def inference(self, X, dirr, train_status=False, Not_Realtest=True):
now = datetime.now().isoformat()[11:]
print("------- Testing begin: {} -------\n".format(now), flush=True)
if Not_Realtest:
x_list, y_list, tnum = X.next_batch()
else:
x_list, tnum = X.next_batch(Not_Realtest=False)
y_list = None
rd = 0
pdx = []
yl = []
with tf.Session() as sessb:
# Initialize all global and local variables
init_op = tf.group(tf.global_variables_initializer(), tf.local_variables_initializer())
sessb.run(init_op)
# Create a coordinator and run all QueueRunner objects
coord = tf.train.Coordinator()
threads = tf.train.start_queue_runners(coord=coord, sess=sessb)
while True:
try:
if Not_Realtest:
x, y = sessb.run([x_list, y_list])
x = x.astype(np.uint8)
else:
x = sessb.run([x_list])
y = None
x = x[0].astype(np.uint8)
feed_dict = {self.x_in: x, self.is_train: train_status}
fetches = [self.pred, self.net, self.w]
pred, net, w = self.sesh.run(fetches, feed_dict)
if Not_Realtest:
ac.CAM(net, w, pred, x, y, dirr, 'Test', rd)
# else:
# ac.CAM_R(net, w, pred, x, dirr, 'Test', rd)
if rd == 0:
pdx = pred
yl = y
else:
pdx = np.concatenate((pdx, pred), axis=0)
yl = np.concatenate((yl, y), axis=None)
rd += 1
except tf.errors.OutOfRangeError:
# Stop the threads
coord.request_stop()
# Wait for threads to stop
coord.join(threads)
if Not_Realtest:
ac.metrics(pdx, yl, dirr, 'Test')
else:
ac.realout(pdx, dirr, 'Test')
sessb.close()
now = datetime.now().isoformat()[11:]
print("------- Testing end: {} -------\n".format(now), flush=True)
break
def inference(self,
X,
dirr,
testset,
bs,
train_status=False,
Not_Realtest=True):
now = datetime.now().isoformat()[11:]
print("------- Testing begin: {} -------\n".format(now), flush=True)
rd = 0
pdx = []
yl = []
if Not_Realtest:
itr, file, ph = X.data(train=False)
next_element = itr.get_next()
with tf.Session() as sessa:
sessa.run(itr.initializer, feed_dict={ph: file})
while True:
try:
x, y = sessa.run(next_element)
feed_dict = {self.x_in: x, self.is_train: train_status}
fetches = [self.pred, self.net, self.w]
pred, net, w = self.sesh.run(fetches, feed_dict)
# ac.CAM(net, w, pred, x, y, dirr, 'Test', bs, rd)
if rd == 0:
pdx = pred
yl = y
else:
pdx = np.concatenate((pdx, pred), axis=0)
yl = np.concatenate((yl, y), axis=0)
rd += 1
except tf.errors.OutOfRangeError:
ac.metrics(pdx, yl, dirr, 'Test', testset)
break
else:
itr, img, ph = X.data(Not_Realtest=False, train=False)
next_element = itr.get_next()
with tf.Session() as sessa:
sessa.run(itr.initializer, feed_dict={ph: img})
while True:
try:
x = sessa.run(next_element)
feed_dict = {self.x_in: x, self.is_train: train_status}
fetches = [self.pred, self.net, self.w]
pred, net, w = self.sesh.run(fetches, feed_dict)
# ac.CAM_R(net, w, pred, x, dirr, 'Test', bs, rd)
if rd == 0:
pdx = pred
else:
pdx = np.concatenate((pdx, pred), axis=0)
rd += 1
except tf.errors.OutOfRangeError:
ac.realout(pdx, dirr, 'Test')
break
now = datetime.now().isoformat()[11:]
print("------- Testing end: {} -------\n".format(now), flush=True)
def train(self,
X,
dirr,
max_iter=np.inf,
max_epochs=np.inf,
cross_validate=True,
verbose=True,
save=True,
outdir="./out"):
if save:
saver = tf.train.Saver(tf.global_variables(), max_to_keep=None)
try:
err_train = 0
now = datetime.now().isoformat()[11:]
print("------- Training begin: {} -------\n".format(now),
flush=True)
x_list, y_list, nums = X.next_batch()
with tf.Session() as sessa:
# Initialize all global and local variables
init_op = tf.group(tf.global_variables_initializer(),
tf.local_variables_initializer())
sessa.run(init_op)
# Create a coordinator and run all QueueRunner objects
coord = tf.train.Coordinator()
threads = tf.train.start_queue_runners(coord=coord, sess=sessa)
while True:
try:
x, y = sessa.run([x_list, y_list])
x = x.astype(np.uint8)
feed_dict = {
self.x_in: x,
self.y_in: y,
self.dropout_: self.dropout
}
fetches = [
self.merged_summary, self.logits, self.pred,
self.pred_cost, self.global_step, self.train_op
]
summary, logits, pred, cost, i, _ = self.sesh.run(
fetches, feed_dict)
self.train_logger.add_summary(summary, i)
err_train += cost
if i % 1000 == 0 and verbose:
print("round {} --> cost: ".format(i),
cost,
flush=True)
elif i == max_iter and verbose:
print("round {} --> cost: ".format(i),
cost,
flush=True)
if i % 1000 == 0 and verbose: # and i >= 10000:
if cross_validate:
xv, yv = sessa.run([x_list, y_list])
xv = xv.astype(np.uint8)
feed_dict = {self.x_in: xv, self.y_in: yv}
fetches = [self.pred_cost, self.merged_summary]
valid_cost, valid_summary = self.sesh.run(
fetches, feed_dict)
self.valid_logger.add_summary(valid_summary, i)
print("round {} --> CV cost: ".format(i),
valid_cost,
flush=True)
if i == max_iter - int(
i / 1000) - 2 and verbose: # and i >= 10000:
if cross_validate:
now = datetime.now().isoformat()[11:]
print("------- Validation begin: {} -------\n".
format(now),
flush=True)
xv, yv = sessa.run([x_list, y_list])
xv = xv.astype(np.uint8)
feed_dict = {self.x_in: xv, self.y_in: yv}
fetches = [
self.pred_cost, self.merged_summary,
self.pred, self.net, self.w
]
valid_cost, valid_summary, pred, net, w = self.sesh.run(
fetches, feed_dict)
self.valid_logger.add_summary(valid_summary, i)
print("round {} --> Last CV cost: ".format(i),
valid_cost,
flush=True)
ac.CAM(net, w, pred, xv, yv, dirr,
'Validation')
ac.metrics(pred, yv, dirr, 'Validation')
now = datetime.now().isoformat()[11:]
print("------- Validation end: {} -------\n".
format(now),
flush=True)
# if i%50000 == 0 and save:
# interfile=os.path.join(os.path.abspath(outdir), "{}_cnn_{}".format(
# self.datetime, "_".join(map(str, self.input_dim))))
# saver.save(self.sesh, interfile, global_step=self.step)
except tf.errors.OutOfRangeError:
# Stop the threads
coord.request_stop()
# Wait for threads to stop
coord.join(threads)
sessa.close()
print(
"final avg cost (@ step {} = epoch {}): {}".format(
i, np.around(i / nums * self.batch_size),
err_train / i),
flush=True)
now = datetime.now().isoformat()[11:]
print("------- Training end: {} -------\n".format(now),
flush=True)
if save:
outfile = os.path.join(
os.path.abspath(outdir),
"inceptionres1_{}".format("_".join(
['dropout', str(self.dropout)])))
saver.save(self.sesh, outfile, global_step=None)
try:
self.train_logger.flush()
self.train_logger.close()
self.valid_logger.flush()
self.valid_logger.close()
except (AttributeError): # not logging
print('Not logging', flush=True)
break
except (KeyboardInterrupt):
print("final avg cost (@ step {} = epoch {}): {}".format(
i, np.around(i / nums * self.batch_size), err_train / i),
flush=True)
now = datetime.now().isoformat()[11:]
print("------- Training end: {} -------\n".format(now), flush=True)
if save:
outfile = os.path.join(
os.path.abspath(outdir), "inceptionres1_{}".format(
"_".join(['dropout', str(self.dropout)])))
