Upload 3 files
Browse files- geneticAlgorithm.py +118 -0
- imageMulticlassClassification.py +536 -0
- requirements.txt +4 -0
geneticAlgorithm.py
ADDED
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| 1 |
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import tensorflow as tf
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| 2 |
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import pygad
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| 3 |
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import numpy
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| 4 |
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from imageMulticlassClassification import ImageMulticlassClassification
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def fitness_func(solution, solution_idx):
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try:
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print("solution_idx :",solution_idx)
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print("solution :",solution)
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neuronDense1 = [16, 32, 64, 128, 256, 512, 1024, 2048]
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neuronDense2 = [16, 32, 64, 128, 256, 512, 1024, 2048]
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Dropout1 = [0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8]
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Dropout2 = [0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8]
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Batchs = [16, 32, 64, 128, 256, 512, 1024, 2048]
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Activations = ["relu", "sigmoid", "softplus", "softsign", "tanh", "selu", "gelu", "linear"]
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Optimizers = ["Adam", "RMSprop", "SGD", "Adadelta", "Adagrad", "Adamax", "Ftrl", "Nadam"]
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LossFunction = ["SparseCategoricalCrossentropy", "CategoricalCrossentropy", "BinaryCrossentropy", "MeanAbsoluteError", "MeanSquaredError", "SquaredHinge", "CategoricalHinge", "CosineSimilarity"]
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usedNeuronDense1 = neuronDense1[solution[0]]
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print("==================================")
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print(f"usedNeuronDense1 : {usedNeuronDense1}")
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usedNeuronDense2 = neuronDense2[solution[1]]
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print(f"usedNeuronDense2 : {usedNeuronDense2}")
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usedDropout1 = Dropout1[solution[2]]
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print(f"usedDropout1 : {usedDropout1}")
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usedDropout2 = Dropout2[solution[3]]
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print(f"usedDropout2 : {usedDropout2}")
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usedBatchs = Batchs[solution[4]]
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print(f"usedBatchs : {usedBatchs}")
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usedActivations = Activations[solution[5]]
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print(f"usedActivations : {usedActivations}")
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usedOptimizers = Optimizers[solution[6]]
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print(f"usedOptimizers : {usedOptimizers}")
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usedLossFunction = LossFunction[solution[7]]
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print(f"usedLossFunction : {usedLossFunction}")
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print("==================================")
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imgWidth=50
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imgHeight=50
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batchSize=usedBatchs
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IMC = ImageMulticlassClassification(imgWidth,imgHeight,batchSize)
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IMC.data_MakeDataset(datasetUrl="https://huggingface.co/datasets/S1223/HandGestureDataset/resolve/main/HandGestureDataset.tgz",datasetDirectoryName="HandGestureDataset", ratioValidation=0.20)
