In this tutorial, you will learn how the Keras
.fit_generator functions work, including the differences between them. To help you gain hands-on experience, I’ve included a full example showing you how to implement a Keras data generator from scratch.
Today’s blog post is inspired by PyImageSearch reader, Shey.
Hi Adrian, thanks for your tutorials. I’ve been methodically going through every one. They’ve really helped me learn deep learning.
I have a question about the Keras “.fit_generator” function.
I’ve noticed you use it quite a bit in your blog posts but I’m not really sure how the function is different than Keras’ standard “.fit” function.
How is it different? How do I know when to use each? And how to I create a data generator for the “.fit_generator” function?
Shey asks a great question.
The Keras deep learning library includes three separate functions that can be used to train your own models:
If you’re new to Keras and deep learning you may feel a bit overwhelmed trying to determine which function you’re supposed to use — this confusion is only compounded if you need to work with your own custom data.
To help lift the cloud of confusion regarding the Keras fit and fit_generator functions, I’m going to spend this tutorial discussing:
- The differences between Keras’
- When to use each when training your own deep learning models
- How to implement your own Keras data generator and utilize it when training a model using
- How to use the
.predict_generatorfunction when evaluating your network after training
To learn more about Keras’
.fit_generator functions, including how to train a deep learning model on your own custom dataset, just keep reading!
How to use Keras fit and fit_generator (a hands-on tutorial)
2020-05-13 Update: This blog post is now TensorFlow 2+ compatible! TensorFlow is in the process of deprecating the
.fit_generator method which supported data augmentation. If you are using
tensorflow-gpu==2.2.0 (or higher), then you must use the
.fit method (which now supports data augmentation). Please keep this in mind while reading this legacy tutorial. Of course the concept of data augmentation stays the same. Please note that the code in the tutorial is updated for TensorFlow 2.2+ compatibility, however you may still see in-text references for the legacy
In the first part of today’s tutorial we’ll discuss the differences between Keras’
.fit_generator , and
From there I’ll show you an example of a “non-standard” image dataset which doesn’t contain any actual PNG, JPEG, etc. images at all! Instead, the entire image dataset is represented by two CSV files, one for training and the second for evaluation.
Our goal will be to implement a Keras generator capable of training a network on this CSV image data (don’t worry, I’ll show you how to implement such a generator function from scratch).
Finally, we’ll train and evaluate our network.
When to use Keras’ fit, fit_generator, and train_on_batch functions?
Keras provides three functions that can be used to train your own deep learning models:
All three of these functions can essentially accomplish the same task — but how they go about doing it is very different.
Let’s explore each of these functions one-by-one, looking at an example function call, and then discussing how they are different from each other.
The Keras .fit function
Let’s start with a call to
model.fit(trainX, trainY, batch_size=32, epochs=50)
Here you can see that we are supplying our training data (
trainX ) and training labels (
We then instruct Keras to allow our model to train for
50 epochs with a batch size of
The call to
.fit is making two primary assumptions here:
- Our entire training set can fit into RAM
- There is no data augmentation going on (i.e., there is no need for Keras generators)
Instead, our network will be trained on the raw data.
The raw data itself will fit into memory — we have no need to move old batches of data out of RAM and move new batches of data into RAM.
Furthermore, we will not be manipulating the training data on the fly using data augmentation.
The Keras fit_generator function
For small, simplistic datasets it’s perfectly acceptable to use Keras’
These datasets are often not very challenging and do not require any data augmentation.
However, real-world datasets are rarely that simple:
- Real-world datasets are often too large to fit into memory.
- They also tend to be challenging, requiring us to perform data augmentation to avoid overfitting and increase the ability of our model to generalize.
In those situations we need to utilize Keras’
# initialize the number of epochs and batch size EPOCHS = 100 BS = 32 # construct the training image generator for data augmentation aug = ImageDataGenerator(rotation_range=20, zoom_range=0.15, width_shift_range=0.2, height_shift_range=0.2, shear_range=0.15, horizontal_flip=True, fill_mode="nearest") # train the network H = model.fit_generator(aug.flow(trainX, trainY, batch_size=BS), validation_data=(testX, testY), steps_per_epoch=len(trainX) // BS, epochs=EPOCHS)
2020-05-13 Update: With TensorFlow 2.2+ we now use
.fit instead of
.fit_generator which works the exact same way under the hood to accommodate data augmentation if the first argument provided is a Python generator object.
