Array{Float32, 2}, """f"{X_str})""""
const y = convert(Array{Float32, 1}, """f"{y_str})""""
    """

    starting_path = f'cd {pathlib.Path().absolute()}'
    code_path = f'cd {pathlib.Path(__file__).parent.absolute()}' #Move to filepath of code

    os.system(code_path)

    with open(f'.hyperparams_{rand_string}.jl', 'w') as f:
        print(def_hyperparams, file=f)

    with open(f'.dataset_{rand_string}.jl', 'w') as f:
        print(def_datasets, file=f)

    command = [
        'julia -O3',
        f'--threads {threads}',
        '-e',
        f'\'include(".hyperparams_{rand_string}.jl"); include(".dataset_{rand_string}.jl"); include("eureqa.jl"); fullRun({niterations:d}, npop={npop:d}, annealing={"true" if annealing else "false"}, ncyclesperiteration={ncyclesperiteration:d}, fractionReplaced={fractionReplaced:f}f0, verbosity=round(Int32, 1e9), topn={topn:d})\'',
        ]
    if timeout is not None:
        command = [f'timeout {timeout}'] + command
    cur_cmd = ' '.join(command)
    print("Running on", cur_cmd)
    os.system(cur_cmd)
    try:
        output = pd.read_csv(equation_file, sep="|")
    except FileNotFoundError:
        print("Couldn't find equation file!")
        output = pd.DataFrame()
    os.system(starting_path)
    return output





if __name__ == "__main__":
    parser = ArgumentParser(formatter_class=ArgumentDefaultsHelpFormatter)

    parser.add_argument("--threads", type=int, default=4, help="Number of threads")
    parser.add_argument("--parsimony", type=float, default=0.001, help="How much to punish complexity")
    parser.add_argument("--alpha", type=int, default=10, help="Scaling of temperature")
    parser.add_argument("--maxsize", type=int, default=20, help="Max size of equation")
    parser.add_argument("--niterations", type=int, default=20, help="Number of total migration periods")
    parser.add_argument("--npop", type=int, default=100, help="Number of members per population")
    parser.add_argument("--ncyclesperiteration", type=int, default=5000, help="Number of evolutionary cycles per migration")
    parser.add_argument("--topn", type=int, default=10, help="How many best species to distribute from each population")
    parser.add_argument("--fractionReplacedHof", type=float, default=0.1, help="Fraction of population to replace with hall of fame")
    parser.add_argument("--fractionReplaced", type=float, default=0.1, help="Fraction of population to replace with best from other populations")
    parser.add_argument("--migration", type=bool, default=True, help="Whether to migrate")
    parser.add_argument("--hofMigration", type=bool, default=True, help="Whether to have hall of fame migration")
    parser.add_argument("--shouldOptimizeConstants", type=bool, default=True, help="Whether to use classical optimization on constants before every migration (doesn't impact performance that much)")
    parser.add_argument("--annealing", type=bool, default=True, help="Whether to use simulated annealing")
    parser.add_argument("--equation_file", type=str, default='hall_of_fame.csv', help="File to dump best equations to")
    parser.add_argument("--test", type=str, default='simple1', help="Which test to run")

    parser.add_argument(
            "--binary-operators", type=str, nargs="+", default=["plus", "mult"],
            help="Binary operators. Make sure they are defined in operators.jl")
    parser.add_argument(
            "--unary-operators", type=str, nargs="+", default=["exp", "sin", "cos"],
            help="Unary operators. Make sure they are defined in operators.jl")
    args = vars(parser.parse_args()) #dict

    eureqa(**args)