mevo 0.0.2
Evolutionary Algorithms in Python
Requires Python: >=3.8

# MEvo

---
[![Unittest](https://github.com/MorvanZhou/mevo/actions/workflows/python-package.yml/badge.svg)](https://github.com/MorvanZhou/mevo/actions/workflows/python-package.yml)
[![GitHub license](https://img.shields.io/github/license/MorvanZhou/mevo)](https://github.com/MorvanZhou/mevo/blob/master/LICENSE)

MEvo is a evolutionary algorithm package, which implements Genetic Algorithm and Evolution Strategies Algorithms.
It can be used to form an agent strategy or optimize math problems.

# Quick look

Training a cartpole policy by using Genetic Algorithm.

```python
import mevo
import gymnasium
import numpy as np


# define a fitness function to get fitness for every individual
def fitness_fn(ind: mevo.individuals.Individual, conf: dict) -> float:
    ep_r = 0
    env = gymnasium.make('CartPole-v1')
    env.reset()
    for _ in range(2):
        s, _ = env.reset()
        for _ in range(500):  # in one episode
            logits = ind.predict(s)
            a = np.argmax(logits)
            s, r, done, _, _ = env.step(a)
            ep_r += r
            if done:
                break
    return ep_r


# training
with mevo.GeneticAlgoNet(max_size=20, layer_size=[4, 8, 2], drop_rate=0.7, mutate_rate=0.5) as pop:
    for generation in range(40):
        pop.evolve(fitness_fn=fitness_fn)
        print(f"generation={generation}, top_fitness={pop.top.fitness:.f2}")
```

After only 40 generations in a population (20 individuals), it gives a greate result.
Use following code to visualize the learned policy.

```python
# deploy the best individual
env = gymnasium.make('CartPole-v1', render_mode="human")
while True:
    s, _ = env.reset()
    while True:  # in one episode
        logits = pop.top.predict(s)
        a = np.argmax(logits)
        s, _, done = env.step(a)[:3]
        if done:
            break
```

![cartpole](https://github.com/MorvanZhou/mevo/raw/main/images/cartpole.gif)

# What is MEvo

In the MEvo, the smallest data segment is Gene. A set of gene can be packed into a Chromosome.
Chromosomes then formed an Individual. A Population consists of many individuals.

![data](https://github.com/MorvanZhou/mevo/raw/main/images/dataStructural.png)

This is different from the classical Genetic Algorithm which their chromosome only consists of a 1D array.
In other words, chromosome in the MEvo is n-D array with different shape.

![data](https://github.com/MorvanZhou/mevo/raw/main/images/dataShape.png)

**Why making data shape varied?**

Because we want to possibly evolve a neural network which has multiple layers in various shape.

MEvo has two different algorithm families.

- Genetic Algorithm family
- Evolution Strategy family

The Genetic Algorithm basically has two steps:

1. crossover the chromosomes in a population
2. mutate gene in new generation

The following image shows how crossover on two parents chromosomes,
and how to mutate the new chromosome.

![crossoverMutation](https://github.com/MorvanZhou/mevo/raw/main/images/crossoverMutation.png)

And MEvo's Evolution Strategy has different two steps:

1. mutate gene (normal distribution) from one single chromosome
2. update this chromosome by all mutated results

![es](https://github.com/MorvanZhou/mevo/raw/main/images/es.png)

# Parallel training

MEvo support parallel training. Simply set `n_worker` > 1 to unlock your machine power for training on multiple cores.
When `n_worker=-1` then use all your cores.

Simply replace the `pop` definition by including `n_worker` from previous code.

```python
# parallel training
if __name__ == "__main__":
    with mevo.GeneticAlgoNet(max_size=20, layer_size=[4, 8, 2], n_worker=-1, drop_rate=0.7, mutate_rate=0.5) as pop:
        for generation in range(40):
            pop.evolve(fitness_fn=fitness_fn)
            print(f"generation={generation}, top_fitness={pop.top.fitness:.2f}")
```

Note that the parallel code must be run under `if __name__ == "__main__"：` scope,
otherwise a python multiprocessing err will occur.

# Install

Using pip to install MEvo

```shell
pip3 install mevo
```

# Methods and Parameters

MEvo support following populations:

- mevo.GeneticAlgoInt()
- mevo.GeneticAlgoFloat()
- mevo.GeneticAlgoOrder()
- mevo.GeneticAlgoNet()
- mevo.EvolutionStrategyNet()

## A classical genetic algorithm problem

such as Travel Sales Problem (TSP) can be solved by following classical Populations:

- mevo.GeneticAlgoInt()
- mevo.GeneticAlgoFloat()
- mevo.GeneticAlgoOrder()