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IMC.data_PreprocessingDataset()
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customModel = tf.keras.Sequential()
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customModel.add(tf.keras.layers.Conv2D(16, (3, 3), input_shape=(imgWidth, imgHeight, 3), activation=usedActivations))
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customModel.add(tf.keras.layers.Conv2D(16, (3, 3), activation=usedActivations))
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customModel.add(tf.keras.layers.Dropout(usedDropout1))
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customModel.add(tf.keras.layers.MaxPooling2D((2, 2)))
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customModel.add(tf.keras.layers.Flatten())
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customModel.add(tf.keras.layers.BatchNormalization())
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customModel.add(tf.keras.layers.Dense(usedNeuronDense1, activation=usedActivations))
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customModel.add(tf.keras.layers.Dense(usedNeuronDense2, activation=usedActivations))
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customModel.add(tf.keras.layers.Dropout(usedDropout2))
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customModel.add(tf.keras.layers.Dense(10, activation="softmax"))
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IMC.model_make(customModel)
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modelName = ""
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for x in solution:
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modelName += f"{str(x)}_"
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IMC.training_model(epochs=50, modelName=modelName, optimizer=usedOptimizers, lossFunction=usedLossFunction)
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IMC.evaluation(labelName=["0","1","2","3","4","5","6","7","8","9"])
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output = float(IMC.history.history["val_accuracy"][-1])
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# output = numpy.max(solution)
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# print(output)
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# print(type(output))
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print("fitness :",output)
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fitness = output
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return fitness
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except Exception as e:
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print(str(e))
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return 0.00001
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function_inputs = [1,2,3,4,5,6,7,8]
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desired_output = 5
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fitness_function = fitness_func
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num_generations = 1
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num_parents_mating = 4
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sol_per_pop = 10
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num_genes = len(function_inputs)
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init_range_low = 0
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init_range_high = 8
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parent_selection_type = "rws"
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keep_parents = 1
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crossover_type = "single_point"
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mutation_type = "swap"
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mutation_percent_genes = 'default'
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ga_instance = pygad.GA(num_generations=num_generations,
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num_parents_mating=num_parents_mating,
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fitness_func=fitness_function,
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sol_per_pop=sol_per_pop,
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num_genes=num_genes,
