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import argparse
import json
import logging
import os
from pathlib import Path
import re
import sys
from http.server import BaseHTTPRequestHandler, HTTPServer
from typing import Iterator, List, Optional, Tuple
from urllib import parse
from relik.inference.annotator import Relik
from relik.inference.data.objects import RelikOutput
# sys.path += ['../']
sys.path.insert(0, os.path.abspath(os.path.join(os.path.dirname(__file__), "../")))
logger = logging.getLogger(__name__)
class GerbilAlbyManager:
def __init__(
self,
annotator: Optional[Relik] = None,
response_logger_dir: Optional[str] = None,
) -> None:
self.annotator = annotator
self.response_logger_dir = response_logger_dir
self.predictions_counter = 0
self.labels_mapping = None
def annotate(self, document: str):
relik_output: RelikOutput = self.annotator(
document, retriever_batch_size=2, reader_batch_size=1
)
annotations = [(ss, se, l) for ss, se, l, _ in relik_output.spans]
if self.labels_mapping is not None:
return [
(ss, se, self.labels_mapping.get(l, l)) for ss, se, l in annotations
]
return annotations
def set_mapping_file(self, mapping_file_path: str):
with open(mapping_file_path) as f:
labels_mapping = json.load(f)
self.labels_mapping = {v: k for k, v in labels_mapping.items()}
def write_response_bundle(
self,
document: str,
new_document: str,
annotations: list,
mapped_annotations: list,
) -> None:
if self.response_logger_dir is None:
return
if not os.path.isdir(self.response_logger_dir):
os.mkdir(self.response_logger_dir)
with open(
f"{self.response_logger_dir}/{self.predictions_counter}.json", "w"
) as f:
out_json_obj = dict(
document=document,
new_document=new_document,
annotations=annotations,
mapped_annotations=mapped_annotations,
)
out_json_obj["span_annotations"] = [
(ss, se, document[ss:se], label) for (ss, se, label) in annotations
]
out_json_obj["span_mapped_annotations"] = [
(ss, se, new_document[ss:se], label)
for (ss, se, label) in mapped_annotations
]
json.dump(out_json_obj, f, indent=2)
self.predictions_counter += 1
manager = GerbilAlbyManager()
def preprocess_document(document: str) -> Tuple[str, List[Tuple[int, int]]]:
pattern_subs = {
"-LPR- ": " (",
"-RPR-": ")",
"\n\n": "\n",
"-LRB-": "(",
"-RRB-": ")",
'","': ",",
}
document_acc = document
curr_offset = 0
char2offset = []
matchings = re.finditer("({})".format("|".join(pattern_subs)), document)
for span_matching in sorted(matchings, key=lambda x: x.span()[0]):
span_start, span_end = span_matching.span()
span_start -= curr_offset
span_end -= curr_offset
span_text = document_acc[span_start:span_end]
span_sub = pattern_subs[span_text]
document_acc = document_acc[:span_start] + span_sub + document_acc[span_end:]
offset = len(span_text) - len(span_sub)
curr_offset += offset
char2offset.append((span_start + len(span_sub), curr_offset))
return document_acc, char2offset
def map_back_annotations(
annotations: List[Tuple[int, int, str]], char_mapping: List[Tuple[int, int]]
) -> Iterator[Tuple[int, int, str]]:
def map_char(char_idx: int) -> int:
current_offset = 0
for offset_idx, offset_value in char_mapping:
if char_idx >= offset_idx:
current_offset = offset_value
else:
break
return char_idx + current_offset
for ss, se, label in annotations:
yield map_char(ss), map_char(se), label
def annotate(document: str) -> List[Tuple[int, int, str]]:
new_document, mapping = preprocess_document(document)
logger.info("Mapping: " + str(mapping))
logger.info("Document: " + str(document))
annotations = [
(cs, ce, label.replace(" ", "_"))
for cs, ce, label in manager.annotate(new_document)
]
logger.info("New document: " + str(new_document))
mapped_annotations = (
list(map_back_annotations(annotations, mapping))
if len(mapping) > 0
else annotations
)
logger.info(
"Annotations: "
+ str([(ss, se, document[ss:se], ann) for ss, se, ann in mapped_annotations])
)
manager.write_response_bundle(
document, new_document, mapped_annotations, annotations
)
if not all(
[
new_document[ss:se] == document[mss:mse]
for (mss, mse, _), (ss, se, _) in zip(mapped_annotations, annotations)
]
):
diff_mappings = [
(new_document[ss:se], document[mss:mse])
for (mss, mse, _), (ss, se, _) in zip(mapped_annotations, annotations)
]
return None
assert all(
[
document[mss:mse] == new_document[ss:se]
for (mss, mse, _), (ss, se, _) in zip(mapped_annotations, annotations)
]
), (mapped_annotations, annotations)
return [(cs, ce - cs, label) for cs, ce, label in mapped_annotations]
class GetHandler(BaseHTTPRequestHandler):
def do_POST(self):
content_length = int(self.headers["Content-Length"])
post_data = self.rfile.read(content_length)
self.send_response(200)
self.end_headers()
doc_text = read_json(post_data)
# try:
response = annotate(doc_text)
self.wfile.write(bytes(json.dumps(response), "utf-8"))
return
def read_json(post_data):
data = json.loads(post_data.decode("utf-8"))
# logger.info("received data:", data)
text = data["text"]
# spans = [(int(j["start"]), int(j["length"])) for j in data["spans"]]
return text
def parse_args() -> argparse.Namespace:
parser = argparse.ArgumentParser()
parser.add_argument("--relik-model-name", required=True)
parser.add_argument("--responses-log-dir")
parser.add_argument("--log-file", default="experiments/logging.txt")
parser.add_argument("--mapping-file")
return parser.parse_args()
def main():
args = parse_args()
responses_log_dir = Path(args.responses_log_dir)
responses_log_dir.mkdir(parents=True, exist_ok=True)
# init manager
manager.response_logger_dir = args.responses_log_dir
manager.annotator = Relik.from_pretrained(
args.relik_model_name,
device="cuda",
# document_index_device="cpu",
# document_index_precision="fp32",
# reader_device="cpu",
precision="fp16", # , reader_device="cpu", reader_precision="fp32"
dataset_kwargs={"use_nme": True}
)
# print("Debugging, not using you relik model but an hardcoded one.")
# manager.annotator = Relik(
# question_encoder="riccorl/relik-retriever-aida-blink-pretrain-omniencoder",
# document_index="riccorl/index-relik-retriever-aida-blink-pretrain-omniencoder",
# reader="relik/reader/models/relik-reader-deberta-base-new-data",
# window_size=32,
# window_stride=16,
# candidates_preprocessing_fn=(lambda x: x.split("<def>")[0].strip()),
# )
if args.mapping_file is not None:
manager.set_mapping_file(args.mapping_file)
# port = 6654
port = 5555
server = HTTPServer(("localhost", port), GetHandler)
logger.info(f"Starting server at http://localhost:{port}")
# Create a file handler and set its level
file_handler = logging.FileHandler(args.log_file)
file_handler.setLevel(logging.DEBUG)
# Create a log formatter and set it on the handler
formatter = logging.Formatter(
"%(asctime)s - %(name)s - %(levelname)s - %(message)s"
)
file_handler.setFormatter(formatter)
# Add the file handler to the logger
logger.addHandler(file_handler)
try:
server.serve_forever()
except KeyboardInterrupt:
exit(0)
if __name__ == "__main__":
main()
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