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MNMS_train.py
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712 lines (572 loc) · 30.5 KB
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import argparse
import logging
import os
import random
import shutil
import sys
from typing import Iterable
import numpy as np
import torch
import torch.backends.cudnn as cudnn
import torch.optim as optim
from tensorboardX import SummaryWriter
from torch.nn.modules.loss import CrossEntropyLoss
from torch.utils.data import DataLoader
from torchvision import transforms
from tqdm import tqdm
from networks.unet_model_avg import UNet
from dataloaders.dataloader import FundusSegmentation, ProstateSegmentation, MNMSSegmentation
import dataloaders.custom_transforms as tr
from utils import losses, metrics, ramps, util
from torch.cuda.amp import autocast, GradScaler
import contextlib
import torch.nn.functional as F
from einops import rearrange
import torch
from medpy.metric import binary
parser = argparse.ArgumentParser()
parser.add_argument('--dataset', type=str, default='MNMS')
parser.add_argument("--save_name", type=str, default="BCMDA", help="experiment_name")
parser.add_argument("--overwrite", action='store_true')
parser.add_argument("--model", type=str, default="unet", help="model_name")
parser.add_argument("--max_iterations", type=int, default=60000, help="maximum epoch number to train")
parser.add_argument('--num_eval_iter', type=int, default=500)
parser.add_argument("--deterministic", type=int, default=1, help="whether use deterministic training")
parser.add_argument("--base_lr", type=float, default=0.03, help="segmentation network learning rate")
parser.add_argument("--seed", type=int, default=1337, help="random seed")
parser.add_argument("--gpu", type=str, default='0')
parser.add_argument('--load',action='store_true')
parser.add_argument('--load_path',type=str,default='../model/lb1_ratio0.2/iter_6000.pth')
parser.add_argument("--threshold", type=float, default=0.95, help="confidence threshold for using pseudo-labels",)
parser.add_argument('--amp', type=int, default=1, help='use mixed precision training or not')
parser.add_argument("--label_bs", type=int, default=4, help="labeled_batch_size per gpu")
parser.add_argument("--unlabel_bs", type=int, default=4)
parser.add_argument("--test_bs", type=int, default=1)
parser.add_argument('--domain_num', type=int, default=4)
parser.add_argument('--lb_domain', type=int, default=1)
parser.add_argument('--lb_num', type=int, default=20)
parser.add_argument("--ema_decay", type=float, default=0.99, help="ema_decay")
parser.add_argument("--consistency_type", type=str, default="mse", help="consistency_type")
parser.add_argument("--consistency", type=float, default=1.0, help="consistency")
parser.add_argument("--consistency_rampup", type=float, default=200.0, help="consistency_rampup")
parser.add_argument("--cutmix_prob", default=1.0, type=float)
parser.add_argument("--fix_r", default=0.65, type=float)
parser.add_argument("--beta_a", default=1.0, type=float)
parser.add_argument("--corr_resolution", default=72, type=int)
parser.add_argument("--temp", default=0.05, type=float)
parser.add_argument('--data_path', type=str, default='../data/mnms')
args = parser.parse_args()
def get_current_consistency_weight(epoch):
# Consistency ramp-up from https://arxiv.org/abs/1610.02242
return args.consistency * ramps.sigmoid_rampup(epoch, args.consistency_rampup)
def update_ema_variables(model, ema_model, alpha, global_step):
# teacher network: ema_model
# student network: model
# Use the true average until the exponential average is more correct
alpha = min(1 - 1 / (global_step + 1), alpha)
for ema_param, param in zip(ema_model.parameters(), model.parameters()):
ema_param.data.mul_(alpha).add_(param.data, alpha=1 - alpha)
def cycle(iterable: Iterable):
"""Make an iterator returning elements from the iterable.
.. note::
**DO NOT** use `itertools.cycle` on `DataLoader(shuffle=True)`.\n
Because `itertools.cycle` saves a copy of each element, batches are shuffled only at the first epoch. \n
See https://docs.python.org/3/library/itertools.html#itertools.cycle for more details.
