Visualization in TensorFlow: Summary and TensorBoard

This article is going to discuss some basic methods and functions in tensorflow used to visualize and monitor the training process. I believe visualization is top priority for the research. Because the deep learning itself is a “black box”. So, if the visualization could help us analyze why the final result is successful or failed. My another article will address the summary with more specific usages.

The visualization tool in Tensorflow is TensorBoard. The following introduction of TensorBoard is from the official website.

You can use TensorBoard to visualize your TensorFlow graph, plot quantitative metrics about the execution of your graph, and show additional data like images that pass through it. When TensorBoard is fully configured, it looks like this:
This tutorial is intended to get you started with simple TensorBoard usage. There are other resources available as well! The TensorBoard README has a lot more information on TensorBoard usage, including tips & tricks, and debugging information.

Configure the TensorBoard

TensorBoard operates by reading TensorFlow events files, which contain summary data that you can generate when running TensorFlow. Here’s the general lifecycle for summary data within TensorBoard.
First, create the TensorFlow graph that you’d like to collect summary data from, and decide which nodes you would like to annotate with summary operations.
For example, suppose you are training a convolutional neural network for recognizing MNIST digits. You’d like to record how the learning rate varies over time, and how the objective function is changing. Collect these by attaching tf.summary.scalar ops to the nodes that output the learning rate and loss respectively. Then, give each scalar_summary a meaningful tag, like 'learning rate' or 'loss function'.
Perhaps you’d also like to visualize the distributions of activations coming off a particular layer, or the distribution of gradients or weights. Collect this data by attaching tf.summary.histogram ops to the gradient outputs and to the variable that holds your weights, respectively.
For details on all of the summary operations available, check out the docs on summary operations.
Operations in TensorFlow don’t do anything until you run them, or an op that depends on their output. And the summary nodes that we’ve just created are peripheral to your graph: none of the ops you are currently running depend on them. So, to generate summaries, we need to run all of these summary nodes. Managing them by hand would be tedious, so use tf.summary.merge_all to combine them into a single op that generates all the summary data.
Then, you can just run the merged summary op, which will generate a serialized Summary protobuf object with all of your summary data at a given step. Finally, to write this summary data to disk, pass the summary protobuf to a tf.summary.FileWriter.
The FileWriter takes a logdir in its constructor - this logdir is quite important, it's the directory where all of the events will be written out. Also, the FileWriter can optionally take a Graph in its constructor. If it receives a Graph object, then TensorBoard will visualize your graph along with tensor shape information. This will give you a much better sense of what flows through the graph: see Tensor shape information.
Now that you’ve modified your graph and have a FileWriter, you're ready to start running your network! If you want, you could run the merged summary op every single step, and record a ton of training data. That's likely to be more data than you need, though. Instead, consider running the merged summary op every n steps.
The code example below is a modification of the simple MNIST tutorial, in which we have added some summary ops, and run them every ten steps. If you run this and then launch tensorboard --logdir=/tmp/mnist_logs, you'll be able to visualize statistics, such as how the weights or accuracy varied during training. The code below is an excerpt; full source is here.
def variable_summaries(var):
"""Attach a lot of summaries to a Tensor (for TensorBoard visualization)."""
with tf.name_scope('summaries'):
mean = tf.reduce_mean(var)
tf.summary.scalar('mean', mean)
with tf.name_scope('stddev'):
stddev = tf.sqrt(tf.reduce_mean(tf.square(var - mean)))
