def run(self, corner, subvol_size):
"""Runs FFN inference over a subvolume.
Args:
corner: start of the subvolume (z, y, x)
subvol_size: size of the subvolume (z, y, x)
Returns:
Canvas object with the segmentation or None if the canvas could not
be created or the segmentation subvolume already exists.
"""
self.counters.reset()
seg_path = storage.segmentation_path(
self.request.segmentation_output_dir, corner)
prob_path = storage.object_prob_path(
self.request.segmentation_output_dir, corner)
cpoint_path = storage.checkpoint_path(
self.request.segmentation_output_dir, corner)
if gfile.Exists(seg_path):
if pyborgletinfo.RunningUnderBorglet():
pywrapborgletlib.BorgletLib.SetStatusMsg(
'Segmentation already complete; exiting.')
return None
canvas, alignment = self.make_canvas(corner, subvol_size)
if canvas is None:
return None
if gfile.Exists(cpoint_path):
canvas.restore_checkpoint(cpoint_path)
if self.request.alignment_options.save_raw:
image_path = storage.subvolume_path(
self.request.segmentation_output_dir, corner, 'align')
with storage.atomic_file(image_path) as fd:
np.savez_compressed(fd, im=canvas.image)
canvas.segment_all(
seed_policy=self.get_seed_policy(corner, subvol_size))
self.save_segmentation(canvas, alignment, seg_path, prob_path)
# Attempt to remove the checkpoint file now that we no longer need it.
try:
gfile.Remove(cpoint_path)
except: # pylint: disable=bare-except
pass
return canvas
def threshold_segmentation(segmentation_dir, corner, labels, threshold):
prob_path = object_prob_path(segmentation_dir, corner)
if not gfile.Exists(prob_path):
prob_path = legacy_object_prob_path(segmentation_dir, corner)
if not gfile.Exists(prob_path):
raise ValueError('Cannot find probability map %s' % prob_path)
with gfile.Open(prob_path, 'rb') as f:
data = np.load(f)
if 'qprob' not in data:
raise ValueError('Invalid FFN probability map.')
prob = dequantize_probability(data['qprob'])
labels[prob < threshold] = 0
def get_mldata(dataset):
# Use scikit to grab datasets and save them save_dir.
save_dir = FLAGS.save_dir
filename = os.path.join(save_dir, dataset[1] + '.pkl')
if not gfile.Exists(save_dir):
gfile.MkDir(save_dir)
if not gfile.Exists(filename):
if dataset[0][-3:] == 'csv':
data = get_csv_data(dataset[0])
elif dataset[0] == 'breast_cancer':
data = load_breast_cancer()
elif dataset[0] == 'iris':
data = load_iris()
elif dataset[0] == 'newsgroup':
# Removing header information to make sure that no newsgroup identifying
# information is included in data
data = fetch_20newsgroups_vectorized(subset='all',
remove=('headers'))
tfidf = TfidfTransformer(norm='l2')
X = tfidf.fit_transform(data.data)
data.data = X
elif dataset[0] == 'rcv1':
sklearn.datasets.rcv1.URL = (
'http://www.ai.mit.edu/projects/jmlr/papers/'
'volume5/lewis04a/a13-vector-files/lyrl2004_vectors')
sklearn.datasets.rcv1.URL_topics = (
'http://www.ai.mit.edu/projects/jmlr/papers/'
'volume5/lewis04a/a08-topic-qrels/rcv1-v2.topics.qrels.gz')
data = sklearn.datasets.fetch_rcv1(data_home='/tmp')
elif dataset[0] == 'wikipedia_attack':
data = get_wikipedia_talk_data()
elif dataset[0] == 'cifar10':
data = get_cifar10()
elif 'keras' in dataset[0]:
data = get_keras_data(dataset[0])
else:
try:
data = fetch_mldata(dataset[0])
except:
raise Exception('ERROR: failed to fetch data from mldata.org')
X = data.data
y = data.target
if X.shape[0] != y.shape[0]:
X = np.transpose(X)
assert X.shape[0] == y.shape[0]
data = {'data': X, 'target': y}
pickle.dump(data, gfile.GFile(filename, 'w'))
def train(working_dir):
model_num, model_name = fsdb.get_latest_model()
games = gfile.Glob(os.path.join(fsdb.selfplay_dir(), model_name, '*.zz'))
if len(games) < MIN_GAMES_PER_GENERATION:
print("{} doesn't have enough games to train a new model yet ({})".