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init_range_low=init_range_low,
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init_range_high=init_range_high,
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parent_selection_type=parent_selection_type,
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keep_parents=keep_parents,
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crossover_type=crossover_type,
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mutation_type=mutation_type,
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mutation_percent_genes=mutation_percent_genes,
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gene_type=[int, int, int, int, int, int, int, int],
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allow_duplicate_genes=False,
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save_best_solutions=False,
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save_solutions=False)
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print("Initial Population")
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print(ga_instance.initial_population)
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print(ga_instance.run())
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solution, solution_fitness, solution_idx = ga_instance.best_solution()
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print("Parameters of the best solution : {solution}".format(solution=solution))
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print("Fitness value of the best solution = {solution_fitness}".format(solution_fitness=solution_fitness))
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# from whatsapp import FWA
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# fwa = FWA(APIkey="b2d95af932eedb4de92b3496f338aa5f97b36ae0", NoSender="6285157853522", host="http://wa.fianjulio.web.id:81")
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# print(fwa.sendTextMessage(phoneNumber="082136815488", message="Training selesai"))
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imageMulticlassClassification.py
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|
| 1 |
+
class ImageMulticlassClassification:
|
| 2 |
+
def __init__(self, imgWidth=300, imgHeight=300, batchSize=32):
|
| 3 |
+
from time import time
|
| 4 |
+
import tensorflow as tf
|
| 5 |
+
import matplotlib.pyplot as plt
|
| 6 |
+
import pathlib
|
| 7 |
+
import datetime
|
| 8 |
+
from sklearn.metrics import roc_curve, auc, roc_auc_score
|
| 9 |
+
import os
|
| 10 |
+
import keras
|
| 11 |
+
import numpy as np
|
| 12 |
+
import pandas as pd
|
| 13 |
+
import tarfile
|
| 14 |
+
import sklearn
|
| 15 |
+
|
| 16 |
+
self.time = time
|
| 17 |
+
self.sklearn = sklearn
|
| 18 |
+
self.tf = tf
|
| 19 |
+
self.plt = plt
|
| 20 |
+
self.pathlib = pathlib
|
| 21 |
+
self.datetime = datetime
|
| 22 |
+
self.roc_curve = roc_curve
|
| 23 |
+
self.roc_auc_score = roc_auc_score
|
| 24 |
+
self.auc = auc
|
| 25 |
+
self.os = os
|
| 26 |
+
self.keras = keras
|
| 27 |
+
self.np = np
|
| 28 |
+
self.AUTOTUNE = tf.data.AUTOTUNE
|
| 29 |
+
self.pd = pd
|
| 30 |
+
self.tarfile = tarfile
|
| 31 |
+
|
| 32 |
+
self.imgWidth = imgWidth
|
| 33 |
+
self.imgHeight = imgHeight
|
| 34 |
+
self.numGPU = len(self.tf.config.list_physical_devices('GPU'))
|
| 35 |
+
if self.numGPU > 0:
|
| 36 |
+
self.batchSize = batchSize * self.numGPU
|
| 37 |
+
else:
|
| 38 |
+
self.batchSize = batchSize
|
| 39 |
+
self.Model = None
|
| 40 |
+
self.time_callback = None
|
| 41 |
+
self.history = None
|
| 42 |
+
self.confusionMatrix = None
|
| 43 |
+
self.validation_label = None
|
| 44 |
+
self.trainDataset = None
|
| 45 |
+
self.validationDataset = None
|
| 46 |
+
self.accuracy = None
|
| 47 |
+
self.recall = None
|
| 48 |
+
self.precision = None
|
| 49 |
+
self.f1Score = None
|
| 50 |
+
self.modelName = ""
|
| 51 |
+
|
| 52 |
+
|
| 53 |
+
def data_MakeDataset(self, datasetUrl=None, datasetPath=None, datasetDirectoryName="Dataset Covid19 Training", ratioValidation=0.2):
|
| 54 |
+
"""
|
| 55 |
+
Purpose:
|
| 56 |
+
- Make dataset from parameter
|
| 57 |
+
|
| 58 |
+
Parameter:
|
| 59 |
+
- datasetUrl: url of dataset
|
| 60 |
+
- type: string
|
| 61 |
+
- example: "https://storage.googleapis.com/fdataset/Dataset%20Covid19%20Training.tgz"
|
| 62 |
+
- datasetPath: path of dataset
|
| 63 |
+
- type: string
|
| 64 |
+
