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latinpipe_evalatin24.py
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latinpipe_evalatin24.py
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#!/usr/bin/env python3
#
# This file is part of LatinPipe EvaLatin 24
# <https://github.com/ufal/evalatin2024-latinpipe>.
#
# Copyright 2024 Institute of Formal and Applied Linguistics, Faculty of
# Mathematics and Physics, Charles University in Prague, Czech Republic.
#
# This Source Code Form is subject to the terms of the Mozilla Public
# License, v. 2.0. If a copy of the MPL was not distributed with this
# file, You can obtain one at http://mozilla.org/MPL/2.0/.
import argparse
import collections
import datetime
import difflib
import io
import json
import os
import pickle
import re
from typing import Self
os.environ.setdefault("KERAS_BACKEND", "torch")
import keras
import numpy as np
import torch
import transformers
import ufal.chu_liu_edmonds
import latinpipe_evalatin24_eval
parser = argparse.ArgumentParser()
parser.add_argument("--batch_size", default=32, type=int, help="Batch size.")
parser.add_argument("--deprel", default="full", choices=["full", "universal"], type=str, help="Deprel kind.")
parser.add_argument("--dev", default=[], nargs="+", type=str, help="Dev CoNLL-U files.")
parser.add_argument("--dropout", default=0.5, type=float, help="Dropout")
parser.add_argument("--embed_tags", default="", type=str, help="Tags to embed on input.")
parser.add_argument("--epochs", default=30, type=int, help="Number of epochs.")
parser.add_argument("--epochs_frozen", default=0, type=int, help="Number of epochs with frozen transformer.")
parser.add_argument("--exp", default=None, type=str, help="Experiment name.")
parser.add_argument("--label_smoothing", default=0.03, type=float, help="Label smoothing.")
parser.add_argument("--learning_rate", default=2e-5, type=float, help="Learning rate.")
parser.add_argument("--learning_rate_decay", default="cos", choices=["none", "cos"], type=str, help="Learning rate decay.")
parser.add_argument("--learning_rate_warmup", default=2_000, type=int, help="Number of warmup steps.")
parser.add_argument("--load", default=[], type=str, nargs="*", help="Path to load models from.")
parser.add_argument("--max_train_sentence_len", default=150, type=int, help="Max sentence subwords in training.")
parser.add_argument("--optimizer", default="adam", choices=["adam", "adafactor"], type=str, help="Optimizer.")
parser.add_argument("--parse", default=1, type=int, help="Parse.")
parser.add_argument("--parse_attention_dim", default=512, type=int, help="Parse attention dimension.")
parser.add_argument("--rnn_dim", default=512, type=int, help="RNN layers size.")
parser.add_argument("--rnn_layers", default=2, type=int, help="RNN layers.")
parser.add_argument("--rnn_type", default="LSTMTorch", choices=["LSTM", "GRU", "LSTMTorch", "GRUTorch"], help="RNN type.")
parser.add_argument("--save_checkpoint", default=False, action="store_true", help="Save checkpoint.")
parser.add_argument("--seed", default=42, type=int, help="Initial random seed.")
parser.add_argument("--steps_per_epoch", default=1_000, type=int, help="Steps per epoch.")
parser.add_argument("--single_root", default=1, type=int, help="Single root allowed only.")
parser.add_argument("--subword_combination", default="first", choices=["first", "last", "sum", "concat"], type=str, help="Subword combination.")
parser.add_argument("--tags", default="UPOS,LEMMAS,FEATS", type=str, help="Tags to predict.")
parser.add_argument("--task_hidden_layer", default=2_048, type=int, help="Task hidden layer size.")
parser.add_argument("--test", default=[], nargs="+", type=str, help="Test CoNLL-U files.")
parser.add_argument("--train", default=[], nargs="+", type=str, help="Train CoNLL-U files.")
parser.add_argument("--train_sampling_exponent", default=0.5, type=float, help="Train sampling exponent.")
parser.add_argument("--transformers", nargs="+", type=str, help="Transformers models to use.")
parser.add_argument("--treebank_ids", default=False, action="store_true", help="Include treebank IDs on input.")
parser.add_argument("--threads", default=4, type=int, help="Maximum number of threads to use.")
parser.add_argument("--verbose", default=2, type=int, help="Verbosity")
parser.add_argument("--wandb", default=False, action="store_true", help="Log in WandB.")
parser.add_argument("--word_masking", default=None, type=float, help="Word masking")
class UDDataset:
FORMS, LEMMAS, UPOS, XPOS, FEATS, HEAD, DEPREL, DEPS, MISC, FACTORS = range(10)
FACTORS_MAP = {"FORMS": FORMS, "LEMMAS": LEMMAS, "UPOS": UPOS, "XPOS": XPOS, "FEATS": FEATS,
"HEAD": HEAD, "DEPREL": DEPREL, "DEPS": DEPS, "MISC": MISC}
RE_EXTRAS = re.compile(r"^#|^\d+-|^\d+\.")