"""
while True:
for x in iterable:
yield x
def to_3d(input_tensor):
input_tensor = input_tensor.unsqueeze(1)
tensor_list = []
for i in range(1, 4):
temp_prob = input_tensor == i * torch.ones_like(input_tensor)
tensor_list.append(temp_prob)
output_tensor = torch.cat(tensor_list, dim=1)
return output_tensor.float()
part = ['lv', 'myo', 'rv']
dataset = MNMSSegmentation
n_part = len(part)
dice_calcu = {'fundus': metrics.dice_coeff_2label, 'prostate': metrics.dice_coeff, 'MNMS': metrics.dice_coeff_3label}
def generate_new_image_1c(last_fts1, last_fts2, image1, image2, w=96, size=384):
last_fts1 = F.interpolate(last_fts1.detach(), (w, w), mode='bilinear', align_corners=True)
last_fts2 = F.interpolate(last_fts2.detach(), (w, w), mode='bilinear', align_corners=True)
image1 = F.interpolate(image1, (w, w), mode='bilinear', align_corners=True)
image2 = F.interpolate(image2, (w, w), mode='bilinear', align_corners=True)
image1 = rearrange(image1, 'n c h w -> n c (h w)')
image2 = rearrange(image2, 'n c h w -> n c (h w)')
f1 = rearrange(last_fts1.detach(), 'n c h w -> n c (h w)')
f2 = rearrange(last_fts2.detach(), 'n c h w -> n c (h w)')
#
corr_map_1_2 = torch.matmul(f1.transpose(1, 2), f2) / torch.sqrt(torch.tensor(f1.shape[1]).float())
#
corr_map_2_1 = corr_map_1_2.transpose(1, 2).clone()
corr_map_1_2 = F.softmax(corr_map_1_2, dim=-1)
corr_map_2_1 = F.softmax(corr_map_2_1, dim=-1)
#
new_image1 = rearrange(torch.matmul(image2, corr_map_2_1), 'n c (h w) -> n c h w', h=w, w=w)
new_image2 = rearrange(torch.matmul(image1, corr_map_1_2), 'n c (h w) -> n c h w', h=w, w=w)
new_image1 = torch.clip(new_image1, 0.0, 255.0)
new_image2 = torch.clip(new_image2, 0.0, 255.0)
#
new_image1 = F.interpolate(new_image1.detach(), (size, size), mode='bilinear', align_corners=True)
new_image2 = F.interpolate(new_image2.detach(), (size, size), mode='bilinear', align_corners=True)
new_image1 = torch.clip(new_image1, 0.0, 255.0)
new_image2 = torch.clip(new_image2, 0.0, 255.0)
new_image1 = new_image1 / 127.5 - 1.0
new_image2 = new_image2 / 127.5 - 1.0
return new_image1, new_image2
@torch.no_grad()
def test_all(args, model, test_dataloader, epoch):
model.eval()
val_dice = [0.0] * n_part
val_dc, val_jc, val_hd, val_asd = [0.0] * n_part, [0.0] * n_part, [0.0] * n_part, [0.0] * n_part
domain_num = len(test_dataloader)
num = 0
for i in range(domain_num):
cur_dataloader = test_dataloader[i]
domain_val_dice = [0.0] * n_part
domain_val_dc, domain_val_jc, domain_val_hd, domain_val_asd = [0.0] * n_part, [0.0] * n_part, [0.0] * n_part, [
0.0] * n_part
domain_code = i + 1
for batch_num, sample in enumerate(cur_dataloader):
data = sample['image'].cuda()
mask = sample['label'].cuda()
mask_ = mask[:, ..., 0].eq(255).float()
mask_[mask[:, ..., 1].eq(255)] = 2
mask_[mask[:, ..., 2].eq(255)] = 3
mask = mask_.long()
res_test = model(data)
output_linear = model.classify_linear(res_test['last_fts'])
output = output_linear
p_linear = torch.softmax(output_linear, dim=1)
pred_prob = p_linear