- example: "C:/Users/User/Desktop/Dataset Covid19 Training.tgz"
|
| 65 |
+
- datasetDirectoryName: name of dataset directory
|
| 66 |
+
- type: string
|
| 67 |
+
- example: "Dataset Covid19 Training"
|
| 68 |
+
- ratioValidation: ratio of validation data
|
| 69 |
+
- type: float
|
| 70 |
+
- example: 0.2
|
| 71 |
+
|
| 72 |
+
Return:
|
| 73 |
+
- {"success":True, "code":200, "detail":"success"}
|
| 74 |
+
"""
|
| 75 |
+
try:
|
| 76 |
+
if datasetUrl is not None:
|
| 77 |
+
dataset_url = datasetUrl
|
| 78 |
+
data_dir = self.tf.keras.utils.get_file(datasetDirectoryName, origin=dataset_url, untar=True)
|
| 79 |
+
data_dir = self.pathlib.Path(data_dir)
|
| 80 |
+
elif datasetPath is not None:
|
| 81 |
+
currentPath = self.os.getcwd()
|
| 82 |
+
if self.os.path.exists(currentPath + "/" + datasetDirectoryName):
|
| 83 |
+
# remove dataset directory with all file inside
|
| 84 |
+
self.os.system("rm -rf " + currentPath + "/" + datasetDirectoryName)
|
| 85 |
+
# extract dataset
|
| 86 |
+
my_tar = self.tarfile.open(datasetPath)
|
| 87 |
+
# check if dataset directory exist then delete it
|
| 88 |
+
my_tar.extractall(currentPath) # specify which folder to extract to
|
| 89 |
+
my_tar.close()
|
| 90 |
+
data_dir = self.pathlib.Path(f'{currentPath}/{datasetDirectoryName}/')
|
| 91 |
+
|
| 92 |
+
image_count = len(list(data_dir.glob('*/*.jpg')))
|
| 93 |
+
|
| 94 |
+
train_ds = self.tf.keras.preprocessing.image_dataset_from_directory(
|
| 95 |
+
data_dir,
|
| 96 |
+
seed=123,
|
| 97 |
+
subset="training",
|
| 98 |
+
validation_split=ratioValidation,
|
| 99 |
+
image_size=(self.imgWidth, self.imgHeight),
|
| 100 |
+
batch_size=self.batchSize)
|
| 101 |
+
|
| 102 |
+
val_ds = self.tf.keras.preprocessing.image_dataset_from_directory(
|
| 103 |
+
data_dir,
|
| 104 |
+
seed=123,
|
| 105 |
+
subset="validation",
|
| 106 |
+
validation_split=ratioValidation,
|
| 107 |
+
image_size=(self.imgWidth, self.imgHeight),
|
| 108 |
+
batch_size=self.batchSize)
|
| 109 |
+
|
| 110 |
+
self.trainDataset = train_ds.cache().shuffle(1000).prefetch(buffer_size=self.AUTOTUNE)
|
| 111 |
+
self.validationDataset = val_ds.cache().prefetch(buffer_size=self.AUTOTUNE)
|
| 112 |
+
|
| 113 |
+
return {"success":True, "code":200, "detail":"success"}
|
| 114 |
+
except Exception as e:
|
| 115 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 116 |
+
|
| 117 |
+
def data_PreprocessingDataset(self, typeRandomFlip="horizontal_and_vertical", RandomRotation=0.3, RandomZoom=0.2, shuffleTrainDataset=True, augmentTrainDataset=True):
|
| 118 |
+
"""
|
| 119 |
+
Purpose:
|
| 120 |
+
- Preprocessing dataset
|
| 121 |
+
|
| 122 |
+
Parameter:
|
| 123 |
+
- typeRandomFlip: type of random flip
|
| 124 |
+
- type: string
|
| 125 |
+
- example: "horizontal_and_vertical"
|
| 126 |
+
- options: "horizontal", "vertical", "horizontal_and_vertical"
|
| 127 |
+
- RandomRotation: random rotation
|
| 128 |
+
- type: float
|
| 129 |
+
- example: 0.3
|
| 130 |
+
- RandomZoom: random zoom
|
| 131 |
+
- type: float
|
| 132 |
+
- example: 0.2
|
| 133 |
+
- shuffleTrainDataset: shuffle train dataset
|
| 134 |
+
- type: bool
|
| 135 |
+
- example: True
|
| 136 |
+
- augmentTrainDataset: augment train dataset
|
| 137 |
+
- type: bool
|
| 138 |
+
- example: True
|
| 139 |
+
|
| 140 |
+
Return:
|
| 141 |
+
- {"success":True, "code":200, "detail":"success"}
|
| 142 |
+
"""
|
| 143 |
+
try:
|
| 144 |
+
rescale = self.tf.keras.layers.Rescaling(1.0 / 255, input_shape=(self.imgWidth, self.imgHeight, 3))
|
| 145 |
+
|
| 146 |
+
data_augmentation = self.tf.keras.Sequential(
|
| 147 |
+
[
|
| 148 |
+
self.tf.keras.layers.RandomFlip(typeRandomFlip, input_shape=(self.imgWidth,self.imgHeight,3)),
|
| 149 |
+
self.tf.keras.layers.RandomRotation(RandomRotation),
|
| 150 |
+
self.tf.keras.layers.RandomZoom(RandomZoom),
|
| 151 |
+
]
|
| 152 |
+
)
|
| 153 |
+
|
| 154 |
+
|
| 155 |
+
def prepare(ds, shuffle=False, augment=False):
|
| 156 |
+
# Rescale dataset
|
| 157 |
+
ds = ds.map(lambda x, y: (rescale(x), y), num_parallel_calls=self.AUTOTUNE)
|
| 158 |
+
|
| 159 |
+
if shuffle:
|
| 160 |
+
ds = ds.shuffle(1024)
|
| 161 |
+
|
| 162 |
+
# Use data augmentation only on the training set
|
| 163 |
+
if augment:
|
| 164 |
+
ds = ds.map(lambda x, y: (data_augmentation(x), y), num_parallel_calls=self.AUTOTUNE,)
|
| 165 |
+
|
| 166 |
+
# Use buffered prefecting
|
| 167 |
+