format(model_name, len(games)))
print("Sleeping...")
time.sleep(10 * 60)
print("Done...")
sys.exit(1)
print("Training on gathered game data, initializing from {}".format(
model_name))
new_model_num = model_num + 1
new_model_name = shipname.generate(new_model_num)
print("New model will be {}".format(new_model_name))
training_file = os.path.join(fsdb.golden_chunk_dir(),
str(new_model_num) + '.tfrecord.zz')
while not gfile.Exists(training_file):
print("Waiting for", training_file)
time.sleep(1 * 60)
print("Using Golden File:", training_file)
save_file = os.path.join(fsdb.models_dir(), new_model_name)
try:
main.train(working_dir, [training_file],
save_file,
generation_num=model_num + 1)
except:
logging.exception("Train error")
def preprocess(source, chunksize):
reader = read_csv(source, header=0, chunksize=chunksize)
if gfile.Exists(prep_data_path):
gfile.Remove(prep_data_path)
for data in reader:
data = data.fillna(0)
data.replace(('yes', 'no'), (1, 0), inplace=True)
product_type, sub_area, ecology = \
data['product_type'].values, data['sub_area'].values, data['ecology'].values
data['product_type'] = np.reshape([
one_hot(x, n=np.unique(product_type).shape[0] + 1, filters='')
for x in product_type
], product_type.shape)
sub_area = np.array([
s.replace(' ', '').replace('-', '').replace('\'',
'').replace(',', '')
for s in sub_area
])
data['sub_area'] = np.reshape(
[one_hot(x, n=np.unique(sub_area).shape[0] + 1) for x in sub_area],
sub_area.shape)
ecology = np.array([
s.replace(' ', '').replace('-', '').replace('\'',
'').replace(',', '')
for s in ecology
])
data['ecology'] = np.reshape(
[one_hot(x, n=np.unique(ecology).shape[0] + 1) for x in ecology],
ecology.shape)
data.to_csv(
prep_data_path) if not isfile(prep_data_path) else data.to_csv(
prep_data_path, mode='a', header=False)
def inference(reader, checkpoint_file, train_dir, data_pattern, out_file_location, batch_size, top_k):
with tf.Session(config=tf.ConfigProto(allow_soft_placement=True)) as sess, gfile.Open(out_file_location, "w+") as out_file:
video_id_batch, video_batch, num_frames_batch = get_input_data_tensors(reader, data_pattern, batch_size)
if checkpoint_file:
if not gfile.Exists(checkpoint_file + ".meta"):
logging.fatal("Unable to find checkpoint file at provided location '%s'" % checkpoint_file)
latest_checkpoint = checkpoint_file
else:
latest_checkpoint = tf.train.latest_checkpoint(train_dir)
if latest_checkpoint is None:
raise Exception("unable to find a checkpoint at location: %s" % train_dir)
else:
meta_graph_location = latest_checkpoint + ".meta"
logging.info("loading meta-graph: " + meta_graph_location)
saver = tf.train.import_meta_graph(meta_graph_location, clear_devices=True)
logging.info("restoring variables from " + latest_checkpoint)
saver.restore(sess, latest_checkpoint)
input_tensor = tf.get_collection("input_batch_raw")[0]
num_frames_tensor = tf.get_collection("num_frames")[0]
predictions_tensor = tf.get_collection("predictions")[0]
# Workaround for num_epochs issue.
def set_up_init_ops(variables):
init_op_list = []
for variable in list(variables):
if "train_input" in variable.name:
init_op_list.append(tf.assign(variable, 1))
variables.remove(variable)
init_op_list.append(tf.variables_initializer(variables))
return init_op_list
sess.run(set_up_init_ops(tf.get_collection_ref(
tf.GraphKeys.LOCAL_VARIABLES)))
coord = tf.train.Coordinator()
threads = tf.train.start_queue_runners(sess=sess, coord=coord)
num_examples_processed = 0
start_time = time.time()
out_file.write("VideoId,LabelConfidencePairs\n")
try:
while not coord.should_stop():
video_id_batch_val, video_batch_val,num_frames_batch_val = sess.run([video_id_batch, video_batch, num_frames_batch])
predictions_val, = sess.run([predictions_tensor], feed_dict={input_tensor: video_batch_val, num_frames_tensor: num_frames_batch_val})
now = time.time()
num_examples_processed += len(video_batch_val)
num_classes = predictions_val.shape[1]
logging.info("num examples processed: " + str(num_examples_processed) + " elapsed seconds: " + "{0:.2f}".format(now-start_time))
for line in format_lines(video_id_batch_val, predictions_val, top_k):
out_file.write(line)
out_file.flush()
except tf.errors.OutOfRangeError:
logging.info('Done with inference. The output file was written to ' + out_file_location)
finally:
coord.request_stop()
coord.join(threads)
sess.close()
def load_from_config_path(config_paths, default_model_configs=None):
""" Loads configurations from files of yaml format.