pred_prob = pred_prob.cpu()
mask = mask.cpu()
output = output.cpu()
pred_label = torch.max(pred_prob, dim=1)[1]
pred_onehot = to_3d(pred_label)
mask_onehot = to_3d(mask)
dice = dice_calcu[args.dataset](np.asarray(pred_label), mask)
dc, jc, hd, asd = [0.0] * n_part, [0.0] * n_part, [0.0] * n_part, [0.0] * n_part
for j in range(len(data)):
for i, p in enumerate(part):
dc[i] += binary.dc(np.asarray(pred_onehot[j, i], dtype=bool),
np.asarray(mask_onehot[j, i], dtype=bool))
jc[i] += binary.jc(np.asarray(pred_onehot[j, i], dtype=bool),
np.asarray(mask_onehot[j, i], dtype=bool))
if pred_onehot[j, i].float().sum() < 1e-4:
hd[i] += 100
asd[i] += 100
else:
hd[i] += binary.hd95(np.asarray(pred_onehot[j, i], dtype=bool),
np.asarray(mask_onehot[j, i], dtype=bool))
asd[i] += binary.asd(np.asarray(pred_onehot[j, i], dtype=bool),
np.asarray(mask_onehot[j, i], dtype=bool))
for i, p in enumerate(part):
dc[i] /= len(data)
jc[i] /= len(data)
hd[i] /= len(data)
asd[i] /= len(data)
for i in range(len(domain_val_dice)):
domain_val_dice[i] += dice[i]
domain_val_dc[i] += dc[i]
domain_val_jc[i] += jc[i]
domain_val_hd[i] += hd[i]
domain_val_asd[i] += asd[i]
for i in range(len(domain_val_dice)):
domain_val_dice[i] /= len(cur_dataloader)
val_dice[i] += domain_val_dice[i]
domain_val_dc[i] /= len(cur_dataloader)
val_dc[i] += domain_val_dc[i]
domain_val_jc[i] /= len(cur_dataloader)
val_jc[i] += domain_val_jc[i]
domain_val_hd[i] /= len(cur_dataloader)
val_hd[i] += domain_val_hd[i]
domain_val_asd[i] /= len(cur_dataloader)
val_asd[i] += domain_val_asd[i]
text = 'domain%d lb_domain %d :' % (domain_code, epoch)
text += '\n\t'
for n, p in enumerate(part):
text += 'val_%s_dice: %f, ' % (p, domain_val_dice[n])
text += '\n\t'
for n, p in enumerate(part):
text += 'val_%s_dc: %f, ' % (p, domain_val_dc[n])
text += '\t'
for n, p in enumerate(part):
text += 'val_%s_jc: %f, ' % (p, domain_val_jc[n])
text += '\n\t'
for n, p in enumerate(part):
text += 'val_%s_hd: %f, ' % (p, domain_val_hd[n])
text += '\t'
for n, p in enumerate(part):
text += 'val_%s_asd: %f, ' % (p, domain_val_asd[n])
logging.info(text)
model.train()
for i in range(len(val_dice)):
val_dice[i] /= domain_num
val_dc[i] /= domain_num
val_jc[i] /= domain_num
val_hd[i] /= domain_num
val_asd[i] /= domain_num
text = 'lb_domain %d :' % (epoch)
text += '\n\t'
avg = 0.0
for n, p in enumerate(part):
text += 'val_%s_dice: %f, ' % (p, val_dice[n])
avg += val_dice[n]
avg = avg / len(val_dice)
text += 'val_avg_dice: %f, ' % (avg)
text += '\n\t'
avg = 0.0
for n, p in enumerate(part):
text += 'val_%s_dc: %f, ' % (p, val_dc[n])
avg += val_dc[n]
avg = avg / len(val_dc)
text += 'val_avg_dc: %f, ' % (avg)
text += '\t'
avg = 0.0
for n, p in enumerate(part):
text += 'val_%s_jc: %f, ' % (p, val_jc[n])
avg += val_jc[n]
avg = avg / len(val_jc)
text += 'val_avg_jc: %f, ' % (avg)
text += '\n\t'
avg = 0.0
for n, p in enumerate(part):
text += 'val_%s_hd: %f, ' % (p, val_hd[n])
avg += val_hd[n]
avg = avg / len(val_hd)
text += 'val_avg_hd: %f, ' % (avg)