saver.save(self.sesh, outfile, global_step=None)
try:
self.train_logger.flush()
self.train_logger.close()
self.valid_logger.flush()
self.valid_logger.close()
except (AttributeError): # not logging
print('Not logging', flush=True)
sys.exit(0)
def train(self,
X,
ct,
bs,
dirr,
max_iter=np.inf,
cross_validate=True,
verbose=True,
save=True,
outdir="./out"):
start_time = time.time()
if save:
saver = tf.train.Saver(tf.global_variables(), max_to_keep=None)
try:
err_train = 0
now = datetime.now().isoformat()[11:]
print("------- Training begin: {} -------\n".format(now),
flush=True)
itr, file, ph = X.data()
next_element = itr.get_next()
with tf.Session() as sessa:
sessa.run(itr.initializer, feed_dict={ph: file})
while True:
try:
x, y = sessa.run(next_element)
feed_dict = {
self.x_in: x,
self.y_in: y,
self.dropout_: self.dropout
}
fetches = [
self.merged_summary, self.logits, self.pred,
self.pred_cost, self.global_step, self.train_op
]
summary, logits, pred, cost, i, _ = self.sesh.run(
fetches, feed_dict)
self.train_logger.add_summary(summary, i)
err_train += cost
if i % 1000 == 0 and verbose:
print("round {} --> cost: ".format(i),
cost,
flush=True)
if cross_validate:
xv, yv = sessa.run(next_element)
feed_dict = {self.x_in: xv, self.y_in: yv}
fetches = [self.pred_cost, self.merged_summary]
valid_cost, valid_summary = self.sesh.run(
fetches, feed_dict)
self.valid_logger.add_summary(valid_summary, i)
print("round {} --> CV cost: ".format(i),
valid_cost,
flush=True)
if i == max_iter - int(
i / 1000) - 2 and verbose: # and i >= 10000:
if cross_validate:
now = datetime.now().isoformat()[11:]
print("------- Validation begin: {} -------\n".
format(now),
flush=True)
xv, yv = sessa.run(next_element)
feed_dict = {self.x_in: xv, self.y_in: yv}
fetches = [
self.pred_cost, self.merged_summary,
self.pred, self.net, self.w
]
valid_cost, valid_summary, pred, net, w = self.sesh.run(
fetches, feed_dict)
self.valid_logger.add_summary(valid_summary, i)
print("round {} --> Last CV cost: ".format(i),
valid_cost,
flush=True)
ac.CAM(net, w, pred, xv, yv, dirr,
'Validation')
ac.metrics(pred, yv, dirr, 'Validation')
now = datetime.now().isoformat()[11:]
print("------- Validation end: {} -------\n".
format(now),
flush=True)
# if i%50000 == 0 and save:
# interfile=os.path.join(os.path.abspath(outdir), "{}_cnn_{}".format(
# self.datetime, "_".join(map(str, self.input_dim))))
# saver.save(self.sesh, interfile, global_step=self.step)
except tf.errors.OutOfRangeError:
print(
"final avg cost (@ step {} = epoch {}): {}".format(
i + 1, np.around(i / ct * bs), err_train / i),
flush=True)
now = datetime.now().isoformat()[11:]
print("------- Training end: {} -------\n".format(now),
flush=True)
if save:
outfile = os.path.join(
os.path.abspath(outdir),
"inceptionres2_{}".format("_".join(
['dropout', str(self.dropout)])))
saver.save(self.sesh, outfile, global_step=None)
try:
self.train_logger.flush()
self.train_logger.close()
self.valid_logger.flush()
self.valid_logger.close()
except (AttributeError): # not logging
print('Not logging', flush=True)
break
print("--- %s seconds ---" % (time.time() - start_time))
except (KeyboardInterrupt):
print("final avg cost (@ step {} = epoch {}): {}".format(
i, np.around(i / ct * bs), err_train / i),
flush=True)
now = datetime.now().isoformat()[11:]
print("------- Training end: {} -------\n".format(now), flush=True)
if save:
outfile = os.path.join(