class Factor:
def __init__(self, train_factor: Self = None):
self.words_map = train_factor.words_map if train_factor else {"<unk>": 0}
self.words = train_factor.words if train_factor else ["<unk>"]
self.word_ids = []
self.strings = []
def __init__(self, path: str, args: argparse.Namespace, treebank_id: int|None = None, train_dataset: Self = None, text: str|None = None):
self.path = path
# Create factors and other variables
self.factors = []
for f in range(self.FACTORS):
self.factors.append(self.Factor(train_dataset.factors[f] if train_dataset is not None else None))
self._extras = []
lemma_transforms = collections.Counter()
# Load the CoNLL-U file
with open(path, "r", encoding="utf-8") if text is None else io.StringIO(text) as file:
in_sentence = False
for line in file:
line = line.rstrip("\r\n")
if line:
if self.RE_EXTRAS.match(line):
if in_sentence:
while len(self._extras) < len(self.factors[0].strings): self._extras.append([])
while len(self._extras[-1]) <= len(self.factors[0].strings[-1]):
self._extras[-1].append("")
else:
while len(self._extras) <= len(self.factors[0].strings): self._extras.append([])
if not len(self._extras[-1]): self._extras[-1].append("")
self._extras[-1][-1] += ("\n" if self._extras[-1][-1] else "") + line
continue
columns = line.split("\t")[1:]
for f in range(self.FACTORS):
factor = self.factors[f]
if not in_sentence:
factor.word_ids.append([])
factor.strings.append([])
word = columns[f]
factor.strings[-1].append(word)
# Add word to word_ids
if f == self.FORMS:
# For formw, we do not remap strings into IDs because the tokenizer will create the subwords IDs for us.
factor.word_ids[-1].append(0)
elif f == self.HEAD:
factor.word_ids[-1].append(int(word) if word != "_" else -1)
elif f == self.LEMMAS:
factor.word_ids[-1].append(0)
lemma_transforms[(columns[self.FORMS], word)] += 1
else:
if f == self.DEPREL and args.deprel == "universal":
word = word.split(":")[0]
if word not in factor.words_map:
if train_dataset is not None:
word = "<unk>"
else:
factor.words_map[word] = len(factor.words)
factor.words.append(word)
factor.word_ids[-1].append(factor.words_map[word])
in_sentence = True
else:
in_sentence = False
for factor in self.factors:
if len(factor.word_ids): factor.word_ids[-1] = np.array(factor.word_ids[-1], np.int32)
# Also load the file for evaluation if it is not a training dataset
if train_dataset is not None:
file.seek(0, io.SEEK_SET)
self.conllu_for_eval = latinpipe_evalatin24_eval.load_conllu(file)
# Construct lemma rules
self.finalize_lemma_rules(lemma_transforms, create_rules=train_dataset is None)
# The dataset consists of a single treebank
self.treebank_ranges = [(0, len(self))]
self.treebank_ids = [treebank_id]
# Create an empty tokenize cache
self._tokenizer_cache = {}
def __len__(self):
return len(self.factors[0].strings)
def save_mappings(self, path: str) -> None:
mappings = UDDataset.__new__(UDDataset)
mappings.factors = []
for factor in self.factors:
mappings.factors.append(UDDataset.Factor.__new__(UDDataset.Factor))
mappings.factors[-1].words = factor.words
with open(path, "wb") as mappings_file:
pickle.dump(mappings, mappings_file, protocol=4)
@staticmethod
def from_mappings(path: str) -> Self:
with open(path, "rb") as mappings_file:
mappings = pickle.load(mappings_file)
for factor in mappings.factors:
factor.words_map = {word: i for i, word in enumerate(factor.words)}
return mappings
@staticmethod
def create_lemma_rule(form: str, lemma: str) -> str:
diff = difflib.SequenceMatcher(None, form.lower(), lemma.lower(), False)
rule, in_prefix = [], True
for tag, i1, i2, j1, j2 in diff.get_opcodes():
if i2 > len(form) // 3 and in_prefix:
in_prefix = False
if tag == "equal":
mode, jd = "L" if lemma[j2 - 1].islower() else "U", j2 - 1
while jd > j1 and lemma[jd - 1].islower() == lemma[j2 - 1].islower(): jd -= 1
rule.extend(["l" if lemma[j].islower() else "u" for j in range(j1, jd)])
rule.extend(mode * (len(form) - i2 + 1))
if tag in ["replace", "delete"]:
rule.extend("D" * (len(form) - i2 + 1))
if tag in ["replace", "insert"]:
rule.extend("i" + lemma[j] for j in range(j1, j2))
else:
if tag == "equal":
rule.extend(["l" if lemma[j].islower() else "u" for j in range(j1, j2)])
if tag in ["replace", "delete"]:
rule.extend("d" * (i2 - i1))
if tag in ["replace", "insert"]:
rule.extend("i" + lemma[j] for j in range(j1, j2))
return "".join(rule)
@staticmethod
def apply_lemma_rule(rule: str, form: str) -> str:
def error():
# print("Error: cannot decode lemma rule '{}' with form '{}', copying input.".format(rule, form))
return form
if rule == "<unk>":
return form
lemma, r, i = [], 0, 0
while r < len(rule):
if rule[r] == "i":
if r + 1 == len(rule):
return error()
r += 1
lemma.append(rule[r])
elif rule[r] == "d":
i += 1
elif rule[r] in ("l", "u"):
if i == len(form):
return error()
lemma.append(form[i].lower() if rule[r] == "l" else form[i].upper())
i += 1
elif rule[r] in ("L", "U", "D"):
i2 = len(form)
while r + 1 < len(rule) and rule[r + 1] == rule[r]:
r += 1
i2 -= 1
if i2 < i:
return error()
if rule[r] == "L":
lemma.extend(form[i:i2].lower())
if rule[r] == "U":
lemma.extend(form[i:i2].upper())
i = i2
else:
return error()
r += 1
if i != len(form) or not lemma:
return error()
return "".join(lemma)
def finalize_lemma_rules(self, lemma_transforms: collections.Counter, create_rules: bool) -> None:
forms, lemmas = self.factors[self.FORMS], self.factors[self.LEMMAS]
# Generate all rules
rules_merged, rules_all = collections.Counter(), {}
for form, lemma in lemma_transforms:
rule = self.create_lemma_rule(form, lemma)
rules_all[(form, lemma)] = rule
if create_rules:
rules_merged[rule] += 1
# Keep the rules that are used more than once
if create_rules:
for rule, count in rules_merged.items():
if count > 1:
lemmas.words_map[rule] = len(lemmas.words)
lemmas.words.append(rule)
# Store the rules in the dataset
for i in range(len(forms.strings)):
for j in range(len(forms.strings[i])):
rule = rules_all.get((forms.strings[i][j], lemmas.strings[i][j]))
lemmas.word_ids[i][j] = lemmas.words_map.get(rule, 0)
def tokenize(self, tokenizer: transformers.PreTrainedTokenizer) -> tuple[list[np.ndarray], list[np.ndarray]]:
if tokenizer not in self._tokenizer_cache:
assert tokenizer.cls_token_id is not None, "The tokenizer must have a CLS token"
tokenized = tokenizer(self.factors[0].strings, add_special_tokens=True, is_split_into_words=True)
tokens, word_indices = [], []
for i, sentence in enumerate(tokenized.input_ids):
offset = 0
if not len(sentence) or sentence[0] != tokenizer.cls_token_id:
# Handle tokenizers that do not add CLS tokens, which we need for prediction
# of the root nodes during parsing. For such tokenizers, we added the CLS token
# manually already, but the build_inputs_with_special_tokens() might not have added it.
sentence = [tokenizer.cls_token_id] + sentence
offset = 1
treebank_id = None
for id_, (start, end) in zip(self.treebank_ids, self.treebank_ranges):
if start <= i < end:
treebank_id = id_
if treebank_id is not None:
sentence.insert(1, tokenizer.additional_special_tokens_ids[treebank_id])
offset += 1
tokens.append(np.array(sentence, dtype=np.int32))
word_indices.append([(0, 0)])
for j in range(len(self.factors[0].strings[i])):
span = tokenized.word_to_tokens(i, j)
word_indices[-1].append((offset + span.start, offset + span.end - 1))
word_indices[-1] = np.array(word_indices[-1], dtype=np.int32)
self._tokenizer_cache[tokenizer] = (tokens, word_indices)
return self._tokenizer_cache[tokenizer]
def write_sentence(self, output: io.TextIOBase, index: int, overrides: list = None) -> None:
assert index < len(self.factors[0].strings), "Sentence index out of range"
for i in range(len(self.factors[0].strings[index]) + 1):
# Start by writing extras
if index < len(self._extras) and i < len(self._extras[index]) and self._extras[index][i]:
print(self._extras[index][i], file=output)
if i == len(self.factors[0].strings[index]): break
fields = []
fields.append(str(i + 1))
for f in range(self.FACTORS):
factor = self.factors[f]
field = factor.strings[index][i]
# Overrides
if overrides is not None and f < len(overrides) and overrides[f] is not None:
override = overrides[f][i]
if f == self.HEAD:
field = str(override) if override >= 0 else "_"
else:
field = factor.words[override]
if f == self.LEMMAS:
field = self.apply_lemma_rule(field, self.factors[self.FORMS].strings[index][i])
fields.append(field)
print("\t".join(fields), file=output)
print(file=output)
class UDDatasetMerged(UDDataset):
def __init__(self, datasets: list[UDDataset]):
# Create factors and other variables
self.factors = []
for f in range(self.FACTORS):
self.factors.append(self.Factor(None))
lemma_transforms = collections.Counter()
self.treebank_ranges, self.treebank_ids = [], []
for dataset in datasets:
assert len(dataset.treebank_ranges) == len(dataset.treebank_ids) == 1
self.treebank_ranges.append((len(self), len(self) + len(dataset)))
self.treebank_ids.append(dataset.treebank_ids[0])
for s in range(len(dataset)):
for f in range(self.FACTORS):
factor = self.factors[f]
factor.strings.append(dataset.factors[f].strings[s])
factor.word_ids.append([])
for i, word in enumerate(dataset.factors[f].strings[s]):
if f == self.FORMS:
# We do not remap strings into IDs because the tokenizer will create the subwords IDs for us.
factor.word_ids[-1].append(0)
if f == self.HEAD:
factor.word_ids[-1].append(word)
elif f == self.LEMMAS:
factor.word_ids[-1].append(0)
lemma_transforms[(dataset.factors[self.FORMS].strings[s][i], word)] += 1
else:
if word not in factor.words_map:
factor.words_map[word] = len(factor.words)
factor.words.append(word)
factor.word_ids[-1].append(factor.words_map[word])
self.factors[f].word_ids[-1] = np.array(self.factors[f].word_ids[-1], np.int32)
# Construct lemma rules
self.finalize_lemma_rules(lemma_transforms, create_rules=True)
# Create an empty tokenize cache
self._tokenizer_cache = {}
class TorchUDDataset(torch.utils.data.Dataset):
def __init__(self, ud_dataset: UDDataset, tokenizers: list[transformers.PreTrainedTokenizer], args: argparse.Namespace, training: bool):
self.ud_dataset = ud_dataset
self.training = training
self._outputs_to_input = [args.tags.index(tag) for tag in args.embed_tags]
self._inputs = [ud_dataset.tokenize(tokenizer) for tokenizer in tokenizers]
self._outputs = [ud_dataset.factors[tag].word_ids for tag in args.tags]
if args.parse:
self._outputs.append(ud_dataset.factors[ud_dataset.HEAD].word_ids)
self._outputs.append(ud_dataset.factors[ud_dataset.DEPREL].word_ids)
# Trim the sentences if needed
if training and args.max_train_sentence_len:
trimmed_sentences = 0
for index in range(len(self)): # Over sentences
max_words, need_trimming = None, False
for tokens, word_indices in self._inputs: # Over transformers
if max_words is None:
max_words = len(word_indices[index])
while word_indices[index][max_words - 1, 1] >= args.max_train_sentence_len:
max_words -= 1
need_trimming = True
assert max_words >= 2, "Sentence too short after trimming"
if need_trimming:
for tokens, word_indices in self._inputs: # Over transformers
tokens[index] = tokens[index][:word_indices[index][max_words - 1, 1] + 1]
word_indices[index] = word_indices[index][:max_words]
for output in self._outputs:
output[index] = output[index][:max_words - 1] # No CLS tokens in outputs
if args.parse:
self._outputs[-2][index] = np.array([head if head < max_words else -1 for head in self._outputs[-2][index]], np.int32)
trimmed_sentences += 1
if trimmed_sentences:
print("Trimmed {} out of {} sentences".format(trimmed_sentences, len(self)))
def __len__(self):
return len(self.ud_dataset)
def __getitem__(self, index: int):
inputs = []
for tokens, word_indices in self._inputs:
inputs.append(torch.from_numpy(tokens[index]))
inputs.append(torch.from_numpy(word_indices[index]))
for i in self._outputs_to_input:
inputs.append(torch.from_numpy(self._outputs[i][index]))
outputs = []
for output in self._outputs:
outputs.append(torch.from_numpy(output[index]))
return inputs, outputs
class TorchUDDataLoader(torch.utils.data.DataLoader):
class MergedDatasetSampler(torch.utils.data.Sampler):
def __init__(self, ud_dataset: UDDataset, args: argparse.Namespace):
self._treebank_ranges = ud_dataset.treebank_ranges
self._sentences_per_epoch = args.steps_per_epoch * args.batch_size
self._generator = torch.Generator().manual_seed(args.seed)
treebank_weights = np.array([r[1] - r[0] for r in self._treebank_ranges], np.float32)
treebank_weights = treebank_weights ** args.train_sampling_exponent
treebank_weights /= np.sum(treebank_weights)
self._treebank_sizes = np.array(treebank_weights * self._sentences_per_epoch, np.int32)
self._treebank_sizes[:self._sentences_per_epoch - np.sum(self._treebank_sizes)] += 1
self._treebank_indices = [[] for _ in self._treebank_ranges]
def __len__(self):
return self._sentences_per_epoch
def __iter__(self):
indices = []
for i in range(len(self._treebank_ranges)):
required = self._treebank_sizes[i]
while required:
if not len(self._treebank_indices[i]):
self._treebank_indices[i] = self._treebank_ranges[i][0] + torch.randperm(
self._treebank_ranges[i][1] - self._treebank_ranges[i][0], generator=self._generator)
indices.append(self._treebank_indices[i][:required])
required -= min(len(self._treebank_indices[i]), required)
indices = torch.concatenate(indices, axis=0)
return iter(indices[torch.randperm(len(indices), generator=self._generator)])
def _collate_fn(self, batch):
inputs, outputs = zip(*batch)
batch_inputs = []
for sequences in zip(*inputs):
batch_inputs.append(torch.nn.utils.rnn.pad_sequence(sequences, batch_first=True, padding_value=-1))
batch_outputs = []
for output in zip(*outputs):
batch_outputs.append(torch.nn.utils.rnn.pad_sequence(output, batch_first=True, padding_value=-1))
batch_weights = [batch_output != -1 for batch_output in batch_outputs]
return tuple(batch_inputs), tuple(batch_outputs), tuple(batch_weights)
def __init__(self, dataset: TorchUDDataset, args: argparse.Namespace, **kwargs):
sampler = None
if dataset.training:
if len(dataset.ud_dataset.treebank_ranges) == 1:
sampler = torch.utils.data.RandomSampler(dataset, generator=torch.Generator().manual_seed(args.seed))
else:
assert args.steps_per_epoch is not None, "Steps per epoch must be specified when training on multiple treebanks"
sampler = self.MergedDatasetSampler(dataset.ud_dataset, args)
super().__init__(dataset, batch_size=args.batch_size, sampler=sampler, collate_fn=self._collate_fn, **kwargs)
class LatinPipeModel(keras.Model):
class HFTransformerLayer(keras.layers.Layer):
def __init__(self, transformer: transformers.PreTrainedModel, subword_combination: str, word_masking: float = None, mask_token_id: int = None, **kwargs):
super().__init__(**kwargs)
self._transformer = transformer
self._subword_combination = subword_combination
self._word_masking = word_masking
self._mask_token_id = mask_token_id
def call(self, inputs, word_indices, training=None):
if training and self._word_masking:
mask = keras.ops.cast(keras.random.uniform(keras.ops.shape(inputs), dtype="float32") < self._word_masking, inputs.dtype)
inputs = (1 - mask) * inputs + mask * self._mask_token_id
if (training or False) != self._transformer.training:
self._transformer.train(training or False)
if self._subword_combination != "last":
first_subwords = keras.ops.take_along_axis(
self._transformer(keras.ops.maximum(inputs, 0), attention_mask=inputs > -1).last_hidden_state,
keras.ops.expand_dims(keras.ops.maximum(word_indices[..., 0], 0), axis=-1),
axis=1,
)
if self._subword_combination != "first":
last_subwords = keras.ops.take_along_axis(
self._transformer(keras.ops.maximum(inputs, 0), attention_mask=inputs > -1).last_hidden_state,
keras.ops.expand_dims(keras.ops.maximum(word_indices[..., 1], 0), axis=-1),
axis=1,
)
if self._subword_combination == "first":
return first_subwords
elif self._subword_combination == "last":
return last_subwords
elif self._subword_combination == "sum":
return first_subwords + last_subwords
elif self._subword_combination == "concat":
return keras.ops.concatenate([first_subwords, last_subwords], axis=-1)
else:
raise ValueError("Unknown subword combination '{}'".format(self._subword_combination))
class LSTMTorch(keras.layers.Layer):
def __init__(self, units: int, **kwargs):
super().__init__(**kwargs)
self._units = units
def build(self, input_shape):
self._lstm = torch.nn.LSTM(input_shape[-1], self._units, batch_first=True, bidirectional=True)
def call(self, inputs, lengths):
packed_result, _ = self._lstm.module(torch.nn.utils.rnn.pack_padded_sequence(inputs, lengths.cpu(), batch_first=True, enforce_sorted=False))
unpacked_result = torch.nn.utils.rnn.unpack_sequence(packed_result)
return torch.nn.utils.rnn.pad_sequence(unpacked_result, batch_first=True, padding_value=0)
class GRUTorch(keras.layers.Layer):
def __init__(self, units: int, **kwargs):
super().__init__(**kwargs)
self._units = units
def build(self, input_shape):
self._gru = torch.nn.GRU(input_shape[-1], self._units, batch_first=True, bidirectional=True)
def call(self, inputs, lengths):
packed_result, _ = self._gru(torch.nn.utils.rnn.pack_padded_sequence(inputs, lengths.cpu(), batch_first=True, enforce_sorted=False))
unpacked_result = torch.nn.utils.rnn.unpack_sequence(packed_result)
return torch.nn.utils.rnn.pad_sequence(unpacked_result, batch_first=True, padding_value=0)
class ParsingHead(keras.layers.Layer):
def __init__(self, num_deprels: int, task_hidden_layer: int, parse_attention_dim: int, dropout: float, **kwargs):
super().__init__(**kwargs)
self._head_queries_hidden = keras.layers.Dense(task_hidden_layer, activation="relu")
self._head_queries_output = keras.layers.Dense(parse_attention_dim)
self._head_keys_hidden = keras.layers.Dense(task_hidden_layer, activation="relu")
self._head_keys_output = keras.layers.Dense(parse_attention_dim)
self._deprel_hidden = keras.layers.Dense(task_hidden_layer, activation="relu")
self._deprel_output = keras.layers.Dense(num_deprels)
self._dropout = keras.layers.Dropout(dropout)
def call(self, embeddings, embeddings_wo_root, embeddings_mask):
head_queries = self._head_queries_output(self._dropout(self._head_queries_hidden(embeddings_wo_root)))
head_keys = self._head_keys_output(self._dropout(self._head_keys_hidden(embeddings)))
head_scores = keras.ops.matmul(head_queries, keras.ops.transpose(head_keys, axes=[0, 2, 1])) / keras.ops.sqrt(head_queries.shape[-1])
head_scores_mask = keras.ops.cast(keras.ops.expand_dims(embeddings_mask, axis=1), head_scores.dtype)
head_scores = head_scores * head_scores_mask - 1e9 * (1 - head_scores_mask)
predicted_heads = keras.ops.argmax(head_scores, axis=-1)
predicted_head_embeddings = keras.ops.take_along_axis(embeddings, keras.ops.expand_dims(predicted_heads, axis=-1), axis=1)
deprel_hidden = keras.ops.concatenate([embeddings_wo_root, predicted_head_embeddings], axis=-1)
deprel_scores = self._deprel_output(self._dropout(self._deprel_hidden(deprel_hidden)))
return head_scores, deprel_scores
class SparseCategoricalCrossentropyWithLabelSmoothing(keras.losses.Loss):
def __init__(self, from_logits: bool, label_smoothing: float, **kwargs):
super().__init__(**kwargs)
self._from_logits = from_logits
self._label_smoothing = label_smoothing
def call(self, y_true, y_pred):
y_gold = keras.ops.one_hot(keras.ops.maximum(y_true, 0), y_pred.shape[-1])
if self._label_smoothing:
y_pred_mask = keras.ops.cast(y_pred > -1e9, y_pred.dtype)
y_gold = y_gold * (1 - self._label_smoothing) + y_pred_mask / keras.ops.sum(y_pred_mask, axis=-1, keepdims=True) * self._label_smoothing
return keras.losses.categorical_crossentropy(y_gold, y_pred, from_logits=self._from_logits)
def __init__(self, dataset: UDDataset, args: argparse.Namespace):
self._dataset = dataset
self._args = args
# Create the transformer models
self._tokenizers, self._transformers = [], []
for name in args.transformers:
self._tokenizers.append(transformers.AutoTokenizer.from_pretrained(name, add_prefix_space=True))
transformer, transformer_opts = transformers.AutoModel, {}
if "mt5" in name.lower():
transformer = transformers.MT5EncoderModel
if name.endswith(("LaTa", "PhilTa")):
transformer = transformers.T5EncoderModel
if name.endswith(("LaBerta", "PhilBerta")):
transformer_opts["add_pooling_layer"] = False
if args.load:
transformer = transformer.from_config(transformers.AutoConfig.from_pretrained(name), **transformer_opts)
else:
transformer = transformer.from_pretrained(name, **transformer_opts)
# Create additional tokens
additional_tokens = {}
if args.treebank_ids:
additional_tokens["additional_special_tokens"] = ["[TREEBANK_ID_{}]".format(i) for i in range(len(dataset.treebank_ids))]
if self._tokenizers[-1].cls_token_id is None: # Generate CLS token if not present (for representing sentence root in parsing).
