[segmentation] Add drionsdb database

pyproject.toml

@@ -433,6 +433,10 @@ cxr8 = "mednet.libs.segmentation.config.data.cxr8.default"
 # drhagis dataset - retinography
 drhagis = "mednet.libs.segmentation.config.data.drhagis.default"
 
+# drionsdb - retinography
+drionsdb = "mednet.libs.segmentation.config.data.drionsdb.expert1"
+drionsdb-2nd = "mednet.libs.segmentation.config.data.drionsdb.expert2"
+
 # drive dataset - retinography
 drive = "mednet.libs.segmentation.config.data.drive.default"
 

src/mednet/libs/segmentation/config/data/drionsdb/datamodule.py

+# SPDX-FileCopyrightText: Copyright © 2024 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+"""DRIONS-DB (training set) for Optic Disc Segmentation."""
+
+import csv
+import os
+import pathlib
+
+import PIL.Image
+import pkg_resources
+from mednet.libs.common.data.datamodule import CachingDataModule
+from mednet.libs.common.data.split import make_split
+from mednet.libs.common.data.typing import Sample
+from mednet.libs.common.models.transforms import crop_image_to_mask
+from mednet.libs.segmentation.data.typing import (
+    SegmentationRawDataLoader as _SegmentationRawDataLoader,
+)
+from torchvision import tv_tensors
+from torchvision.transforms.functional import to_tensor
+
+from ....utils.rc import load_rc
+
+CONFIGURATION_KEY_DATADIR = "datadir." + (__name__.rsplit(".", 2)[-2])
+"""Key to search for in the configuration file for the root directory of this
+database."""
+
+
+class SegmentationRawDataLoader(_SegmentationRawDataLoader):
+    """A specialized raw-data-loader for the drionsdb dataset."""
+
+    datadir: pathlib.Path
+    """This variable contains the base directory where the database raw data is
+    stored."""
+
+    def __init__(self):
+        self.datadir = pathlib.Path(
+            load_rc().get(CONFIGURATION_KEY_DATADIR, os.path.realpath(os.curdir))
+        )
+
+        self._pkg_path = pathlib.Path(
+            pkg_resources.resource_filename(__name__, "masks")
+        )
+
+    def _txt_to_pil_1(self, fname: pathlib.Path, size: tuple[int, int]) -> PIL.Image:
+        """Convert DRIONS-DB annotations to image format.
+
+        Parameters
+        ----------
+        fname
+            Path to a file containing annotations.
+        size
+            The size of the mask (width, height).
+
+        Returns
+        -------
+            The binary mask.
+        """
+        with fname.open("r") as f:
+            rows = csv.reader(f, delimiter=",", quoting=csv.QUOTE_NONNUMERIC)
+            data = list(map(tuple, rows))
+
+        retval = PIL.Image.new("1", size)
+        draw = PIL.ImageDraw.ImageDraw(retval)
+        draw.polygon(data, fill="white")
+        del draw
+        return retval
+
+    def sample(self, sample: tuple[str, str, str]) -> Sample:
+        """Load a single image sample from the disk.
+
+        Parameters
+        ----------
+        sample
+            A tuple containing path suffixes to the sample image, target, and mask
+            to be loaded, within the dataset root folder.
+
+        Returns
+        -------
+            The sample representation.
+        """
+
+        image = PIL.Image.open(self.datadir / sample[0]).convert(mode="RGB")
+        target = to_tensor(self._txt_to_pil_1(self.datadir / sample[1], image.size))
+        image = to_tensor(image)
+        mask = to_tensor(
+            PIL.Image.open(self._pkg_path / sample[2]).convert(mode="1", dither=None)
+        )
+
+        tensor = tv_tensors.Image(crop_image_to_mask(image, mask))
+        target = tv_tensors.Image(crop_image_to_mask(target, mask))
+        mask = tv_tensors.Mask(crop_image_to_mask(mask, mask))
+        return tensor, dict(target=target, mask=mask, name=sample[0])  # type: ignore[arg-type]
+
+
+class DataModule(CachingDataModule):
+    """DRIONS-DB (training set) for Optic Disc Segmentation.
+
+    The dataset originates from data collected from 55 patients with glaucoma
+    (23.1%) and eye hypertension (76.9%), and random selected from an eye fundus
+    image base belonging to the Ophthalmology Service at Miguel Servet Hospital,
+    Saragossa (Spain).  It contains 110 eye fundus images with a resolution of 600
+    x 400. Two sets of ground-truth optic disc annotations are available. The first
+    set is commonly used for training and testing. The second set acts as a "human"
+    baseline.
+
+    * Reference: [DRIONSDB-2008]_
+    * Original resolution (height x width): 400 x 600
+    * Configuration resolution: 416 x 608 (after padding)
+    * Split reference: [MANINIS-2016]_
+    * Protocols ``expert1`` (baseline) and ``expert2`` (human comparison):
+
+        * Training samples: 60
+        * Test samples: 50
+
+    Parameters
+    ----------
+    split_filename
+        Name of the .json file containing the split to load.
