-
Notifications
You must be signed in to change notification settings - Fork 3
/
Copy pathget_h5data.py
190 lines (148 loc) · 5.44 KB
/
get_h5data.py
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
# get_h5data.py
# Copyright 2016, Akash Maharaj, All rights reserved.
#
# This is a lightly modified version of Google's inumpyut_data.py
# provided in the TensorFlow MNIST tutorial. Changes are made
# to handle the loading of hdf5 data as output by matlab code
#
# Provides functions used by TensorFlow
# ==================================================
"""Functions for loading and reading CRFS data from hdf5 data format """
from __future__ import division
from __future__ import print_function
from six.moves import xrange # pylint: disable=redefined-builtin
import tensorflow as tf
import numpy
import h5py
import os
def extract_images(filename):
"""Extract images from hdf5 format into a 4D uint8 numpy array [index, y, x, depth]."""
print('Extracting', filename)
with h5py.File(filename,'r') as hf:
data = hf.get('data')
labels = hf.get('label')
np_data = numpy.array(data, dtype=numpy.uint8).transpose(0,3,2,1)
return np_data
def dense_to_one_hot(labels_dense, num_classes=3):
"""Convert class labels from scalars to one-hot vectors."""
num_labels = labels_dense.shape[0]
index_offset = numpy.arange(num_labels) * num_classes
labels_one_hot = numpy.zeros((num_labels, num_classes))
labels_one_hot.flat[index_offset + labels_dense.ravel()] = 1
return labels_one_hot
def extract_labels(filename, one_hot=False):
"""Extract the labels into a 1D uint8 numpy array [index]."""
print('Extracting', filename)
with h5py.File(filename,'r') as hf:
labels = hf.get('label')
np_labels = numpy.array(labels, dtype=numpy.uint8)
if one_hot:
return dense_to_one_hot(np_labels)
return np_labels
class DataSet(object):
def __init__(self, images, labels, fake_data=False, one_hot=False,
dtype=tf.float32):
"""Construct a DataSet.
one_hot arg is used only if fake_data is true. `dtype` can be either
`uint8` to leave the inumpyut as `[0, 255]`, or `float32` to rescale into
`[0, 1]`.
"""
dtype = tf.as_dtype(dtype).base_dtype
if dtype not in (tf.uint8, tf.float32):
raise TypeError('Invalid image dtype %r, expected uint8 or float32' %
dtype)
if fake_data:
self._num_examples = 10000
self.one_hot = one_hot
else:
assert images.shape[0] == labels.shape[0], (
'images.shape: %s labels.shape: %s' % (images.shape,
labels.shape))
self._num_examples = images.shape[0]
# Convert shape from [num examples, rows, columns, depth]
# to [num examples, rows*columns] (assuming depth == 1)
assert images.shape[3] == 1
images = images.reshape(images.shape[0],
images.shape[1] * images.shape[2])
if dtype == tf.float32:
# Convert from [0, 255] -> [0.0, 1.0].
images = images.astype(numpy.float32)
images = numpy.multiply(images, 1.0 / 255.0)
self._images = images
self._labels = labels
self._epochs_completed = 0
self._index_in_epoch = 0
@property
def images(self):
return self._images
@property
def labels(self):
return self._labels
@property
def num_examples(self):
return self._num_examples
@property
def epochs_completed(self):
return self._epochs_completed
def next_batch(self, batch_size, fake_data=False):
"""Return the next `batch_size` examples from this data set."""
if fake_data:
fake_image = [1] * 784
if self.one_hot:
fake_label = [1] + [0] * 9
else:
fake_label = 0
return [fake_image for _ in xrange(batch_size)], [
fake_label for _ in xrange(batch_size)]
start = self._index_in_epoch
self._index_in_epoch += batch_size
if self._index_in_epoch > self._num_examples:
# Finished epoch
self._epochs_completed += 1
# Shuffle the data
perm = numpy.arange(self._num_examples)
numpy.random.shuffle(perm)
self._images = self._images[perm]
self._labels = self._labels[perm]
# Start next epoch
start = 0
self._index_in_epoch = batch_size
assert batch_size <= self._num_examples
end = self._index_in_epoch
return self._images[start:end], self._labels[start:end]
def read_data_sets(train_dir, fake_data=False, one_hot=False, dtype=tf.float32):
class DataSets(object):
pass
data_sets = DataSets()
if fake_data:
def fake():
return DataSet([], [], fake_data=True, one_hot=one_hot, dtype=dtype)
data_sets.train = fake()
data_sets.validation = fake()
data_sets.test = fake()
return data_sets
TRAIN = os.path.join(train_dir, 'sample_train_gzip.h5')
TEST = os.path.join(train_dir, 'sample_test_gzip.h5')
VALIDATION_SIZE = 500
train_images = extract_images(TRAIN)
train_labels = extract_labels(TRAIN, one_hot=one_hot)
test_images = extract_images(TEST)
test_labels = extract_labels(TEST, one_hot=one_hot)
#shuffle the datasets
perm = numpy.arange(train_images.shape[0])
numpy.random.shuffle(perm)
train_images = train_images[perm]
train_labels = train_labels[perm]
perm2 = numpy.arange(test_images.shape[0])
numpy.random.shuffle(perm2)
test_images = test_images[perm2]
test_labels = test_labels[perm2]
validation_images = train_images[:VALIDATION_SIZE]
validation_labels = train_labels[:VALIDATION_SIZE]
train_images = train_images[VALIDATION_SIZE:]
train_labels = train_labels[VALIDATION_SIZE:]
data_sets.train = DataSet(train_images, train_labels, dtype=dtype)
data_sets.validation = DataSet(validation_images, validation_labels,
dtype=dtype)
data_sets.test = DataSet(test_images, test_labels, dtype=dtype)
return data_sets