additional_tokens["cls_token"] = "[CLS]"
if additional_tokens:
self._tokenizers[-1].add_special_tokens(additional_tokens)
transformer.resize_token_embeddings(len(self._tokenizers[-1]))
if args.treebank_ids:
assert len(self._tokenizers[-1].additional_special_tokens) == len(dataset.treebank_ids)
self._transformers.append(self.HFTransformerLayer(transformer, args.subword_combination, args.word_masking, self._tokenizers[-1].mask_token_id))
# Create the network
inputs = []
for _ in args.transformers:
inputs.extend([keras.layers.Input(shape=[None], dtype="int32"), keras.layers.Input(shape=[None, 2], dtype="int32")])
for _ in args.embed_tags:
inputs.append(keras.layers.Input(shape=[None], dtype="int32"))
# Run the transformer models
embeddings = []
for tokens, word_indices, transformer in zip(inputs[::2], inputs[1::2], self._transformers):
embeddings.append(transformer(tokens, word_indices))
embeddings = keras.layers.Concatenate(axis=-1)(embeddings)
embeddings = keras.layers.Dropout(args.dropout)(embeddings)
# Heads for the tagging tasks
outputs = []
for tag in args.tags:
hidden = keras.layers.Dense(args.task_hidden_layer, activation="relu")(embeddings[:, 1:])
hidden = keras.layers.Dropout(args.dropout)(hidden)
outputs.append(keras.layers.Dense(len(dataset.factors[tag].words))(hidden))
# Head for parsing
if args.parse:
if args.embed_tags:
all_embeddings = [embeddings]
for factor, input_tags in zip(args.embed_tags, inputs[-len(args.embed_tags):]):
embedding_layer = keras.layers.Embedding(len(dataset.factors[factor].words) + 1, 256)
all_embeddings.append(keras.layers.Dropout(args.dropout)(embedding_layer(keras.ops.pad(input_tags + 1, [(0, 0), (1, 0)]))))
embeddings = keras.ops.concatenate(all_embeddings, axis=-1)
for i in range(args.rnn_layers):
if args.rnn_type in ["LSTM", "GRU"]:
hidden = keras.layers.Bidirectional(getattr(keras.layers, args.rnn_type)(args.rnn_dim, return_sequences=True))(embeddings, mask=inputs[1][..., 0] > -1)
elif args.rnn_type in ["LSTMTorch", "GRUTorch"]:
hidden = getattr(self, args.rnn_type)(args.rnn_dim)(embeddings, keras.ops.sum(inputs[1][..., 0] > -1, axis=-1))
hidden = keras.layers.Dropout(args.dropout)(hidden)
embeddings = hidden + (embeddings if i else 0)
outputs.extend(self.ParsingHead(
len(dataset.factors[dataset.DEPREL].words), args.task_hidden_layer, args.parse_attention_dim, args.dropout,
)(embeddings, embeddings[:, 1:], inputs[1][..., 0] > -1))
super().__init__(inputs=inputs, outputs=outputs)
if args.load:
self.load_weights(args.load[0])
def compile(self, epoch_batches: int, frozen: bool):
args = self._args
for transformer in self._transformers:
transformer.trainable = not frozen
if frozen:
schedule = 1e-3
else:
schedule = keras.optimizers.schedules.CosineDecay(
0. if args.learning_rate_warmup else args.learning_rate,
args.epochs * epoch_batches - args.learning_rate_warmup,
alpha=0.0 if args.learning_rate_decay != "none" else 1.0,
warmup_target=args.learning_rate if args.learning_rate_warmup else None,
warmup_steps=args.learning_rate_warmup,
)
if args.optimizer == "adam":
optimizer = keras.optimizers.Adam(schedule)
elif args.optimizer == "adafactor":
optimizer = keras.optimizers.Adafactor(schedule)
else:
raise ValueError("Unknown optimizer '{}'".format(args.optimizer))
super().compile(
optimizer=optimizer,
loss=self.SparseCategoricalCrossentropyWithLabelSmoothing(from_logits=True, label_smoothing=args.label_smoothing),
)
@property
def tokenizers(self) -> list[transformers.PreTrainedTokenizer]:
return self._tokenizers
def predict(self, dataloader: TorchUDDataLoader, save_as: str|None = None, args_override: argparse.Namespace|None = None) -> str:
ud_dataset = dataloader.dataset.ud_dataset
args = self._args if args_override is None else args_override
conllu, sentence = io.StringIO(), 0
for batch_inputs, _, _ in dataloader:
predictions = self.predict_on_batch(batch_inputs)
for b in range(len(batch_inputs[0])):
sentence_len = len(ud_dataset.factors[ud_dataset.FORMS].strings[sentence])
overrides = [None] * ud_dataset.FACTORS
for tag, prediction in zip(args.tags, predictions):
overrides[tag] = np.argmax(prediction[b, :sentence_len], axis=-1)
if args.parse:
heads, deprels = predictions[-2:]
padded_heads = np.zeros([sentence_len + 1, sentence_len + 1], dtype=np.float64)
padded_heads[1:] = heads[b, :sentence_len, :sentence_len + 1]
padded_heads[1:] -= np.max(padded_heads[1:], axis=-1, keepdims=True)
