def get_raw_strings(dataset, options):
"""
:param Dataset dataset:
:param options: argparse.Namespace
:return: list of (seq tag, string)
:rtype: list[(str,str)]
"""
refs = []
start_time = time.time()
seq_len_stats = Stats()
seq_idx = options.startseq
if options.endseq < 0:
options.endseq = float("inf")
interactive = Util.is_tty() and not log.verbose[5]
print("Iterating over %r." % dataset, file=log.v2)
while dataset.is_less_than_num_seqs(seq_idx) and seq_idx <= options.endseq:
dataset.load_seqs(seq_idx, seq_idx + 1)
complete_frac = dataset.get_complete_frac(seq_idx)
start_elapsed = time.time() - start_time
try:
num_seqs_s = str(dataset.num_seqs)
except NotImplementedError:
try:
num_seqs_s = "~%i" % dataset.estimated_num_seqs
except TypeError: # a number is required, not NoneType
num_seqs_s = "?"
progress_prefix = "%i/%s" % (seq_idx, num_seqs_s,)
progress = "%s (%.02f%%)" % (progress_prefix, complete_frac * 100)
if complete_frac > 0:
total_time_estimated = start_elapsed / complete_frac
remaining_estimated = total_time_estimated - start_elapsed
progress += " (%s)" % hms(remaining_estimated)
seq_tag = dataset.get_tag(seq_idx)
assert isinstance(seq_tag, str)
ref = dataset.get_data(seq_idx, options.key)
if isinstance(ref, numpy.ndarray):
assert ref.shape == () or (ref.ndim == 1 and ref.dtype == numpy.uint8)
if ref.shape == ():
ref = ref.flatten()[0] # get the entry itself (str or bytes)
else:
ref = ref.tobytes()
if isinstance(ref, bytes):
ref = ref.decode("utf8")
assert isinstance(ref, str)
seq_len_stats.collect([len(ref)])
refs.append((seq_tag, ref))
if interactive:
Util.progress_bar_with_time(complete_frac, prefix=progress_prefix)
elif log.verbose[5]:
print(progress_prefix, "seq tag %r, ref len %i chars" % (seq_tag, len(ref)))
seq_idx += 1
print("Done. Num seqs %i. Total time %s." % (
seq_idx, hms(time.time() - start_time)), file=log.v1)
print("More seqs which we did not dumped: %s." % (
dataset.is_less_than_num_seqs(seq_idx),), file=log.v1)
seq_len_stats.dump(stream_prefix="Seq-length %r " % (options.key,), stream=log.v2)
return refs
def get_raw_strings(dataset, options):
"""
:param Dataset dataset:
:param options: argparse.Namespace
:return: list of (seq tag, string)
:rtype: list[(str,str)]
"""
refs = []
start_time = time.time()
seq_len_stats = Stats()
seq_idx = options.startseq
if options.endseq < 0:
options.endseq = float("inf")
interactive = Util.is_tty() and not log.verbose[5]
print("Iterating over %r." % dataset, file=log.v2)
while dataset.is_less_than_num_seqs(seq_idx) and seq_idx <= options.endseq:
dataset.load_seqs(seq_idx, seq_idx + 1)
complete_frac = dataset.get_complete_frac(seq_idx)
start_elapsed = time.time() - start_time
try:
num_seqs_s = str(dataset.num_seqs)
except NotImplementedError:
try:
num_seqs_s = "~%i" % dataset.estimated_num_seqs
except TypeError: # a number is required, not NoneType
num_seqs_s = "?"
progress_prefix = "%i/%s" % (seq_idx, num_seqs_s,)
progress = "%s (%.02f%%)" % (progress_prefix, complete_frac * 100)
if complete_frac > 0:
total_time_estimated = start_elapsed / complete_frac
remaining_estimated = total_time_estimated - start_elapsed
progress += " (%s)" % hms(remaining_estimated)
seq_tag = dataset.get_tag(seq_idx)
assert isinstance(seq_tag, str)
ref = dataset.get_data(seq_idx, options.key)
if isinstance(ref, numpy.ndarray):
assert ref.shape == () or (ref.ndim == 1 and ref.dtype == numpy.uint8)
if ref.shape == ():
ref = ref.flatten()[0] # get the entry itself (str or bytes)
else:
ref = ref.tobytes()
if isinstance(ref, bytes):
ref = ref.decode("utf8")
assert isinstance(ref, str)
seq_len_stats.collect([len(ref)])
refs.append((seq_tag, ref))
if interactive:
Util.progress_bar_with_time(complete_frac, prefix=progress_prefix)
elif log.verbose[5]:
print(progress_prefix, "seq tag %r, ref len %i chars" % (seq_tag, len(ref)))
seq_idx += 1
print("Done. Num seqs %i. Total time %s." % (
seq_idx, hms(time.time() - start_time)), file=log.v1)
print("More seqs which we did not dumped: %s." % (
dataset.is_less_than_num_seqs(seq_idx),), file=log.v1)
seq_len_stats.dump(stream_prefix="Seq-length %r " % (options.key,), stream=log.v2)
return refs
def main(argv):
argparser = argparse.ArgumentParser(description=__doc__)
argparser.add_argument("config_file", type=str)
argparser.add_argument("--epoch", required=False, type=int)
argparser.add_argument(
'--data',
default="train",
help=
"e.g. 'train', 'config:train', or sth like 'config:get_dataset('dev')'"
)
argparser.add_argument('--do_search', default=False, action='store_true')
argparser.add_argument('--beam_size', default=12, type=int)
argparser.add_argument('--dump_dir', required=True)
argparser.add_argument("--device", default="gpu")
argparser.add_argument("--layers",
default=["att_weights"],
action="append",
help="Layer of subnet to grab")
argparser.add_argument("--rec_layer",
default="output",
help="Subnet layer to grab from; decoder")
argparser.add_argument("--enc_layer", default="encoder")
argparser.add_argument("--batch_size", type=int, default=5000)