+    """
+
+    def __init__(self, split_filename: str):
+        assert __package__ is not None
+        super().__init__(
+            database_split=make_split(__package__, split_filename),
+            raw_data_loader=SegmentationRawDataLoader(),
+            database_name=__package__.rsplit(".", 1)[1],
+            split_name=pathlib.Path(split_filename).stem,
+        )

src/mednet/libs/segmentation/config/data/drionsdb/expert1.json

+{
+    "train":[
+       [
+          "images/image_001.jpg",
+          "experts_anotation/anotExpert1_001.txt",
+          "images/image_001.png"
+       ],
+       [
+          "images/image_002.jpg",
+          "experts_anotation/anotExpert1_002.txt",
+          "images/image_002.png"
+       ],
+       [
+          "images/image_003.jpg",
+          "experts_anotation/anotExpert1_003.txt",
+          "images/image_003.png"
+       ],
+       [
+          "images/image_004.jpg",
+          "experts_anotation/anotExpert1_004.txt",
+          "images/image_004.png"
+       ],
+       [
+          "images/image_005.jpg",
+          "experts_anotation/anotExpert1_005.txt",
+          "images/image_005.png"
+       ],
+       [
+          "images/image_006.jpg",
+          "experts_anotation/anotExpert1_006.txt",
+          "images/image_006.png"
+       ],
+       [
+          "images/image_007.jpg",
+          "experts_anotation/anotExpert1_007.txt",
+          "images/image_007.png"
+       ],
+       [
+          "images/image_008.jpg",
+          "experts_anotation/anotExpert1_008.txt",
+          "images/image_008.png"
+       ],
+       [
+          "images/image_009.jpg",
+          "experts_anotation/anotExpert1_009.txt",
+          "images/image_009.png"
+       ],
+       [
+          "images/image_010.jpg",
+          "experts_anotation/anotExpert1_010.txt",
+          "images/image_010.png"
+       ],
+       [
+          "images/image_011.jpg",
+          "experts_anotation/anotExpert1_011.txt",
+          "images/image_011.png"
+       ],
+       [
+          "images/image_012.jpg",
+          "experts_anotation/anotExpert1_012.txt",
+          "images/image_012.png"
+       ],
+       [
+          "images/image_013.jpg",
+          "experts_anotation/anotExpert1_013.txt",
+          "images/image_013.png"
+       ],
+       [
+          "images/image_014.jpg",
+          "experts_anotation/anotExpert1_014.txt",
+          "images/image_014.png"
+       ],
+       [
+          "images/image_015.jpg",
+          "experts_anotation/anotExpert1_015.txt",
+          "images/image_015.png"
+       ],
+       [
+          "images/image_016.jpg",
+          "experts_anotation/anotExpert1_016.txt",
+          "images/image_016.png"
+       ],
+       [
+          "images/image_017.jpg",
+          "experts_anotation/anotExpert1_017.txt",
+          "images/image_017.png"
+       ],
+       [
+          "images/image_018.jpg",
+          "experts_anotation/anotExpert1_018.txt",
+          "images/image_018.png"
+       ],
+       [
+          "images/image_019.jpg",
+          "experts_anotation/anotExpert1_019.txt",
+          "images/image_019.png"
+       ],
+       [
+          "images/image_020.jpg",
+          "experts_anotation/anotExpert1_020.txt",
+          "images/image_020.png"
+       ],
+       [
+          "images/image_021.jpg",
+          "experts_anotation/anotExpert1_021.txt",
+          "images/image_021.png"
+       ],
+       [
+          "images/image_022.jpg",
+          "experts_anotation/anotExpert1_022.txt",
+          "images/image_022.png"
+       ],
+       [
+          "images/image_023.jpg",
+          "experts_anotation/anotExpert1_023.txt",
+          "images/image_023.png"
+       ],
+       [
+          "images/image_024.jpg",
+          "experts_anotation/anotExpert1_024.txt",
+          "images/image_024.png"
+       ],
+       [
+          "images/image_025.jpg",
+          "experts_anotation/anotExpert1_025.txt",
+          "images/image_025.png"
+       ],
+       [
+          "images/image_026.jpg",
+          "experts_anotation/anotExpert1_026.txt",
+          "images/image_026.png"
+       ],
+       [
+          "images/image_027.jpg",
+          "experts_anotation/anotExpert1_027.txt",
+          "images/image_027.png"
+       ],
+       [
+          "images/image_028.jpg",
+          "experts_anotation/anotExpert1_028.txt",
+          "images/image_028.png"
+       ],
+       [
+          "images/image_029.jpg",
+          "experts_anotation/anotExpert1_029.txt",
+          "images/image_029.png"
+       ],
+       [
+          "images/image_030.jpg",
+          "experts_anotation/anotExpert1_030.txt",
+          "images/image_030.png"