Args:
config_paths: A string (each file name is seperated by ",") or
a list of strings (file names).
default_model_configs: A dictionary of model configurations
or None.
Returns: A dictionary of model configurations, parsed from config files.
"""
if isinstance(config_paths, six.string_types):
config_paths = config_paths.strip().split(",")
assert isinstance(config_paths, list) or isinstance(config_paths, tuple)
model_configs = default_model_configs if default_model_configs else dict()
for config_path in config_paths:
config_path = config_path.strip()
if not config_path:
continue
if not gfile.Exists(config_path):
raise OSError("config file does not exist: {}".format(config_path))
config_path = os.path.abspath(config_path)
tf.logging.info("loading configurations from {}".format(config_path))
with gfile.GFile(config_path, "r") as config_file:
config_flags = yaml.load(config_file)
model_configs = deep_merge_dict(model_configs, config_flags)
return model_configs
def __init__(self, filename, bpe_codes_file=None, reverse_seq=False):
""" Initializes the object.
Args:
filename: Path to a vocabulary file containing one word per line.
Each word is mapped to its line number (starting from 0).
bpe_codes_file: Path to a BPE code file. If provided, do BPE
before feature mapping.
reverse_seq: Whether to reverse the sequence when encode the words
to ids.
Raises:
ValueError: if `filename` or `bpe_codes_file` does not exist.
"""
self.vocab_dict, self.vocab_r_dict, _ = create_vocabulary_lookup_table_numpy(
filename)
self._sos_id = self.vocab_dict[Constants.SEQUENCE_START]
self._eos_id = self.vocab_dict[Constants.SEQUENCE_END]
self._unk_id = self.vocab_dict[Constants.UNKOWN]
self._vocab_size = len(self.vocab_dict)
self._reverse_seq = reverse_seq
self._bpe = None
if bpe_codes_file and not bpe_codes_file == "":
if not gfile.Exists(bpe_codes_file):
raise ValueError(
"bpe_codes_file: {} not exists".format(bpe_codes_file))
self._bpe = BPE(bpe_codes_file, vocab=filename)
def _get_or_create_trial(self, uri, uri_info=None):
"""Create a new trial or get the previous one.
The previous trials are recreated by looking at the content of the cached
dir.
Args:
uri (str): Uri to create the trial for.
uri_info (obj): Object containing additional info about the download
or extraction (UrlInfo or ExtractInfo).
Returns:
trial (UriTrial): Result of the trial containing the destination, status,
timestamp,...
"""
# The generation is deterministic so generating keys for the same uri will
# always gives the same result
trial_id = '{}_{}'.format(
util.escape_uri(uri),
util.hash_uri(uri),
)
log = util.build_log(prefix=trial_id)
# Generate a new trial to eventually use
trial = download_pb2.UriTrial(
id=trial_id,
status=download_pb2.UriTrial.IN_PROGRESS,
output_path=os.path.join(self._cache_dir, trial_id),
)
add_uri_info(trial, uri, uri_info)
if gfile.Exists(trial.output_path):
# If the directory exists, the previous trial was complete (as it was
# renamed successfully from ".incomplete")
if self._mode == util.GenerateMode.FORCE_REDOWNLOAD:
log('Cleanup previous trial: {}', trial.output_path)
gfile.DeleteRecursively(trial.output_path)
else:
log('Reusing previously cached data...')