argparser.add_argument("--seq_list",
default=[],
action="append",
help="predefined list of seqs")
argparser.add_argument("--min_seq_len",
default="0",
help="can also be dict")
argparser.add_argument("--output_format", default="npy", help="npy or png")
argparser.add_argument("--dropout",
default=None,
type=float,
help="if set, overwrites all dropout values")
argparser.add_argument("--train_flag", action="store_true")
args = argparser.parse_args(argv[1:])
layers = args.layers
assert isinstance(layers, list)
model_name = ".".join(args.config_file.split("/")[-1].split(".")[:-1])
init_returnn(config_fn=args.config_file,
cmd_line_opts=["--device", args.device],
args=args)
if args.do_search:
raise NotImplementedError
min_seq_length = NumbersDict(eval(args.min_seq_len))
if not os.path.exists(args.dump_dir):
os.makedirs(args.dump_dir)
assert args.output_format in ["npy", "png"]
if args.output_format == "png":
import matplotlib.pyplot as plt # need to import early? https://stackoverflow.com/a/45582103/133374
import matplotlib.ticker as ticker
dataset_str = args.data
if dataset_str in ["train", "dev", "eval"]:
dataset_str = "config:%s" % dataset_str
dataset = init_dataset(dataset_str)
init_net(args, layers)
network = rnn.engine.network
extra_fetches = {}
for rec_ret_layer in ["rec_%s" % l for l in layers]:
extra_fetches[rec_ret_layer] = rnn.engine.network.layers[
rec_ret_layer].output.get_placeholder_as_batch_major()
extra_fetches.update({
"output":
network.layers[args.rec_layer].output.get_placeholder_as_batch_major(),
"output_len":
network.layers[
args.rec_layer].output.get_sequence_lengths(), # decoder length
"encoder_len":
network.layers[
args.enc_layer].output.get_sequence_lengths(), # encoder length
"seq_idx":
network.get_extern_data("seq_idx"),
"seq_tag":
network.get_extern_data("seq_tag"),
"target_data":
network.get_extern_data(network.extern_data.default_input),
"target_classes":
network.get_extern_data(network.extern_data.default_target),
})
dataset.init_seq_order(epoch=rnn.engine.epoch,
seq_list=args.seq_list or None)
dataset_batch = dataset.generate_batches(
recurrent_net=network.recurrent,
batch_size=args.batch_size,
max_seqs=rnn.engine.max_seqs,
max_seq_length=sys.maxsize,
min_seq_length=min_seq_length,
used_data_keys=network.used_data_keys)
stats = {l: Stats() for l in layers}
# (**dict[str,numpy.ndarray|str|list[numpy.ndarray|str])->None
def fetch_callback(seq_idx, seq_tag, target_data, target_classes, output,
output_len, encoder_len, **kwargs):
for i in range(len(seq_idx)):
for l in layers:
att_weights = kwargs["rec_%s" % l][i]
stats[l].collect(att_weights.flatten())
if args.output_format == "npy":
data = {}
for i in range(len(seq_idx)):
data[i] = {
'tag': seq_tag[i],
'data': target_data[i],
'classes': target_classes[i],
'output': output[i],
'output_len': output_len[i],
'encoder_len': encoder_len[i],
}
for l in [("rec_%s" % l) for l in layers]:
assert l in kwargs
out = kwargs[l][i]
assert out.ndim >= 2
assert out.shape[0] >= output_len[i] and out.shape[
1] >= encoder_len[i]
data[i][l] = out[:output_len[i], :encoder_len[i]]
fname = args.dump_dir + '/%s_ep%03d_data_%i_%i.npy' % (
model_name, rnn.engine.epoch, seq_idx[0], seq_idx[-1])
np.save(fname, data)
elif args.output_format == "png":
for i in range(len(seq_idx)):
for l in layers:
extra_postfix = ""
if args.dropout is not None:
extra_postfix += "_dropout%.2f" % args.dropout
elif args.train_flag:
extra_postfix += "_train"
fname = args.dump_dir + '/%s_ep%03d_plt_%05i_%s%s.png' % (
model_name, rnn.engine.epoch, seq_idx[i], l,
extra_postfix)
att_weights = kwargs["rec_%s" % l][i]
att_weights = att_weights.squeeze(axis=2) # (out,enc)
assert att_weights.shape[0] >= output_len[
i] and att_weights.shape[1] >= encoder_len[i]
att_weights = att_weights[:output_len[i], :encoder_len[i]]
print("Seq %i, %s: Dump att weights with shape %r to: %s" %
(seq_idx[i], seq_tag[i], att_weights.shape, fname))
plt.matshow(att_weights)
title = seq_tag[i]
if dataset.can_serialize_data(
network.extern_data.default_target):
title += "\n" + dataset.serialize_data(
network.extern_data.default_target,
target_classes[i][:output_len[i]])
ax = plt.gca()
tick_labels = [
dataset.serialize_data(
network.extern_data.default_target,
np.array([x], dtype=target_classes[i].dtype))
for x in target_classes[i][:output_len[i]]
]
ax.set_yticklabels([''] + tick_labels, fontsize=8)
ax.yaxis.set_major_locator(ticker.MultipleLocator(1))
plt.title(title)
plt.savefig(fname)
plt.close()
else:
raise NotImplementedError("output format %r" % args.output_format)
runner = Runner(engine=rnn.engine,
dataset=dataset,
batches=dataset_batch,
train=False,
train_flag=args.dropout is not None or args.train_flag,
extra_fetches=extra_fetches,
extra_fetches_callback=fetch_callback)
runner.run(report_prefix="att-weights epoch %i" % rnn.engine.epoch)
for l in layers:
stats[l].dump(stream_prefix="Layer %r " % l)
if not runner.finalized:
print("Some error occured, not finalized.")