os.path.abspath(outdir), "inceptionres2_{}".format(
"_".join(['dropout', str(self.dropout)])))
saver.save(self.sesh, outfile, global_step=None)
try:
self.train_logger.flush()
self.train_logger.close()
self.valid_logger.flush()
self.valid_logger.close()
except (AttributeError): # not logging
print('Not logging', flush=True)
sys.exit(0)
def train(self, X, VAX, ct, bs, dirr, pmd, max_iter=np.inf, cross_validate=True, verbose=True, save=True, outdir="./out"):
start_time = time.time()
svs = 0
if save:
saver = tf.train.Saver(tf.global_variables(), max_to_keep=None)
try:
err_train = 0
now = datetime.now().isoformat()[11:]
print("------- Training begin: {} -------\n".format(now), flush=True)
itr, file, ph = X.data()
next_element = itr.get_next()
vaitr, vafile, vaph = VAX.data(train=False)
vanext_element = vaitr.get_next()
with tf.Session() as sessa:
sessa.run(itr.initializer, feed_dict={ph: file})
sessa.run(vaitr.initializer, feed_dict={vaph: vafile})
train_cost = []
validation_cost = []
valid_cost = 0
while True:
try:
x, y = sessa.run(next_element)
feed_dict = {self.x_in: x, self.y_in: y}
fetches = [self.merged_summary, self.logits, self.pred,
self.pred_cost, self.global_step, self.train_op]
summary, logits, pred, cost, i, _ = self.sesh.run(fetches, feed_dict)
self.train_logger.add_summary(summary, i)
err_train += cost
if i < 2:
train_cost.append(cost)
try:
mintrain = min(train_cost)
except ValueError:
mintrain = 0
if cost <= mintrain and i > 29999:
if cross_validate:
temp_valid = []
for iii in range(10):
x, y = sessa.run(vanext_element)
feed_dict = {self.x_in: x, self.y_in: y, self.is_train: False}
fetches = [self.pred_cost, self.merged_summary]
valid_cost, valid_summary = self.sesh.run(fetches, feed_dict)
self.valid_logger.add_summary(valid_summary, i)
temp_valid.append(valid_cost)
tempminvalid = np.mean(temp_valid)
try:
minvalid = min(validation_cost)
except ValueError:
minvalid = 0
if tempminvalid <= minvalid:
train_cost.append(cost)
print("round {} --> loss: ".format(i), cost, flush=True)
print("round {} --> validation loss: ".format(i), tempminvalid, flush=True)
print("New Min loss model found!")
validation_cost.append(tempminvalid)
if save:
outfile = os.path.join(os.path.abspath(outdir),
"{}_{}".format(self.model,
"_".join(['dropout', str(self.dropout)])))
saver.save(self.sesh, outfile, global_step=None)
svs = i
else:
train_cost.append(cost)
print("round {} --> loss: ".format(i), cost, flush=True)
print("New Min loss model found!")
if save:
outfile = os.path.join(os.path.abspath(outdir),
"{}_{}".format(self.model,
"_".join(['dropout', str(self.dropout)])))
saver.save(self.sesh, outfile, global_step=None)
svs = i
else:
train_cost.append(cost)
if i % 1000 == 0 and verbose:
print("round {} --> loss: ".format(i), cost, flush=True)
if cross_validate:
temp_valid = []
for iii in range(100):
x, y = sessa.run(vanext_element)
feed_dict = {self.x_in: x, self.y_in: y, self.is_train: False}
fetches = [self.pred_cost, self.merged_summary]
valid_cost, valid_summary = self.sesh.run(fetches, feed_dict)
self.valid_logger.add_summary(valid_summary, i)
temp_valid.append(valid_cost)
tempminvalid = np.mean(temp_valid)
try:
minvalid = min(validation_cost)
except ValueError:
minvalid = 0
validation_cost.append(tempminvalid)
print("round {} --> Step Average validation loss: ".format(i), tempminvalid, flush=True)
if save and tempminvalid <= minvalid:
print("New Min loss model found!")