return ds.prefetch(buffer_size=self.AUTOTUNE)
|
| 168 |
+
|
| 169 |
+
self.trainDataset = prepare(self.trainDataset, shuffle=shuffleTrainDataset, augment=augmentTrainDataset)
|
| 170 |
+
self.validationDataset = prepare(self.validationDataset)
|
| 171 |
+
|
| 172 |
+
return {"success":True, "code":200, "detail":"success"}
|
| 173 |
+
except Exception as e:
|
| 174 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 175 |
+
|
| 176 |
+
def data_GetLabelFromDataset(self, dataset):
|
| 177 |
+
"""
|
| 178 |
+
Purpose:
|
| 179 |
+
- Get label from dataset
|
| 180 |
+
|
| 181 |
+
Parameter:
|
| 182 |
+
- dataset: dataset
|
| 183 |
+
- type: tf.data.Dataset
|
| 184 |
+
- example: trainDataset
|
| 185 |
+
|
| 186 |
+
Return:
|
| 187 |
+
- {"success":True, "code":200, "detail":"success", "label":array([0, 0, 0, 0, 1, 1, 1, 0, 1, 1, 1, 0, 1, 1, 0, 1, 0, 0, 0, 0, 0, 0,
|
| 188 |
+
0, 0, 1, 1, 1, 1, 0, 1, 1, 1, 0, 0, 0, 0, 1, 1, 0, 0, 1, 1, 1, 1,
|
| 189 |
+
1, 0, 0, 1, 1, 0, 1, 0, 0, 0, 1, 1, 0, 0, 1, 1, 0, 1, 1, 0, 0, 0,
|
| 190 |
+
1, 1, 0, 0, 0, 0, 0, 0], dtype=int32)}
|
| 191 |
+
"""
|
| 192 |
+
try:
|
| 193 |
+
label = self.np.concatenate([y for x, y in dataset], axis=0)
|
| 194 |
+
return {"success":True, "code":200, "detail":"success", "label":label}
|
| 195 |
+
except Exception as e:
|
| 196 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 197 |
+
|
| 198 |
+
def model_make(self, model=None):
|
| 199 |
+
"""
|
| 200 |
+
Purpose:
|
| 201 |
+
- Make default model
|
| 202 |
+
|
| 203 |
+
Parameter:
|
| 204 |
+
- model: model
|
| 205 |
+
- type: tf.keras.Model
|
| 206 |
+
- example: model
|
| 207 |
+
- default: None
|
| 208 |
+
|
| 209 |
+
Return:
|
| 210 |
+
- {"success":True, "code":200, "detail":"success", "model":model}
|
| 211 |
+
"""
|
| 212 |
+
try:
|
| 213 |
+
if model is None:
|
| 214 |
+
model = self.tf.keras.Sequential()
|
| 215 |
+
base_model = self.tf.keras.applications.DenseNet121(include_top=False, input_shape=(self.imgWidth, self.imgHeight, 3))
|
| 216 |
+
base_model.trainable=True
|
| 217 |
+
model.add(base_model)
|
| 218 |
+
model.add(self.tf.keras.layers.Dropout(0.4))
|
| 219 |
+
model.add(self.tf.keras.layers.Flatten())
|
| 220 |
+
model.add(self.tf.keras.layers.Dense(128,activation='relu'))
|
| 221 |
+
model.add(self.tf.keras.layers.Dropout(0.5))
|
| 222 |
+
model.add(self.tf.keras.layers.Dense(32,activation='relu'))
|
| 223 |
+
model.add(self.tf.keras.layers.Dense(1, activation="sigmoid"))
|
| 224 |
+
self.Model = model
|
| 225 |
+
else:
|
| 226 |
+
self.Model = model
|
| 227 |
+
return {"success":True, "code":200, "detail":"success", "model":self.Model}
|
| 228 |
+
except Exception as e:
|
| 229 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 230 |
+
|
| 231 |
+
def training_model(self, epochs=10, lossFunction="binary_crossentropy", optimizer="adam", metrics=["accuracy"], device='/GPU:0', modelName=None):
|
| 232 |
+
"""
|
| 233 |
+
Purpose:
|
| 234 |
+
- Training model
|
| 235 |
+
|
| 236 |
+
Parameter:
|
| 237 |
+
- model: model
|
| 238 |
+
- type: tf.keras.Model
|
| 239 |
+
- example: model
|
| 240 |
+
- default: True
|
| 241 |
+
- epochs: epochs
|
| 242 |
+
- type: int
|
| 243 |
+
- example: 10
|
| 244 |
+
- lossFunction: loss function
|
| 245 |
+
- type: string
|
| 246 |
+
- example: "binary_crossentropy"
|
| 247 |
+
- options: "binary_crossentropy", "categorical_crossentropy", "sparse_categorical_crossentropy"
|
| 248 |
+
- optimizer: optimizer
|
| 249 |
+
- type: string
|
| 250 |
+
- example: "adam"
|
| 251 |
+
- options: "adam", "adamax", "nadam", "rmsprop", "sgd", tf.keras.optimizers.RMSprop(learning_rate=1e-4)
|
| 252 |
+
- metrics: metrics
|
| 253 |
+
- type: list
|
| 254 |
+
- example: ["accuracy"]
|
| 255 |
+
- device: device
|
| 256 |
+
- type: string
|
| 257 |
+
- example: "/GPU:0"
|
| 258 |
+
- options: "/CPU:0", "/GPU:0"
|
| 259 |
+
- modelName: model name
|
| 260 |
+
- type: string
|
| 261 |
+
- example: "model"
|
| 262 |
+
|
| 263 |
+
Return:
|
| 264 |
+
- {"success":True, "code":200, "detail":"success"}
|
| 265 |
+
"""
|
| 266 |
+
try:
|
| 267 |
+
if modelName is not None:
|
| 268 |
+
self.modelName = modelName
|
| 269 |
+
|
| 270 |
+
self.time_callback = TimeHistory()
|
| 271 |
+
self.Model.compile(
|
| 272 |
+
loss=lossFunction,
|
| 273 |
+
optimizer=optimizer,
|
| 274 |
+
metrics=metrics,
|
| 275 |
+
)
|
| 276 |
+
|
| 277 |
+
print(self.Model.summary())