# Try to reuse the previous download
trial.status = download_pb2.UriTrial.COMPLETED
# For the downloads, the output_path contains the file
# TODO(epot): Should instead write the meta-data on disk (in a
# ._trial.json) and replace ListDirectory() by a version which filter
# the metadata file.
is_dl = not any(uri.startswith(p) for p in ('local://', 'extract://'))
is_gz = (
uri.startswith('extract://') and
uri.endswith('.gz') and
not uri.endswith('tar.gz')
)
if is_dl or is_gz:
trial.output_path = get_download_filepath(trial)
else:
log('No cached value found.')
return trial
def get_meta_filename(self, start_new_model, train_dir):
if start_new_model:
logging.info(
"%s: Flag 'start_new_model' is set. Building a new model.",
task_as_string(self.task))
return None
if FLAGS.checkpoint_file == '':
latest_checkpoint = tf.train.latest_checkpoint(train_dir)
else:
latest_checkpoint = os.path.join(FLAGS.train_dir,
FLAGS.checkpoint_file)
if not latest_checkpoint:
logging.info("%s: No checkpoint file found. Building a new model.",
task_as_string(self.task))
return None
meta_filename = latest_checkpoint + ".meta"
if not gfile.Exists(meta_filename):
logging.info("%s: No meta graph file found. Building a new model.",
task_as_string(self.task))
return None
else:
return meta_filename
def create_vocabulary_lookup_table(filename, default_value=None):
"""Creates a lookup table for a vocabulary file.
Args:
filename: Path to a vocabulary file containg one word per line.
Each word is mapped to its line number.
default_value: UNK tokens will be mapped to this id.
If None, UNK tokens will be mapped to [vocab_size]
Returns:
A tuple (vocab_to_id_table, id_to_vocab_table,
word_to_count_table, vocab_size). The vocab size does not include
the UNK token.
"""
if not gfile.Exists(filename):
raise ValueError("File does not exist: {}".format(filename))
# Load vocabulary into memory
with gfile.GFile(filename) as file:
vocab = list(line.strip("\n") for line in file)
vocab_size = len(vocab)
has_counts = len(vocab[0].split("\t")) == 2
if has_counts:
vocab, counts = zip(*[_.split("\t") for _ in vocab])
counts = [float(_) for _ in counts]
vocab = list(vocab)
else:
counts = [-1. for _ in vocab]
# Add special vocabulary items
special_vocab = get_special_vocab(vocab_size)
vocab += list(special_vocab._fields)
vocab_size += len(special_vocab)
counts += [-1. for _ in list(special_vocab._fields)]
if default_value is None:
default_value = special_vocab.UNK
tf.logging.info("Creating vocabulary lookup table of size %d", vocab_size)
vocab_tensor = tf.constant(vocab)
count_tensor = tf.constant(counts, dtype=tf.float32)
vocab_idx_tensor = tf.range(vocab_size, dtype=tf.int64)
# Create ID -> word mapping
id_to_vocab_init = tf.contrib.lookup.KeyValueTensorInitializer(
vocab_idx_tensor, vocab_tensor, tf.int64, tf.string)
id_to_vocab_table = tf.contrib.lookup.HashTable(id_to_vocab_init, "UNK")
# Create word -> id mapping
vocab_to_id_init = tf.contrib.lookup.KeyValueTensorInitializer(
vocab_tensor, vocab_idx_tensor, tf.string, tf.int64)
vocab_to_id_table = tf.contrib.lookup.HashTable(vocab_to_id_init,
default_value)
# Create word -> count mapping
word_to_count_init = tf.contrib.lookup.KeyValueTensorInitializer(
vocab_tensor, count_tensor, tf.string, tf.float32)
word_to_count_table = tf.contrib.lookup.HashTable(word_to_count_init, -1)
return vocab_to_id_table, id_to_vocab_table, word_to_count_table, vocab_size
def main(argv):
del argv # Unused.
if not gfile.Exists(FLAGS.save_dir):
gfile.MkDir(FLAGS.save_dir)
charting_filepath = os.path.join(FLAGS.save_dir,
FLAGS.dataset + '_charts.pdf')
sampling_methods = FLAGS.sampling_methods.split(',')
scoring_methods = FLAGS.scoring_methods.split(',')
files = gfile.Glob(
os.path.join(FLAGS.source_dir, FLAGS.dataset + '*/results*.pkl'))
files = [
f for f in files
if (get_sampling_method(FLAGS.dataset, f) in sampling_methods and
get_scoring_method(f) in scoring_methods and
get_normalize(f) == FLAGS.normalize and
get_standardize(f) == FLAGS.standardize)
]
print('Reading in %d files...' % len(files))
all_results = combine_results(files)
pdf = PdfPages(charting_filepath)
print('Plotting charts...')