print("round {} --> loss: ".format(i), cost, flush=True)
outfile = os.path.join(os.path.abspath(outdir),
"{}_{}".format(self.model,
"_".join(['dropout', str(self.dropout)])))
saver.save(self.sesh, outfile, global_step=None)
svs = i
if i > 79999:
valid_mean_cost = np.mean(validation_cost[-10:-1])
print('Mean validation loss: {}'.format(valid_mean_cost))
if valid_cost > valid_mean_cost:
print("Early stopped! No improvement for at least 10000 iterations")
break
else:
print("Passed early stopping evaluation. Continue training!")
if i >= max_iter-2 and verbose:
if cross_validate:
print("final avg loss (@ step {} = epoch {}): {}".format(
i + 1, np.around(i / ct * bs), err_train / i), flush=True)
now = datetime.now().isoformat()[11:]
print("------- Training end: {} -------\n".format(now), flush=True)
now = datetime.now().isoformat()[11:]
print("------- Final Validation begin: {} -------\n".format(now), flush=True)
x, y = sessa.run(vanext_element)
feed_dict = {self.x_in: x, self.y_in: y, self.is_train: False}
fetches = [self.pred_cost, self.merged_summary]
valid_cost, valid_summary= self.sesh.run(fetches, feed_dict)
self.valid_logger.add_summary(valid_summary, i)
print("round {} --> Final Last validation loss: ".format(i), valid_cost, flush=True)
now = datetime.now().isoformat()[11:]
print("------- Final Validation end: {} -------\n".format(now), flush=True)
try:
self.train_logger.flush()
self.train_logger.close()
self.valid_logger.flush()
self.valid_logger.close()
except(AttributeError): # not logging
print('Not logging', flush=True)
break
except tf.errors.OutOfRangeError:
if cross_validate:
print("final avg loss (@ step {} = epoch {}): {}".format(
i + 1, np.around(i / ct * bs), err_train / i), flush=True)
now = datetime.now().isoformat()[11:]
print("------- Training end: {} -------\n".format(now), flush=True)
now = datetime.now().isoformat()[11:]
print("------- Final Validation begin: {} -------\n".format(now), flush=True)
x, y = sessa.run(vanext_element)
feed_dict = {self.x_in: x, self.y_in: y, self.is_train: False}
fetches = [self.pred_cost, self.merged_summary, self.pred, self.net, self.w]
valid_cost, valid_summary, pred, net, w = self.sesh.run(fetches, feed_dict)
self.valid_logger.add_summary(valid_summary, i)
print("round {} --> Final Last validation loss: ".format(i), valid_cost, flush=True)
ac.CAM(net, w, pred, x, y, dirr, 'Validation', bs, pmd)
ac.metrics(pred, y, dirr, 'Validation', pmd)
now = datetime.now().isoformat()[11:]
print("------- Final Validation end: {} -------\n".format(now), flush=True)
try:
self.train_logger.flush()
self.train_logger.close()
self.valid_logger.flush()
self.valid_logger.close()
except(AttributeError): # not logging
print('Not logging', flush=True)
break
try:
print("final avg loss (@ step {} = epoch {}): {}".format(
i + 1, np.around(i / ct * bs), err_train / i), flush=True)
now = datetime.now().isoformat()[11:]
print("------- Training end: {} -------\n".format(now), flush=True)
if svs < 15000 and save:
print("Save the last model as the best model.")