|
| 278 |
+
|
| 279 |
+
with self.tf.device(device):
|
| 280 |
+
self.history = self.Model.fit(
|
| 281 |
+
self.trainDataset, validation_data=self.validationDataset, epochs=epochs, verbose=1, callbacks=[self.time_callback]
|
| 282 |
+
)
|
| 283 |
+
# make excel file report.xlsx and save data in column 1 is number of training loss, column 2 is training accuracy, column 3 is validation loss, column 4 is validation accuracy, column 5 is training time
|
| 284 |
+
dataFrameHistory = self.pd.DataFrame({"training_loss":self.history.history["loss"], "training_accuracy":self.history.history["accuracy"], "validation_loss":self.history.history["val_loss"], "validation_accuracy":self.history.history["val_accuracy"], "training_time":self.time_callback.times})
|
| 285 |
+
dataFrameHistory.to_excel(f"report_{self.modelName}.xlsx")
|
| 286 |
+
|
| 287 |
+
return {"success":True, "code":200, "detail":"success"}
|
| 288 |
+
except Exception as e:
|
| 289 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 290 |
+
|
| 291 |
+
def training_model_multiGPU(self, epochs=10, lossFunction="binary_crossentropy", optimizer="adam", metrics=["accuracy"], device='/GPU:0', modelName=None):
|
| 292 |
+
"""
|
| 293 |
+
Purpose:
|
| 294 |
+
- Training model with multi GPU support, with mirrored strategy
|
| 295 |
+
|
| 296 |
+
Parameter:
|
| 297 |
+
- model: model
|
| 298 |
+
- type: tf.keras.Model
|
| 299 |
+
- example: model
|
| 300 |
+
- default: True
|
| 301 |
+
- epochs: epochs
|
| 302 |
+
- type: int
|
| 303 |
+
- example: 10
|
| 304 |
+
- lossFunction: loss function
|
| 305 |
+
- type: string
|
| 306 |
+
- example: "binary_crossentropy"
|
| 307 |
+
- options: "binary_crossentropy", "categorical_crossentropy", "sparse_categorical_crossentropy"
|
| 308 |
+
- optimizer: optimizer
|
| 309 |
+
- type: string
|
| 310 |
+
- example: "adam"
|
| 311 |
+
- options: "adam", "adamax", "nadam", "rmsprop", "sgd", tf.keras.optimizers.RMSprop(learning_rate=1e-4)
|
| 312 |
+
- metrics: metrics
|
| 313 |
+
- type: list
|
| 314 |
+
- example: ["accuracy"]
|
| 315 |
+
- device: device
|
| 316 |
+
- type: string
|
| 317 |
+
- example: "/GPU:0"
|
| 318 |
+
- options: "/CPU:0", "/GPU:0"
|
| 319 |
+
|
| 320 |
+
Return:
|
| 321 |
+
- {"success":True, "code":200, "detail":"success"}
|
| 322 |
+
"""
|
| 323 |
+
try:
|
| 324 |
+
if modelName is not None:
|
| 325 |
+
self.modelName = modelName
|
| 326 |
+
|
| 327 |
+
self.time_callback = TimeHistory()
|
| 328 |
+
|
| 329 |
+
print(self.Model.summary())
|
| 330 |
+
strategy = self.tf.distribute.MirroredStrategy()
|
| 331 |
+
with strategy.scope():
|
| 332 |
+
model = self.Model
|
| 333 |
+
model.compile(loss=lossFunction, optimizer=optimizer, metrics=metrics)
|
| 334 |
+
|
| 335 |
+
self.history = model.fit(self.trainDataset, validation_data=self.validationDataset, epochs=epochs, verbose=1, callbacks=[self.time_callback])
|
| 336 |
+
# make excel file report.xlsx and save data in column 1 is number of training loss, column 2 is training accuracy, column 3 is validation loss, column 4 is validation accuracy, column 5 is training time
|
| 337 |
+
dataFrameHistory = self.pd.DataFrame({"training_loss":self.history.history["loss"], "training_accuracy":self.history.history["accuracy"], "validation_loss":self.history.history["val_loss"], "validation_accuracy":self.history.history["val_accuracy"], "training_time":self.time_callback.times})
|
| 338 |
+
dataFrameHistory.to_excel(f"report_{self.modelName}.xlsx")
|
| 339 |
+
|
| 340 |
+
return {"success":True, "code":200, "detail":"success"}
|
| 341 |
+
except Exception as e:
|
| 342 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 343 |
+
|
| 344 |
+
def evaluation(self, labelName=["COVID19", "NORMAL"]):
|
| 345 |
+
"""
|
| 346 |
+
Purpose:
|
| 347 |
+
- Evaluation model with confusionMatrix, precision, recall, f1Score, accuracy
|
| 348 |
+
|
| 349 |
+
Parameter:
|
| 350 |
+
- labelName: label name
|
| 351 |
+
- type: list
|
| 352 |
+
- example: ["COVID19", "NORMAL"]
|
| 353 |
+
|
| 354 |
+
Return:
|
| 355 |
+
- {"success":True, "code":200, "detail":"success", "confusionMatrix":confusionMatrix, "precision":precision, "recall":recall, "f1Score":f1Score, "accuracy":accuracy}
|
| 356 |
+
"""
|
| 357 |
+
try:
|
| 358 |
+
self.Model.evaluate(self.validationDataset)
|
| 359 |
+
# get prediction result as label
|
| 360 |
+