plt.style.use('ggplot')
for m in scoring_methods:
plot_results(
all_results,
m,
FLAGS.normalize,
FLAGS.standardize,
sampler_filter=sampling_methods)
plt.title('Dataset: %s, Score Method: %s' % (FLAGS.dataset, m))
pdf.savefig()
plt.close()
pdf.close()
def train(load_dir=MODELS_DIR, save_dir=MODELS_DIR):
model_num, model_name = get_latest_model()
games = gfile.Glob(os.path.join(SELFPLAY_DIR, model_name, '*.zz'))
if len(games) < MIN_GAMES_PER_GENERATION:
print("{} doesn't have enough games to train a new model yet ({})".
format(model_name, len(games)))
print("Sleeping...")
time.sleep(10 * 60)
print("Done...")
sys.exit(1)
print("Training on gathered game data, initializing from {}".format(
model_name))
new_model_num = model_num + 1
new_model_name = shipname.generate(new_model_num)
print("New model will be {}".format(new_model_name))
training_file = os.path.join(GOLDEN_CHUNK_DIR,
str(new_model_num) + '.tfrecord.zz')
while not gfile.Exists(training_file):
print("Waiting for", training_file)
time.sleep(1 * 60)
print("Using Golden File:", training_file)
load_file = os.path.join(load_dir, model_name)
save_file = os.path.join(save_dir, new_model_name)
try:
main.train(ESTIMATOR_WORKING_DIR, [training_file],
save_file,
generation_num=model_num + 1)
except:
logging.exception("Train error")
def get_meta_filename(self, start_new_model, train_dir):
if start_new_model:
logging.info(
"%s: Flag 'start_new_model' is set. Building a new model.",
task_as_string(self.task))
return None
latest_checkpoint = tf.train.latest_checkpoint(train_dir)
# latest_checkpoint = "model.ckpt-137964"
print("...............................", latest_checkpoint)
if not latest_checkpoint:
logging.info("%s: No checkpoint file found. Building a new model.",
task_as_string(self.task))
return None
meta_filename = latest_checkpoint + ".meta"
print("metafile:...........................................",
meta_filename)
if not gfile.Exists(meta_filename):
logging.info("%s: No meta graph file found. Building a new model.",
task_as_string(self.task))
return None
else:
return meta_filename
def get_meta_filename(self, start_new_model, train_dir):
task_str = task_as_string(self.task)
if start_new_model:
logging.info(
"{}: Flag 'start_new_model' is set. Building a new model.".
format(task_str))
return None
"""
Finds the filename of latest saved checkpoint file.
Returns: The FULL path to the latest checkpoint or None if no checkpoint was found.
"""
latest_checkpoint = tf.train.latest_checkpoint(train_dir)
if not latest_checkpoint:
logging.info(
"{}: No checkpoint file found. Building a new model.".format(
task_str))
return None
meta_filename = latest_checkpoint + ".meta"
if not gfile.Exists(meta_filename):
logging.info(
"{}: No meta graph file found. Building a new model.".format(
task_str))
return None
else:
return meta_filename
def data_to_token_ids(data_path, target_path, vocabulary_path,
tokenizer=None, normalize_digits=True):
"""Tokenize data file and turn into token-ids using given vocabulary file.
This function loads data line-by-line from data_path, calls the above
sentence_to_token_ids, and saves the result to target_path. See comment
for sentence_to_token_ids on the details of token-ids format.
Args:
data_path: path to the data file in one-sentence-per-line format.
target_path: path where the file with token-ids will be created.
vocabulary_path: path to the vocabulary file.
tokenizer: a function to use to tokenize each sentence;
if None, basic_tokenizer will be used.
normalize_digits: Boolean; if true, all digits are replaced by 0s.
"""
if not gfile.Exists(target_path):
print("Tokenizing data in %s" % data_path)
vocab, _ = initialize_vocabulary(vocabulary_path)
with gfile.GFile(data_path, mode="rb") as data_file:
with gfile.GFile(target_path, mode="w") as tokens_file:
counter = 0
for line in data_file:
counter += 1
if counter % 100000 == 0:
print(" tokenizing line %d" % counter)
token_ids = sentence_to_token_ids(tf.compat.as_bytes(line), vocab,
tokenizer, normalize_digits)
tokens_file.write(" ".join([str(tok) for tok in token_ids]) + "\n")
def initialize_vocabulary(vocabulary_path):
"""Initialize vocabulary from file.