sys.exit(1)
rnn.finalize()
def analyze_dataset(options):
"""
:param options: argparse.Namespace
"""
print("Epoch: %i" % options.epoch, file=log.v3)
print("Dataset keys:", dataset.get_data_keys(), file=log.v3)
print("Dataset target keys:", dataset.get_target_list(), file=log.v3)
assert options.key in dataset.get_data_keys()
terminal_width, _ = Util.terminal_size()
show_interactive_process_bar = (log.verbose[3] and (not log.verbose[5]) and terminal_width >= 0)
start_time = time.time()
num_seqs_stats = Stats()
if options.endseq < 0:
options.endseq = float("inf")
recurrent = True
used_data_keys = dataset.get_data_keys()
batch_size = config.typed_value('batch_size', 1)
max_seqs = config.int('max_seqs', -1)
seq_drop = config.float('seq_drop', 0.0)
max_seq_length = config.typed_value('max_seq_length', None) or config.float('max_seq_length', 0)
max_pad_size = config.typed_value("max_pad_size", None)
batches = dataset.generate_batches(
recurrent_net=recurrent,
batch_size=batch_size,
max_seqs=max_seqs,
max_seq_length=max_seq_length,
max_pad_size=max_pad_size,
seq_drop=seq_drop,
used_data_keys=used_data_keys)
step = 0
total_num_seqs = 0
total_num_frames = NumbersDict()
total_num_used_frames = NumbersDict()
try:
while batches.has_more():
# See FeedDictDataProvider.
batch, = batches.peek_next_n(1)
assert isinstance(batch, Batch)
if batch.start_seq > options.endseq:
break
dataset.load_seqs(batch.start_seq, batch.end_seq)
complete_frac = batches.completed_frac()
start_elapsed = time.time() - start_time
try:
num_seqs_s = str(dataset.num_seqs)
except NotImplementedError:
try:
num_seqs_s = "~%i" % dataset.estimated_num_seqs
except TypeError: # a number is required, not NoneType
num_seqs_s = "?"
progress_prefix = "%i/%s" % (batch.start_seq, num_seqs_s)
progress = "%s (%.02f%%)" % (progress_prefix, complete_frac * 100)
if complete_frac > 0:
total_time_estimated = start_elapsed / complete_frac
remaining_estimated = total_time_estimated - start_elapsed
progress += " (%s)" % hms(remaining_estimated)
batch_max_time = NumbersDict.max([seq.frame_length for seq in batch.seqs]) * len(batch.seqs)
batch_num_used_frames = sum([seq.frame_length for seq in batch.seqs], NumbersDict())
total_num_seqs += len(batch.seqs)
num_seqs_stats.collect(numpy.array([len(batch.seqs)]))
total_num_frames += batch_max_time
total_num_used_frames += batch_num_used_frames
print(
"%s, batch %i, num seqs %i, frames %s, used %s (%s)" % (
progress, step, len(batch.seqs),
batch_max_time, batch_num_used_frames, batch_num_used_frames / batch_max_time),
file=log.v5)
if show_interactive_process_bar:
Util.progress_bar_with_time(complete_frac, prefix=progress_prefix)
step += 1
batches.advance(1)
finally:
print("Done. Total time %s. More seqs which we did not dumped: %s" % (
hms(time.time() - start_time), batches.has_more()), file=log.v2)
print("Dataset epoch %i, order %r." % (dataset.epoch, dataset.seq_ordering))
print("Num batches (steps): %i" % step, file=log.v1)
print("Num seqs: %i" % total_num_seqs, file=log.v1)
num_seqs_stats.dump(stream=log.v1, stream_prefix="Batch num seqs ")
for key in used_data_keys:
print("Data key %r:" % key, file=log.v1)
print(" Num frames: %s" % total_num_frames[key], file=log.v1)
print(" Num used frames: %s" % total_num_used_frames[key], file=log.v1)
print(" Fraction used frames: %s" % (total_num_used_frames / total_num_frames)[key], file=log.v1)
dataset.finish_epoch()
def main(argv):
argparser = argparse.ArgumentParser(description=__doc__)
argparser.add_argument("config_file",
type=str,
help="RETURNN config, or model-dir")
argparser.add_argument("--epoch", type=int)
argparser.add_argument(
'--data',
default="train",
help=
"e.g. 'train', 'config:train', or sth like 'config:get_dataset('dev')'"
)
argparser.add_argument('--do_search', default=False, action='store_true')
argparser.add_argument('--beam_size', default=12, type=int)
argparser.add_argument('--dump_dir', help="for npy or png")
argparser.add_argument("--output_file", help="hdf")
argparser.add_argument("--device", help="gpu or cpu (default: automatic)")
argparser.add_argument("--layers",
default=[],
action="append",
help="Layer of subnet to grab")
argparser.add_argument("--rec_layer",
default="output",
help="Subnet layer to grab from; decoder")
argparser.add_argument("--enc_layer", default="encoder")
argparser.add_argument("--batch_size", type=int, default=5000)
argparser.add_argument("--seq_list",
default=[],
action="append",
help="predefined list of seqs")
argparser.add_argument("--min_seq_len",
default="0",
help="can also be dict")
argparser.add_argument("--num_seqs",
default=-1,
type=int,
help="stop after this many seqs")
argparser.add_argument("--output_format",
default="npy",
help="npy, png or hdf")
argparser.add_argument("--dropout",
default=None,
type=float,
help="if set, overwrites all dropout values")
argparser.add_argument("--train_flag", action="store_true")
argparser.add_argument("--reset_partition_epoch", type=int, default=None)
argparser.add_argument("--reset_seq_ordering", default="default")
argparser.add_argument("--reset_epoch_wise_filter", default=None)
argparser.add_argument('--hmm_fac_fo', default=False, action='store_true')
argparser.add_argument('--encoder_sa', default=False, action='store_true')
argparser.add_argument('--tf_log_dir', help="for npy or png", default=None)
argparser.add_argument("--instead_save_encoder_decoder",
action="store_true")
args = argparser.parse_args(argv[1:])
layers = args.layers
assert isinstance(layers, list)
config_fn = args.config_file
explicit_model_dir = None
if os.path.isdir(config_fn):