+       ],
+       [
+          "images/image_031.jpg",
+          "experts_anotation/anotExpert1_031.txt",
+          "images/image_031.png"
+       ],
+       [
+          "images/image_032.jpg",
+          "experts_anotation/anotExpert1_032.txt",
+          "images/image_032.png"
+       ],
+       [
+          "images/image_033.jpg",
+          "experts_anotation/anotExpert1_033.txt",
+          "images/image_033.png"
+       ],
+       [
+          "images/image_034.jpg",
+          "experts_anotation/anotExpert1_034.txt",
+          "images/image_034.png"
+       ],
+       [
+          "images/image_035.jpg",
+          "experts_anotation/anotExpert1_035.txt",
+          "images/image_035.png"
+       ],
+       [
+          "images/image_036.jpg",
+          "experts_anotation/anotExpert1_036.txt",
+          "images/image_036.png"
+       ],
+       [
+          "images/image_037.jpg",
+          "experts_anotation/anotExpert1_037.txt",
+          "images/image_037.png"
+       ],
+       [
+          "images/image_038.jpg",
+          "experts_anotation/anotExpert1_038.txt",
+          "images/image_038.png"
+       ],
+       [
+          "images/image_039.jpg",
+          "experts_anotation/anotExpert1_039.txt",
+          "images/image_039.png"
+       ],
+       [
+          "images/image_040.jpg",
+          "experts_anotation/anotExpert1_040.txt",
+          "images/image_040.png"
+       ],
+       [
+          "images/image_041.jpg",
+          "experts_anotation/anotExpert1_041.txt",
+          "images/image_041.png"
+       ],
+       [
+          "images/image_042.jpg",
+          "experts_anotation/anotExpert1_042.txt",
+          "images/image_042.png"
+       ],
+       [
+          "images/image_043.jpg",
+          "experts_anotation/anotExpert1_043.txt",
+          "images/image_043.png"
+       ],
+       [
+          "images/image_044.jpg",
+          "experts_anotation/anotExpert1_044.txt",
+          "images/image_044.png"
+       ],
+       [
+          "images/image_045.jpg",
+          "experts_anotation/anotExpert1_045.txt",
+          "images/image_045.png"
+       ],
+       [
+          "images/image_046.jpg",
+          "experts_anotation/anotExpert1_046.txt",
+          "images/image_046.png"
+       ],
+       [
+          "images/image_047.jpg",
+          "experts_anotation/anotExpert1_047.txt",
+          "images/image_047.png"
+       ],
+       [
+          "images/image_048.jpg",
+          "experts_anotation/anotExpert1_048.txt",
+          "images/image_048.png"
+       ],
+       [
+          "images/image_049.jpg",
+          "experts_anotation/anotExpert1_049.txt",
+          "images/image_049.png"
+       ],
+       [
+          "images/image_050.jpg",
+          "experts_anotation/anotExpert1_050.txt",
+          "images/image_050.png"
+       ],
+       [
+          "images/image_051.jpg",
+          "experts_anotation/anotExpert1_051.txt",
+          "images/image_051.png"
+       ],
+       [
+          "images/image_052.jpg",
+          "experts_anotation/anotExpert1_052.txt",
+          "images/image_052.png"
+       ],
+       [
+          "images/image_053.jpg",
+          "experts_anotation/anotExpert1_053.txt",
+          "images/image_053.png"
+       ],
+       [
+          "images/image_054.jpg",
+          "experts_anotation/anotExpert1_054.txt",
+          "images/image_054.png"
+       ],
+       [
+          "images/image_055.jpg",
+          "experts_anotation/anotExpert1_055.txt",
+          "images/image_055.png"
+       ],
+       [
+          "images/image_056.jpg",
+          "experts_anotation/anotExpert1_056.txt",
+          "images/image_056.png"
+       ],
+       [
+          "images/image_057.jpg",
+          "experts_anotation/anotExpert1_057.txt",
+          "images/image_057.png"
+       ],
+       [
+          "images/image_058.jpg",
+          "experts_anotation/anotExpert1_058.txt",
+          "images/image_058.png"
+       ],
+       [
+          "images/image_059.jpg",
+          "experts_anotation/anotExpert1_059.txt",
+          "images/image_059.png"
+       ],
+       [
+          "images/image_060.jpg",
+          "experts_anotation/anotExpert1_060.txt",
+          "images/image_060.png"
+       ]
+    ],
+    "test":[
+       [
+          "images/image_061.jpg",
+          "experts_anotation/anotExpert1_061.txt",
+          "images/image_061.png"
+       ],
+       [
+          "images/image_062.jpg",
+          "experts_anotation/anotExpert1_062.txt",
+          "images/image_062.png"
+       ],
+       [
+          "images/image_063.jpg",
+          "experts_anotation/anotExpert1_063.txt",
