CellPilot / SAMHI /resources /SimpleClick /scripts /evaluate_model.py
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import sys
import pickle
import argparse
from pathlib import Path
import cv2
import torch
import numpy as np
sys.path.insert(0, '.')
from isegm.inference import utils
from isegm.utils.exp import load_config_file
from isegm.utils.vis import draw_probmap, draw_with_blend_and_clicks
from isegm.inference.predictors import get_predictor
from isegm.inference.evaluation import evaluate_dataset
from isegm.model.modeling.pos_embed import interpolate_pos_embed_inference
def parse_args():
parser = argparse.ArgumentParser()
parser.add_argument('mode', choices=['NoBRS', 'RGB-BRS', 'DistMap-BRS',
'f-BRS-A', 'f-BRS-B', 'f-BRS-C'],
help='')
group_checkpoints = parser.add_mutually_exclusive_group(required=True)
group_checkpoints.add_argument('--checkpoint', type=str, default='',
help='The path to the checkpoint. '
'This can be a relative path (relative to cfg.INTERACTIVE_MODELS_PATH) '
'or an absolute path. The file extension can be omitted.')
group_checkpoints.add_argument('--exp-path', type=str, default='',
help='The relative path to the experiment with checkpoints.'
'(relative to cfg.EXPS_PATH)')
parser.add_argument('--datasets', type=str, default='GrabCut,Berkeley,DAVIS,PascalVOC,SBD,BraTS,ssTEM,OAIZIB,COCO_MVal',
help='List of datasets on which the model should be tested. '
'Datasets are separated by a comma. Possible choices: '
'GrabCut, Berkeley, DAVIS, SBD, PascalVOC')
group_device = parser.add_mutually_exclusive_group()
group_device.add_argument('--gpus', type=str, default='0',
help='ID of used GPU.')
group_device.add_argument('--cpu', action='store_true', default=False,
help='Use only CPU for inference.')
group_iou_thresh = parser.add_mutually_exclusive_group()
group_iou_thresh.add_argument('--target-iou', type=float, default=0.90,
help='Target IoU threshold for the NoC metric. (min possible value = 0.8)')
group_iou_thresh.add_argument('--iou-analysis', action='store_true', default=False,
help='Plot mIoU(number of clicks) with target_iou=1.0.')
parser.add_argument('--n-clicks', type=int, default=20,
help='Maximum number of clicks for the NoC metric.')
parser.add_argument('--min-n-clicks', type=int, default=1,
help='Minimum number of clicks for the evaluation.')
parser.add_argument('--thresh', type=float, required=False, default=0.49,
help='The segmentation mask is obtained from the probability outputs using this threshold.')
parser.add_argument('--clicks-limit', type=int, default=None)
parser.add_argument('--eval-mode', type=str, default='cvpr',
help="Possible choices: cvpr, fixed<number>, or fixed<number>,<number>,(e.g. fixed400, fixed400,600).")
parser.add_argument('--eval-ritm', action='store_true', default=False)
parser.add_argument('--save-ious', action='store_true', default=False)
parser.add_argument('--print-ious', action='store_true', default=False)
parser.add_argument('--vis-preds', action='store_true', default=False)
parser.add_argument('--model-name', type=str, default=None,
help='The model name that is used for making plots.')
parser.add_argument('--config-path', type=str, default='./config.yml',
help='The path to the config file.')
parser.add_argument('--logs-path', type=str, default='',
help='The path to the evaluation logs. Default path: cfg.EXPS_PATH/evaluation_logs.')