# Assume we gave a model dir.
explicit_model_dir = config_fn
train_log_dir_config_pattern = "%s/train-*/*.config" % config_fn
train_log_dir_configs = sorted(glob(train_log_dir_config_pattern))
assert train_log_dir_configs
config_fn = train_log_dir_configs[-1]
print("Using this config via model dir:", config_fn)
else:
assert os.path.isfile(config_fn)
model_name = ".".join(config_fn.split("/")[-1].split(".")[:-1])
init_returnn(config_fn=config_fn, args=args)
if explicit_model_dir:
config.set(
"model", "%s/%s" %
(explicit_model_dir, os.path.basename(config.value('model', ''))))
print("Model file prefix:", config.value('model', ''))
min_seq_length = NumbersDict(eval(args.min_seq_len))
assert args.output_format in ["npy", "png", "hdf"]
if args.output_format in ["npy", "png"]:
assert args.dump_dir
if not os.path.exists(args.dump_dir):
os.makedirs(args.dump_dir)
plt = ticker = None
if args.output_format == "png":
import matplotlib.pyplot as plt # need to import early? https://stackoverflow.com/a/45582103/133374
import matplotlib.ticker as ticker
dataset_str = args.data
if dataset_str in ["train", "dev", "eval"]:
dataset_str = "config:%s" % dataset_str
extra_dataset_kwargs = {}
if args.reset_partition_epoch:
print("NOTE: We are resetting partition epoch to %i." %
(args.reset_partition_epoch, ))
extra_dataset_kwargs["partition_epoch"] = args.reset_partition_epoch
if args.reset_seq_ordering:
print("NOTE: We will use %r seq ordering." %
(args.reset_seq_ordering, ))
extra_dataset_kwargs["seq_ordering"] = args.reset_seq_ordering
if args.reset_epoch_wise_filter:
extra_dataset_kwargs["epoch_wise_filter"] = eval(
args.reset_epoch_wise_filter)
dataset = init_dataset(dataset_str, extra_kwargs=extra_dataset_kwargs)
if hasattr(dataset,
"epoch_wise_filter") and args.reset_epoch_wise_filter is None:
if dataset.epoch_wise_filter:
print("NOTE: Resetting epoch_wise_filter to None.")
dataset.epoch_wise_filter = None
if args.reset_partition_epoch:
assert dataset.partition_epoch == args.reset_partition_epoch
if args.reset_seq_ordering:
assert dataset.seq_ordering == args.reset_seq_ordering
init_net(args, layers)
network = rnn.engine.network
hdf_writer = None
if args.output_format == "hdf":
assert args.output_file
assert len(layers) == 1
sub_layer = network.get_layer("%s/%s" % (args.rec_layer, layers[0]))
from HDFDataset import SimpleHDFWriter
hdf_writer = SimpleHDFWriter(filename=args.output_file,
dim=sub_layer.output.dim,
ndim=sub_layer.output.ndim)
extra_fetches = {
"output":
network.layers[args.rec_layer].output.get_placeholder_as_batch_major(),
"output_len":
network.layers[
args.rec_layer].output.get_sequence_lengths(), # decoder length
"encoder_len":
network.layers[
args.enc_layer].output.get_sequence_lengths(), # encoder length
"seq_idx":
network.get_extern_data("seq_idx"),
"seq_tag":
network.get_extern_data("seq_tag"),
"target_data":
network.get_extern_data(network.extern_data.default_input),
"target_classes":
network.get_extern_data(network.extern_data.default_target),
}
if args.instead_save_encoder_decoder:
extra_fetches["encoder"] = network.layers["encoder"]
extra_fetches["decoder"] = network.layers["output"].get_sub_layer(
"decoder")
else:
for l in layers:
sub_layer = rnn.engine.network.get_layer("%s/%s" %
(args.rec_layer, l))
extra_fetches[
"rec_%s" %
l] = sub_layer.output.get_placeholder_as_batch_major()
if args.do_search:
o_layer = rnn.engine.network.get_layer("output")
extra_fetches["beam_scores_" +
l] = o_layer.get_search_choices().beam_scores
dataset.init_seq_order(
epoch=1, seq_list=args.seq_list
or None) # use always epoch 1, such that we have same seqs
dataset_batch = dataset.generate_batches(
recurrent_net=network.recurrent,
batch_size=args.batch_size,
max_seqs=rnn.engine.max_seqs,
max_seq_length=sys.maxsize,
min_seq_length=min_seq_length,
max_total_num_seqs=args.num_seqs,
used_data_keys=network.used_data_keys)
stats = {l: Stats() for l in layers}
# (**dict[str,numpy.ndarray|str|list[numpy.ndarray|str])->None
def fetch_callback(seq_idx, seq_tag, target_data, target_classes, output,
output_len, encoder_len, **kwargs):
"""
:param list[int] seq_idx: len is n_batch
:param list[str] seq_tag: len is n_batch
:param numpy.ndarray target_data: extern data default input (e.g. "data"), shape e.g. (B,enc-T,...)
:param numpy.ndarray target_classes: extern data default target (e.g. "classes"), shape e.g. (B,dec-T,...)
:param numpy.ndarray output: rec layer output, shape e.g. (B,dec-T,...)
:param numpy.ndarray output_len: rec layer seq len, i.e. decoder length, shape (B,)
:param numpy.ndarray encoder_len: encoder seq len, shape (B,)
:param kwargs: contains "rec_%s" % l for l in layers, the sub layers (e.g att weights) we are interested in
"""
n_batch = len(seq_idx)
for i in range(n_batch):
if not args.instead_save_encoder_decoder:
for l in layers:
att_weights = kwargs["rec_%s" % l][i]
stats[l].collect(att_weights.flatten())
if args.output_format == "npy":
data = {}
if args.do_search:
assert not args.instead_save_encoder_decoder, "Not implemented"
# find axis with correct beam size
axis_beam_size = n_batch * args.beam_size
corr_axis = None
num_axes = len(kwargs["rec_%s" % layers[0]].shape)
for a in range(len(kwargs["rec_%s" % layers[0]].shape)):
if kwargs["rec_%s" % layers[0]].shape[a] == axis_beam_size:
corr_axis = a
break
assert corr_axis is not None, "Att Weights Decoding: correct axis not found! maybe check beam size."