prediction_result = self.Model.predict(self.validationDataset)
|
| 361 |
+
prediction_result = self.np.argmax(prediction_result, axis=1)
|
| 362 |
+
self.validation_label = self.np.concatenate([y for x, y in self.validationDataset], axis=0)
|
| 363 |
+
# make confusion matrix for multi class using tensorflow
|
| 364 |
+
self.confusionMatrix = self.tf.math.confusion_matrix(labels=self.validation_label, predictions=prediction_result).numpy()
|
| 365 |
+
# get accuracy, precision, recall, f1Score for multi class
|
| 366 |
+
self.accuracy = self.sklearn.metrics.accuracy_score(self.validation_label, prediction_result)
|
| 367 |
+
self.precision = self.sklearn.metrics.precision_score(self.validation_label, prediction_result, average="macro")
|
| 368 |
+
self.recall = self.sklearn.metrics.recall_score(self.validation_label, prediction_result, average="macro")
|
| 369 |
+
self.f1Score = self.sklearn.metrics.f1_score(self.validation_label, prediction_result, average="macro")
|
| 370 |
+
self.__drawConfusionMatrix(labelName)
|
| 371 |
+
self.__drawROC()
|
| 372 |
+
# save accuracy, recall, precision, f1Score in excel file which name is reportScore_.xlsx
|
| 373 |
+
dataFrameScore = self.pd.DataFrame({"accuracy":[self.accuracy], "recall":[self.recall], "precision":[self.precision], "f1Score":[self.f1Score]})
|
| 374 |
+
dataFrameScore.to_excel(f"reportScore_{self.modelName}.xlsx")
|
| 375 |
+
# draw history accuracy with training and validation dataset
|
| 376 |
+
self.__drawHistoryAccuracy()
|
| 377 |
+
# draw history loss with training and validation dataset
|
| 378 |
+
self.__drawHistoryLoss()
|
| 379 |
+
return {"success":True, "code":200, "detail":"success"}
|
| 380 |
+
except Exception as e:
|
| 381 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 382 |
+
|
| 383 |
+
def __drawConfusionMatrix(self, labelName=["COVID19", "NORMAL"]):
|
| 384 |
+
# draw confusion matrix with numeric value on the center and library matplotlib with label of validation dataset like this sample https://scikit-learn.org/stable/_images/sklearn-metrics-plot_confusion_matrix-1.png
|
| 385 |
+
labelName.sort()
|
| 386 |
+
fig, ax = self.plt.subplots()
|
| 387 |
+
im = ax.imshow(self.confusionMatrix)
|
| 388 |
+
ax.figure.colorbar(im, ax=ax)
|
| 389 |
+
ax.set(xticks=self.np.arange(self.confusionMatrix.shape[1]), yticks=self.np.arange(self.confusionMatrix.shape[0]), xticklabels=labelName, yticklabels=labelName, title="Confusion Matrix", ylabel="True label", xlabel="Predicted label")
|
| 390 |
+
ax.set_xlabel("Predicted")
|
| 391 |
+
ax.set_ylabel("True")
|
| 392 |
+
self.plt.setp(ax.get_xticklabels(), rotation=45, ha="right", rotation_mode="anchor")
|
| 393 |
+
for i in range(self.confusionMatrix.shape[0]):
|
| 394 |
+
for j in range(self.confusionMatrix.shape[1]):
|
| 395 |
+
ax.text(j, i, self.confusionMatrix[i, j], ha="center", va="center", color="w")
|
| 396 |
+
self.plt.tight_layout()
|
| 397 |
+
self.plt.savefig(f"confusionMatrix_{self.modelName}.png")
|
| 398 |
+
self.plt.show()
|
| 399 |
+
self.plt.close()
|
| 400 |
+
# save confusion matrix to excel file
|
| 401 |
+
dataFrameConfusionMatrix = self.pd.DataFrame(self.confusionMatrix)
|
| 402 |
+
dataFrameConfusionMatrix.to_excel(f"confusionMatrix_{self.modelName}.xlsx")
|
| 403 |
+
|
| 404 |
+
def __drawROC(self):
|
| 405 |
+
"""
|
| 406 |
+
Purpose:
|
| 407 |
+
- Draw ROC curve like this sample https://scikit-learn.org/stable/_images/sphx_glr_plot_roc_001.png for multi class
|
| 408 |
+
"""
|
| 409 |
+
predictResult = self.Model.predict(self.validationDataset)
|
| 410 |
+
fpr, tpr, thresholds = self.sklearn.metrics.roc_curve(self.validation_label, predictResult[:, 1], pos_label=1)
|
| 411 |
+
self.auc = self.sklearn.metrics.auc(fpr, tpr)
|
| 412 |
+
fig, ax = self.plt.subplots()
|
| 413 |
+
ax.plot(fpr, tpr, label="ROC curve (area = %0.2f)" % self.auc)
|
| 414 |
+
ax.plot([0, 1], [0, 1], "k--")
|
| 415 |
+
ax.set_xlim([0.0, 1.0])
|
| 416 |
+
ax.set_ylim([0.0, 1.05])
|
| 417 |
+
ax.set_xlabel("False Positive Rate")
|
| 418 |
+
ax.set_ylabel("True Positive Rate")
|
| 419 |
+
ax.set_title("Receiver operating characteristic")
|
| 420 |
+
ax.legend(loc="best")
|
| 421 |
+
self.plt.savefig(f"ROC_{self.modelName}.png")
|
| 422 |
+
self.plt.show()
|
| 423 |
+
self.plt.close()
|
| 424 |
+
# save ROC curve to excel file
|
| 425 |
+
dataFrameROC = self.pd.DataFrame({"fpr":fpr, "tpr":tpr, "thresholds":thresholds, "auc":self.auc})
