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Composing Decision Forest and Neural Network models

View on TensorFlow.org Run in Google Colab View on GitHub Download notebook Keras Functional API

Introduction

Welcome to the model composition tutorial for TensorFlow Decision Forests (TF-DF). This notebook shows you how to compose multiple decision forest and neural network models together using a common preprocessing layer and the Keras functional API.

You might want to compose models together to improve predictive performance (ensembling), to get the best of different modeling technologies (heterogeneous model ensembling), to train different part of the model on different datasets (e.g. pre-training), or to create a stacked model (e.g. a model operates on the predictions of another model).

This tutorial covers an advanced use case of model composition using the Functional API. You can find examples for simpler scenarios of model composition in the "feature preprocessing" section of this tutorial and in the "using a pretrained text embedding" section of this tutorial.

Here is the structure of the model you'll build:

svg

Your composed model has three stages:

  1. The first stage is a preprocessing layer composed of a neural network and common to all the models in the next stage. In practice, such a preprocessing layer could either be a pre-trained embedding to fine-tune, or a randomly initialized neural network.
  2. The second stage is an ensemble of two decision forest and two neural network models.
  3. The last stage averages the predictions of the models in the second stage. It does not contain any learnable weights.

The neural networks are trained using the backpropagation algorithm and gradient descent. This algorithm has two important properties: (1) The layer of neural network can be trained if its receives a loss gradient (more precisely, the gradient of the loss according to the layer's output), and (2) the algorithm "transmits" the loss gradient from the layer's output to the layer's input (this is the "chain rule"). For these two reasons, Backpropagation can train together multiple layers of neural networks stacked on top of each other.

In this example, the decision forests are trained with the Random Forest (RF) algorithm. Unlike Backpropagation, the training of RF does not "transmit" the loss gradient to from its output to its input. For this reasons, the classical RF algorithm cannot be used to train or fine-tune a neural network underneath. In other words, the "decision forest" stages cannot be used to train the "Learnable NN pre-processing block".

  1. Train the preprocessing and neural networks stage.
  2. Train the decision forest stages.

Install TensorFlow Decision Forests

Install TF-DF by running the following cell.

pip install tensorflow_decision_forests -U --quiet

Wurlitzer is needed to display the detailed training logs in Colabs (when using verbose=2 in the model constructor).

pip install wurlitzer -U --quiet

Import libraries

import tensorflow_decision_forests as tfdf

import os
import numpy as np
import pandas as pd
import tensorflow as tf
import math
import matplotlib.pyplot as plt

2022-12-14 12:30:49.506715: W tensorflow/compiler/xla/stream_executor/platform/default/dso_loader.cc:64] Could not load dynamic library 'libnvinfer.so.7'; dlerror: libnvinfer.so.7: cannot open shared object file: No such file or directory
2022-12-14 12:30:49.506811: W tensorflow/compiler/xla/stream_executor/platform/default/dso_loader.cc:64] Could not load dynamic library 'libnvinfer_plugin.so.7'; dlerror: libnvinfer_plugin.so.7: cannot open shared object file: No such file or directory
2022-12-14 12:30:49.506820: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Cannot dlopen some TensorRT libraries. If you would like to use Nvidia GPU with TensorRT, please make sure the missing libraries mentioned above are installed properly.

Dataset

You will use a simple synthetic dataset in this tutorial to make it easier to interpret the final model.

def make_dataset(num_examples, num_features, seed=1234):
  np.random.seed(seed)
  features = np.random.uniform(-1, 1, size=(num_examples, num_features))
  noise = np.random.uniform(size=(num_examples))

  left_side = np.sqrt(
      np.sum(np.multiply(np.square(features[:, 0:2]), [1, 2]), axis=1))
  right_side = features[:, 2] * 0.7 + np.sin(
      features[:, 3] * 10) * 0.5 + noise * 0.0 + 0.5

  labels = left_side <= right_side
  return features, labels.astype(int)

Generate some examples:

make_dataset(num_examples=5, num_features=4)

