manipulating output layer of tensorflow during learning

[MJamali89]

Hi, I have an autoencoder tensorflow code that attached below. I want to change the output of encoder part during learning and then send it as input to decoder part. but I do not know how can I do it?
here the output of encoder part is encoded that I want to turn it into a vector and change some values of it and then send it to decoder part. please guide me about this problem. please tell me about changes that should be done in following code.
thanks.

#matplotlib inline

import numpy as np
import tensorflow as tf
import matplotlib.pyplot as plt
from tensorflow.examples.tutorials.mnist import input_data
mnist = input_data.read_data_sets('MNIST_data', validation_size=10000)
w=np.random.randint(2,size=60000)
img = mnist.train.images[2]
plt.imshow(img.reshape((28, 28)), cmap='Greys_r')

learning_rate = 0.001
# Input and target placeholders
inputs_ = tf.placeholder(tf.float32, (None, 28,28,1), name="input")
targets_ = tf.placeholder(tf.float32, (None, 28,28,1), name="target")

### Encoder
conv1 = tf.layers.conv2d(inputs=inputs_, filters=16, kernel_size=(3,3), padding='same', activation=tf.nn.relu)
# Now 28x28x16
maxpool1 = tf.layers.max_pooling2d(conv1, pool_size=(2,2), strides=(2,2), padding='same')
# Now 14x14x16
conv2 = tf.layers.conv2d(inputs=maxpool1, filters=8, kernel_size=(3,3), padding='same', activation=tf.nn.relu)
# Now 14x14x8
maxpool2 = tf.layers.max_pooling2d(conv2, pool_size=(2,2), strides=(2,2), padding='same')
# Now 7x7x8
conv3 = tf.layers.conv2d(inputs=maxpool2, filters=8, kernel_size=(3,3), padding='same', activation=tf.nn.relu)
# Now 7x7x8
encoded = tf.layers.max_pooling2d(conv3, pool_size=(2,2), strides=(2,2), padding='same')
# Now 4x4x8


### Decoder
upsample1 = tf.image.resize_images(encoded, size=(7,7), method=tf.image.ResizeMethod.NEAREST_NEIGHBOR)
# Now 7x7x8
conv4 = tf.layers.conv2d(inputs=upsample1, filters=8, kernel_size=(3,3), padding='same', activation=tf.nn.relu)
# Now 7x7x8
upsample2 = tf.image.resize_images(conv4, size=(14,14), method=tf.image.ResizeMethod.NEAREST_NEIGHBOR)
# Now 14x14x8
conv5 = tf.layers.conv2d(inputs=upsample2, filters=8, kernel_size=(3,3), padding='same', activation=tf.nn.relu)
# Now 14x14x8
upsample3 = tf.image.resize_images(conv5, size=(28,28), method=tf.image.ResizeMethod.NEAREST_NEIGHBOR)
# Now 28x28x8
conv6 = tf.layers.conv2d(inputs=upsample3, filters=16, kernel_size=(3,3), padding='same', activation=tf.nn.relu)
# Now 28x28x16

logits = tf.layers.conv2d(inputs=conv6, filters=1, kernel_size=(3,3), padding='same', activation=None)
#Now 28x28x1

# Pass logits through sigmoid to get reconstructed image
decoded = tf.nn.sigmoid(logits)

# Pass logits through sigmoid and calculate the cross-entropy loss
loss = tf.nn.sigmoid_cross_entropy_with_logits(labels=targets_, logits=logits)

# Get cost and define the optimizer
cost = tf.reduce_mean(loss)
opt = tf.train.AdamOptimizer(learning_rate).minimize(cost)
sess = tf.Session()
epochs = 1
batch_size = 200
sess.run(tf.global_variables_initializer())
for e in range(epochs):
    for ii in range(mnist.train.num_examples//batch_size):
        batch = mnist.train.next_batch(batch_size)
        imgs = batch[0].reshape((-1, 28, 28, 1))
        batch_cost, _ = sess.run([cost, opt], feed_dict={inputs_: imgs,
                                                         targets_: imgs})
        Fprim=tf.reshape(encoded,[-1,1])
        temp=Fprim[0]
        Fprim[0]=Fprim[1]
        Fprim[1]=temp
        encoded=tf.reshape(Fprim,[4,4,8])
        


        print("Epoch: {}/{}...".format(e+1, epochs),
              "Training loss: {:.4f}".format(batch_cost))
 
fig, axes = plt.subplots(nrows=2, ncols=10, sharex=True, sharey=True, figsize=(20,4))
in_imgs = mnist.test.images[:10]
noisy_imgs = in_imgs + 0.01 * np.random.randn(*in_imgs.shape)
noisy_imgs = np.clip(noisy_imgs, 0., 1.)

reconstructed = sess.run(decoded, feed_dict={inputs_: noisy_imgs.reshape((10, 28, 28, 1))})

for images, row in zip([noisy_imgs, reconstructed], axes):
    for img, ax in zip(images, row):
        ax.imshow(img.reshape((28, 28)), cmap='Greys_r')
        ax.get_xaxis().set_visible(False)
        ax.get_yaxis().set_visible(False)

fig.tight_layout(pad=0.1)