We assume the vocabulary is stored one-item-per-line, so a file:
dog
cat
will result in a vocabulary {"dog": 0, "cat": 1}, and this function will
also return the reversed-vocabulary ["dog", "cat"].
Args:
vocabulary_path: path to the file containing the vocabulary.
Returns:
a pair: the vocabulary (a dictionary mapping string to integers), and
the reversed vocabulary (a list, which reverses the vocabulary mapping).
Raises:
ValueError: if the provided vocabulary_path does not exist.
"""
if gfile.Exists(vocabulary_path):
rev_vocab = []
with gfile.GFile(vocabulary_path, mode="rb") as f:
rev_vocab.extend(f.readlines())
rev_vocab = [tf.compat.as_bytes(line.strip()) for line in rev_vocab]
vocab = dict([(x, y) for (y, x) in enumerate(rev_vocab)])
return vocab, rev_vocab
raise ValueError("Vocabulary file %s not found." % vocabulary_path)
def prover_pipeline(self, tasks: List[proof_assistant_pb2.ProverTask],
root):
"""Make a prover pipeline for the given task and this round."""
current_round = self.loop_meta.status.current_round
prover_options = deephol_pb2.ProverOptions()
prover_options.CopyFrom(self.config.prover_options)
prover_options.action_generator_options.random_tactic_probability = (
get_random_tactic_probability(self.config, current_round))
checkpoint = self.checkpoint_monitor.get_checkpoint()
assert checkpoint, 'Model checkpoint is not present.'
# Update prover options to utilize the latest checkpoint present. We also
# make sure to utilize the embedding store as well.
prover_options.path_model_prefix = checkpoint
prover_options.theorem_embeddings = checkpoint + '.npy'
assert gfile.Exists(prover_options.theorem_embeddings), (
'Missing embeddings file "%s".' %
prover_options.theorem_embeddings)
output_dir = self.loop_meta.make_proof_logs_dir(current_round)
output_prefix = os.path.join(output_dir, 'logs')
logging.info('Prover options:\n%s',
text_format.MessageToString(prover_options))
io_util.write_text_proto(
str(os.path.join(output_dir, 'prover_options.pbtxt')),
prover_options)
return prover_runner.make_pipeline(tasks, prover_options,
output_prefix)(root)
def _find_conf(conf, save_path):
if conf.startswith('s3'):
if not gfile.Exists(conf):
conf = conf.strip('/')
conf_name = conf.rsplit('/', 1)[1]
save_path = os.path.join(save_path, conf_name) + '/'
gfile.MakeDirs(save_path)
check = os.system('aws s3 cp {} {} --recursive'.format(conf+'/', save_path))
conf = save_path
if check:
assert False, 'cant find conf in: {}'.format(conf)
return conf
conf_path = os.path.abspath(conf)
if not gfile.Exists(conf_path):
conf_path = os.path.join(_project_path, 'conf', conf)
return conf_path
def dump_object(object_to_dump, output_path):
if not gfile.Exists(output_path):
gfile.MakeDirs(os.path.dirname(output_path))
with gfile.Open(output_path, 'w') as wf:
joblib.dump(object_to_dump, wf)
def save_config_file(config_file, dest_dir):
if not gfile.Exists(dest_dir):
gfile.MakeDirs(dest_dir)
config_file_dest = os.path.join(dest_dir, 'blueoil_config.yaml')
# HACK: This is for tensorflow bug workaround.
# We can remove following 2 lines once it's been resolved in tensorflow
# issue link: https://github.com/tensorflow/tensorflow/issues/28508
if gfile.Exists(config_file_dest):
gfile.Remove(config_file_dest)
return gfile.Copy(
config_file,
config_file_dest
)
def manual_dir(self):
"""Returns the directory containing the manually extracted data."""
if not gfile.Exists(self._manual_dir):
raise AssertionError(
'Manual directory {} does not exist. Create it and download/extract'
'dataset artifacts in there.'.format(self._manual_dir))
return self._manual_dir
def train(working_dir):
model_num, model_name = fsdb.get_latest_model()
print("Training on gathered game data, initializing from {}".format(model_name))
new_model_num = model_num + 1
new_model_name = shipname.generate(new_model_num)
print("New model will be {}".format(new_model_name))
training_file = os.path.join(
fsdb.golden_chunk_dir(), str(new_model_num) + '.tfrecord.zz')
while not gfile.Exists(training_file):
print("Waiting for", training_file)
time.sleep(1*60)
print("Using Golden File:", training_file)
try:
save_file = os.path.join(fsdb.models_dir(), new_model_name)
print("Training model")
dual_net.train(training_file)
print("Exporting model to ", save_file)
dual_net.export_model(working_dir, save_file)
except Exception as e:
import traceback
logging.error(traceback.format_exc())
print(traceback.format_exc())
logging.exception("Train error")
sys.exit(1)
def _download(self, trial):
"""Downloads a single url given by the trial (thread safe).