Here we start by first initializing the number of epochs we are going to train our network for along with the batch size.
We then initialize
aug , a Keras
ImageDataGenerator object that is used to apply data augmentation, randomly translating, rotating, resizing, etc. images on the fly.
Performing data augmentation is a form of regularization, enabling our model to generalize better.
However, applying data augmentation implies that our training data is no longer “static” — the data is constantly changing.
Each new batch of data is randomly adjusted according to the parameters supplied to
Thus, we now need to utilize Keras’
.fit_generator function to train our model.
As the name suggests, the
.fit_generator function assumes there is an underlying function that is generating the data for it.
The function itself is a Python generator.
Internally, Keras is using the following process when training a model with
- Keras calls the generator function supplied to
.fit_generator(in this case,
- The generator function yields a batch of size
.fit_generatorfunction accepts the batch of data, performs backpropagation, and updates the weights in our model.
- This process is repeated until we have reached the desired number of epochs.
You’ll notice we now need to supply a
steps_per_epoch parameter when calling
.fit method had no such parameter).
Why do we need
Keep in mind that a Keras data generator is meant to loop infinitely — it should never return or exit.
Since the function is intended to loop infinitely, Keras has no ability to determine when one epoch starts and a new epoch begins.
Therefore, we compute the
steps_per_epoch value as the total number of training data points divided by the batch size. Once Keras hits this step count it knows that it’s a new epoch.
The Keras train_on_batch function
For deep learning practitioners looking for the finest-grained control over training your Keras models, you may wish to use the
train_on_batch function accepts a single batch of data, performs backpropagation, and then updates the model parameters.
The batch of data can be of arbitrary size (i.e., it does not require an explicit batch size to be provided).
The data itself can be generated however you like as well. This data could be raw images on disk or data that has been modified or augmented in some manner.
You’ll typically use the
.train_on_batch function when you have very explicit reasons for wanting to maintain your own training data iterator, such as the data iteration process being extremely complex and requiring custom code.
If you find yourself asking if you need the
.train_on_batch function then in all likelihood you probably don’t.
In 99% of the situations you will not need such fine-grained control over training your deep learning models. Instead, a custom Keras
.fit_generator function is likely all you need it.
That said, it’s good to know that the function exists if you ever need it.
I typically only recommend using the
.train_on_batch function if you are an advanced deep learning practitioner/engineer, and you know exactly what you’re doing and why.
An image dataset…as a CSV file?
The dataset we will be using here today is the Flowers-17 dataset, a collection of 17 different flower species with 80 images per class.
Our goal will be to train a Keras Convolutional Neural Network to correctly classify each species of flowers.
However, there’s a bit of a twist to this project:
- Instead of working with the raw image files residing on disk…
- …I’ve serialized the entire image dataset to two CSV files (one for training, and one for evaluation).
To construct each CSV file I:
- Looped over all images in our input dataset
- Resized them to 64×64 pixels
- Flattened the 64x64x3=12,288 RGB pixel intensities into a single list
- Wrote 12,288 pixel values + class label to the CSV file (one per line)
Our goal is to now write a custom Keras generator to parse the CSV file and yield batches of images and labels to the
Wait, why bother with a CSV file if you already have the images?
Today’s tutorial is meant to be an example of how to implement your own Keras generator for the
In the real-world datasets are not nicely curated for you:
- You may have unstructured directories of images.
- You could be working with both images and text.
- Your images could be serialized in a particular format, whether that’s a CSV file, a Caffe or TensorFlow record file, etc.
In these situations, you will need to know how to write your own Keras generator functions.
Keep in mind that it’s not the particular data format that’s important here — it’s the actual process of writing your own Keras generator that you need to learn (and that’s exactly what’s covered in the rest of the tutorial).