padded_heads[1:] -= np.log(np.sum(np.exp(padded_heads[1:]), axis=-1, keepdims=True))
if args.single_root:
selected_root = 1 + np.argmax(padded_heads[1:, 0])
padded_heads[:, 0] = np.nan
padded_heads[selected_root, 0] = 0
chosen_heads, _ = ufal.chu_liu_edmonds.chu_liu_edmonds(padded_heads)
overrides[ud_dataset.HEAD] = chosen_heads[1:]
overrides[ud_dataset.DEPREL] = np.argmax(deprels[b, :sentence_len], axis=-1)
ud_dataset.write_sentence(conllu, sentence, overrides)
sentence += 1
conllu = conllu.getvalue()
if save_as is not None:
os.makedirs(os.path.dirname(save_as), exist_ok=True)
with open(save_as, "w", encoding="utf-8") as conllu_file:
conllu_file.write(conllu)
return conllu
def evaluate(self, dataloader: TorchUDDataLoader, save_as: str|None = None, args_override: argparse.Namespace|None = None) -> tuple[str, dict[str, float]]:
conllu = self.predict(dataloader, save_as=save_as, args_override=args_override)
evaluation = latinpipe_evalatin24_eval.evaluate(dataloader.dataset.ud_dataset.conllu_for_eval, latinpipe_evalatin24_eval.load_conllu(io.StringIO(conllu)))
if save_as is not None:
os.makedirs(os.path.dirname(save_as), exist_ok=True)
with open(save_as + ".eval", "w", encoding="utf-8") as eval_file:
for metric, score in evaluation.items():
print("{}: {:.2f}%".format(metric, 100 * score.f1), file=eval_file)
return conllu, evaluation
class LatinPipeModelEnsemble:
def __init__(self, latinpipe_model: LatinPipeModel, args: argparse.Namespace):
self._latinpipe_model = latinpipe_model
self._args = args
def predict(self, dataloader: TorchUDDataLoader, save_as: str|None = None) -> str:
def log_softmax(logits):
logits -= np.max(logits, axis=-1, keepdims=True)
logits -= np.log(np.sum(np.exp(logits), axis=-1, keepdims=True))
return logits
ud_dataset = dataloader.dataset.ud_dataset
# First compute all predictions
overrides = [[0] * len(ud_dataset) if tag in self._args.tags + ([ud_dataset.HEAD, ud_dataset.DEPREL] if self._args.parse else []) else None
for tag in range(ud_dataset.FACTORS)]
for path in self._args.load:
self._latinpipe_model.load_weights(path)
sentence = 0
for batch_inputs, _, _ in dataloader:
predictions = self._latinpipe_model.predict_on_batch(batch_inputs)
for b in range(len(batch_inputs[0])):
sentence_len = len(ud_dataset.factors[ud_dataset.FORMS].strings[sentence])
for tag, prediction in zip(self._args.tags, predictions):
overrides[tag][sentence] += log_softmax(prediction[b, :sentence_len])
if self._args.parse:
overrides[ud_dataset.HEAD][sentence] += log_softmax(predictions[-2][b, :sentence_len, :sentence_len + 1])
overrides[ud_dataset.DEPREL][sentence] += log_softmax(predictions[-1][b, :sentence_len])
sentence += 1
# Predict the most likely class and generate CoNLL-U output
conllu = io.StringIO()
for sentence in range(len(ud_dataset)):
sentence_overrides = [None] * ud_dataset.FACTORS
for tag in self._args.tags:
sentence_overrides[tag] = np.argmax(overrides[tag][sentence], axis=-1)
if self._args.parse:
padded_heads = np.pad(overrides[ud_dataset.HEAD][sentence], [(1, 0), (0, 0)]).astype(np.float64)
if self._args.single_root:
selected_root = 1 + np.argmax(padded_heads[1:, 0])
padded_heads[:, 0] = np.nan
padded_heads[selected_root, 0] = 0
chosen_heads, _ = ufal.chu_liu_edmonds.chu_liu_edmonds(padded_heads)
sentence_overrides[ud_dataset.HEAD] = chosen_heads[1:]
sentence_overrides[ud_dataset.DEPREL] = np.argmax(overrides[ud_dataset.DEPREL][sentence], axis=-1)
ud_dataset.write_sentence(conllu, sentence, sentence_overrides)
conllu = conllu.getvalue()
if save_as is not None:
os.makedirs(os.path.dirname(save_as), exist_ok=True)
with open(save_as, "w", encoding="utf-8") as conllu_file:
conllu_file.write(conllu)
return conllu
def evaluate(self, dataloader: TorchUDDataLoader, save_as: str|None = None) -> tuple[str, dict[str, float]]:
return LatinPipeModel.evaluate(self, dataloader, save_as=save_as)
def main(params: list[str] | None = None) -> None:
args = parser.parse_args(params)
# If supplied, load configuration from a trained model
if args.load:
with open(os.path.join(os.path.dirname(args.load[0]), "options.json"), mode="r") as options_file:
args = argparse.Namespace(**{k: v for k, v in json.load(options_file).items() if k not in [
"dev", "exp", "load", "test", "threads", "verbose"]})
args = parser.parse_args(params, namespace=args)
else:
assert args.train, "Either --load or --train must be set."
assert args.transformers, "At least one transformer must be specified."