|
| 426 |
+
dataFrameROC.to_excel(f"ROC_{self.modelName}.xlsx")
|
| 427 |
+
|
| 428 |
+
def __drawHistoryAccuracy(self):
|
| 429 |
+
"""
|
| 430 |
+
Purpose:
|
| 431 |
+
- Draw history accuracy with training and validation dataset
|
| 432 |
+
"""
|
| 433 |
+
fig, ax = self.plt.subplots()
|
| 434 |
+
ax.plot(self.history.history["accuracy"], label="training dataset")
|
| 435 |
+
ax.plot(self.history.history["val_accuracy"], label="validation dataset")
|
| 436 |
+
ax.set_xlabel("Epoch")
|
| 437 |
+
ax.set_ylabel("Accuracy")
|
| 438 |
+
ax.set_title("Accuracy")
|
| 439 |
+
ax.legend(loc="best")
|
| 440 |
+
self.plt.savefig(f"historyAccuracy_{self.modelName}.png")
|
| 441 |
+
self.plt.show()
|
| 442 |
+
self.plt.close()
|
| 443 |
+
|
| 444 |
+
def __drawHistoryLoss(self):
|
| 445 |
+
"""
|
| 446 |
+
Purpose:
|
| 447 |
+
- Draw history loss with training and validation dataset
|
| 448 |
+
"""
|
| 449 |
+
fig, ax = self.plt.subplots()
|
| 450 |
+
ax.plot(self.history.history["loss"], label="training dataset")
|
| 451 |
+
ax.plot(self.history.history["val_loss"], label="validation dataset")
|
| 452 |
+
ax.set_xlabel("Epoch")
|
| 453 |
+
ax.set_ylabel("Loss")
|
| 454 |
+
ax.set_title("Loss")
|
| 455 |
+
ax.legend(loc="best")
|
| 456 |
+
self.plt.savefig(f"historyLoss_{self.modelName}.png")
|
| 457 |
+
self.plt.show()
|
| 458 |
+
self.plt.close()
|
| 459 |
+
|
| 460 |
+
def import_data_Dataset(self, trainDataset, validationDataset):
|
| 461 |
+
"""
|
| 462 |
+
Purpose:
|
| 463 |
+
- Import dataset
|
| 464 |
+
|
| 465 |
+
Parameter:
|
| 466 |
+
- trainDataset: dataset
|
| 467 |
+
- type: tf.data.Dataset
|
| 468 |
+
- example: trainDataset
|
| 469 |
+
- validationDataset: dataset
|
| 470 |
+
- type: tf.data.Dataset
|
| 471 |
+
- example: validationDataset
|
| 472 |
+
|
| 473 |
+
Return:
|
| 474 |
+
- {"success":True, "code":200, "detail":"success"}
|
| 475 |
+
"""
|
| 476 |
+
try:
|
| 477 |
+
self.trainDataset = trainDataset
|
| 478 |
+
self.validationDataset = validationDataset
|
| 479 |
+
return {"success":True, "code":200, "detail":"success"}
|
| 480 |
+
except Exception as e:
|
| 481 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 482 |
+
|
| 483 |
+
def saveModelWithWeight(self, fileName):
|
| 484 |
+
"""
|
| 485 |
+
Purpose:
|
| 486 |
+
- Save model with weight
|
| 487 |
+
|
| 488 |
+
Parameter:
|
| 489 |
+
- fileName: file name
|
| 490 |
+
- type: string
|
| 491 |
+
- example: "my_model"
|
| 492 |
+
- options: "my_model", "gs://bucket/my_model"
|
| 493 |
+
|
| 494 |
+
Return:
|
| 495 |
+
- {"success":True, "code":200, "detail":"success"}
|
| 496 |
+
"""
|
| 497 |
+
try:
|
| 498 |
+
self.Model.save(fileName)
|
| 499 |
+
return {"success":True, "code":200, "detail":"success"}
|
| 500 |
+
except Exception as e:
|
| 501 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 502 |
+
|
| 503 |
+
def loadModelWithWeightAndCustomObject(self, fileName, customObject):
|
| 504 |
+
"""
|
| 505 |
+
Purpose:
|
| 506 |
+
- Load model with weight and custom object
|
| 507 |
+
|
| 508 |
+
Parameter:
|
| 509 |
+
- fileName: file name
|
| 510 |
+
- type: string
|
| 511 |
+
- example: "my_model"
|
| 512 |
+
- options: "my_model", "gs://bucket/my_model"
|
| 513 |
+
- customObject: custom object
|
| 514 |
+
- type: dict
|
| 515 |
+
- example: {"MyCustomObject":MyCustomObject}
|
| 516 |
+
|
| 517 |
+
Return:
|
| 518 |
+
- {"success":True, "code":200, "detail":"success"}
|
| 519 |
+
"""
|
| 520 |
+
try:
|
| 521 |
+
self.Model = self.tf.keras.models.load_model(fileName, custom_objects=customObject)
|
| 522 |
+
return {"success":True, "code":200, "detail":"success"}
|
| 523 |
+
except Exception as e:
|
| 524 |
+
return {"success":False, "code":500, "detail":str(e)}
|
| 525 |
+
|
| 526 |
+
import tensorflow as tf
|
| 527 |
+
from time import time
|
| 528 |
+
class TimeHistory(tf.keras.callbacks.Callback):
|
| 529 |
+
def on_train_begin(self, logs={}):
|
| 530 |
+
self.times = []
|
| 531 |
+
|
| 532 |
+
def on_epoch_begin(self, batch, logs={}):
|
| 533 |
+
self.epoch_time_start = time()
|
| 534 |
+
|
| 535 |
+
def on_epoch_end(self, batch, logs={}):
|
| 536 |
+
self.times.append(time() - self.epoch_time_start)
|
requirements.txt
ADDED
|
@@ -0,0 +1,4 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
pygad == 2.19.2
|
| 2 |
+
tensorflow
|
| 3 |
+
numpy
|
| 4 |
+
pandas
|