Let’s inspect the project tree for today’s example:
$ tree --dirsfirst . ├── pyimagesearch │ ├── __init__.py │ └── minivggnet.py ├── flowers17_testing.csv ├── flowers17_training.csv ├── plot.png └── train.py 1 directory, 6 files
Today we’ll be using the MiniVGGNet CNN. We won’t be covering the implementation here today as I’ll assume you already know how to implement a CNN. If not, no worries — just refer to my Keras tutorial.
Our serialized image dataset is contained within
flowers17_testing.csv (included in the “Downloads” associated with today’s post).
We’ll be reviewing
train.py , our training script, in the next two sections.
Implementing a custom Keras fit_generator function
Let’s go ahead and get started.
I’ll be assuming you have the following libraries installed on your system:
- TensorFlow + Keras
Each of these packages can be installed via pip in your virtual environment. If you have virtualenvwrapper installed you can create an environment with
mkvirtualenv and activate your environment with the
workon command. From there you can use pip to set up your environment:
$ mkvirtualenv cv -p python3 $ workon cv $ pip install numpy $ pip install tensorflow # or tensorflow-gpu $ pip install keras $ pip install scikit-learn $ pip install matplotlib
Once your virtual environment is set up, you can proceed with writing the training script. Make sure you use the “Downloads” section of today’s post grab the source code and Flowers-17 CSV image dataset.
Open up the
train.py file and insert the following code:
# set the matplotlib backend so figures can be saved in the background import matplotlib matplotlib.use("Agg") # import the necessary packages from tensorflow.keras.preprocessing.image import ImageDataGenerator from tensorflow.keras.optimizers import SGD from sklearn.preprocessing import LabelBinarizer from sklearn.metrics import classification_report from pyimagesearch.minivggnet import MiniVGGNet import matplotlib.pyplot as plt import numpy as np
Lines 2-12 import our required packages and modules. Since we’ll be saving our training plot to disk, Line 3 sets
matplotlib ‘s backend appropriately.
Notable imports include
ImageDataGenerator , which contains the data augmentation and image generator functionality, along with
MiniVGGNet , our CNN that we will be training.
Let’s define the
def csv_image_generator(inputPath, bs, lb, mode="train", aug=None): # open the CSV file for reading f = open(inputPath, "r")
On Line 14 we’ve defined the
csv_image_generator . This function is responsible for reading our CSV data file and loading images into memory. It yields batches of data to our Keras
As such, the function accepts the following parameters:
inputPath: the path to the CSV dataset file.
bs: The batch size. We’ll be using 32.
lb: A label binarizer object which contains our class labels.
mode: (default is
"train") If and only if the
mode=="eval", then a special accommodation is made to not apply data augmentation via the
augobject (if one is supplied).
aug: (default is
None) If an augmentation object is specified, then we’ll apply it before we yield our images and labels.
On Line 16 we’ll go ahead and open the CSV data file for reading.
Let’s begin looping over the lines of data:
# loop indefinitely while True: # initialize our batches of images and labels images =  labels = 
Each line of data in the CSV file contains an image serialized as a text string. Again, I generated the text strings from the Flowers-17 dataset. Additionally, I know this isn’t the most efficient way to store an image, but it is great for the purposes of this example.
Our Keras generator must loop indefinitely as is defined on Line 19. The
.fit_generator function will be calling our
csv_image_generator function each time it needs a new batch of data.
And furthermore, Keras maintains a cache/queue of data, ensuring the model we are training always has data to train on. Keras constantly keeps this queue full so even if you have reached the total number of epochs to train for, keep in mind that Keras is still feeding the data generator, keeping data in the queue.
Always make sure your function returns data, otherwise, Keras will error out saying it could not obtain more training data from your generator.
At each iteration of the loop, we’ll reinitialize our
labels to empty lists (Lines 21 and 22).