text += '\t'
avg = 0.0
for n, p in enumerate(part):
text += 'val_%s_asd: %f, ' % (p, val_asd[n])
avg += val_asd[n]
avg = avg / len(val_asd)
text += 'val_avg_asd: %f, ' % (avg)
logging.info(text)
return val_dc
def obtain_cutmix_box(img_size, p=0.5, size_min=0.02, size_max=0.4, ratio_1=0.3, ratio_2=1/0.3):
mask = torch.zeros(img_size, img_size).cuda()
if random.random() > p:
return mask
size = np.random.uniform(size_min, size_max) * img_size * img_size
while True:
ratio = np.random.uniform(ratio_1, ratio_2)
cutmix_w = int(np.sqrt(size / ratio))
cutmix_h = int(np.sqrt(size * ratio))
x = np.random.randint(0, img_size)
y = np.random.randint(0, img_size)
if x + cutmix_w <= img_size and y + cutmix_h <= img_size:
break
mask[y:y + cutmix_h, x:x + cutmix_w] = 1
return mask
def train(args, snapshot_path):
writer = SummaryWriter(snapshot_path + '/log')
base_lr = args.base_lr
num_channels = 1
patch_size = 288
num_classes = 4
min_v, max_v = 0.1, 2
fillcolor = 0
args.domain_num = 4
max_iterations = args.max_iterations
weak = transforms.Compose([tr.RandomScaleCrop(patch_size),
tr.RandomScaleRotate(fillcolor=fillcolor),
tr.RandomHorizontalFlip(),
tr.elastic_transform(),
])
strong = transforms.Compose([
tr.Brightness(min_v, max_v),
tr.Contrast(min_v, max_v),
tr.GaussianBlur(kernel_size=int(0.1 * patch_size), num_channels=num_channels),
])
normal_toTensor = transforms.Compose([
tr.Normalize_tf(),
tr.ToTensor()
])
domain_num = args.domain_num
domain = list(range(1,domain_num+1))
domain_len = [1030, 1342, 525, 550]
lb_domain = args.lb_domain
data_num = domain_len[lb_domain-1]
lb_num = args.lb_num
lb_idxs = list(range(lb_num))
unlabeled_idxs = list(range(lb_num, data_num))
test_dataset = []
test_dataloader = []
lb_dataset = dataset(base_dir=train_data_path, phase='train', splitid=lb_domain, domain=[lb_domain],
selected_idxs = lb_idxs, weak_transform=weak,normal_toTensor=normal_toTensor)
ulb_dataset = dataset(base_dir=train_data_path, phase='train', splitid=lb_domain, domain=domain,
selected_idxs=unlabeled_idxs, weak_transform=weak, strong_tranform=strong,normal_toTensor=normal_toTensor)
for i in range(1, domain_num+1):
cur_dataset = dataset(base_dir=train_data_path, phase='test', splitid=-1, domain=[i], normal_toTensor=normal_toTensor)
test_dataset.append(cur_dataset)
nws = 2
lb_dataloader = cycle(DataLoader(lb_dataset, batch_size = args.label_bs, shuffle=True, num_workers=nws, pin_memory=True, drop_last=True))
ulb_dataloader = cycle(DataLoader(ulb_dataset, batch_size = args.unlabel_bs, shuffle=True, num_workers=nws, pin_memory=True, drop_last=True))
for i in range(0,domain_num):
cur_dataloader = DataLoader(test_dataset[i], batch_size = args.test_bs, shuffle=False, num_workers=0, pin_memory=True)
test_dataloader.append(cur_dataloader)
def create_model(ema=False):
# Network definition
if args.model == 'unet':
model = UNet(n_channels = num_channels, n_classes = num_classes, temp=args.temp)
if ema:
for param in model.parameters():
param.detach_()