+          "images/image_063.png"
+       ],
+       [
+          "images/image_064.jpg",
+          "experts_anotation/anotExpert1_064.txt",
+          "images/image_064.png"
+       ],
+       [
+          "images/image_065.jpg",
+          "experts_anotation/anotExpert1_065.txt",
+          "images/image_065.png"
+       ],
+       [
+          "images/image_066.jpg",
+          "experts_anotation/anotExpert1_066.txt",
+          "images/image_066.png"
+       ],
+       [
+          "images/image_067.jpg",
+          "experts_anotation/anotExpert1_067.txt",
+          "images/image_067.png"
+       ],
+       [
+          "images/image_068.jpg",
+          "experts_anotation/anotExpert1_068.txt",
+          "images/image_068.png"
+       ],
+       [
+          "images/image_069.jpg",
+          "experts_anotation/anotExpert1_069.txt",
+          "images/image_069.png"
+       ],
+       [
+          "images/image_070.jpg",
+          "experts_anotation/anotExpert1_070.txt",
+          "images/image_070.png"
+       ],
+       [
+          "images/image_071.jpg",
+          "experts_anotation/anotExpert1_071.txt",
+          "images/image_071.png"
+       ],
+       [
+          "images/image_072.jpg",
+          "experts_anotation/anotExpert1_072.txt",
+          "images/image_072.png"
+       ],
+       [
+          "images/image_073.jpg",
+          "experts_anotation/anotExpert1_073.txt",
+          "images/image_073.png"
+       ],
+       [
+          "images/image_074.jpg",
+          "experts_anotation/anotExpert1_074.txt",
+          "images/image_074.png"
+       ],
+       [
+          "images/image_075.jpg",
+          "experts_anotation/anotExpert1_075.txt",
+          "images/image_075.png"
+       ],
+       [
+          "images/image_076.jpg",
+          "experts_anotation/anotExpert1_076.txt",
+          "images/image_076.png"
+       ],
+       [
+          "images/image_077.jpg",
+          "experts_anotation/anotExpert1_077.txt",
+          "images/image_077.png"
+       ],
+       [
+          "images/image_078.jpg",
+          "experts_anotation/anotExpert1_078.txt",
+          "images/image_078.png"
+       ],
+       [
+          "images/image_079.jpg",
+          "experts_anotation/anotExpert1_079.txt",
+          "images/image_079.png"
+       ],
+       [
+          "images/image_080.jpg",
+          "experts_anotation/anotExpert1_080.txt",
+          "images/image_080.png"
+       ],
+       [
+          "images/image_081.jpg",
+          "experts_anotation/anotExpert1_081.txt",
+          "images/image_081.png"
+       ],
+       [
+          "images/image_082.jpg",
+          "experts_anotation/anotExpert1_082.txt",
+          "images/image_082.png"
+       ],
+       [
+          "images/image_083.jpg",
+          "experts_anotation/anotExpert1_083.txt",
+          "images/image_083.png"
+       ],
+       [
+          "images/image_084.jpg",
+          "experts_anotation/anotExpert1_084.txt",
+          "images/image_084.png"
+       ],
+       [
+          "images/image_085.jpg",
+          "experts_anotation/anotExpert1_085.txt",
+          "images/image_085.png"
+       ],
+       [
+          "images/image_086.jpg",
+          "experts_anotation/anotExpert1_086.txt",
+          "images/image_086.png"
+       ],
+       [
+          "images/image_087.jpg",
+          "experts_anotation/anotExpert1_087.txt",
+          "images/image_087.png"
+       ],
+       [
+          "images/image_088.jpg",
+          "experts_anotation/anotExpert1_088.txt",
+          "images/image_088.png"
+       ],
+       [
+          "images/image_089.jpg",
+          "experts_anotation/anotExpert1_089.txt",
+          "images/image_089.png"
+       ],
+       [
+          "images/image_090.jpg",
+          "experts_anotation/anotExpert1_090.txt",
+          "images/image_090.png"
+       ],
+       [
+          "images/image_091.jpg",
+          "experts_anotation/anotExpert1_091.txt",
+          "images/image_091.png"
+       ],
+       [
+          "images/image_092.jpg",
+          "experts_anotation/anotExpert1_092.txt",
+          "images/image_092.png"
+       ],
+       [
+          "images/image_093.jpg",
+          "experts_anotation/anotExpert1_093.txt",
+          "images/image_093.png"
+       ],
+       [
+          "images/image_094.jpg",
+          "experts_anotation/anotExpert1_094.txt",
+          "images/image_094.png"
+       ],
+       [
+          "images/image_095.jpg",
+          "experts_anotation/anotExpert1_095.txt",
+          "images/image_095.png"
+       ],
+       [
+          "images/image_096.jpg",
+          "experts_anotation/anotExpert1_096.txt",