From there, we’ll begin appending images and labels to these lists until we’ve reached our batch size:
# keep looping until we reach our batch size while len(images) < bs: # attempt to read the next line of the CSV file line = f.readline() # check to see if the line is empty, indicating we have # reached the end of the file if line == "": # reset the file pointer to the beginning of the file # and re-read the line f.seek(0) line = f.readline() # if we are evaluating we should now break from our # loop to ensure we don't continue to fill up the # batch from samples at the beginning of the file if mode == "eval": break # extract the label and construct the image line = line.strip().split(",") label = line image = np.array([int(x) for x in line[1:]], dtype="float32") image = image.reshape((64, 64, 3)) # update our corresponding batches lists images.append(image) labels.append(label)
Let’s walk through this loop:
- First, we read a
linefrom our text file object,
- …we reset our file pointer and try to read a
line(Lines 34 and 35).
- And if we’re in evaluation
mode, we go ahead and
breakfrom the loop (Lines 40 and 41).
- …we reset our file pointer and try to read a
- At this point, we’ll parse our
labelfrom the CSV file (Lines 44-46).
- We go ahead and call
.reshapeto reshape our 1D array into our image which is 64×64 pixels with 3 color channels (Line 47).
- Finally, we append the
labelto their respective lists, repeating this process until our batch of images is full (Lines 50 and 51).
Note: The key to making evaluation work here is that we supply the number of
model.predict_generator , ensuring that each image in the testing set is predicted only once. I’ll be covering how to do this process later in the tutorial.
With our batch of images and corresponding labels ready, we can now take two steps before yielding our batch:
# one-hot encode the labels labels = lb.transform(np.array(labels)) # if the data augmentation object is not None, apply it if aug is not None: (images, labels) = next(aug.flow(np.array(images), labels, batch_size=bs)) # yield the batch to the calling function yield (np.array(images), labels)
Our final steps include:
- One-hot encoding
- Applying data augmentation if necessary (Lines 57-59)
Finally, our generator “yields” our array of images and our list of labels to the calling function on request (Line 62). If you aren’t familiar with the
yield keyword, it is used for Python Generator functions as a convenient shortcut in place of building an iterator class with less memory consumption. You can read more about Python Generators here.
Let’s initialize our training parameters:
# initialize the paths to our training and testing CSV files TRAIN_CSV = "flowers17_training.csv" TEST_CSV = "flowers17_testing.csv" # initialize the number of epochs to train for and batch size NUM_EPOCHS = 75 BS = 32 # initialize the total number of training and testing image NUM_TRAIN_IMAGES = 0 NUM_TEST_IMAGES = 0
A number of initializations are hardcoded in this example training script:
- Our training and testing CSV filepaths (Lines 65 and 66).
- The number of epochs and batch size for training (Lines 69 and 70).
- Two variables which will hold the number of training and testing images (Lines 73 and 74).
Let’s take a look at the next block of code:
# open the training CSV file, then initialize the unique set of class # labels in the dataset along with the testing labels f = open(TRAIN_CSV, "r") labels = set() testLabels =  # loop over all rows of the CSV file for line in f: # extract the class label, update the labels list, and increment # the total number of training images label = line.strip().split(",") labels.add(label) NUM_TRAIN_IMAGES += 1 # close the training CSV file and open the testing CSV file f.close() f = open(TEST_CSV, "r") # loop over the lines in the testing file for line in f: # extract the class label, update the test labels list, and # increment the total number of testing images label = line.strip().split(",") testLabels.append(label) NUM_TEST_IMAGES += 1 # close the testing CSV file f.close()
This block of code is long, but it has three purposes:
- Extract all labels from our training dataset so that we can subsequently determine unique labels. Notice that
setwhich only allows unique entries.
- Assemble a list of
- Count the
Let’s build our
LabelBinarizer object and construct the data augmentation object:
# create the label binarizer for one-hot encoding labels, then encode # the testing labels lb = LabelBinarizer() lb.fit(list(labels)) testLabels = lb.transform(testLabels) # construct the training image generator for data augmentation aug = ImageDataGenerator(rotation_range=20, zoom_range=0.15, width_shift_range=0.2, height_shift_range=0.2, shear_range=0.15, horizontal_flip=True, fill_mode="nearest")
Using the unique labels, we’ll
LabelBinarizer object (Lines 107 and 108).
We’ll also go ahead and transform our
testLabels into binary one-hot encoded
testLabels (Line 109).