(array([[-0.6169611 ,  0.24421754, -0.12454452,  0.57071717],
        [ 0.55995162, -0.45481479, -0.44707149,  0.60374436],
        [ 0.91627871,  0.75186527, -0.28436546,  0.00199025],
        [ 0.36692587,  0.42540405, -0.25949849,  0.12239237],
        [ 0.00616633, -0.9724631 ,  0.54565324,  0.76528238]]),
 array([0, 0, 0, 1, 0]))

You can also plot them to get an idea of the synthetic pattern:

plot_features, plot_label = make_dataset(num_examples=50000, num_features=4)

plt.rcParams["figure.figsize"] = [8, 8]
common_args = dict(c=plot_label, s=1.0, alpha=0.5)

plt.subplot(2, 2, 1)
plt.scatter(plot_features[:, 0], plot_features[:, 1], **common_args)

plt.subplot(2, 2, 2)
plt.scatter(plot_features[:, 1], plot_features[:, 2], **common_args)

plt.subplot(2, 2, 3)
plt.scatter(plot_features[:, 0], plot_features[:, 2], **common_args)

plt.subplot(2, 2, 4)
plt.scatter(plot_features[:, 0], plot_features[:, 3], **common_args)

<matplotlib.collections.PathCollection at 0x7fa495f07580>

png

Note that this pattern is smooth and not axis aligned. This will advantage the neural network models. This is because it is easier for a neural network than for a decision tree to have round and non aligned decision boundaries.

On the other hand, we will train the model on a small datasets with 2500 examples. This will advantage the decision forest models. This is because decision forests are much more efficient, using all the available information from the examples (decision forests are "sample efficient").

Our ensemble of neural networks and decision forests will use the best of both worlds.

Let's create a train and test tf.data.Dataset:

def make_tf_dataset(batch_size=64, **args):
  features, labels = make_dataset(**args)
  return tf.data.Dataset.from_tensor_slices(
      (features, labels)).batch(batch_size)


num_features = 10

train_dataset = make_tf_dataset(
    num_examples=2500, num_features=num_features, batch_size=100, seed=1234)
test_dataset = make_tf_dataset(
    num_examples=10000, num_features=num_features, batch_size=100, seed=5678)

Model structure

Define the model structure as follows:

# Input features.
raw_features = tf.keras.layers.Input(shape=(num_features,))

# Stage 1
# =======

# Common learnable pre-processing
preprocessor = tf.keras.layers.Dense(10, activation=tf.nn.relu6)
preprocess_features = preprocessor(raw_features)

# Stage 2
# =======

# Model #1: NN
m1_z1 = tf.keras.layers.Dense(5, activation=tf.nn.relu6)(preprocess_features)
m1_pred = tf.keras.layers.Dense(1, activation=tf.nn.sigmoid)(m1_z1)

# Model #2: NN
m2_z1 = tf.keras.layers.Dense(5, activation=tf.nn.relu6)(preprocess_features)
m2_pred = tf.keras.layers.Dense(1, activation=tf.nn.sigmoid)(m2_z1)


# Model #3: DF
model_3 = tfdf.keras.RandomForestModel(num_trees=1000, random_seed=1234)
m3_pred = model_3(preprocess_features)

# Model #4: DF
model_4 = tfdf.keras.RandomForestModel(
    num_trees=1000,
    #split_axis="SPARSE_OBLIQUE", # Uncomment this line to increase the quality of this model
    random_seed=4567)
m4_pred = model_4(preprocess_features)

# Since TF-DF uses deterministic learning algorithms, you should set the model's
# training seed to different values otherwise both
# `tfdf.keras.RandomForestModel` will be exactly the same.