return model.cuda()
model = create_model()
ema_model = create_model(ema=True)
iter_num = 0
start_epoch = 0
# instantiate optimizers
optimizer = optim.SGD(model.parameters(), lr=base_lr, momentum=0.9, weight_decay=0.0001)
# set to train
ce_loss = CrossEntropyLoss(reduction='none')
softmax, sigmoid, multi = True, False, False
dice_loss = losses.DiceLossWithMask(num_classes)
logging.info("{} iterations per epoch".format(args.num_eval_iter))
max_epoch = max_iterations // args.num_eval_iter
stu_best_dice = [0.0] * n_part
stu_best_dice_iter = [-1] *n_part
stu_best_avg_dice = 0.0
stu_best_avg_dice_iter = -1
stu_dice_of_best_avg = [0.0] * n_part
iter_num = int(iter_num)
threshold = args.threshold
scaler = GradScaler()
amp_cm = autocast if args.amp else contextlib.nullcontext
for epoch_num in range(start_epoch, max_epoch):
loss_ul1_avg = util.AverageMeter()
loss_lu1_avg = util.AverageMeter()
loss_ul2_avg = util.AverageMeter()
loss_lu2_avg = util.AverageMeter()
loss_avg = util.AverageMeter()
mask_avg = util.AverageMeter()
model.train()
ema_model.train()
p_bar = tqdm(range(args.num_eval_iter))
p_bar.set_description(f'No. {epoch_num+1}')
for i_batch in range(1, args.num_eval_iter+1):
lb_sample = next(lb_dataloader)
ulb_sample = next(ulb_dataloader)
lb_x_w, lb_y = lb_sample['image'], lb_sample['label']
ulb_x_w, ulb_x_s, ulb_y = ulb_sample['image'], ulb_sample['strong_aug'], ulb_sample['label']
lb_dc, ulb_dc = lb_sample['dc'].cuda(), ulb_sample['dc'].cuda()
lb_x_w, lb_y, ulb_x_w, ulb_x_s, ulb_y = lb_x_w.cuda(), lb_y.cuda(), ulb_x_w.cuda(), ulb_x_s.cuda(), ulb_y.cuda()
lb_x_w_raw, ulb_x_w_raw = lb_sample['image_raw'], ulb_sample['image_raw']
lb_x_w_raw, ulb_x_w_raw = lb_x_w_raw.unsqueeze(1), ulb_x_w_raw.unsqueeze(1)
lb_x_w_raw, ulb_x_w_raw = lb_x_w_raw.cuda(), ulb_x_w_raw.cuda()
lb_mask = lb_y[:,...,0].eq(255).float()
lb_mask[lb_y[:,...,1].eq(255)] = 2
lb_mask[lb_y[:,...,2].eq(255)] = 3
lb_mask = lb_mask.long()
with amp_cm():
with torch.no_grad():
label_box1 = torch.stack(
[obtain_cutmix_box(img_size=patch_size, p=args.cutmix_prob) for i in range(len(ulb_x_s))],
dim=0)
img_box1 = label_box1.unsqueeze(1)
#
label_box2 = torch.stack(
[obtain_cutmix_box(img_size=patch_size, p=args.cutmix_prob) for i in range(len(ulb_x_s))],
dim=0)
img_box2 = label_box2.unsqueeze(1)
res_ulb_x_w = ema_model(ulb_x_w)
last_fts_ulb_x_w_ema = res_ulb_x_w['last_fts']
logits_ulb_x_w_sim = ema_model.classify_sim_avg(last_fts_ulb_x_w_ema)
logits_ulb_x_w_linear = ema_model.classify_linear(last_fts_ulb_x_w_ema)
prob_ulb_sim = torch.softmax(logits_ulb_x_w_sim, dim=1)
prob_ulb_linear = torch.softmax(logits_ulb_x_w_linear, dim=1)
fore_prob_ulb_sim, _ = torch.max(prob_ulb_sim[:,1:,:,:], dim=1)
better_mask_ulb = (fore_prob_ulb_sim > threshold).float().unsqueeze(1)
prob_ulb_x_w_ = prob_ulb_sim * better_mask_ulb + prob_ulb_linear * (1 - better_mask_ulb)
res_lb_x_w = ema_model(lb_x_w)
last_fts_lb_x_w_ema = res_lb_x_w['last_fts']
same_domain = (lb_dc == ulb_dc).bool()