Args:
trial (UriTrial): Object containing info about download.
Raises:
ValueError: If the destination dir is not empty
"""
log = util.build_log(prefix=trial.id)
# Check the download dir is empty
if (gfile.Exists(trial.output_path)
and gfile.ListDirectory(trial.output_path)):
raise ValueError('Download dir {} should be empty'.format(
trial.output_path))
gfile.MakeDirs(trial.output_path)
log('Start downloading...')
self._backend.download(trial)
# TODO(epot): Compute the checksum
# Update the output path
trial.output_path = get_download_filepath(trial)
log('Download complete at {}', trial.output_path)
def main(unused_argv):
logging.set_verbosity(tf.logging.INFO)
print("tensorflow version: %s" % tf.__version__)
is_chief = (FLAGS.task == 0)
# Recover session
saver = None
latest_checkpoint = tf.train.latest_checkpoint(FLAGS.train_dir)
if FLAGS.start_new_model:
logging.info(
"'start_new_model' flag is set. Removing existing train dir.")
try:
gfile.DeleteRecursively(FLAGS.train_dir)
except:
logging.error(
"Failed to delete directory " + FLAGS.train_dir +
" when starting a new model. Please delete it manually and" +
" try again.")
elif not latest_checkpoint:
logging.info("No checkpoint file found. Building a new model.")
else:
meta_filename = latest_checkpoint + ".meta"
if not gfile.Exists(meta_filename):
logging.info("No meta graph file found. Building a new model.")
else:
logging.info("Restoring from meta graph file %s", meta_filename)
saver = tf.train.import_meta_graph(meta_filename)
if not saver:
# convert feature_names and feature_sizes to lists of values
feature_names, feature_sizes = utils.GetListOfFeatureNamesAndSizes(
FLAGS.feature_names, FLAGS.feature_sizes)
if FLAGS.frame_features:
reader = readers.YT8MFrameFeatureReader(
feature_names=feature_names, feature_sizes=feature_sizes)
else:
reader = readers.YT8MAggregatedFeatureReader(
feature_names=feature_names, feature_sizes=feature_sizes)
model = find_class_by_name(FLAGS.model,
[frame_level_models, video_level_models])()
label_loss_fn = find_class_by_name(FLAGS.label_loss, [losses])()
optimizer_class = find_class_by_name(FLAGS.optimizer, [tf.train])
build_graph(reader=reader,
model=model,
optimizer_class=optimizer_class,
train_data_pattern=FLAGS.train_data_pattern,
label_loss_fn=label_loss_fn,
base_learning_rate=FLAGS.base_learning_rate,
regularization_penalty=FLAGS.regularization_penalty,
num_readers=FLAGS.num_readers,
batch_size=FLAGS.batch_size)
logging.info("built graph")
saver = tf.train.Saver()
train_loop(is_chief=is_chief,
train_dir=FLAGS.train_dir,
saver=saver,
master=FLAGS.master)
def get_target_path(request, point_num):
"""Computes the output path for a specific point.
Args:
request: ResegmentationRequest proto
point_num: index of the point of interest within the proto
Returns:
path to the output file where resegmentation results will be saved
"""
# Prepare the output directory.
output_dir = request.output_directory
id_a = request.points[point_num].id_a
id_b = request.points[point_num].id_b
if request.subdir_digits > 1:
m = hashlib.md5()
m.update(str(id_a))
m.update(str(id_b))
output_dir = os.path.join(output_dir,
m.hexdigest()[:request.subdir_digits])
gfile.MakeDirs(output_dir)
# Terminate early if the output already exists.
dp = request.points[point_num].point
target_path = os.path.join(
output_dir, '%d-%d_at_%d_%d_%d.npz' % (id_a, id_b, dp.x, dp.y, dp.z))
if gfile.Exists(target_path):
logging.info('Output already exists: %s', target_path)
return
return target_path
def _prepare(self):
""" Prepares for evaluation.