args = parser.parse_args()
if args.cpu:
args.device = torch.device('cpu')
else:
args.device = torch.device(f"cuda:{args.gpus.split(',')[0]}")
if (args.iou_analysis or args.print_ious) and args.min_n_clicks <= 1:
args.target_iou = 1.01
else:
args.target_iou = max(0.8, args.target_iou)
cfg = load_config_file(args.config_path, return_edict=True)
cfg.EXPS_PATH = Path(cfg.EXPS_PATH)
if args.logs_path == '':
args.logs_path = cfg.EXPS_PATH / 'evaluation_logs'
else:
args.logs_path = Path(args.logs_path)
return args, cfg
def main():
args, cfg = parse_args()
checkpoints_list, logs_path, logs_prefix = get_checkpoints_list_and_logs_path(args, cfg)
logs_path.mkdir(parents=True, exist_ok=True)
single_model_eval = len(checkpoints_list) == 1
assert not args.iou_analysis if not single_model_eval else True, \
"Can't perform IoU analysis for multiple checkpoints"
print_header = single_model_eval
for dataset_name in args.datasets.split(','):
dataset = utils.get_dataset(dataset_name, cfg)
for checkpoint_path in checkpoints_list:
model = utils.load_is_model(checkpoint_path, args.device, args.eval_ritm)
predictor_params, zoomin_params = get_predictor_and_zoomin_params(args, dataset_name, eval_ritm=args.eval_ritm)
# For SimpleClick models, we usually need to interpolate the positional embedding
if not args.eval_ritm:
interpolate_pos_embed_inference(model.backbone, zoomin_params['target_size'], args.device)
predictor = get_predictor(model, args.mode, args.device,
prob_thresh=args.thresh,
predictor_params=predictor_params,
zoom_in_params=zoomin_params)
vis_callback = get_prediction_vis_callback(logs_path, dataset_name, args.thresh) if args.vis_preds else None
dataset_results = evaluate_dataset(dataset, predictor, pred_thr=args.thresh,
max_iou_thr=args.target_iou,
min_clicks=args.min_n_clicks,
max_clicks=args.n_clicks,
callback=vis_callback)
row_name = args.mode if single_model_eval else checkpoint_path.stem
if args.iou_analysis:
save_iou_analysis_data(args, dataset_name, logs_path,
logs_prefix, dataset_results,
model_name=args.model_name)
save_results(args, row_name, dataset_name, logs_path, logs_prefix, dataset_results,
save_ious=single_model_eval and args.save_ious,
single_model_eval=single_model_eval,
print_header=print_header)
print_header = False
# # uncomment the following lines for memory analysis
# print("torch.cuda.memory_allocated: %fGB"%(torch.cuda.memory_allocated(0)/1024/1024/1024))
# print("torch.cuda.memory_reserved: %fGB"%(torch.cuda.memory_reserved(0)/1024/1024/1024))
# print("torch.cuda.max_memory_reserved: %fGB"%(torch.cuda.max_memory_reserved(0)/1024/1024/1024))
def get_predictor_and_zoomin_params(args, dataset_name, apply_zoom_in=True, eval_ritm=False):
predictor_params = {}
if args.clicks_limit is not None:
if args.clicks_limit == -1:
args.clicks_limit = args.n_clicks
predictor_params['net_clicks_limit'] = args.clicks_limit
zoom_in_params = None
if apply_zoom_in and eval_ritm:
if args.eval_mode == 'cvpr':
zoom_in_params = {
'target_size': 600 if dataset_name == 'DAVIS' else 400
}
elif args.eval_mode.startswith('fixed'):
crop_size = int(args.eval_mode[5:])
zoom_in_params = {
'skip_clicks': -1,
'target_size': (crop_size, crop_size)
}
else:
raise NotImplementedError
if apply_zoom_in and not eval_ritm:
if args.eval_mode == 'cvpr':
zoom_in_params = {
'skip_clicks': -1,
'target_size': (672, 672) if dataset_name == 'DAVIS' else (448, 448)
}
elif args.eval_mode.startswith('fixed'):
crop_size = args.eval_mode.split(',')
crop_size_h = int(crop_size[0][5:])
crop_size_w = crop_size_h
if len(crop_size) == 2:
crop_size_w = int(crop_size[1])
zoom_in_params = {
'skip_clicks': -1,
'target_size': (crop_size_h, crop_size_w)
}
else:
raise NotImplementedError
return predictor_params, zoom_in_params
def get_checkpoints_list_and_logs_path(args, cfg):
logs_prefix = ''
if args.exp_path:
rel_exp_path = args.exp_path
checkpoint_prefix = ''
if ':' in rel_exp_path:
rel_exp_path, checkpoint_prefix = rel_exp_path.split(':')
exp_path_prefix = cfg.EXPS_PATH / rel_exp_path
candidates = list(exp_path_prefix.parent.glob(exp_path_prefix.stem + '*'))
assert len(candidates) == 1, "Invalid experiment path."
exp_path = candidates[0]
checkpoints_list = sorted((exp_path / 'checkpoints').glob(checkpoint_prefix + '*.pth'), reverse=True)
assert len(checkpoints_list) > 0, "Couldn't find any checkpoints."