consistency_weight = get_current_consistency_weight(
iter_num // (args.max_iterations / args.consistency_rampup))
with torch.no_grad():
new_lb_x_w, new_ulb_x_w = generate_new_image_1c(last_fts_lb_x_w_ema, last_fts_ulb_x_w_ema,
lb_x_w_raw.clone(),
ulb_x_w_raw.clone(), args.corr_resolution, patch_size)
new_lb_x_w, new_ulb_x_w = new_lb_x_w.float(), new_ulb_x_w.float()
fix_r = args.fix_r
beta_a = args.beta_a
process = iter_num / max_iterations
upper = min(fix_r, process)
mix_r = np.random.beta(beta_a, beta_a) * upper
mix_lb_fix_w = (1 - fix_r) * lb_x_w + fix_r * new_lb_x_w
mix_ulb_fix_w = (1 - fix_r) * ulb_x_w + fix_r * new_ulb_x_w
mix_lb_w = (1 - mix_r) * lb_x_w + mix_r * new_lb_x_w
res_mix_ulb_fix_w = ema_model(mix_ulb_fix_w)
logits_mix_ulb_fix_w_sim = ema_model.classify_sim_avg(res_mix_ulb_fix_w['last_fts'])
logits_mix_ulb_fix_w_linear = ema_model.classify_linear(res_mix_ulb_fix_w['last_fts'])
#
prob_mix_ulb_fix_w_sim = torch.softmax(logits_mix_ulb_fix_w_sim, dim=1)
prob_mix_ulb_fix_w_linear = torch.softmax(logits_mix_ulb_fix_w_linear, dim=1)
#
fore_prob_mix_ulb_fix_w_sim, _ = torch.max(prob_mix_ulb_fix_w_sim[:,1:,:,:], dim=1)
better_mask_mix_ulb_fix_w = (fore_prob_mix_ulb_fix_w_sim > threshold).float().unsqueeze(1)
mix_ulb_fix_w_prob = prob_mix_ulb_fix_w_sim * better_mask_mix_ulb_fix_w + prob_mix_ulb_fix_w_linear * (1 - better_mask_mix_ulb_fix_w)
stable_prob = (mix_ulb_fix_w_prob + prob_ulb_x_w_) / 2.0
stable_prob[same_domain] = prob_ulb_x_w_[same_domain]
max_stable_prob, stable_label = torch.max(stable_prob, dim=1)
stable_mask = (max_stable_prob > threshold).unsqueeze(1).float()
mask_ul1, mask_lu1 = stable_mask.clone(), stable_mask.clone()
pseudo_label_ul1 = (stable_label * (1 - label_box1) + lb_mask * label_box1).long()
mask_ul1[img_box1.expand(mask_ul1.shape) == 1] = 1
pseudo_label_lu1 = (lb_mask * (1 - label_box1) + stable_label * label_box1).long()
mask_lu1[img_box1.expand(mask_lu1.shape) == 0] = 1
mask_ul2, mask_lu2 = stable_mask.clone(), stable_mask.clone()
pseudo_label_ul2 = (stable_label * (1 - label_box2) + lb_mask * label_box2).long()
mask_ul2[img_box2.expand(mask_ul2.shape) == 1] = 1
pseudo_label_lu2 = (lb_mask * (1 - label_box2) + stable_label * label_box2).long()
mask_lu2[img_box2.expand(mask_lu2.shape) == 0] = 1
mix_lb_fix_w[same_domain] = lb_x_w[same_domain]
mix_ulb_fix_w[same_domain] = ulb_x_w[same_domain]
mix_lb_w[same_domain] = lb_x_w[same_domain]
x_ul_1 = mix_ulb_fix_w * (1 - img_box1) + mix_lb_fix_w * img_box1
x_lu_1 = mix_lb_fix_w * (1 - img_box1) + mix_ulb_fix_w * img_box1
x_ul_2 = ulb_x_s * (1 - img_box2) + mix_lb_w * img_box2
x_lu_2 = mix_lb_w * (1 - img_box2) + ulb_x_s * img_box2
res_x_ul_1 = model(x_ul_1)
res_x_lu_1 = model(x_lu_1)
res_x_ul_2 = model(x_ul_2)
res_x_lu_2 = model(x_lu_2)
last_fts_x_ul_1, last_fts_x_ul_2 = res_x_ul_1['last_fts'], res_x_ul_2['last_fts']
last_fts_x_lu_1, last_fts_x_lu_2 = res_x_lu_1['last_fts'], res_x_lu_2['last_fts']
logits_x_ul_1_sim = model.classify_sim1(last_fts_x_ul_1, consistency_weight)