# set dimensions correctly
for l, l_raw in zip([("rec_%s" % l) for l in layers], layers):
swap = list(range(num_axes))
del swap[corr_axis]
swap.insert(0, corr_axis)
kwargs[l] = np.transpose(kwargs[l], swap)
for i in range(n_batch):
# The first beam contains the score with the highest beam
i_beam = args.beam_size * i
data[i] = {
'tag': seq_tag[i],
'data': target_data[i],
'classes': target_classes[i],
'output': output[i_beam],
'output_len': output_len[i_beam],
'encoder_len': encoder_len[i],
}
#if args.hmm_fac_fo is False:
for l, l_raw in zip([("rec_%s" % l) for l in layers],
layers):
assert l in kwargs
out = kwargs[l][i_beam]
# Do search for multihead
# out is [I, H, 1, J] is new version
# out is [I, J, H, 1] for old version
if len(out.shape) == 3 and min(out.shape) > 1:
out = np.transpose(
out,
axes=(0, 3, 1, 2)) # [I, J, H, 1] new version
out = np.squeeze(out, axis=-1)
else:
out = np.squeeze(out, axis=1)
assert out.shape[0] >= output_len[
i_beam] and out.shape[1] >= encoder_len[i]
data[i][l] = out[:output_len[i_beam], :encoder_len[i]]
fname = args.dump_dir + '/%s_ep%03d_data_%i_%i.npy' % (
model_name, rnn.engine.epoch, seq_idx[0], seq_idx[-1])
np.save(fname, data)
else:
for i in range(n_batch):
data[i] = {
'tag': seq_tag[i],
'data': target_data[i],
'classes': target_classes[i],
'output': output[i],
'output_len': output_len[i],
'encoder_len': encoder_len[i],
}
#if args.hmm_fac_fo is False:
if args.instead_save_encoder_decoder:
out = kwargs["encoder"][i]
data[i]["encoder"] = out[:encoder_len[i]]
out_2 = kwargs["decoder"][i]
data[i]["decoder"] = out_2[:output_len[i]]
else:
for l in [("rec_%s" % l) for l in layers]:
assert l in kwargs
out = kwargs[l][i] # []
# multi-head attention
if len(out.shape) == 3 and min(out.shape) > 1:
# Multihead attention
out = np.transpose(
out,
axes=(1, 2, 0)) # (I, J, H) new version
#out = np.transpose(out, axes=(2, 0, 1)) # [I, J, H] old version
else:
# RNN
out = np.squeeze(out, axis=1)
assert out.ndim >= 2
assert out.shape[0] >= output_len[i] and out.shape[
1] >= encoder_len[i]
data[i][l] = out[:output_len[i], :encoder_len[i]]
fname = args.dump_dir + '/%s_ep%03d_data_%i_%i.npy' % (
model_name, rnn.engine.epoch, seq_idx[0], seq_idx[-1])
np.save(fname, data)
elif args.output_format == "png":
for i in range(n_batch):
for l in layers:
extra_postfix = ""
if args.dropout is not None:
extra_postfix += "_dropout%.2f" % args.dropout
elif args.train_flag:
extra_postfix += "_train"
fname = args.dump_dir + '/%s_ep%03d_plt_%05i_%s%s.png' % (
model_name, rnn.engine.epoch, seq_idx[i], l,
extra_postfix)
att_weights = kwargs["rec_%s" % l][i]
att_weights = att_weights.squeeze(axis=2) # (out,enc)
assert att_weights.shape[0] >= output_len[
i] and att_weights.shape[1] >= encoder_len[i]
att_weights = att_weights[:output_len[i], :encoder_len[i]]
print("Seq %i, %s: Dump att weights with shape %r to: %s" %
(seq_idx[i], seq_tag[i], att_weights.shape, fname))
plt.matshow(att_weights)
title = seq_tag[i]
if dataset.can_serialize_data(
network.extern_data.default_target):
title += "\n" + dataset.serialize_data(
network.extern_data.default_target,
target_classes[i][:output_len[i]])
ax = plt.gca()
tick_labels = [
dataset.serialize_data(
network.extern_data.default_target,
np.array([x], dtype=target_classes[i].dtype))
for x in target_classes[i][:output_len[i]]
]
ax.set_yticklabels([''] + tick_labels, fontsize=8)
ax.yaxis.set_major_locator(ticker.MultipleLocator(1))
plt.title(title)
plt.savefig(fname)
plt.close()
elif args.output_format == "hdf":
assert len(layers) == 1
att_weights = kwargs["rec_%s" % layers[0]]
hdf_writer.insert_batch(inputs=att_weights,
seq_len={
0: output_len,
1: encoder_len
},
seq_tag=seq_tag)
else:
raise Exception("output format %r" % args.output_format)
runner = Runner(engine=rnn.engine,
dataset=dataset,
batches=dataset_batch,
train=False,
train_flag=bool(args.dropout) or args.train_flag,
extra_fetches=extra_fetches,
extra_fetches_callback=fetch_callback,
eval=False)
runner.run(report_prefix="att-weights epoch %i" % rnn.engine.epoch)
if not args.instead_save_encoder_decoder:
for l in layers:
stats[l].dump(stream_prefix="Layer %r " % l)
if not runner.finalized:
print("Some error occured, not finalized.")
sys.exit(1)
if hdf_writer:
hdf_writer.close()
rnn.finalize()
def dump_dataset(dataset, options):
"""
:type dataset: Dataset.Dataset
:param options: argparse.Namespace
"""
print("Epoch: %i" % options.epoch, file=log.v3)
dataset.init_seq_order(epoch=options.epoch)
print("Dataset keys:", dataset.get_data_keys(), file=log.v3)
print("Dataset target keys:", dataset.get_target_list(), file=log.v3)
assert options.key in dataset.get_data_keys()
if options.get_num_seqs:
print("Get num seqs.")
print("estimated_num_seqs: %r" % dataset.estimated_num_seqs)
try:
print("num_seqs: %r" % dataset.num_seqs)
except Exception as exc:
print("num_seqs exception %r, which is valid, so we count." % exc)
seq_idx = 0
if dataset.get_target_list():
default_target = dataset.get_target_list()[0]
else:
default_target = None
while dataset.is_less_than_num_seqs(seq_idx):
dataset.load_seqs(seq_idx, seq_idx + 1)
if seq_idx % 10000 == 0:
if default_target:
targets = dataset.get_targets(default_target, seq_idx)
postfix = " (targets = %r...)" % (targets[:10],)
else:
postfix = ""
print("%i ...%s" % (seq_idx, postfix))
seq_idx += 1
print("accumulated num seqs: %i" % seq_idx)
print("Done.")
