SaProt / scripts /utils /generate_lmdb.py
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import lmdb
import os
from tqdm import tqdm
from scripts.utils.others import TimeCounter
_10TB = 10995116277760
_1TB = 1099511627776
_1GB = 1073741824
# Get length of lmdb
def get_length(lmdb_dir):
env = lmdb.open(lmdb_dir, readonly=True, map_size=_1GB)
operator = env.begin()
length = int(operator.get('length'.encode()).decode())
env.close()
return length
# dump dict to lmdb
def dump_lmdb(data_dict, lmdb_dir, verbose=True):
os.makedirs(lmdb_dir, exist_ok=True)
# open lmdb
env = lmdb.open(lmdb_dir, map_size=_10TB)
with env.begin(write=True) as operator:
if verbose:
iter_dict = tqdm(data_dict.items(), desc="Dumping data...")
else:
iter_dict = data_dict.items()
for k, v in iter_dict:
operator.put(key=str(k).encode(), value=str(v).encode())
env.close()
# Dump jsonl to lmdb
def jsonl2lmdb(jsonl_path, lmdb_dir):
os.makedirs(lmdb_dir, exist_ok=True)
# open lmdb
env = lmdb.open(lmdb_dir, map_size=_10TB)
with env.begin(write=True) as operator:
with TimeCounter("Loading data..."):
with open(jsonl_path, 'r', encoding='utf-8') as r:
cnt = 0
for line in tqdm(r, desc="Parsing jsonl..."):
operator.put(key=str(cnt).encode(), value=line.encode())
cnt += 1
info = "Keys are as follows:\n" \
" info: decription of dataset\n" \
" length: length of data\n" \
" 0 ~ length-1: index of each data\n"
operator.put(key='info'.encode(), value=info.encode())
operator.put(key='length'.encode(), value=str(cnt).encode())
env.close()