logits_x_ul_1_linear = model.classify_linear(last_fts_x_ul_1)
logits_x_lu_1_sim = model.classify_sim1(last_fts_x_lu_1, consistency_weight)
logits_x_lu_1_linear = model.classify_linear(last_fts_x_lu_1)
logits_x_ul_2_sim = model.classify_sim2(last_fts_x_ul_2, consistency_weight)
logits_x_ul_2_linear = model.classify_linear(last_fts_x_ul_2)
logits_x_lu_2_sim = model.classify_sim2(last_fts_x_lu_2, consistency_weight)
logits_x_lu_2_linear = model.classify_linear(last_fts_x_lu_2)
loss_ul_1_sim = (ce_loss(logits_x_ul_1_sim, pseudo_label_ul1) * mask_ul1.squeeze(1)).mean() + \
dice_loss(logits_x_ul_1_sim, pseudo_label_ul1.unsqueeze(1), mask=mask_ul1, softmax=softmax,
sigmoid=sigmoid, multi=multi)
loss_ul_1_linear = (ce_loss(logits_x_ul_1_linear, pseudo_label_ul1) * mask_ul1.squeeze(1)).mean() + \
dice_loss(logits_x_ul_1_linear, pseudo_label_ul1.unsqueeze(1), mask=mask_ul1, softmax=softmax,
sigmoid=sigmoid, multi=multi)
loss_ul_1 = (loss_ul_1_sim + loss_ul_1_linear) / 2.0
loss_lu_1_sim = (ce_loss(logits_x_lu_1_sim, pseudo_label_lu1) * mask_lu1.squeeze(1)).mean() + \
dice_loss(logits_x_lu_1_sim, pseudo_label_lu1.unsqueeze(1), mask=mask_lu1,
softmax=softmax,
sigmoid=sigmoid, multi=multi)
loss_lu_1_linear = (ce_loss(logits_x_lu_1_linear, pseudo_label_lu1) * mask_lu1.squeeze(1)).mean() + \
dice_loss(logits_x_lu_1_linear, pseudo_label_lu1.unsqueeze(1), mask=mask_lu1,
softmax=softmax,
sigmoid=sigmoid, multi=multi)
loss_lu_1 = (loss_lu_1_sim + loss_lu_1_linear) / 2.0
loss_ul_2_sim = (ce_loss(logits_x_ul_2_sim, pseudo_label_ul2) * mask_ul2.squeeze(1)).mean() + \
dice_loss(logits_x_ul_2_sim, pseudo_label_ul2.unsqueeze(1), mask=mask_ul2,
softmax=softmax,
sigmoid=sigmoid, multi=multi)
loss_ul_2_linear = (ce_loss(logits_x_ul_2_linear, pseudo_label_ul2) * mask_ul2.squeeze(1)).mean() + \
dice_loss(logits_x_ul_2_linear, pseudo_label_ul2.unsqueeze(1), mask=mask_ul2,
softmax=softmax,
sigmoid=sigmoid, multi=multi)
loss_ul_2 = (loss_ul_2_sim + loss_ul_2_linear) / 2.0
loss_lu_2_sim = (ce_loss(logits_x_lu_2_sim, pseudo_label_lu2) * mask_lu2.squeeze(1)).mean() + \
dice_loss(logits_x_lu_2_sim, pseudo_label_lu2.unsqueeze(1), mask=mask_lu2,
softmax=softmax,
sigmoid=sigmoid, multi=multi)
loss_lu_2_linear = (ce_loss(logits_x_lu_2_linear, pseudo_label_lu2) * mask_lu2.squeeze(1)).mean() + \
dice_loss(logits_x_lu_2_linear, pseudo_label_lu2.unsqueeze(1), mask=mask_lu2,
softmax=softmax,
sigmoid=sigmoid, multi=multi)
loss_lu_2 = (loss_lu_2_sim + loss_lu_2_linear) / 2.0
loss_1 = (loss_ul_1 + loss_lu_1) / 2.0
loss_2 = (loss_ul_2 + loss_lu_2) / 2.0
loss = loss_1 + loss_2
optimizer.zero_grad()
if args.amp:
scaler.scale(loss).backward()
scaler.step(optimizer)
scaler.update()
else:
loss.backward()
optimizer.step()
# update ema model
update_ema_variables(model, ema_model, args.ema_decay, iter_num)
loss_avg.update(loss.item())
loss_ul1_avg.update(loss_ul_1.item())
loss_lu1_avg.update(loss_lu_1.item())
loss_ul2_avg.update(loss_ul_2.item())
loss_lu2_avg.update(loss_lu_2.item())