From there, we’ll construct
aug , an
ImageDataGenerator (Lines 112-114). Our image data augmentation object will randomly rotate, flip, shear, etc. our training images.
Now let’s initialize our training and testing image generators:
# initialize both the training and testing image generators trainGen = csv_image_generator(TRAIN_CSV, BS, lb, mode="train", aug=aug) testGen = csv_image_generator(TEST_CSV, BS, lb, mode="train", aug=None)
testGen generator objects generate image data from their respective CSV files using the
csv_image_generator (Lines 117-120).
Notice the subtle similarities and differences:
- We’re using
mode="train"for both generators
trainGenwill perform data augmentation
Let’s initialize + compile our MiniVGGNet model with Keras and begin training:
# initialize our Keras model and compile it model = MiniVGGNet.build(64, 64, 3, len(lb.classes_)) opt = SGD(lr=1e-2, momentum=0.9, decay=1e-2 / NUM_EPOCHS) model.compile(loss="categorical_crossentropy", optimizer=opt, metrics=["accuracy"]) # train the network print("[INFO] training w/ generator...") H = model.fit( x=trainGen, steps_per_epoch=NUM_TRAIN_IMAGES // BS, validation_data=testGen, validation_steps=NUM_TEST_IMAGES // BS, epochs=NUM_EPOCHS)
2020-05-13 Update: This blog post is now TensorFlow 2+ compatible! We no-longer use the
.fit_generator function; instead, we use the
Lines 123-126 compile our model. We’re using a Stochastic Gradient Descent optimizer with a hardcoded initial learning rate of
1e-2 . Learning rate decay is applied at each epoch. Categorical crossentropy is used since we have more than 2 classes (binary crossentropy would be used otherwise). Be sure to refer to my Keras tutorial for additional reading.
On Lines 130-135 we call
.fit to start training.
trainGen generator object is responsible for yielding batches of data and labels to the
Notice how we compute the steps per epoch and validation steps based on number of images and batch size. It’s paramount that we supply the
steps_per_epoch value, otherwise Keras will not know when one epoch starts and another one begins.
Now let’s evaluate the results of training:
# re-initialize our testing data generator, this time for evaluating testGen = csv_image_generator(TEST_CSV, BS, lb, mode="eval", aug=None) # make predictions on the testing images, finding the index of the # label with the corresponding largest predicted probability predIdxs = model.predict(x=testGen, steps=(NUM_TEST_IMAGES // BS) + 1) predIdxs = np.argmax(predIdxs, axis=1) # show a nicely formatted classification report print("[INFO] evaluating network...") print(classification_report(testLabels.argmax(axis=1), predIdxs, target_names=lb.classes_))
We go ahead and re-initialize our
testGen , this time changing the
"eval" for evaluation purposes.
After re-initialization, we make predictions using our
.predict function and our
testGen (Lines 143 and 144). At the end of this process, we’ll proceed to grab the max prediction indices (Line 145).
predIdxs , we’ll generate a
classification_report via scikit-learn (Lines 149 and 150). The classification report is printed nicely to our terminal for inspection at the end of training and evaluation.
As a final step, we’ll use our training history dictionary,
H , to generate a plot with matplotlib:
# plot the training loss and accuracy N = NUM_EPOCHS plt.style.use("ggplot") plt.figure() plt.plot(np.arange(0, N), H.history["loss"], label="train_loss") plt.plot(np.arange(0, N), H.history["val_loss"], label="val_loss") plt.plot(np.arange(0, N), H.history["accuracy"], label="train_acc") plt.plot(np.arange(0, N), H.history["val_accuracy"], label="val_acc") plt.title("Training Loss and Accuracy on Dataset") plt.xlabel("Epoch #") plt.ylabel("Loss/Accuracy") plt.legend(loc="lower left") plt.savefig("plot.png")
The accuracy/loss plot is generated and saved to disk as
plot.png for inspection upon script exit.
Training a Keras model using fit_generator and evaluating with predict_generator
2020-06-03 Update: Despite the heading to this section, we now use
To train our Keras model using our custom data generator, make sure you use the “Downloads” section to download the source code and example CSV image dataset.