return
dump_file = None
if options.type == "numpy":
print("Dump files: %r*%r" % (options.dump_prefix, options.dump_postfix), file=log.v3)
elif options.type == "stdout":
print("Dump to stdout", file=log.v3)
if options.stdout_limit is not None:
Util.set_pretty_print_default_limit(options.stdout_limit)
numpy.set_printoptions(
threshold=sys.maxsize if options.stdout_limit == float("inf") else int(options.stdout_limit))
if options.stdout_as_bytes:
Util.set_pretty_print_as_bytes(options.stdout_as_bytes)
elif options.type == "print_tag":
print("Dump seq tag to stdout", file=log.v3)
elif options.type == "dump_tag":
dump_file = open("%sseq-tags.txt" % options.dump_prefix, "w")
print("Dump seq tag to file: %s" % (dump_file.name,), file=log.v3)
elif options.type == "dump_seq_len":
dump_file = open("%sseq-lens.txt" % options.dump_prefix, "w")
print("Dump seq lens to file: %s" % (dump_file.name,), file=log.v3)
dump_file.write("{\n")
elif options.type == "print_shape":
print("Dump shape to stdout", file=log.v3)
elif options.type == "plot":
print("Plot.", file=log.v3)
elif options.type == "interactive":
print("Interactive debug shell.", file=log.v3)
elif options.type == "null":
print("No dump.")
else:
raise Exception("unknown dump option type %r" % options.type)
start_time = time.time()
stats = Stats() if (options.stats or options.dump_stats) else None
seq_len_stats = {key: Stats() for key in dataset.get_data_keys()}
seq_idx = options.startseq
if options.endseq < 0:
options.endseq = float("inf")
while dataset.is_less_than_num_seqs(seq_idx) and seq_idx <= options.endseq:
dataset.load_seqs(seq_idx, seq_idx + 1)
complete_frac = dataset.get_complete_frac(seq_idx)
start_elapsed = time.time() - start_time
try:
num_seqs_s = str(dataset.num_seqs)
except NotImplementedError:
try:
num_seqs_s = "~%i" % dataset.estimated_num_seqs
except TypeError: # a number is required, not NoneType
num_seqs_s = "?"
progress_prefix = "%i/%s" % (seq_idx, num_seqs_s)
progress = "%s (%.02f%%)" % (progress_prefix, complete_frac * 100)
if complete_frac > 0:
total_time_estimated = start_elapsed / complete_frac
remaining_estimated = total_time_estimated - start_elapsed
progress += " (%s)" % hms(remaining_estimated)
if options.type == "print_tag":
print("seq %s tag:" % (progress if log.verbose[2] else progress_prefix), dataset.get_tag(seq_idx))
elif options.type == "dump_tag":
print("seq %s tag:" % (progress if log.verbose[2] else progress_prefix), dataset.get_tag(seq_idx))
dump_file.write("%s\n" % dataset.get_tag(seq_idx))
elif options.type == "dump_seq_len":
seq_len = dataset.get_seq_length(seq_idx)[options.key]
print(
"seq %s tag:" % (progress if log.verbose[2] else progress_prefix),
dataset.get_tag(seq_idx), "%r len:" % options.key, seq_len)
dump_file.write("%r: %r,\n" % (dataset.get_tag(seq_idx), seq_len))
else:
data = dataset.get_data(seq_idx, options.key)
if options.type == "numpy":
numpy.savetxt("%s%i.data%s" % (options.dump_prefix, seq_idx, options.dump_postfix), data)
elif options.type == "stdout":
print("seq %s tag:" % progress, dataset.get_tag(seq_idx))
print("seq %s data:" % progress, pretty_print(data))
elif options.type == "print_shape":
print("seq %s data shape:" % progress, data.shape)
elif options.type == "plot":
plot(data)
for target in dataset.get_target_list():
targets = dataset.get_targets(target, seq_idx)
if options.type == "numpy":
numpy.savetxt("%s%i.targets.%s%s" % (options.dump_prefix, seq_idx, target, options.dump_postfix), targets, fmt='%i')
elif options.type == "stdout":
extra = ""
if target in dataset.labels and len(dataset.labels[target]) > 1:
assert dataset.can_serialize_data(target)
extra += " (%r)" % dataset.serialize_data(key=target, data=targets)
print("seq %i target %r: %s%s" % (seq_idx, target, pretty_print(targets), extra))
elif options.type == "print_shape":
print("seq %i target %r shape:" % (seq_idx, target), targets.shape)
if options.type == "interactive":
from Debug import debug_shell
debug_shell(locals())
seq_len = dataset.get_seq_length(seq_idx)
for key in dataset.get_data_keys():
seq_len_stats[key].collect([seq_len[key]])
if stats:
stats.collect(data)
if options.type == "null":
Util.progress_bar_with_time(complete_frac, prefix=progress_prefix)
seq_idx += 1
print("Done. Total time %s. More seqs which we did not dumped: %s" % (
hms_fraction(time.time() - start_time), dataset.is_less_than_num_seqs(seq_idx)), file=log.v2)
for key in dataset.get_data_keys():
seq_len_stats[key].dump(stream_prefix="Seq-length %r " % key, stream=log.v2)
if stats:
stats.dump(output_file_prefix=options.dump_stats, stream_prefix="Data %r " % options.key, stream=log.v1)
if options.type == "dump_seq_len":
dump_file.write("}\n")
if dump_file:
print("Dumped to file:", dump_file.name, file=log.v2)
dump_file.close()
def calc_wer_on_dataset(dataset, refs, options, hyps):
"""
:param Dataset|None dataset:
:param dict[str,str]|None refs: seq tag -> ref string (words delimited by space)
:param options: argparse.Namespace
:param dict[str,str] hyps: seq tag -> hyp string (words delimited by space)
:return: WER
:rtype: float
"""
assert dataset or refs
start_time = time.time()
seq_len_stats = {"refs": Stats(), "hyps": Stats()}
seq_idx = options.startseq
if options.endseq < 0:
options.endseq = float("inf")
wer = 1.0
remaining_hyp_seq_tags = set(hyps.keys())
interactive = Util.is_tty() and not log.verbose[5]
collected = {"hyps": [], "refs": []}
max_num_collected = 1
if dataset:
dataset.init_seq_order(epoch=1)
else:
refs = sorted(refs.items(), key=lambda item: len(item[1]))
while True:
if seq_idx > options.endseq:
break
if dataset:
if not dataset.is_less_than_num_seqs(seq_idx):
break
dataset.load_seqs(seq_idx, seq_idx + 1)
complete_frac = dataset.get_complete_frac(seq_idx)
seq_tag = dataset.get_tag(seq_idx)
assert isinstance(seq_tag, str)
ref = dataset.get_data(seq_idx, options.key)
if isinstance(ref, numpy.ndarray):
assert ref.shape == ()
ref = ref.flatten()[0] # get the entry itself (str or bytes)
if isinstance(ref, bytes):
ref = ref.decode("utf8")
assert isinstance(ref, str)
try:
num_seqs_s = str(dataset.num_seqs)
except NotImplementedError:
try:
num_seqs_s = "~%i" % dataset.estimated_num_seqs
except TypeError: # a number is required, not NoneType
num_seqs_s = "?"