# Stage 3
# =======

mean_nn_only = tf.reduce_mean(tf.stack([m1_pred, m2_pred], axis=0), axis=0)
mean_nn_and_df = tf.reduce_mean(
    tf.stack([m1_pred, m2_pred, m3_pred, m4_pred], axis=0), axis=0)

# Keras Models
# ============

ensemble_nn_only = tf.keras.models.Model(raw_features, mean_nn_only)
ensemble_nn_and_df = tf.keras.models.Model(raw_features, mean_nn_and_df)

Warning: The `num_threads` constructor argument is not set and the number of CPU is os.cpu_count()=32 > 32. Setting num_threads to 32. Set num_threads manually to use more than 32 cpus.
WARNING:absl:The `num_threads` constructor argument is not set and the number of CPU is os.cpu_count()=32 > 32. Setting num_threads to 32. Set num_threads manually to use more than 32 cpus.
Use /tmpfs/tmp/tmpvqon5m0g as temporary training directory
Warning: The model was called directly (i.e. using `model(data)` instead of using `model.predict(data)`) before being trained. The model will only return zeros until trained. The output shape might change after training Tensor("inputs:0", shape=(None, 10), dtype=float32)
WARNING:absl:The model was called directly (i.e. using `model(data)` instead of using `model.predict(data)`) before being trained. The model will only return zeros until trained. The output shape might change after training Tensor("inputs:0", shape=(None, 10), dtype=float32)
Warning: The `num_threads` constructor argument is not set and the number of CPU is os.cpu_count()=32 > 32. Setting num_threads to 32. Set num_threads manually to use more than 32 cpus.
WARNING:absl:The `num_threads` constructor argument is not set and the number of CPU is os.cpu_count()=32 > 32. Setting num_threads to 32. Set num_threads manually to use more than 32 cpus.
Use /tmpfs/tmp/tmppvn9jfhe as temporary training directory
Warning: The model was called directly (i.e. using `model(data)` instead of using `model.predict(data)`) before being trained. The model will only return zeros until trained. The output shape might change after training Tensor("inputs:0", shape=(None, 10), dtype=float32)
WARNING:absl:The model was called directly (i.e. using `model(data)` instead of using `model.predict(data)`) before being trained. The model will only return zeros until trained. The output shape might change after training Tensor("inputs:0", shape=(None, 10), dtype=float32)

Before you train the model, you can plot it to check if it is similar to the initial diagram.

from keras.utils.vis_utils import plot_model

plot_model(ensemble_nn_and_df, to_file="/tmp/model.png", show_shapes=True)

png

Model training

First train the preprocessing and two neural network layers using the backpropagation algorithm.

%%time
ensemble_nn_only.compile(
        optimizer=tf.keras.optimizers.Adam(),
        loss=tf.keras.losses.BinaryCrossentropy(),
        metrics=["accuracy"])

ensemble_nn_only.fit(train_dataset, epochs=20, validation_data=test_dataset)