From there, open a terminal, navigate to where you downloaded the source code + dataset, and execute the following command:
$ python train.py Using TensorFlow backend. [INFO] training w/ generator... Train for 31 steps, validate for 10 steps Epoch 1/75 31/31 [==============================] - 10s 317ms/step - loss: 3.6791 - accuracy: 0.1401 - val_loss: 1828.6441 - val_accuracy: 0.0625 Epoch 2/75 31/31 [==============================] - 9s 287ms/step - loss: 3.0351 - accuracy: 0.2077 - val_loss: 246.5172 - val_accuracy: 0.0938 Epoch 3/75 31/31 [==============================] - 9s 288ms/step - loss: 2.8571 - accuracy: 0.2621 - val_loss: 92.0763 - val_accuracy: 0.0750 ... 31/31 [==============================] - 9s 287ms/step - loss: 0.4484 - accuracy: 0.8548 - val_loss: 1.3388 - val_accuracy: 0.6531 Epoch 73/75 31/31 [==============================] - 9s 287ms/step - loss: 0.4025 - accuracy: 0.8619 - val_loss: 1.1642 - val_accuracy: 0.7125 Epoch 74/75 31/31 [==============================] - 9s 287ms/step - loss: 0.3401 - accuracy: 0.8720 - val_loss: 1.2229 - val_accuracy: 0.7188 Epoch 75/75 31/31 [==============================] - 9s 287ms/step - loss: 0.3605 - accuracy: 0.8780 - val_loss: 1.2207 - val_accuracy: 0.7063 [INFO] evaluating network... precision recall f1-score support bluebell 0.63 0.81 0.71 21 buttercup 0.69 0.73 0.71 15 coltsfoot 0.55 0.76 0.64 21 cowslip 0.73 0.40 0.52 20 crocus 0.53 0.88 0.66 24 daffodil 0.82 0.33 0.47 27 daisy 0.77 0.94 0.85 18 dandelion 0.71 0.83 0.77 18 fritillary 1.00 0.77 0.87 22 iris 0.95 0.75 0.84 24 lilyvalley 0.92 0.55 0.69 22 pansy 0.89 0.89 0.89 18 snowdrop 0.69 0.50 0.58 22 sunflower 0.90 1.00 0.95 18 tigerlily 0.87 0.93 0.90 14 tulip 0.33 0.50 0.40 16 windflower 0.81 0.85 0.83 20 accuracy 0.72 340 macro avg 0.75 0.73 0.72 340 weighted avg 0.76 0.72 0.71 340
Here you can see that our network has obtained 76% accuracy on the evaluation set, which is quite respectable for the relatively shallow CNN used.
Most importantly, you learned how to utilize:
- Data generators
…all to train and evaluate your own custom Keras model!
Again, it’s not the actual format of the data itself that’s important here. Instead of CSV files, we could have been working with Caffe or TensorFlow record files, a combination of numerical/categorical data along with images, or any other synthesis of data that you may encounter in the real-world.
Instead, it’s the actual process of implementing your own Keras data generator that matters here.
Follow the steps in this tutorial and you’ll have a blueprint that you can use for implementing your own Keras data generators.
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In this tutorial you learned the differences between Keras’ three primary functions used to train a deep neural network:
.fit: Used when the entire training dataset can fit into memory and no data augmentation is applied. As of TensorFlow 2, this method now supports data augmentation.
.fit_generator: For legacy code using versions of TensorFlow/Keras prior to 2.2. Should be used when either (1) the dataset is too large to fit into memory, (2) data augmentation needs to be applied, or (3) in any situation when it’s more convenient to yield training data in batches (i.e., using the
.train_on_batch: Can be used to train a Keras model on a single batch of data. Should be utilized only when you need the finest-grained control training your network, such as in situations where your data iterator is highly complex.
From there, we discovered how to:
- Implement our own custom Keras generator function
- Use our custom generator along with Keras’
.fit_generatorto train our deep neural network
You can use today’s example code as a template when implementing your own Keras generators in your own projects.
I hope you enjoyed today’s blog post!
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