mask_avg.update(stable_mask.mean())
# update learning rate
lr_ = base_lr * (1.0 - iter_num / max_iterations) ** 0.9
for param_group in optimizer.param_groups:
param_group['lr'] = lr_
iter_num = iter_num + 1
if p_bar is not None:
p_bar.update()
p_bar.set_description(
'iteration %d: loss:%.4f, loss_ul_1:%.4f, loss_lu_1:%.4f, loss_ul_2:%.4f, loss_lu_2:%.4f, cons_w:%.4f, lr:%.4f, mask_ratio:%.4f'
% (iter_num, loss_avg.avg, loss_ul1_avg.avg, loss_lu1_avg.avg, loss_ul2_avg.avg, loss_lu2_avg.avg,
consistency_weight, lr_,
mask_avg.avg
))
if p_bar is not None:
p_bar.close()
logging.info(
'iteration %d: loss:%.4f, loss_ul_1:%.4f, loss_lu_1:%.4f, loss_ul_2:%.4f, loss_lu_2:%.4f, cons_w:%.4f, lr:%.4f, mask_ratio:%.4f'
% (iter_num, loss_avg.avg, loss_ul1_avg.avg, loss_lu1_avg.avg, loss_ul2_avg.avg, loss_lu2_avg.avg,
consistency_weight, lr_,
mask_avg.avg
))
logging.info('test stu model')
stu_val_dice = test_all(args, model, test_dataloader, epoch_num+1)
text = ''
for n, p in enumerate(part):
if stu_val_dice[n] > stu_best_dice[n]:
stu_best_dice[n] = stu_val_dice[n]
stu_best_dice_iter[n] = iter_num
text += 'stu_val_%s_best_dice: %f at %d iter' % (p, stu_best_dice[n], stu_best_dice_iter[n])
text += ', '
if sum(stu_val_dice) / len(stu_val_dice) > stu_best_avg_dice:
stu_best_avg_dice = sum(stu_val_dice) / len(stu_val_dice)
stu_best_avg_dice_iter = iter_num
for n, p in enumerate(part):
stu_dice_of_best_avg[n] = stu_val_dice[n]
save_text = "{}_avg_dice_best_model.pth".format(args.model)
save_best = os.path.join(snapshot_path, save_text)
logging.info('save cur best avg model to {}'.format(save_best))
torch.save(model.state_dict(), save_best)
text += 'val_best_avg_dice: %f at %d iter' % (stu_best_avg_dice, stu_best_avg_dice_iter)
if n_part > 1:
for n, p in enumerate(part):
text += ', %s_dice: %f' % (p, stu_dice_of_best_avg[n])
logging.info(text)
writer.close()
if __name__ == "__main__":
snapshot_path = "../model/" + args.dataset + "/" + args.save_name + '_' + str(args.lb_domain) + '_' + str(
args.fix_r) + '_' + str(args.beta_a) + '_' + str(args.seed) + '_' + str(args.lb_num) + "/"
train_data_path = args.data_path
os.environ['CUDA_VISIBLE_DEVICES'] = args.gpu
if args.deterministic:
cudnn.benchmark = False
cudnn.deterministic = True
random.seed(args.seed)
np.random.seed(args.seed)
torch.manual_seed(args.seed)
torch.cuda.manual_seed(args.seed)
if not os.path.exists(snapshot_path):
os.makedirs(snapshot_path)
elif not args.overwrite:
raise Exception('file {} is exist!'.format(snapshot_path))
if os.path.exists(snapshot_path + '/code'):
shutil.rmtree(snapshot_path + '/code')
shutil.copytree('.', snapshot_path + '/code', shutil.ignore_patterns(['.git', '__pycache__']))
logging.basicConfig(filename=snapshot_path + "/log.txt", level=logging.INFO,
format='[%(asctime)s.%(msecs)03d] %(message)s', datefmt='%H:%M:%S')
logging.getLogger().addHandler(logging.StreamHandler(sys.stdout))
cmd = " ".join(["python"] + sys.argv)
logging.info(cmd)
logging.info(str(args))
train(args, snapshot_path)