### A Travel Sales Problem example using `pop = mevo.GeneticAlgoOrder()`:

```python
import mevo
import numpy as np

positions = [np.random.rand(2) for _ in range(20)]


def distance_fitness_fn(ind: mevo.individuals.Individual, conf: dict) -> float:
    order = [c.data[0] for c in ind.chromosomes]
    cost = 0
    for i in range(len(order) - 1):
        p1, p2 = positions[order[i]], positions[order[i + 1]]
        cost += np.square(p1 - p2).sum()
    fitness = -cost
    return fitness


pop = mevo.GeneticAlgoOrder(
    max_size=50,
    chromo_size=len(positions),
    drop_rate=0.3,
    mutate_rate=0.01,
)
pop.run(fitness_fn=distance_fitness_fn, step=30)
```

### An optimization problem example using `pop = mevo.GeneticAlgoInt()`:

```python
import mevo
import numpy as np


def wave_fitness_fn(ind: mevo.individuals.Individual, conf: dict) -> float:
    binary = [c.data for c in ind.chromosomes]
    c = np.concatenate(binary, axis=0)
    a = 2 ** np.arange(len(c))[::-1]
    decimal = c.dot(a)

    x = decimal / float(2 ** len(c) - 1) * 5
    o = np.sin(10 * x) * x + np.cos(2 * x) * x
    return o


pop = mevo.GeneticAlgoInt(
    max_size=20,
    chromo_size=10,
    drop_rate=0.3,
    chromo_initializer=mevo.chromosomes.initializers.RandomInt(0, 2),
    mutate_rate=0.01,
)
pop.run(step=20, fitness_fn=wave_fitness_fn)
```

## Deep Net Evolution

For policy learning or Reinforcement learning alternative, the following two methods has their advantages.

- mevo.GeneticAlgoNet()
- mevo.EvolutionStrategyNet()

|              | Reinforcement Learning               | MEvo                                                                                                  |
|--------------|--------------------------------------|-------------------------------------------------------------------------------------------------------|
| Training     | Has forward and backward propagation | Only has forward propagation, but need crossover or mutation operation (lighter than backpropagation) |
| Exploration  | Needs carefully set explore policy   | Different children setting automatically ensure the exploration                                       |
| Memory needs | Can only keep one set of parameters  | In each generation, must compute all children's parameters (parallel computing save time)             |
| Network Size | Generally large and deep net         | With a large scale exploration, a relatively small net can perform a good job                         |

### A `mevo.GeneticAlgoNet()` example:

```python
import mevo
import gymnasium
import numpy as np


def fitness_fn(ind: mevo.individuals.Individual, conf: dict) -> float:
    ep_r = 0
    env = gymnasium.make('Pendulum-v1')
    env.reset(seed=conf["seed"])
    for _ in range(2):
        s, _ = env.reset()
        for _ in range(150):  # in one episode
            logits = ind.predict(s)
            a = np.tanh(logits) * 2
            s, r, _, _, _ = env.step(a)
            ep_r += r
    return ep_r


def train():
    with mevo.GeneticAlgoNet(
            max_size=30,
            layer_size=[3, 32, 1],
            drop_rate=0.7,
            mutate_rate=0.5,
            n_worker=-1,
    ) as pop:
        for ep in range(700):
            pop.evolve(
                fitness_fn=fitness_fn,
            )
            print(ep, pop.top.fitness)
    return pop.top


def show(top):
    env = gymnasium.make('Pendulum-v1', render_mode="human")
    while True:
        s, _ = env.reset()
        for _ in range(200):  # in one episode
            logits = top.predict(s)
            a = np.tanh(logits) * 2
            s, _, _, _, _ = env.step(a)


if __name__ == "__main__":
    top = train()
    show(top)
```

### A `mevo.EvolutionStrategyNet()` example:

```python
import mevo
import gymnasium
import numpy as np


def fitness_fn(ind: mevo.individuals.EvolutionStrategyDense, conf: dict) -> float:
    ep_r = 0
    seed = conf["seed"]
    index = conf["index"]

    env = gymnasium.make('Pendulum-v1')

    # ! must set seed and clone when using mevo.EvolutionStrategyNet()
    env.reset(seed=conf["seed"])
    c_ind = ind.clone_with_mutate(index, seed)
    # ###############

    for _ in range(2):
        s, _ = env.reset()
        for _ in range(100):
            logits = c_ind.predict(s)
            a = np.tanh(logits) * 2
            s, r, _, _, _ = env.step(a)
            ep_r += r
    return ep_r


def train():
    with mevo.EvolutionStrategyNet(
            max_size=15,
            layer_size=[3, 32, 1],
            mutate_strength=0.05,
            learning_rate=0.1,
            n_worker=-1,
            seed=2
    ) as pop:
        for ep in range(700):
            pop.evolve(fitness_fn=fitness_fn)
            print(ep, pop.top.fitness)
    return pop.top


def show(top):
    env = gymnasium.make(
        'Pendulum-v1',
        render_mode="human"
    )
    while True:
        s, _ = env.reset()
        for _ in range(200):  # in one episode
            logits = top.predict(s)
            a = np.tanh(logits) * 2
            s, _, _, _, _ = env.step(a)


if __name__ == "__main__":
    top = train()
    show(top)
```