+          "images/image_096.png"
+       ],
+       [
+          "images/image_097.jpg",
+          "experts_anotation/anotExpert1_097.txt",
+          "images/image_097.png"
+       ],
+       [
+          "images/image_098.jpg",
+          "experts_anotation/anotExpert1_098.txt",
+          "images/image_098.png"
+       ],
+       [
+          "images/image_099.jpg",
+          "experts_anotation/anotExpert1_099.txt",
+          "images/image_099.png"
+       ],
+       [
+          "images/image_100.jpg",
+          "experts_anotation/anotExpert1_100.txt",
+          "images/image_100.png"
+       ],
+       [
+          "images/image_101.jpg",
+          "experts_anotation/anotExpert1_101.txt",
+          "images/image_101.png"
+       ],
+       [
+          "images/image_102.jpg",
+          "experts_anotation/anotExpert1_102.txt",
+          "images/image_102.png"
+       ],
+       [
+          "images/image_103.jpg",
+          "experts_anotation/anotExpert1_103.txt",
+          "images/image_103.png"
+       ],
+       [
+          "images/image_104.jpg",
+          "experts_anotation/anotExpert1_104.txt",
+          "images/image_104.png"
+       ],
+       [
+          "images/image_105.jpg",
+          "experts_anotation/anotExpert1_105.txt",
+          "images/image_105.png"
+       ],
+       [
+          "images/image_106.jpg",
+          "experts_anotation/anotExpert1_106.txt",
+          "images/image_106.png"
+       ],
+       [
+          "images/image_107.jpg",
+          "experts_anotation/anotExpert1_107.txt",
+          "images/image_107.png"
+       ],
+       [
+          "images/image_108.jpg",
+          "experts_anotation/anotExpert1_108.txt",
+          "images/image_108.png"
+       ],
+       [
+          "images/image_109.jpg",
+          "experts_anotation/anotExpert1_109.txt",
+          "images/image_109.png"
+       ],
+       [
+          "images/image_110.jpg",
+          "experts_anotation/anotExpert1_110.txt",
+          "images/image_110.png"
+       ]
+    ]
+ }

src/mednet/libs/segmentation/config/data/drionsdb/expert1.py

+# SPDX-FileCopyrightText: Copyright © 2024 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+"""DRIONS-DB for Optic Disc Segmentation (expert #1 annotations).
+
+* Configuration resolution: 416 x 608 (after padding)
+* Split reference: [MANINIS-2016]_
+* See :py:mod:`deepdraw.data.drionsdb` for dataset details
+"""
+
+from mednet.libs.segmentation.config.data.drionsdb.datamodule import DataModule
+
+datamodule = DataModule("expert1.json")

src/mednet/libs/segmentation/config/data/drionsdb/expert2.json

+{
+    "train":[
+       [
+          "images/image_001.jpg",
+          "experts_anotation/anotExpert2_001.txt",
+          "images/image_001.png"
+       ],
+       [
+          "images/image_002.jpg",
+          "experts_anotation/anotExpert2_002.txt",
+          "images/image_002.png"
+       ],
+       [
+          "images/image_003.jpg",
+          "experts_anotation/anotExpert2_003.txt",
+          "images/image_003.png"
+       ],
+       [
+          "images/image_004.jpg",
+          "experts_anotation/anotExpert2_004.txt",
+          "images/image_004.png"
+       ],
+       [
+          "images/image_005.jpg",
+          "experts_anotation/anotExpert2_005.txt",
+          "images/image_005.png"
+       ],
+       [
+          "images/image_006.jpg",
+          "experts_anotation/anotExpert2_006.txt",
+          "images/image_006.png"
+       ],
+       [
+          "images/image_007.jpg",
+          "experts_anotation/anotExpert2_007.txt",
+          "images/image_007.png"
+       ],
+       [
+          "images/image_008.jpg",
+          "experts_anotation/anotExpert2_008.txt",
+          "images/image_008.png"
+       ],
+       [
+          "images/image_009.jpg",
+          "experts_anotation/anotExpert2_009.txt",
+          "images/image_009.png"
+       ],
+       [
+          "images/image_010.jpg",
+          "experts_anotation/anotExpert2_010.txt",
+          "images/image_010.png"
+       ],
+       [
+          "images/image_011.jpg",
+          "experts_anotation/anotExpert2_011.txt",
+          "images/image_011.png"
+       ],
+       [
+          "images/image_012.jpg",
+          "experts_anotation/anotExpert2_012.txt",
+          "images/image_012.png"
+       ],
+       [
+          "images/image_013.jpg",
+          "experts_anotation/anotExpert2_013.txt",
+          "images/image_013.png"
+       ],
+       [
+          "images/image_014.jpg",
+          "experts_anotation/anotExpert2_014.txt",
+          "images/image_014.png"
+       ],
+       [
+          "images/image_015.jpg",
+          "experts_anotation/anotExpert2_015.txt",