Epoch 1/20
25/25 [==============================] - 3s 21ms/step - loss: 0.7302 - accuracy: 0.4260 - val_loss: 0.6958 - val_accuracy: 0.5173
Epoch 2/20
25/25 [==============================] - 0s 9ms/step - loss: 0.6784 - accuracy: 0.5700 - val_loss: 0.6533 - val_accuracy: 0.6313
Epoch 3/20
25/25 [==============================] - 0s 9ms/step - loss: 0.6406 - accuracy: 0.6648 - val_loss: 0.6220 - val_accuracy: 0.7000
Epoch 4/20
25/25 [==============================] - 0s 9ms/step - loss: 0.6116 - accuracy: 0.7224 - val_loss: 0.5973 - val_accuracy: 0.7299
Epoch 5/20
25/25 [==============================] - 0s 9ms/step - loss: 0.5877 - accuracy: 0.7432 - val_loss: 0.5765 - val_accuracy: 0.7377
Epoch 6/20
25/25 [==============================] - 0s 10ms/step - loss: 0.5669 - accuracy: 0.7488 - val_loss: 0.5580 - val_accuracy: 0.7390
Epoch 7/20
25/25 [==============================] - 0s 9ms/step - loss: 0.5482 - accuracy: 0.7500 - val_loss: 0.5416 - val_accuracy: 0.7392
Epoch 8/20
25/25 [==============================] - 0s 9ms/step - loss: 0.5314 - accuracy: 0.7500 - val_loss: 0.5272 - val_accuracy: 0.7392
Epoch 9/20
25/25 [==============================] - 0s 9ms/step - loss: 0.5166 - accuracy: 0.7500 - val_loss: 0.5148 - val_accuracy: 0.7392
Epoch 10/20
25/25 [==============================] - 0s 9ms/step - loss: 0.5037 - accuracy: 0.7500 - val_loss: 0.5041 - val_accuracy: 0.7392
Epoch 11/20
25/25 [==============================] - 0s 10ms/step - loss: 0.4923 - accuracy: 0.7500 - val_loss: 0.4948 - val_accuracy: 0.7392
Epoch 12/20
25/25 [==============================] - 0s 10ms/step - loss: 0.4822 - accuracy: 0.7500 - val_loss: 0.4865 - val_accuracy: 0.7392
Epoch 13/20
25/25 [==============================] - 0s 9ms/step - loss: 0.4731 - accuracy: 0.7500 - val_loss: 0.4790 - val_accuracy: 0.7392
Epoch 14/20
25/25 [==============================] - 0s 10ms/step - loss: 0.4649 - accuracy: 0.7504 - val_loss: 0.4724 - val_accuracy: 0.7393
Epoch 15/20
25/25 [==============================] - 0s 9ms/step - loss: 0.4577 - accuracy: 0.7504 - val_loss: 0.4667 - val_accuracy: 0.7398
Epoch 16/20
25/25 [==============================] - 0s 10ms/step - loss: 0.4515 - accuracy: 0.7512 - val_loss: 0.4618 - val_accuracy: 0.7403
Epoch 17/20
25/25 [==============================] - 0s 9ms/step - loss: 0.4462 - accuracy: 0.7516 - val_loss: 0.4578 - val_accuracy: 0.7411
Epoch 18/20
25/25 [==============================] - 0s 10ms/step - loss: 0.4417 - accuracy: 0.7536 - val_loss: 0.4544 - val_accuracy: 0.7434
Epoch 19/20
25/25 [==============================] - 0s 10ms/step - loss: 0.4379 - accuracy: 0.7544 - val_loss: 0.4515 - val_accuracy: 0.7458
Epoch 20/20
25/25 [==============================] - 0s 10ms/step - loss: 0.4346 - accuracy: 0.7592 - val_loss: 0.4490 - val_accuracy: 0.7508
CPU times: user 9.14 s, sys: 1.85 s, total: 11 s
Wall time: 7.13 s
<keras.callbacks.History at 0x7fa48002d850>

Let's evaluate the preprocessing and the part with the two neural networks only:

evaluation_nn_only = ensemble_nn_only.evaluate(test_dataset, return_dict=True)
print("Accuracy (NN #1 and #2 only): ", evaluation_nn_only["accuracy"])
print("Loss (NN #1 and #2 only): ", evaluation_nn_only["loss"])

100/100 [==============================] - 0s 2ms/step - loss: 0.4490 - accuracy: 0.7508
Accuracy (NN #1 and #2 only):  0.7508000135421753
Loss (NN #1 and #2 only):  0.44903823733329773

Let's train the two Decision Forest components (one after another).

%%time
train_dataset_with_preprocessing = train_dataset.map(lambda x,y: (preprocessor(x), y))
test_dataset_with_preprocessing = test_dataset.map(lambda x,y: (preprocessor(x), y))

model_3.fit(train_dataset_with_preprocessing)
model_4.fit(train_dataset_with_preprocessing)

WARNING:tensorflow:AutoGraph could not transform <function <lambda> at 0x7fa545a61e50> and will run it as-is.
Cause: could not parse the source code of <function <lambda> at 0x7fa545a61e50>: no matching AST found among candidates:

To silence this warning, decorate the function with @tf.autograph.experimental.do_not_convert
WARNING:tensorflow:AutoGraph could not transform <function <lambda> at 0x7fa545a61e50> and will run it as-is.
Cause: could not parse the source code of <function <lambda> at 0x7fa545a61e50>: no matching AST found among candidates:

To silence this warning, decorate the function with @tf.autograph.experimental.do_not_convert
WARNING: AutoGraph could not transform <function <lambda> at 0x7fa545a61e50> and will run it as-is.
Cause: could not parse the source code of <function <lambda> at 0x7fa545a61e50>: no matching AST found among candidates:

To silence this warning, decorate the function with @tf.autograph.experimental.do_not_convert
WARNING:tensorflow:AutoGraph could not transform <function <lambda> at 0x7fa545a619d0> and will run it as-is.
Cause: could not parse the source code of <function <lambda> at 0x7fa545a619d0>: no matching AST found among candidates:

To silence this warning, decorate the function with @tf.autograph.experimental.do_not_convert
WARNING:tensorflow:AutoGraph could not transform <function <lambda> at 0x7fa545a619d0> and will run it as-is.
Cause: could not parse the source code of <function <lambda> at 0x7fa545a619d0>: no matching AST found among candidates:

To silence this warning, decorate the function with @tf.autograph.experimental.do_not_convert
WARNING: AutoGraph could not transform <function <lambda> at 0x7fa545a619d0> and will run it as-is.
Cause: could not parse the source code of <function <lambda> at 0x7fa545a619d0>: no matching AST found among candidates:

To silence this warning, decorate the function with @tf.autograph.experimental.do_not_convert
Reading training dataset...
WARNING:tensorflow:From /tmpfs/src/tf_docs_env/lib/python3.9/site-packages/tensorflow/python/autograph/pyct/static_analysis/liveness.py:83: Analyzer.lamba_check (from tensorflow.python.autograph.pyct.static_analysis.liveness) is deprecated and will be removed after 2023-09-23.
Instructions for updating:
Lambda fuctions will be no more assumed to be used in the statement where they are used, or at least in the same block. https://github.com/tensorflow/tensorflow/issues/56089
WARNING:tensorflow:From /tmpfs/src/tf_docs_env/lib/python3.9/site-packages/tensorflow/python/autograph/pyct/static_analysis/liveness.py:83: Analyzer.lamba_check (from tensorflow.python.autograph.pyct.static_analysis.liveness) is deprecated and will be removed after 2023-09-23.
Instructions for updating:
Lambda fuctions will be no more assumed to be used in the statement where they are used, or at least in the same block. https://github.com/tensorflow/tensorflow/issues/56089
Training dataset read in 0:00:02.950404. Found 2500 examples.
Training model...
[INFO 2022-12-14T12:31:10.192766491+00:00 kernel.cc:1175] Loading model from path /tmpfs/tmp/tmpvqon5m0g/model/ with prefix 16992a5614444ff2
Model trained in 0:00:02.032323
Compiling model...
[INFO 2022-12-14T12:31:11.267466565+00:00 abstract_model.cc:1306] Engine "RandomForestOptPred" built
[INFO 2022-12-14T12:31:11.267511869+00:00 kernel.cc:1021] Use fast generic engine
WARNING:tensorflow:AutoGraph could not transform <function simple_ml_inference_op_with_handle at 0x7fa49767c9d0> and will run it as-is.
Please report this to the TensorFlow team. When filing the bug, set the verbosity to 10 (on Linux, `export AUTOGRAPH_VERBOSITY=10`) and attach the full output.
Cause: could not get source code
To silence this warning, decorate the function with @tf.autograph.experimental.do_not_convert
WARNING:tensorflow:AutoGraph could not transform <function simple_ml_inference_op_with_handle at 0x7fa49767c9d0> and will run it as-is.
Please report this to the TensorFlow team. When filing the bug, set the verbosity to 10 (on Linux, `export AUTOGRAPH_VERBOSITY=10`) and attach the full output.
Cause: could not get source code
To silence this warning, decorate the function with @tf.autograph.experimental.do_not_convert
WARNING: AutoGraph could not transform <function simple_ml_inference_op_with_handle at 0x7fa49767c9d0> and will run it as-is.
Please report this to the TensorFlow team. When filing the bug, set the verbosity to 10 (on Linux, `export AUTOGRAPH_VERBOSITY=10`) and attach the full output.
Cause: could not get source code
To silence this warning, decorate the function with @tf.autograph.experimental.do_not_convert
Model compiled.
Reading training dataset...
Training dataset read in 0:00:00.204462. Found 2500 examples.
Training model...
[INFO 2022-12-14T12:31:13.381255379+00:00 kernel.cc:1175] Loading model from path /tmpfs/tmp/tmppvn9jfhe/model/ with prefix a9c09b6c359f4167
Model trained in 0:00:01.887942
Compiling model...
[INFO 2022-12-14T12:31:14.394191435+00:00 kernel.cc:1021] Use fast generic engine
Model compiled.
CPU times: user 21 s, sys: 1.71 s, total: 22.7 s
Wall time: 8.31 s
<keras.callbacks.History at 0x7fa544063460>