outfile = os.path.join(os.path.abspath(outdir),
"{}_{}".format(self.model, "_".join(['dropout', str(self.dropout)])))
saver.save(self.sesh, outfile, global_step=None)
if cross_validate:
now = datetime.now().isoformat()[11:]
print("------- Validation begin: {} -------\n".format(now), flush=True)
x, y = sessa.run(vanext_element)
feed_dict = {self.x_in: x, self.y_in: y, self.is_train: False}
fetches = [self.pred_cost, self.merged_summary, self.pred, self.net, self.w]
valid_cost, valid_summary, pred, net, w = self.sesh.run(fetches, feed_dict)
self.valid_logger.add_summary(valid_summary, i)
print("round {} --> Last validation loss: ".format(i), valid_cost, flush=True)
ac.CAM(net, w, pred, x, y, dirr, 'Validation', bs, pmd)
ac.metrics(pred, y, dirr, 'Validation', pmd)
now = datetime.now().isoformat()[11:]
print("------- Validation end: {} -------\n".format(now), flush=True)
try:
self.train_logger.flush()
self.train_logger.close()
self.valid_logger.flush()
self.valid_logger.close()
except(AttributeError): # not logging
print('Not logging', flush=True)
except tf.errors.OutOfRangeError:
print("final avg loss (@ step {} = epoch {}): {}".format(
i + 1, np.around(i / ct * bs), err_train / i), flush=True)
now = datetime.now().isoformat()[11:]
print("------- Training end: {} -------\n".format(now), flush=True)
print('No more validation needed!')
print("--- %s seconds ---" % (time.time() - start_time))
except(KeyboardInterrupt):
print("final avg loss (@ step {} = epoch {}): {}".format(
i, np.around(i / ct * bs), err_train / i), flush=True)
now = datetime.now().isoformat()[11:]
print("------- Training end: {} -------\n".format(now), flush=True)
if save:
outfile = os.path.join(os.path.abspath(outdir),
"{}_{}".format(self.model, "_".join(['dropout', str(self.dropout)])))
saver.save(self.sesh, outfile, global_step=None)
try:
self.train_logger.flush()
self.train_logger.close()
self.valid_logger.flush()
self.valid_logger.close()
except(AttributeError): # not logging
print('Not logging', flush=True)
sys.exit(0)
def inference(self,
X,
dirr,
testset=None,
pmd=None,
train_status=False,
Not_Realtest=True,
bs=None):
now = datetime.now().isoformat()[11:]
print("------- Testing begin: {} -------\n".format(now))
rd = 0
pdx = []
yl = []
if Not_Realtest:
itr, file, ph = X.data(train=False)
next_element = itr.get_next()
with tf.Session() as sessa:
sessa.run(itr.initializer, feed_dict={ph: file})
while True:
try:
x, y = sessa.run(next_element)
feed_dict = {self.x_in: x, self.is_train: train_status}
fetches = [self.pred, self.net, self.w, self.logits]
pred, net, w, logits = self.sesh.run(
fetches, feed_dict)
# ac.CAM(net, w, pred, x, y, dirr, 'Test', bs, pmd, rd)
net = np.mean(net, axis=(1, 2))
if rd == 0:
pdx = pred
yl = y
netl = net
logitsl = logits
else:
pdx = np.concatenate((pdx, pred), axis=0)
yl = np.concatenate((yl, y), axis=0)
netl = np.concatenate((netl, net), axis=0)
logitsl = np.concatenate((logitsl, logits), axis=0)
rd += 1
except tf.errors.OutOfRangeError:
ac.metrics(pdx, yl, dirr, 'Test', pmd, testset)
ac.logit_agg(logitsl, testset, dirr, "Test")
ac.tSNE_prep(flatnet=netl,
ori_test=testset,
y=yl,
pred=pdx,
path=dirr,
pmd=pmd)
break
else:
itr, file, ph = X.data(Not_Realtest=False, train=False)
next_element = itr.get_next()
with tf.Session() as sessa:
sessa.run(itr.initializer, feed_dict={ph: file})
while True:
try:
x = sessa.run(next_element)
feed_dict = {self.x_in: x, self.is_train: train_status}
fetches = [self.pred, self.net, self.w]
pred, net, w = self.sesh.run(fetches, feed_dict)
# ac.CAM_R(net, w, pred, x, dirr, 'Test', bs, rd)
if rd == 0:
pdx = pred
else:
pdx = np.concatenate((pdx, pred), axis=0)
rd += 1
except tf.errors.OutOfRangeError:
ac.realout(pdx, dirr, 'Test', pmd)
break
now = datetime.now().isoformat()[11:]
print("------- Testing end: {} -------\n".format(now), flush=True)