ExplainableVQA / MedEvalKit /utils /base_dataset.py
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import torch
import os
import json
from tqdm import tqdm
import gc
from .utils import save_json
class BaseDataset:
def __init__(self):
self.chunk_idx = int(os.environ.get("chunk_idx",0))
self.num_chunks = int(os.environ.get("num_chunks",1))
def run(self,samples,model,batch_size = 2000):
out_samples = []
with torch.no_grad():
messages_list = []
current_messages = []
current_samples = []
for sample in tqdm(samples):
messages = sample["messages"]
current_messages.append(messages)
current_samples.append(sample)
if len(current_messages) >= batch_size:
messages_list.append([current_messages,current_samples])
current_messages = []
current_samples = []
if current_messages:
messages_list.append([current_messages,current_samples])
for current_messages,current_samples in tqdm(messages_list):
outputs = model.generate_outputs(current_messages)
try:
for sample,response in zip(current_samples,outputs):
del sample["messages"]
sample["response"] = response
out_samples.append(sample)
except Exception as e:
from pdb import set_trace;set_trace()
print(e)
gc.collect()
return out_samples
def cal_matrics(self):
pass
def init_dataset(self):
pass
def construct_messages(self):
pass
def eval(self):
model = self.model
dataset_path = self.dataset_path
output_path = self.output_path
num_chunks = self.num_chunks
chunk_idx = self.chunk_idx
if num_chunks == 1:
results_path = os.path.join(output_path,"results.json")
matric_path = os.path.join(output_path,"metrics.json")
out_samples = self.run(self.samples,model)
save_json(results_path,out_samples)
metrics,out_samples = self.cal_metrics(out_samples)
save_json(matric_path,metrics)
save_json(results_path,out_samples)
return metrics
elif num_chunks > 1:
results_path = os.path.join(output_path,f"results_{chunk_idx}.json")
final_results_path = os.path.join(output_path,"results.json")
out_samples = self.run(self.samples,model)
save_json(results_path,out_samples)
total_results_path = os.listdir(output_path)
total_results_path = [result for result in total_results_path if result.startswith("results_")]
if len(total_results_path) == num_chunks:
total_results = []
for result in total_results_path:
results_path = os.path.join(output_path,result)
with open(results_path,"r") as f:
total_results.extend(json.load(f))
save_json(final_results_path,total_results)
metrics,out_samples = self.cal_metrics(total_results)
matric_path = os.path.join(output_path,"metrics.json")
save_json(matric_path,metrics)
save_json(final_results_path,out_samples)
return metrics
else:
return None
else:
raise ValueError("num_chunks must be greater than 0")
def _download_file_local(self,local_path,url):
# download the specific file to local_path
os.makedirs(local_path,exist_ok=True)
# Extract filename from URL
filename = url.split("/")[-1]
file_path = os.path.join(local_path, filename)
# Check if wget or curl is available
if os.system("which wget > /dev/null 2>&1") == 0:
download_cmd = f"wget {url} -O {file_path}"
elif os.system("which curl > /dev/null 2>&1") == 0:
download_cmd = f"curl -L {url} -o {file_path}"
else:
raise RuntimeError("Neither wget nor curl is available for downloading")
# Download with error handling
if os.system(download_cmd) != 0:
if os.path.exists(file_path):
os.remove(file_path)
raise RuntimeError("Failed to download dataset")
def _unzip_img_zip_local(self, local_path, zip_filename):
# suppose zip_filename is like 'images.zip' or 'data.tgz'
zip_file_path = os.path.join(local_path, zip_filename)
if zip_filename.endswith('.zip'):
if os.system(f"unzip -q {zip_file_path} -d {local_path}") != 0:
if os.path.exists(zip_file_path):
os.remove(zip_file_path)
raise RuntimeError("Failed to extract dataset")
elif zip_filename.endswith('.tgz') or zip_filename.endswith('.tar.gz'):
if os.system(f"tar -xzf {zip_file_path} -C {local_path}") != 0:
if os.path.exists(zip_file_path):
os.remove(zip_file_path)
raise RuntimeError("Failed to extract dataset")
else:
if os.path.exists(zip_file_path):
os.remove(zip_file_path)
raise RuntimeError(f"Unsupported file format: {zip_filename}")
if os.path.exists(zip_file_path):
os.remove(zip_file_path)