图像分割实战-系列教程8：unet医学细胞分割实战6（医学数据集、图像分割、语义分割、unet网络、代码逐行解读）

🍁🍁🍁图像分割实战-系列教程 总目录

有任何问题欢迎在下面留言
本篇文章的代码运行界面均在Pycharm中进行
本篇文章配套的代码资源已经上传

unet医学细胞分割实战1
unet医学细胞分割实战2
unet医学细胞分割实战3
unet医学细胞分割实战4
unet医学细胞分割实战5
unet医学细胞分割实战6

10、val.py解读

在结束训练后，已经保存了模型，现在可以对模型进行验证，运行过程需要指定参数：

"""
需要指定参数：--name dsb2018_96_NestedUNet_woDS
"""

10.1 基本参数与主要工具包

import argparse
import os
from glob import glob
import matplotlib.pyplot as plt
import numpy as np
import cv2
import torch
import torch.backends.cudnn as cudnn
import yaml
from albumentations.augmentations import transforms
from albumentations.core.composition import Compose
from sklearn.model_selection import train_test_split
from tqdm import tqdm
import archs
from dataset import Dataset
from metrics import iou_score
from utils import AverageMeter
def parse_args():
    parser = argparse.ArgumentParser()
    parser.add_argument('--name', default=None, help='model name')
    args = parser.parse_args()
    return args

这里在前面的train.py已经有过解析

10.2 main函数解析

def main():
    args = parse_args()

    with open('models/%s/config.yml' % args.name, 'r') as f:
        config = yaml.load(f, Loader=yaml.FullLoader)

    print('-'*20)
    for key in config.keys():
        print('%s: %s' % (key, str(config[key])))
    print('-'*20)

    cudnn.benchmark = True

    # create model
    print("=> creating model %s" % config['arch'])
    model = archs.__dict__[config['arch']](config['num_classes'],
                                           config['input_channels'],
                                           config['deep_supervision'])

    model = model.cuda()

    # Data loading code
    img_ids = glob(os.path.join('inputs', config['dataset'], 'images', '*' + config['img_ext']))
    img_ids = [os.path.splitext(os.path.basename(p))[0] for p in img_ids]

    _, val_img_ids = train_test_split(img_ids, test_size=0.2, random_state=41)

    model.load_state_dict(torch.load('models/%s/model.pth' %
                                     config['name']))
    model.eval()

    val_transform = Compose([
        transforms.Resize(config['input_h'], config['input_w']),
        transforms.Normalize(),
    ])

    val_dataset = Dataset(
        img_ids=val_img_ids,
        img_dir=os.path.join('inputs', config['dataset'], 'images'),
        mask_dir=os.path.join('inputs', config['dataset'], 'masks'),
        img_ext=config['img_ext'],
        mask_ext=config['mask_ext'],
        num_classes=config['num_classes'],
        transform=val_transform)
    val_loader = torch.utils.data.DataLoader(
        val_dataset,
        batch_size=config['batch_size'],
        shuffle=False,
        num_workers=config['num_workers'],
        drop_last=False)

    avg_meter = AverageMeter()

    for c in range(config['num_classes']):
        os.makedirs(os.path.join('outputs', config['name'], str(c)), exist_ok=True)
    with torch.no_grad():
        for input, target, meta in tqdm(val_loader, total=len(val_loader)):
            input = input.cuda()
            target = target.cuda()

            # compute output
            if config['deep_supervision']:
                output = model(input)[-1]
            else:
                output = model(input)

            iou = iou_score(output, target)
            avg_meter.update(iou, input.size(0))

            output = torch.sigmoid(output).cpu().numpy()

            for i in range(len(output)):
                for c in range(config['num_classes']):
                    cv2.imwrite(os.path.join('outputs', config['name'], str(c), meta['img_id'][i] + '.jpg'),
                                (output[i, c] * 255).astype('uint8'))

    print('IoU: %.4f' % avg_meter.avg)
    
    plot_examples(input, target, model,num_examples=3)
    torch.cuda.empty_cache()

10.3 验证结果展示

def plot_examples(datax, datay, model,num_examples=6):
    fig, ax = plt.subplots(nrows=num_examples, ncols=3, figsize=(18,4*num_examples))
    m = datax.shape[0]
    for row_num in range(num_examples):
        image_indx = np.random.randint(m)
        image_arr = model(datax[image_indx:image_indx+1]).squeeze(0).detach().cpu().numpy()
        ax[row_num][0].imshow(np.transpose(datax[image_indx].cpu().numpy(), (1,2,0))[:,:,0])
        ax[row_num][0].set_title("Orignal Image")
        ax[row_num][1].imshow(np.squeeze((image_arr > 0.40)[0,:,:].astype(int)))
        ax[row_num][1].set_title("Segmented Image localization")
        ax[row_num][2].imshow(np.transpose(datay[image_indx].cpu().numpy(), (1,2,0))[:,:,0])
        ax[row_num][2].set_title("Target image")
    plt.show()

最终输出结果显示：

unet医学细胞分割实战1
unet医学细胞分割实战2
unet医学细胞分割实战3
unet医学细胞分割实战4
unet医学细胞分割实战5
unet医学细胞分割实战6