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Progress bar for LesionFROC #1951

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Merged
bhashemian merged 2 commits into from
Apr 5, 2021
Merged

Progress bar for LesionFROC #1951

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95c1694
Add progress bar to LesionFROC
bhashemian Apr 5, 2021
347f6ed
Merge branch 'master' into froc_progress
wyli Apr 5, 2021
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17 changes: 15 additions & 2 deletions monai/apps/pathology/metrics.py
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Original file line number Diff line number Diff line change
Expand Up @@ -9,13 +9,26 @@
# See the License for the specific language governing permissions and
# limitations under the License.

from typing import Dict, List, Tuple
from typing import TYPE_CHECKING, Dict, List, Tuple

import numpy as np

from monai.apps.pathology.utils import PathologyProbNMS, compute_isolated_tumor_cells, compute_multi_instance_mask
from monai.data.image_reader import WSIReader
from monai.metrics import compute_fp_tp_probs, compute_froc_curve_data, compute_froc_score
from monai.utils import min_version, optional_import

if TYPE_CHECKING:
from tqdm import tqdm

has_tqdm = True
else:
tqdm, has_tqdm = optional_import("tqdm", "4.47.0", min_version, "tqdm")

if not has_tqdm:

def tqdm(x):
return x


class LesionFROC:
Expand Down Expand Up @@ -122,7 +135,7 @@ def compute_fp_tp(self):
total_num_targets = 0
num_images = len(self.data)

for sample in self.data:
for sample in tqdm(self.data):
probs, y_coord, x_coord = self.prepare_inference_result(sample)
ground_truth, itc_labels = self.prepare_ground_truth(sample)
# compute FP and TP probabilities for a pair of an image and an ground truth mask
Expand Down