tf.summary.scalar('stddev', stddev)
tf.summary.scalar('max', tf.reduce_max(var))
tf.summary.scalar('min', tf.reduce_min(var))
tf.summary.histogram('histogram', var)
def nn_layer(input_tensor, input_dim, output_dim, layer_name, act=tf.nn.relu):
"""Reusable code for making a simple neural net layer.
  It does a matrix multiply, bias add, and then uses relu to nonlinearize.
It also sets up name scoping so that the resultant graph is easy to read,
and adds a number of summary ops.
# Adding a name scope ensures logical grouping of the layers in the graph.
with tf.name_scope(layer_name):
# This Variable will hold the state of the weights for the layer
with tf.name_scope('weights'):
weights = weight_variable([input_dim, output_dim])
with tf.name_scope('biases'):
biases = bias_variable([output_dim])
with tf.name_scope('Wx_plus_b'):
preactivate = tf.matmul(input_tensor, weights) + biases
tf.summary.histogram('pre_activations', preactivate)
activations = act(preactivate, name='activation')
tf.summary.histogram('activations', activations)
return activations
hidden1 = nn_layer(x, 784, 500, 'layer1')
with tf.name_scope('dropout'):
keep_prob = tf.placeholder(tf.float32)
tf.summary.scalar('dropout_keep_probability', keep_prob)
dropped = tf.nn.dropout(hidden1, keep_prob)
# Do not apply softmax activation yet, see below.
y = nn_layer(dropped, 500, 10, 'layer2', act=tf.identity)
with tf.name_scope('cross_entropy'):
# The raw formulation of cross-entropy,
# tf.reduce_mean(-tf.reduce_sum(y_ * tf.log(tf.softmax(y)),
# reduction_indices=[1]))
# can be numerically unstable.
# So here we use tf.nn.softmax_cross_entropy_with_logits on the
# raw outputs of the nn_layer above, and then average across
# the batch.
diff = tf.nn.softmax_cross_entropy_with_logits(targets=y_, logits=y)
with tf.name_scope('total'):
cross_entropy = tf.reduce_mean(diff)
tf.summary.scalar('cross_entropy', cross_entropy)
with tf.name_scope('train'):
train_step = tf.train.AdamOptimizer(FLAGS.learning_rate).minimize(
with tf.name_scope('accuracy'):
with tf.name_scope('correct_prediction'):
correct_prediction = tf.equal(tf.argmax(y, 1), tf.argmax(y_, 1))
with tf.name_scope('accuracy'):
accuracy = tf.reduce_mean(tf.cast(correct_prediction, tf.float32))
tf.summary.scalar('accuracy', accuracy)
# Merge all the summaries and write them out to /tmp/mnist_logs (by default)
merged = tf.summary.merge_all()
train_writer = tf.summary.FileWriter(FLAGS.summaries_dir + '/train',
test_writer = tf.summary.FileWriter(FLAGS.summaries_dir + '/test')
After we’ve initialized the FileWriters, we have to add summaries to the FileWriters as we train and test the model.
# Train the model, and also write summaries.
# Every 10th step, measure test-set accuracy, and write test summaries
# All other steps, run train_step on training data, & add training summaries
def feed_dict(train):
"""Make a TensorFlow feed_dict: maps data onto Tensor placeholders."""
if train or FLAGS.fake_data:
xs, ys = mnist.train.next_batch(100, fake_data=FLAGS.fake_data)
k = FLAGS.dropout
xs, ys = mnist.test.images, mnist.test.labels
k = 1.0
return {x: xs, y_: ys, keep_prob: k}
for i in range(FLAGS.max_steps):
if i % 10 == 0: # Record summaries and test-set accuracy
summary, acc =[merged, accuracy], feed_dict=feed_dict(False))
test_writer.add_summary(summary, i)
print('Accuracy at step %s: %s' % (i, acc))
else: # Record train set summaries, and train
summary, _ =[merged, train_step], feed_dict=feed_dict(True))
train_writer.add_summary(summary, i)
You’re now all set to visualize this data using TensorBoard.

Launching TensorBoard

To run TensorBoard, use the following command (alternatively python -m tensorflow.tensorboard)
tensorboard --logdir=path/to/log-directory
where logdir points to the directory where the FileWriter serialized its data. If this logdir directory contains subdirectories which contain serialized data from separate runs, then TensorBoard will visualize the data from all of those runs. Once TensorBoard is running, navigate your web browser to localhost:6006 to view the TensorBoard.

If we are running tensorflow using remote ssh,ssh -L 16006: olivier@my_server_ip, then go to local brower:

When looking at TensorBoard, you will see the navigation tabs in the top right corner. Each tab represents a set of serialized data that can be visualized.