added alternative configurations for tbx11k

src/ptbench/configs/datasets/tbx11k_simplified_RS/default.py

@@ -2,7 +2,8 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (default protocol) (extended with
+DensenetRS predictions)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_0.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 0)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_1.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 1)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_2.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 2)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_3.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 3)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_4.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 4)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_5.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 5)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_6.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 6)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_7.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 7)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_8.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 8)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS/fold_9.py

@@ -2,7 +2,7 @@
 #
 # SPDX-License-Identifier: GPL-3.0-or-later
 
-"""TBX11k simplified dataset for TB detection (default protocol)
+"""TBX11k simplified dataset for TB detection (cross validation fold 9)
 
 * Split reference: first 62.5% of TB and healthy CXR for "train" 15.9% for
 * "validation", 21.6% for "test"

src/ptbench/configs/datasets/tbx11k_simplified_RS_v2/__init__.py

+# SPDX-FileCopyrightText: Copyright © 2023 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+
+
+def _maker(protocol):
+    from ....data.tbx11k_simplified_RS_v2 import dataset as raw
+    from .. import make_dataset as mk
+
+    return mk([raw.subsets(protocol)])

src/ptbench/configs/datasets/tbx11k_simplified_RS_v2/default.py

+# Copyright © 2022 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+
+"""TBX11k simplified dataset for TB detection (default protocol) (extended with
+DensenetRS predictions)
+
+* Split reference: first 62.6% of CXR for "train", 16% for "validation",
+* 21.4% for "test"
+* This split consists of non-TB and active TB samples
+* "healthy", "latent TB", and "sick & non-TB" samples are all merged under the label "non-TB"
+* This configuration resolution: 512 x 512 (default)
+* See :py:mod:`ptbench.data.tbx11k_v2` for dataset details
+"""
+
+from . import _maker
+
+dataset = _maker("default")

src/ptbench/configs/datasets/tbx11k_simplified_RS_v2/fold_0.py

+# Copyright © 2022 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+
+"""TBX11k simplified dataset for TB detection (cross validation fold 0)
+
+* Split reference: first 62.6% of CXR for "train", 16% for "validation",
+* 21.4% for "test"
+* This split consists of non-TB and active TB samples
+* "healthy", "latent TB", and "sick & non-TB" samples are all merged under the label "non-TB"
+* This configuration resolution: 512 x 512 (default)
+* See :py:mod:`ptbench.data.tbx11k_v2` for dataset details
+"""
+
+from . import _maker
+
+dataset = _maker("fold_0")

src/ptbench/configs/datasets/tbx11k_simplified_RS_v2/fold_1.py

+# Copyright © 2022 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+
+"""TBX11k simplified dataset for TB detection (cross validation fold 1)
+
+* Split reference: first 62.6% of CXR for "train", 16% for "validation",
+* 21.4% for "test"
+* This split consists of non-TB and active TB samples
+* "healthy", "latent TB", and "sick & non-TB" samples are all merged under the label "non-TB"
+* This configuration resolution: 512 x 512 (default)
+* See :py:mod:`ptbench.data.tbx11k_v2` for dataset details
+"""
+
+from . import _maker
+
+dataset = _maker("fold_1")

src/ptbench/configs/datasets/tbx11k_simplified_RS_v2/fold_2.py

+# Copyright © 2022 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+
+"""TBX11k simplified dataset for TB detection (cross validation fold 2)
+
+* Split reference: first 62.6% of CXR for "train", 16% for "validation",
+* 21.4% for "test"
+* This split consists of non-TB and active TB samples
+* "healthy", "latent TB", and "sick & non-TB" samples are all merged under the label "non-TB"
+* This configuration resolution: 512 x 512 (default)
+* See :py:mod:`ptbench.data.tbx11k_v2` for dataset details
+"""
+
+from . import _maker
+
+dataset = _maker("fold_2")

src/ptbench/configs/datasets/tbx11k_simplified_RS_v2/fold_3.py

+# Copyright © 2022 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+
+"""TBX11k simplified dataset for TB detection (cross validation fold 3)
+
+* Split reference: first 62.6% of CXR for "train", 16% for "validation",
+* 21.4% for "test"
+* This split consists of non-TB and active TB samples
+* "healthy", "latent TB", and "sick & non-TB" samples are all merged under the label "non-TB"
+* This configuration resolution: 512 x 512 (default)
+* See :py:mod:`ptbench.data.tbx11k_v2` for dataset details
+"""
+
+from . import _maker
+
+dataset = _maker("fold_3")

src/ptbench/configs/datasets/tbx11k_simplified_RS_v2/fold_4.py

+# Copyright © 2022 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+
+"""TBX11k simplified dataset for TB detection (cross validation fold 4)
+
+* Split reference: first 62.6% of CXR for "train", 16% for "validation",
+* 21.4% for "test"
+* This split consists of non-TB and active TB samples
+* "healthy", "latent TB", and "sick & non-TB" samples are all merged under the label "non-TB"
+* This configuration resolution: 512 x 512 (default)
+* See :py:mod:`ptbench.data.tbx11k_v2` for dataset details
+"""
+
+from . import _maker
+
+dataset = _maker("fold_4")

src/ptbench/configs/datasets/tbx11k_simplified_RS_v2/fold_5.py

+# Copyright © 2022 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+
+"""TBX11k simplified dataset for TB detection (cross validation fold 5)
+
+* Split reference: first 62.6% of CXR for "train", 16% for "validation",
+* 21.4% for "test"
+* This split consists of non-TB and active TB samples
+* "healthy", "latent TB", and "sick & non-TB" samples are all merged under the label "non-TB"
+* This configuration resolution: 512 x 512 (default)
+* See :py:mod:`ptbench.data.tbx11k_v2` for dataset details
+"""
+
+from . import _maker
+
+dataset = _maker("fold_5")

src/ptbench/configs/datasets/tbx11k_simplified_RS_v2/fold_6.py

+# Copyright © 2022 Idiap Research Institute <contact@idiap.ch>
+#
+# SPDX-License-Identifier: GPL-3.0-or-later
+
+"""TBX11k simplified dataset for TB detection (cross validation fold 6)
+
+* Split reference: first 62.6% of CXR for "train", 16% for "validation",
+* 21.4% for "test"
+* This split consists of non-TB and active TB samples
+* "healthy", "latent TB", and "sick & non-TB" samples are all merged under the label "non-TB"
+* This configuration resolution: 512 x 512 (default)
+* See :py:mod:`ptbench.data.tbx11k_v2` for dataset details
+"""
+
+from . import _maker
+
+dataset = _maker("fold_6")