+          "images/image_015.png"
+       ],
+       [
+          "images/image_016.jpg",
+          "experts_anotation/anotExpert2_016.txt",
+          "images/image_016.png"
+       ],
+       [
+          "images/image_017.jpg",
+          "experts_anotation/anotExpert2_017.txt",
+          "images/image_017.png"
+       ],
+       [
+          "images/image_018.jpg",
+          "experts_anotation/anotExpert2_018.txt",
+          "images/image_018.png"
+       ],
+       [
+          "images/image_019.jpg",
+          "experts_anotation/anotExpert2_019.txt",
+          "images/image_019.png"
+       ],
+       [
+          "images/image_020.jpg",
+          "experts_anotation/anotExpert2_020.txt",
+          "images/image_020.png"
+       ],
+       [
+          "images/image_021.jpg",
+          "experts_anotation/anotExpert2_021.txt",
+          "images/image_021.png"
+       ],
+       [
+          "images/image_022.jpg",
+          "experts_anotation/anotExpert2_022.txt",
+          "images/image_022.png"
+       ],
+       [
+          "images/image_023.jpg",
+          "experts_anotation/anotExpert2_023.txt",
+          "images/image_023.png"
+       ],
+       [
+          "images/image_024.jpg",
+          "experts_anotation/anotExpert2_024.txt",
+          "images/image_024.png"
+       ],
+       [
+          "images/image_025.jpg",
+          "experts_anotation/anotExpert2_025.txt",
+          "images/image_025.png"
+       ],
+       [
+          "images/image_026.jpg",
+          "experts_anotation/anotExpert2_026.txt",
+          "images/image_026.png"
+       ],
+       [
+          "images/image_027.jpg",
+          "experts_anotation/anotExpert2_027.txt",
+          "images/image_027.png"
+       ],
+       [
+          "images/image_028.jpg",
+          "experts_anotation/anotExpert2_028.txt",
+          "images/image_028.png"
+       ],
+       [
+          "images/image_029.jpg",
+          "experts_anotation/anotExpert2_029.txt",
+          "images/image_029.png"
+       ],
+       [
+          "images/image_030.jpg",
+          "experts_anotation/anotExpert2_030.txt",
+          "images/image_030.png"
+       ],
+       [
+          "images/image_031.jpg",
+          "experts_anotation/anotExpert2_031.txt",
+          "images/image_031.png"
+       ],
+       [
+          "images/image_032.jpg",
+          "experts_anotation/anotExpert2_032.txt",
+          "images/image_032.png"
+       ],
+       [
+          "images/image_033.jpg",
+          "experts_anotation/anotExpert2_033.txt",
+          "images/image_033.png"
+       ],
+       [
+          "images/image_034.jpg",
+          "experts_anotation/anotExpert2_034.txt",
+          "images/image_034.png"
+       ],
+       [
+          "images/image_035.jpg",
+          "experts_anotation/anotExpert2_035.txt",
+          "images/image_035.png"
+       ],
+       [
+          "images/image_036.jpg",
+          "experts_anotation/anotExpert2_036.txt",
+          "images/image_036.png"
+       ],
+       [
+          "images/image_037.jpg",
+          "experts_anotation/anotExpert2_037.txt",
+          "images/image_037.png"
+       ],
+       [
+          "images/image_038.jpg",
+          "experts_anotation/anotExpert2_038.txt",
+          "images/image_038.png"
+       ],
+       [
+          "images/image_039.jpg",
+          "experts_anotation/anotExpert2_039.txt",
+          "images/image_039.png"
+       ],
+       [
+          "images/image_040.jpg",
+          "experts_anotation/anotExpert2_040.txt",
+          "images/image_040.png"
+       ],
+       [
+          "images/image_041.jpg",
+          "experts_anotation/anotExpert2_041.txt",
+          "images/image_041.png"
+       ],
+       [
+          "images/image_042.jpg",
+          "experts_anotation/anotExpert2_042.txt",
+          "images/image_042.png"
+       ],
+       [
+          "images/image_043.jpg",
+          "experts_anotation/anotExpert2_043.txt",
+          "images/image_043.png"
+       ],
+       [
+          "images/image_044.jpg",
+          "experts_anotation/anotExpert2_044.txt",
+          "images/image_044.png"
+       ],
+       [
+          "images/image_045.jpg",
+          "experts_anotation/anotExpert2_045.txt",
+          "images/image_045.png"
+       ],
+       [
+          "images/image_046.jpg",
+          "experts_anotation/anotExpert2_046.txt",
+          "images/image_046.png"
+       ],
+       [
+          "images/image_047.jpg",
+          "experts_anotation/anotExpert2_047.txt",
+          "images/image_047.png"
+       ],
+       [
+          "images/image_048.jpg",
+          "experts_anotation/anotExpert2_048.txt",