if checkpoint_prefix:
if len(checkpoints_list) == 1:
logs_prefix = checkpoints_list[0].stem
else:
logs_prefix = f'all_{checkpoint_prefix}'
else:
logs_prefix = 'all_checkpoints'
logs_path = args.logs_path / exp_path.relative_to(cfg.EXPS_PATH)
else:
checkpoints_list = [Path(utils.find_checkpoint(cfg.INTERACTIVE_MODELS_PATH, args.checkpoint))]
logs_path = args.logs_path / 'others' / checkpoints_list[0].stem
return checkpoints_list, logs_path, logs_prefix
def save_results(args, row_name, dataset_name, logs_path, logs_prefix, dataset_results,
save_ious=False, print_header=True, single_model_eval=False):
all_ious, elapsed_time = dataset_results
mean_spc, mean_spi = utils.get_time_metrics(all_ious, elapsed_time)
iou_thrs = np.arange(0.8, min(0.95, args.target_iou) + 0.001, 0.05).tolist()
noc_list, noc_list_std, over_max_list = utils.compute_noc_metric(all_ious, iou_thrs=iou_thrs, max_clicks=args.n_clicks)
# print(noc_list, noc_list_std)
row_name = 'last' if row_name == 'last_checkpoint' else row_name
model_name = str(logs_path.relative_to(args.logs_path)) + ':' + logs_prefix if logs_prefix else logs_path.stem
header, table_row = utils.get_results_table(noc_list, over_max_list, row_name, dataset_name,
mean_spc, elapsed_time, args.n_clicks,
model_name=model_name)
if args.print_ious:
min_num_clicks = min(len(x) for x in all_ious)
mean_ious = np.array([x[:min_num_clicks] for x in all_ious]).mean(axis=0)
miou_str = ' '.join([f'mIoU@{click_id}={mean_ious[click_id - 1]:.2%};'
for click_id in [_ for _ in range(1, 21)] if click_id <= min_num_clicks])
table_row += '; ' + miou_str
else:
target_iou_int = int(args.target_iou * 100)
if target_iou_int not in [80, 85, 90]:
noc_list, _, over_max_list = utils.compute_noc_metric(all_ious, iou_thrs=[args.target_iou],
max_clicks=args.n_clicks)
table_row += f' NoC@{args.target_iou:.1%} = {noc_list[0]:.2f};'
table_row += f' >={args.n_clicks}@{args.target_iou:.1%} = {over_max_list[0]}'
if print_header:
print(header)
print(table_row)
if save_ious:
ious_path = logs_path / 'ious' / (logs_prefix if logs_prefix else '')
ious_path.mkdir(parents=True, exist_ok=True)
with open(ious_path / f'{dataset_name}_{args.eval_mode}_{args.mode}_{args.n_clicks}.pkl', 'wb') as fp:
pickle.dump(all_ious, fp)
name_prefix = ''
if logs_prefix:
name_prefix = logs_prefix + '_'
if not single_model_eval:
name_prefix += f'{dataset_name}_'
log_path = logs_path / f'{name_prefix}{args.eval_mode}_{args.mode}_{args.n_clicks}.txt'
if log_path.exists():
with open(log_path, 'a') as f:
f.write(table_row + '\n')
else:
with open(log_path, 'w') as f:
if print_header:
f.write(header + '\n')
f.write(table_row + '\n')
def save_iou_analysis_data(args, dataset_name, logs_path, logs_prefix, dataset_results, model_name=None):
all_ious, _ = dataset_results
name_prefix = ''
if logs_prefix:
name_prefix = logs_prefix + '_'
name_prefix += dataset_name + '_'
if model_name is None:
model_name = str(logs_path.relative_to(args.logs_path)) + ':' + logs_prefix if logs_prefix else logs_path.stem
pkl_path = logs_path / f'plots/{name_prefix}{args.eval_mode}_{args.mode}_{args.n_clicks}.pickle'
pkl_path.parent.mkdir(parents=True, exist_ok=True)
with pkl_path.open('wb') as f:
pickle.dump({
'dataset_name': dataset_name,
'model_name': f'{model_name}_{args.mode}',
'all_ious': all_ious
}, f)
def get_prediction_vis_callback(logs_path, dataset_name, prob_thresh):
save_path = logs_path / 'predictions_vis' / dataset_name
save_path.mkdir(parents=True, exist_ok=True)
def callback(image, gt_mask, pred_probs, sample_id, click_indx, clicks_list):
sample_path = save_path / f'{sample_id}_{click_indx}.jpg'
prob_map = draw_probmap(pred_probs)
image_with_mask = draw_with_blend_and_clicks(image, pred_probs > prob_thresh, clicks_list=clicks_list)
cv2.imwrite(str(sample_path), np.concatenate((image_with_mask, prob_map), axis=1)[:, :, ::-1])
return callback
if __name__ == '__main__':
main()