else:
if seq_idx >= len(refs):
break
complete_frac = (seq_idx + 1) / float(len(refs))
seq_tag, ref = refs[seq_idx]
assert isinstance(seq_tag, str)
assert isinstance(ref, str)
num_seqs_s = str(len(refs))
start_elapsed = time.time() - start_time
progress_prefix = "%i/%s (WER %.02f%%)" % (seq_idx, num_seqs_s,
wer * 100)
progress = "%s (%.02f%%)" % (progress_prefix, complete_frac * 100)
if complete_frac > 0:
total_time_estimated = start_elapsed / complete_frac
remaining_estimated = total_time_estimated - start_elapsed
progress += " (%s)" % hms(remaining_estimated)
remaining_hyp_seq_tags.remove(seq_tag)
hyp = hyps[seq_tag]
seq_len_stats["hyps"].collect([len(hyp)])
seq_len_stats["refs"].collect([len(ref)])
collected["hyps"].append(hyp)
collected["refs"].append(ref)
if len(collected["hyps"]) >= max_num_collected:
wer = wer_compute.step(session, **collected)
del collected["hyps"][:]
del collected["refs"][:]
if interactive:
Util.progress_bar_with_time(complete_frac, prefix=progress_prefix)
elif log.verbose[5]:
print(
progress_prefix, "seq tag %r, ref/hyp len %i/%i chars" %
(seq_tag, len(ref), len(hyp)))
seq_idx += 1
if len(collected["hyps"]) > 0:
wer = wer_compute.step(session, **collected)
print("Done. Num seqs %i. Total time %s." %
(seq_idx, hms(time.time() - start_time)),
file=log.v1)
print("Remaining num hyp seqs %i." % (len(remaining_hyp_seq_tags), ),
file=log.v1)
if dataset:
print("More seqs which we did not dumped: %s." %
dataset.is_less_than_num_seqs(seq_idx),
file=log.v1)
for key in ["hyps", "refs"]:
seq_len_stats[key].dump(stream_prefix="Seq-length %r %r " %
(key, options.key),
stream=log.v2)
if options.expect_full:
assert not remaining_hyp_seq_tags, "There are still remaining hypotheses."
return wer
def dump_dataset(dataset, options):
"""
:type dataset: Dataset.Dataset
:param options: argparse.Namespace
"""
print("Epoch: %i" % options.epoch, file=log.v3)
dataset.init_seq_order(epoch=options.epoch)
print("Dataset keys:", dataset.get_data_keys(), file=log.v3)
print("Dataset target keys:", dataset.get_target_list(), file=log.v3)
assert options.key in dataset.get_data_keys()
if options.get_num_seqs:
print("Get num seqs.")
print("estimated_num_seqs: %r" % dataset.estimated_num_seqs)
try:
print("num_seqs: %r" % dataset.num_seqs)
except Exception as exc:
print("num_seqs exception %r, which is valid, so we count." % exc)
seq_idx = 0
if dataset.get_target_list():
default_target = dataset.get_target_list()[0]
else:
default_target = None
while dataset.is_less_than_num_seqs(seq_idx):
dataset.load_seqs(seq_idx, seq_idx + 1)
if seq_idx % 10000 == 0:
if default_target:
targets = dataset.get_targets(default_target, seq_idx)
postfix = " (targets = %r...)" % (targets[:10], )
else:
postfix = ""
print("%i ...%s" % (seq_idx, postfix))
seq_idx += 1
print("accumulated num seqs: %i" % seq_idx)
print("Done.")
return
if options.type == "numpy":
print("Dump files: %r*%r" %
(options.dump_prefix, options.dump_postfix),
file=log.v3)
elif options.type == "stdout":
print("Dump to stdout", file=log.v3)
elif options.type == "print_shape":
print("Dump shape to stdout", file=log.v3)
elif options.type == "plot":
print("Plot.", file=log.v3)
elif options.type == "null":
print("No dump.")
else:
raise Exception("unknown dump option type %r" % options.type)
start_time = time.time()
stats = Stats() if (options.stats or options.dump_stats) else None
seq_len_stats = {key: Stats() for key in dataset.get_data_keys()}
seq_idx = options.startseq
if options.endseq < 0:
options.endseq = float("inf")
while dataset.is_less_than_num_seqs(seq_idx) and seq_idx <= options.endseq:
dataset.load_seqs(seq_idx, seq_idx + 1)
complete_frac = dataset.get_complete_frac(seq_idx)
start_elapsed = time.time() - start_time
try:
num_seqs_s = str(dataset.num_seqs)
except NotImplementedError:
try:
num_seqs_s = "~%i" % dataset.estimated_num_seqs
except TypeError: # a number is required, not NoneType
num_seqs_s = "?"
progress_prefix = "%i/%s" % (seq_idx, num_seqs_s)
progress = "%s (%.02f%%)" % (progress_prefix, complete_frac * 100)
if complete_frac > 0:
total_time_estimated = start_elapsed / complete_frac
remaining_estimated = total_time_estimated - start_elapsed
progress += " (%s)" % hms(remaining_estimated)
data = dataset.get_data(seq_idx, options.key)
if options.type == "numpy":
numpy.savetxt(
"%s%i.data%s" %
(options.dump_prefix, seq_idx, options.dump_postfix), data)
elif options.type == "stdout":
print("seq %s data:" % progress, pretty_print(data))
elif options.type == "print_shape":
print("seq %s data shape:" % progress, data.shape)
elif options.type == "plot":
plot(data)
for target in dataset.get_target_list():
targets = dataset.get_targets(target, seq_idx)
if options.type == "numpy":
numpy.savetxt("%s%i.targets.%s%s" %
(options.dump_prefix, seq_idx, target,
options.dump_postfix),
targets,
fmt='%i')
elif options.type == "stdout":
print("seq %i target %r:" % (seq_idx, target),
pretty_print(targets))
elif options.type == "print_shape":
print("seq %i target %r shape:" % (seq_idx, target),
targets.shape)
seq_len = dataset.get_seq_length(seq_idx)
for key in dataset.get_data_keys():
seq_len_stats[key].collect([seq_len[key]])
if stats:
stats.collect(data)
if options.type == "null":
Util.progress_bar_with_time(complete_frac, prefix=progress_prefix)
seq_idx += 1
print("Done. Total time %s. More seqs which we did not dumped: %s" %
(hms(time.time() - start_time),
dataset.is_less_than_num_seqs(seq_idx)),
file=log.v1)
for key in dataset.get_data_keys():
seq_len_stats[key].dump(stream_prefix="Seq-length %r " % key,
stream=log.v2)
if stats:
stats.dump(output_file_prefix=options.dump_stats,
stream_prefix="Data %r " % options.key,
stream=log.v2)
def dump_dataset(dataset, options):
"""
:type dataset: Dataset.Dataset
:param options: argparse.Namespace
"""
print("Epoch: %i" % options.epoch, file=log.v3)
dataset.init_seq_order(epoch=options.epoch)
print("Dataset keys:", dataset.get_data_keys(), file=log.v3)
print("Dataset target keys:", dataset.get_target_list(), file=log.v3)
assert options.key in dataset.get_data_keys()
if options.get_num_seqs:
print("Get num seqs.")