+          "images/image_048.png"
+       ],
+       [
+          "images/image_049.jpg",
+          "experts_anotation/anotExpert2_049.txt",
+          "images/image_049.png"
+       ],
+       [
+          "images/image_050.jpg",
+          "experts_anotation/anotExpert2_050.txt",
+          "images/image_050.png"
+       ],
+       [
+          "images/image_051.jpg",
+          "experts_anotation/anotExpert2_051.txt",
+          "images/image_051.png"
+       ],
+       [
+          "images/image_052.jpg",
+          "experts_anotation/anotExpert2_052.txt",
+          "images/image_052.png"
+       ],
+       [
+          "images/image_053.jpg",
+          "experts_anotation/anotExpert2_053.txt",
+          "images/image_053.png"
+       ],
+       [
+          "images/image_054.jpg",
+          "experts_anotation/anotExpert2_054.txt",
+          "images/image_054.png"
+       ],
+       [
+          "images/image_055.jpg",
+          "experts_anotation/anotExpert2_055.txt",
+          "images/image_055.png"
+       ],
+       [
+          "images/image_056.jpg",
+          "experts_anotation/anotExpert2_056.txt",
+          "images/image_056.png"
+       ],
+       [
+          "images/image_057.jpg",
+          "experts_anotation/anotExpert2_057.txt",
+          "images/image_057.png"
+       ],
+       [
+          "images/image_058.jpg",
+          "experts_anotation/anotExpert2_058.txt",
+          "images/image_058.png"
+       ],
+       [
+          "images/image_059.jpg",
+          "experts_anotation/anotExpert2_059.txt",
+          "images/image_059.png"
+       ],
+       [
+          "images/image_060.jpg",
+          "experts_anotation/anotExpert2_060.txt",
+          "images/image_060.png"
+       ]
+    ],
+    "test":[
+       [
+          "images/image_061.jpg",
+          "experts_anotation/anotExpert2_061.txt",
+          "images/image_061.png"
+       ],
+       [
+          "images/image_062.jpg",
+          "experts_anotation/anotExpert2_062.txt",
+          "images/image_062.png"
+       ],
+       [
+          "images/image_063.jpg",
+          "experts_anotation/anotExpert2_063.txt",
+          "images/image_063.png"
+       ],
+       [
+          "images/image_064.jpg",
+          "experts_anotation/anotExpert2_064.txt",
+          "images/image_064.png"
+       ],
+       [
+          "images/image_065.jpg",
+          "experts_anotation/anotExpert2_065.txt",
+          "images/image_065.png"
+       ],
+       [
+          "images/image_066.jpg",
+          "experts_anotation/anotExpert2_066.txt",
+          "images/image_066.png"
+       ],
+       [
+          "images/image_067.jpg",
+          "experts_anotation/anotExpert2_067.txt",
+          "images/image_067.png"
+       ],
+       [
+          "images/image_068.jpg",
+          "experts_anotation/anotExpert2_068.txt",
+          "images/image_068.png"
+       ],
+       [
+          "images/image_069.jpg",
+          "experts_anotation/anotExpert2_069.txt",
+          "images/image_069.png"
+       ],
+       [
+          "images/image_070.jpg",
+          "experts_anotation/anotExpert2_070.txt",
+          "images/image_070.png"
+       ],
+       [
+          "images/image_071.jpg",
+          "experts_anotation/anotExpert2_071.txt",
+          "images/image_071.png"
+       ],
+       [
+          "images/image_072.jpg",
+          "experts_anotation/anotExpert2_072.txt",
+          "images/image_072.png"
+       ],
+       [
+          "images/image_073.jpg",
+          "experts_anotation/anotExpert2_073.txt",
+          "images/image_073.png"
+       ],
+       [
+          "images/image_074.jpg",
+          "experts_anotation/anotExpert2_074.txt",
+          "images/image_074.png"
+       ],
+       [
+          "images/image_075.jpg",
+          "experts_anotation/anotExpert2_075.txt",
+          "images/image_075.png"
+       ],
+       [
+          "images/image_076.jpg",
+          "experts_anotation/anotExpert2_076.txt",
+          "images/image_076.png"
+       ],
+       [
+          "images/image_077.jpg",
+          "experts_anotation/anotExpert2_077.txt",
+          "images/image_077.png"
+       ],
+       [
+          "images/image_078.jpg",
+          "experts_anotation/anotExpert2_078.txt",
+          "images/image_078.png"
+       ],
+       [
+          "images/image_079.jpg",
+          "experts_anotation/anotExpert2_079.txt",
+          "images/image_079.png"
+       ],
+       [
+          "images/image_080.jpg",
+          "experts_anotation/anotExpert2_080.txt",
+          "images/image_080.png"
+       ],
+       [
+          "images/image_081.jpg",
+          "experts_anotation/anotExpert2_081.txt",