And let's evaluate the Decision Forests individually.

model_3.compile(["accuracy"])
model_4.compile(["accuracy"])

evaluation_df3_only = model_3.evaluate(
    test_dataset_with_preprocessing, return_dict=True)
evaluation_df4_only = model_4.evaluate(
    test_dataset_with_preprocessing, return_dict=True)

print("Accuracy (DF #3 only): ", evaluation_df3_only["accuracy"])
print("Accuracy (DF #4 only): ", evaluation_df4_only["accuracy"])

100/100 [==============================] - 1s 10ms/step - loss: 0.0000e+00 - accuracy: 0.7937
100/100 [==============================] - 1s 10ms/step - loss: 0.0000e+00 - accuracy: 0.7946
Accuracy (DF #3 only):  0.7936999797821045
Accuracy (DF #4 only):  0.7946000099182129

Let's evaluate the entire model composition:

ensemble_nn_and_df.compile(
    loss=tf.keras.losses.BinaryCrossentropy(), metrics=["accuracy"])

evaluation_nn_and_df = ensemble_nn_and_df.evaluate(
    test_dataset, return_dict=True)

print("Accuracy (2xNN and 2xDF): ", evaluation_nn_and_df["accuracy"])
print("Loss (2xNN and 2xDF): ", evaluation_nn_and_df["loss"])

100/100 [==============================] - 1s 10ms/step - loss: 0.4269 - accuracy: 0.7934
Accuracy (2xNN and 2xDF):  0.79339998960495
Loss (2xNN and 2xDF):  0.426909476518631

To finish, let's finetune the neural network layer a bit more. Note that we do not finetune the pre-trained embedding as the DF models depends on it (unless we would also retrain them after).

In summary, you have:

Accuracy (NN #1 and #2 only): 0.750800
Accuracy (DF #3 only):        0.793700
Accuracy (DF #4 only):        0.794600
----------------------------------------
Accuracy (2xNN and 2xDF): 0.793400
                  +0.042600 over NN #1 and #2 only
                  -0.000300 over DF #3 only
                  -0.001200 over DF #4 only

Here, you can see that the composed model performs better than its individual parts. This is why ensembles work so well.

What's next?

In this example, you saw how to combine decision forests with neural networks. An extra step would be to further train the neural network and the decision forests together.

In addition, for the sake of clarity, the decision forests received only the preprocessed input. However, decision forests are generally great are consuming raw data. The model would be improved by also feeding the raw features to the decision forest models.

In this example, the final model is the average of the predictions of the individual models. This solution works well if all of the model perform more of less with the same. However, if one of the sub-models is very good, aggregating it with other models might actually be detrimental (or vice-versa; for example try to reduce the number of examples from 1k and see how it hurts the neural networks a lot; or enable the SPARSE_OBLIQUE split in the second Random Forest model).