print("estimated_num_seqs: %r" % dataset.estimated_num_seqs)
try:
print("num_seqs: %r" % dataset.num_seqs)
except Exception as exc:
print("num_seqs exception %r, which is valid, so we count." % exc)
seq_idx = 0
if dataset.get_target_list():
default_target = dataset.get_target_list()[0]
else:
default_target = None
while dataset.is_less_than_num_seqs(seq_idx):
dataset.load_seqs(seq_idx, seq_idx + 1)
if seq_idx % 10000 == 0:
if default_target:
targets = dataset.get_targets(default_target, seq_idx)
postfix = " (targets = %r...)" % (targets[:10],)
else:
postfix = ""
print("%i ...%s" % (seq_idx, postfix))
seq_idx += 1
print("accumulated num seqs: %i" % seq_idx)
print("Done.")
return
if options.type == "numpy":
print("Dump files: %r*%r" % (options.dump_prefix, options.dump_postfix), file=log.v3)
elif options.type == "stdout":
print("Dump to stdout", file=log.v3)
if options.stdout_limit is not None:
Util.set_pretty_print_default_limit(options.stdout_limit)
numpy.set_printoptions(
threshold=sys.maxsize if options.stdout_limit == float("inf") else int(options.stdout_limit))
if options.stdout_as_bytes:
Util.set_pretty_print_as_bytes(options.stdout_as_bytes)
elif options.type == "print_tag":
print("Dump seq tag to stdout", file=log.v3)
elif options.type == "print_shape":
print("Dump shape to stdout", file=log.v3)
elif options.type == "plot":
print("Plot.", file=log.v3)
elif options.type == "null":
print("No dump.")
else:
raise Exception("unknown dump option type %r" % options.type)
start_time = time.time()
stats = Stats() if (options.stats or options.dump_stats) else None
seq_len_stats = {key: Stats() for key in dataset.get_data_keys()}
seq_idx = options.startseq
if options.endseq < 0:
options.endseq = float("inf")
while dataset.is_less_than_num_seqs(seq_idx) and seq_idx <= options.endseq:
dataset.load_seqs(seq_idx, seq_idx + 1)
complete_frac = dataset.get_complete_frac(seq_idx)
start_elapsed = time.time() - start_time
try:
num_seqs_s = str(dataset.num_seqs)
except NotImplementedError:
try:
num_seqs_s = "~%i" % dataset.estimated_num_seqs
except TypeError: # a number is required, not NoneType
num_seqs_s = "?"
progress_prefix = "%i/%s" % (seq_idx, num_seqs_s)
progress = "%s (%.02f%%)" % (progress_prefix, complete_frac * 100)
if complete_frac > 0:
total_time_estimated = start_elapsed / complete_frac
remaining_estimated = total_time_estimated - start_elapsed
progress += " (%s)" % hms(remaining_estimated)
if options.type == "print_tag":
print("seq %s tag:" % (progress if log.verbose[2] else progress_prefix), dataset.get_tag(seq_idx))
else:
data = dataset.get_data(seq_idx, options.key)
if options.type == "numpy":
numpy.savetxt("%s%i.data%s" % (options.dump_prefix, seq_idx, options.dump_postfix), data)
elif options.type == "stdout":
print("seq %s tag:" % progress, dataset.get_tag(seq_idx))
print("seq %s data:" % progress, pretty_print(data))
elif options.type == "print_shape":
print("seq %s data shape:" % progress, data.shape)
elif options.type == "plot":
plot(data)
for target in dataset.get_target_list():
targets = dataset.get_targets(target, seq_idx)
if options.type == "numpy":
numpy.savetxt("%s%i.targets.%s%s" % (options.dump_prefix, seq_idx, target, options.dump_postfix), targets, fmt='%i')
elif options.type == "stdout":
extra = ""
if target in dataset.labels and len(dataset.labels[target]) > 1:
labels = dataset.labels[target]
if len(labels) < 1000 and all([len(l) == 1 for l in labels]):
join_str = ""
else:
join_str = " "
extra += " (%r)" % join_str.join(map(dataset.labels[target].__getitem__, targets))
print("seq %i target %r: %s%s" % (seq_idx, target, pretty_print(targets), extra))
elif options.type == "print_shape":
print("seq %i target %r shape:" % (seq_idx, target), targets.shape)
seq_len = dataset.get_seq_length(seq_idx)
for key in dataset.get_data_keys():
seq_len_stats[key].collect([seq_len[key]])
if stats:
stats.collect(data)
if options.type == "null":
Util.progress_bar_with_time(complete_frac, prefix=progress_prefix)
seq_idx += 1
print("Done. Total time %s. More seqs which we did not dumped: %s" % (
hms(time.time() - start_time), dataset.is_less_than_num_seqs(seq_idx)), file=log.v2)
for key in dataset.get_data_keys():
seq_len_stats[key].dump(stream_prefix="Seq-length %r " % key, stream=log.v2)
if stats:
stats.dump(output_file_prefix=options.dump_stats, stream_prefix="Data %r " % options.key, stream=log.v1)