+          "images/image_081.png"
+       ],
+       [
+          "images/image_082.jpg",
+          "experts_anotation/anotExpert2_082.txt",
+          "images/image_082.png"
+       ],
+       [
+          "images/image_083.jpg",
+          "experts_anotation/anotExpert2_083.txt",
+          "images/image_083.png"
+       ],
+       [
+          "images/image_084.jpg",
+          "experts_anotation/anotExpert2_084.txt",
+          "images/image_084.png"
+       ],
+       [
+          "images/image_085.jpg",
+          "experts_anotation/anotExpert2_085.txt",
+          "images/image_085.png"
+       ],
+       [
+          "images/image_086.jpg",
+          "experts_anotation/anotExpert2_086.txt",
+          "images/image_086.png"
+       ],
+       [
+          "images/image_087.jpg",
+          "experts_anotation/anotExpert2_087.txt",
+          "images/image_087.png"
+       ],
+       [
+          "images/image_088.jpg",
+          "experts_anotation/anotExpert2_088.txt",
+          "images/image_088.png"
+       ],
+       [
+          "images/image_089.jpg",
+          "experts_anotation/anotExpert2_089.txt",
+          "images/image_089.png"
+       ],
+       [
+          "images/image_090.jpg",
+          "experts_anotation/anotExpert2_090.txt",
+          "images/image_090.png"
+       ],
+       [
+          "images/image_091.jpg",
+          "experts_anotation/anotExpert2_091.txt",
+          "images/image_091.png"
+       ],
+       [
+          "images/image_092.jpg",
+          "experts_anotation/anotExpert2_092.txt",
+          "images/image_092.png"
+       ],
+       [
+          "images/image_093.jpg",
+          "experts_anotation/anotExpert2_093.txt",
+          "images/image_093.png"
+       ],
+       [
+          "images/image_094.jpg",
+          "experts_anotation/anotExpert2_094.txt",
+          "images/image_094.png"
+       ],
+       [
+          "images/image_095.jpg",
+          "experts_anotation/anotExpert2_095.txt",
+          "images/image_095.png"
+       ],
+       [
+          "images/image_096.jpg",
+          "experts_anotation/anotExpert2_096.txt",
+          "images/image_096.png"
+       ],
+       [
+          "images/image_097.jpg",
+          "experts_anotation/anotExpert2_097.txt",
+          "images/image_097.png"
+       ],
+       [
+          "images/image_098.jpg",
+          "experts_anotation/anotExpert2_098.txt",
+          "images/image_098.png"
+       ],
+       [
+          "images/image_099.jpg",
+          "experts_anotation/anotExpert2_099.txt",
+          "images/image_099.png"
+       ],
+       [
+          "images/image_100.jpg",
+          "experts_anotation/anotExpert2_100.txt",
+          "images/image_100.png"
+       ],
+       [
+          "images/image_101.jpg",
+          "experts_anotation/anotExpert2_101.txt",
+          "images/image_101.png"
+       ],
+       [
+          "images/image_102.jpg",
+          "experts_anotation/anotExpert2_102.txt",
+          "images/image_102.png"
+       ],
+       [
+          "images/image_103.jpg",
+          "experts_anotation/anotExpert2_103.txt",
+          "images/image_103.png"
+       ],
+       [
+          "images/image_104.jpg",
+          "experts_anotation/anotExpert2_104.txt",
+          "images/image_104.png"
+       ],
+       [
+          "images/image_105.jpg",
+          "experts_anotation/anotExpert2_105.txt",
+          "images/image_105.png"
+       ],
+       [
+          "images/image_106.jpg",
+          "experts_anotation/anotExpert2_106.txt",
+          "images/image_106.png"
+       ],
+       [
+          "images/image_107.jpg",
+          "experts_anotation/anotExpert2_107.txt",
+          "images/image_107.png"
+       ],
+       [
+          "images/image_108.jpg",
+          "experts_anotation/anotExpert2_108.txt",
+          "images/image_108.png"
+       ],
+       [
+          "images/image_109.jpg",
+          "experts_anotation/anotExpert2_109.txt",
+          "images/image_109.png"
+       ],
+       [
+          "images/image_110.jpg",
+          "experts_anotation/anotExpert2_110.txt",
+          "images/image_110.png"
+       ]
+    ]
+ }

src/mednet/libs/segmentation/config/data/drionsdb/expert2.py

+# SPDX-FileCopyrightText: Copyright © 2024 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+"""DRIONS-DB for Optic Disc Segmentation (expert #2 annotations).
+
+* Configuration resolution: 416 x 608 (after padding)
+* Split reference: [MANINIS-2016]_
+* See :py:mod:`deepdraw.data.drionsdb` for dataset details
+"""
+
+from mednet.libs.segmentation.config.data.drionsdb.datamodule import DataModule
+
+datamodule = DataModule("expert2.json")