# Post-process arguments
args.embed_tags = [UDDataset.FACTORS_MAP[tag] for tag in args.embed_tags.split(",") if tag]
args.tags = [UDDataset.FACTORS_MAP[tag] for tag in args.tags.split(",") if tag]
args.script = os.path.basename(__file__)
# Create logdir
args.logdir = os.path.join("logs", "{}{}-{}-{}-s{}".format(
args.exp + "-" if args.exp else "",
os.path.splitext(os.path.basename(globals().get("__file__", "notebook")))[0],
os.environ.get("SLURM_JOB_ID", ""),
datetime.datetime.now().strftime("%y%m%d_%H%M%S"),
args.seed,
# ",".join(("{}={}".format(
# re.sub("(.)[^_]*_?", r"\1", k),
# ",".join(re.sub(r"^.*/", "", str(x)) for x in ((v if len(v) <= 1 else [v[0], "..."]) if isinstance(v, list) else [v])),
# ) for k, v in sorted(vars(args).items()) if k not in ["dev", "exp", "load", "test", "threads", "verbose"]))
))
print(json.dumps(vars(args), sort_keys=True, ensure_ascii=False, indent=2))
os.makedirs(args.logdir, exist_ok=True)
with open(os.path.join(args.logdir, "options.json"), mode="w") as options_file:
json.dump(vars(args), options_file, sort_keys=True, ensure_ascii=False, indent=2)
# Set the random seed and the number of threads
keras.utils.set_random_seed(args.seed)
torch.set_num_threads(args.threads)
torch.set_num_interop_threads(args.threads)
# Load the data
if args.treebank_ids and max(len(args.train), len(args.dev), len(args.test)) > 1:
print("WARNING: With treebank_ids, treebanks must always be in the same position in the train/dev/test.")
if args.load:
train = UDDataset.from_mappings(os.path.join(os.path.dirname(args.load[0]), "mappings.pkl"))
else:
train = UDDatasetMerged([UDDataset(path, args, treebank_id=i if args.treebank_ids else None) for i, path in enumerate(args.train)])
train.save_mappings(os.path.join(args.logdir, "mappings.pkl"))
devs = [UDDataset(path, args, treebank_id=i if args.treebank_ids else None, train_dataset=train) for i, path in enumerate(args.dev)]
tests = [UDDataset(path, args, treebank_id=i if args.treebank_ids else None, train_dataset=train) for i, path in enumerate(args.test)]
# Create the model
model = LatinPipeModel(train, args)
# Create the dataloaders
if not args.load:
train_dataloader = TorchUDDataLoader(TorchUDDataset(train, model.tokenizers, args, training=True), args)
dev_dataloaders = [TorchUDDataLoader(TorchUDDataset(dataset, model.tokenizers, args, training=False), args) for dataset in devs]
test_dataloaders = [TorchUDDataLoader(TorchUDDataset(dataset, model.tokenizers, args, training=False), args) for dataset in tests]
# Perform prediction if requested
if args.load:
if len(args.load) > 1:
model = LatinPipeModelEnsemble(model, args)
for dataloader in dev_dataloaders:
model.evaluate(dataloader, save_as=os.path.splitext(
os.path.join(args.exp, os.path.basename(dataloader.dataset.ud_dataset.path)) if args.exp else dataloader.dataset.ud_dataset.path
)[0] + ".predicted.conllu")
for dataloader in test_dataloaders:
model.predict(dataloader, save_as=os.path.splitext(
os.path.join(args.exp, os.path.basename(dataloader.dataset.ud_dataset.path)) if args.exp else dataloader.dataset.ud_dataset.path
)[0] + ".predicted.conllu")
return
# Train the model
class Evaluator(keras.callbacks.Callback):
def __init__(self, wandb_log):
super().__init__()
self._wandb_log = wandb_log
self._metrics = [["", "Lemmas", "UPOS", "XPOS", "UFeats"][tag] for tag in args.tags] + (["UAS", "LAS"] if args.parse else [])
def on_epoch_end(self, epoch, logs=None):
logs["learning_rate"] = keras.ops.convert_to_numpy(model.optimizer.learning_rate)
for dataloader in dev_dataloaders + (test_dataloaders if epoch + 1 == args.epochs + args.epochs_frozen else []):
_, metrics = model.evaluate(dataloader, save_as=os.path.splitext(
os.path.join(args.logdir, os.path.basename(dataloader.dataset.ud_dataset.path))
)[0] + ".{:02d}.conllu".format(epoch + 1))
for metric, score in metrics.items():
if metric in self._metrics:
logs["{}_{}".format(os.path.splitext(os.path.basename(dataloader.dataset.ud_dataset.path))[0], metric)] = 100 * score.f1
aggregations = {"la_ud213": [("la_ittb-ud", 390_787), ("la_llct-ud", 194_143), ("la_proiel-ud", 177_558),
("la_udante-ud", 30_450), ("la_perseus-ud", 16_486)]}
for split in ["dev", "test"]:
for metric in self._metrics:
for aggregation, parts in aggregations.items():
values = [logs.get("{}-{}_{}".format(part, split, metric), None) for part, _ in parts]
if all(value is not None for value in values):
logs["{}-{}_{}".format(aggregation, split, metric)] = np.mean(values)
logs["{}-sqrt-{}_{}".format(aggregation, split, metric)] = np.average(values, weights=[size**0.5 for _, size in parts])
if self._wandb_log:
self._wandb_log(logs, step=epoch + 1, commit=True)
wandb_log = None
if args.wandb:
import wandb
wandb.init(project="ufal-evalatin2024", name=args.exp, config=vars(args))
wandb_log = wandb.log
evaluator = Evaluator(wandb_log)
if args.epochs_frozen:
model.compile(len(train_dataloader), frozen=True)
model.fit(train_dataloader, epochs=args.epochs_frozen, verbose=args.verbose, callbacks=[evaluator])
if args.epochs:
model.compile(len(train_dataloader), frozen=False)
model.fit(train_dataloader, initial_epoch=args.epochs_frozen, epochs=args.epochs_frozen + args.epochs, verbose=args.verbose, callbacks=[evaluator])
if args.save_checkpoint:
model.save_weights(os.path.join(args.logdir, "model.weights.h5"))
if __name__ == "__main__":
main([] if "__file__" not in globals() else None)