Builds the model with reuse=True, mode=EVAL and preprocesses
data file(s).
"""
text_inputter = TextLineInputter(dataset=self._dataset,
data_field_name="eval_features_file",
batch_size=self._batch_size)
self._eval_feeding_data = text_inputter.make_feeding_data()
self._model_configs = update_infer_params( # update inference parameters
self._model_configs,
beam_size=self._beam_size,
maximum_labels_length=self._maximum_labels_length,
length_penalty=self._length_penalty)
estimator_spec = model_fn(model_configs=self._model_configs,
mode=ModeKeys.INFER,
dataset=self._dataset,
name=self._model_name,
reuse=True,
verbose=False)
self._predict_ops = estimator_spec.predictions
tmp_trans_dir = os.path.join(self._model_configs["model_dir"],
GlobalNames.TMP_TRANS_DIRNAME)
if not gfile.Exists(tmp_trans_dir):
gfile.MakeDirs(tmp_trans_dir)
self._tmp_trans_file_prefix = os.path.join(
tmp_trans_dir, GlobalNames.TMP_TRANS_FILENAME_PREFIX)
self._read_ckpt_bleulog()
self._eval_labels_file = self._dataset.eval_labels_file
self._check_bleu_script()
self._estop_patience = 0
self._best_bleu_score = 0.
def set_latest_checkpoint(dirname: str, chkpt: str):
"""Set the latest checkpoint in the checkpoint file.
Args:
dirname: Directory in which the checkpoint is located.
chkpt: Checkpoint prefix.
"""
chkpt_file = os.path.join(dirname, 'checkpoint')
lines = []
if gfile.Exists(chkpt_file):
logging.info('Loading preexisting checkpoint file "%s"', chkpt_file)
with gfile.Open(chkpt_file) as f:
lines = [
l.strip() for l in f.readlines()
if l.startswith(b'all_model_checkpoint_paths:')
]
else:
logging.info('No preexisting checkpoint file "%s"', chkpt_file)
with gfile.Open(chkpt_file, 'w') as f:
lines = [
'%s\n' % l.strip() for l in ([
'model_checkpoint_path: "%s"' % chkpt,
'all_model_checkpoint_paths: "%s"' % chkpt
] + lines)
]
f.writelines(lines)
def create_vocabulary_lookup_table_numpy(filename):
"""Creates a lookup table from a vocabulary file.
Args:
filename: Path to a vocabulary file containing one word per line.
Each word is mapped to its line number (starting from 0).
Returns: A tuple `(word_to_id_mapping, id_to_word_mapping, special_fields)`
"""
if not gfile.Exists(filename):
raise ValueError("File does not exist: {}".format(filename))
# Load vocabulary into memory
with open_file(filename, encoding="utf-8") as file:
vocab = list(line.strip("\n") for line in file)
vocab_size = len(vocab)
has_counts = len(vocab[0].split("\t")) == 2
if has_counts:
vocab, counts = zip(*[_.split("\t") for _ in vocab])
counts = [float(_) for _ in counts]
vocab = list(vocab)
else:
counts = [-1. for _ in vocab]
# Add special vocabulary items
special_vocab = get_special_vocab(vocab_size)
vocab += list(special_vocab._fields)
vocab_size += len(special_vocab)
counts += [-1. for _ in list(special_vocab._fields)]
return {v: k for k, v in enumerate(vocab)}, \
{k: v for k, v in enumerate(vocab)}, \
special_vocab._fields
def get_mldata(data_dir, name):
"""Loads data from data_dir.
Looks for the file in data_dir.
Assumes that data is in pickle format with dictionary fields data and target.
Args:
data_dir: directory to look in
name: dataset name, assumes data is saved in the save_dir with filename
<name>.pkl
Returns:
data and targets
Raises:
NameError: dataset not found in data folder.
"""
dataname = name
if dataname == "checkerboard":
X, y = create_checker_unbalanced(split=[1. / 5, 4. / 5],
n=10000,
grid_size=4)
else:
filename = os.path.join(data_dir, dataname + ".pkl")
if not gfile.Exists(filename):
raise NameError("ERROR: dataset not available")
data = pickle.load(gfile.GFile(filename, "r"))
X = data["data"]
y = data["target"]
if "keras" in dataname:
X = X / 255
y = y.flatten()
return X, y
