From c755b585368fe81f28d534defd0df850333ee2b2 Mon Sep 17 00:00:00 2001 From: dcarron <daniel.carron@idiap.ch> Date: Fri, 14 Jun 2024 17:41:07 +0200 Subject: [PATCH] [segmentation] Remouve outdated datamodule resolution information --- src/mednet/libs/segmentation/config/data/avdrive/default.py | 1 - src/mednet/libs/segmentation/config/data/cxr8/default.py | 1 - src/mednet/libs/segmentation/config/data/drhagis/default.py | 5 +---- src/mednet/libs/segmentation/config/data/drionsdb/expert1.py | 1 - src/mednet/libs/segmentation/config/data/drionsdb/expert2.py | 1 - .../segmentation/config/data/drishtigs1/optic_cup_all.py | 1 - .../segmentation/config/data/drishtigs1/optic_cup_any.py | 1 - .../segmentation/config/data/drishtigs1/optic_disc_all.py | 1 - .../segmentation/config/data/drishtigs1/optic_disc_any.py | 1 - src/mednet/libs/segmentation/config/data/drive/default.py | 2 -- src/mednet/libs/segmentation/config/data/drive/drive_2nd.py | 1 - src/mednet/libs/segmentation/config/data/hrf/default.py | 1 - .../libs/segmentation/config/data/iostar/optic_disc.py | 1 - src/mednet/libs/segmentation/config/data/iostar/vessel.py | 1 - src/mednet/libs/segmentation/config/data/jsrt/default.py | 1 - .../libs/segmentation/config/data/montgomery/default.py | 1 - src/mednet/libs/segmentation/config/data/refuge/cup.py | 1 - src/mednet/libs/segmentation/config/data/refuge/disc.py | 1 - .../libs/segmentation/config/data/rimoner3/cup_exp1.py | 1 - .../libs/segmentation/config/data/rimoner3/cup_exp2.py | 1 - .../libs/segmentation/config/data/rimoner3/disc_exp1.py | 1 - .../libs/segmentation/config/data/rimoner3/disc_exp2.py | 1 - src/mednet/libs/segmentation/config/data/shenzhen/default.py | 1 - src/mednet/libs/segmentation/config/data/stare/ah.py | 1 - src/mednet/libs/segmentation/config/data/stare/vk.py | 1 - 25 files changed, 1 insertion(+), 29 deletions(-) diff --git a/src/mednet/libs/segmentation/config/data/avdrive/default.py b/src/mednet/libs/segmentation/config/data/avdrive/default.py index c74d2c48..e0e0603e 100644 --- a/src/mednet/libs/segmentation/config/data/avdrive/default.py +++ b/src/mednet/libs/segmentation/config/data/avdrive/default.py @@ -4,7 +4,6 @@ """DRIVE dataset for Vessel Segmentation (default protocol). * Split reference: [DRIVE-2004]_ -* This configuration resolution: 544 x 544 (center-crop) * We are using DRIVE dataset for artery vein segmentation """ diff --git a/src/mednet/libs/segmentation/config/data/cxr8/default.py b/src/mednet/libs/segmentation/config/data/cxr8/default.py index ab1a0313..8b346770 100644 --- a/src/mednet/libs/segmentation/config/data/cxr8/default.py +++ b/src/mednet/libs/segmentation/config/data/cxr8/default.py @@ -4,7 +4,6 @@ """CXR8 Dataset (default protocol). * Split reference: [GAAL-2020]_ -* Configuration resolution: 256 x 256 """ from mednet.libs.segmentation.config.data.cxr8.datamodule import DataModule diff --git a/src/mednet/libs/segmentation/config/data/drhagis/default.py b/src/mednet/libs/segmentation/config/data/drhagis/default.py index c0c5ad84..61122f80 100644 --- a/src/mednet/libs/segmentation/config/data/drhagis/default.py +++ b/src/mednet/libs/segmentation/config/data/drhagis/default.py @@ -1,10 +1,7 @@ # SPDX-FileCopyrightText: Copyright © 2024 Idiap Research Institute <contact@idiap.ch> # # SPDX-License-Identifier: GPL-3.0-or-later -"""DRHAGIS dataset for Vessel Segmentation (default protocol). - -* This configuration resolution: 1760 x 1760 (Resizing) -""" +"""DRHAGIS dataset for Vessel Segmentation (default protocol).""" from mednet.libs.segmentation.config.data.drhagis.datamodule import DataModule diff --git a/src/mednet/libs/segmentation/config/data/drionsdb/expert1.py b/src/mednet/libs/segmentation/config/data/drionsdb/expert1.py index 03a457e0..c9339b09 100644 --- a/src/mednet/libs/segmentation/config/data/drionsdb/expert1.py +++ b/src/mednet/libs/segmentation/config/data/drionsdb/expert1.py @@ -3,7 +3,6 @@ # 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]_ """ diff --git a/src/mednet/libs/segmentation/config/data/drionsdb/expert2.py b/src/mednet/libs/segmentation/config/data/drionsdb/expert2.py index 07f44ae5..9b6a344c 100644 --- a/src/mednet/libs/segmentation/config/data/drionsdb/expert2.py +++ b/src/mednet/libs/segmentation/config/data/drionsdb/expert2.py @@ -3,7 +3,6 @@ # 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]_ """ diff --git a/src/mednet/libs/segmentation/config/data/drishtigs1/optic_cup_all.py b/src/mednet/libs/segmentation/config/data/drishtigs1/optic_cup_all.py index b49d063b..0bacacce 100644 --- a/src/mednet/libs/segmentation/config/data/drishtigs1/optic_cup_all.py +++ b/src/mednet/libs/segmentation/config/data/drishtigs1/optic_cup_all.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """DRISHTI-GS1 dataset for Cup Segmentation (agreed by all annotators). -* Configuration resolution: 1760 x 2048 (after center cropping) * Reference (includes split): [DRISHTIGS1-2014]_ """ diff --git a/src/mednet/libs/segmentation/config/data/drishtigs1/optic_cup_any.py b/src/mednet/libs/segmentation/config/data/drishtigs1/optic_cup_any.py index a980f8ab..668c051f 100644 --- a/src/mednet/libs/segmentation/config/data/drishtigs1/optic_cup_any.py +++ b/src/mednet/libs/segmentation/config/data/drishtigs1/optic_cup_any.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """DRISHTI-GS1 dataset for Cup Segmentation (agreed by all annotators). -* Configuration resolution: 1760 x 2048 (after center cropping) * Reference (includes split): [DRISHTIGS1-2014]_ """ diff --git a/src/mednet/libs/segmentation/config/data/drishtigs1/optic_disc_all.py b/src/mednet/libs/segmentation/config/data/drishtigs1/optic_disc_all.py index b02c274c..661224a6 100644 --- a/src/mednet/libs/segmentation/config/data/drishtigs1/optic_disc_all.py +++ b/src/mednet/libs/segmentation/config/data/drishtigs1/optic_disc_all.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """DRISHTI-GS1 dataset for Cup Segmentation (agreed by all annotators). -* Configuration resolution: 1760 x 2048 (after center cropping) * Reference (includes split): [DRISHTIGS1-2014]_ """ diff --git a/src/mednet/libs/segmentation/config/data/drishtigs1/optic_disc_any.py b/src/mednet/libs/segmentation/config/data/drishtigs1/optic_disc_any.py index 6a5de2e2..1192ffc3 100644 --- a/src/mednet/libs/segmentation/config/data/drishtigs1/optic_disc_any.py +++ b/src/mednet/libs/segmentation/config/data/drishtigs1/optic_disc_any.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """DRISHTI-GS1 dataset for Cup Segmentation (agreed by all annotators). -* Configuration resolution: 1760 x 2048 (after center cropping) * Reference (includes split): [DRISHTIGS1-2014]_ """ diff --git a/src/mednet/libs/segmentation/config/data/drive/default.py b/src/mednet/libs/segmentation/config/data/drive/default.py index 0e1cc0b2..383341b7 100644 --- a/src/mednet/libs/segmentation/config/data/drive/default.py +++ b/src/mednet/libs/segmentation/config/data/drive/default.py @@ -4,8 +4,6 @@ """DRIVE dataset for Vessel Segmentation (default protocol). * Split reference: [DRIVE-2004]_ -* This configuration resolution: 544 x 544 (center-crop) -* This dataset offers a second-annotator comparison for the test set only """ from mednet.libs.segmentation.config.data.drive.datamodule import DataModule diff --git a/src/mednet/libs/segmentation/config/data/drive/drive_2nd.py b/src/mednet/libs/segmentation/config/data/drive/drive_2nd.py index aa130b4c..d700767c 100644 --- a/src/mednet/libs/segmentation/config/data/drive/drive_2nd.py +++ b/src/mednet/libs/segmentation/config/data/drive/drive_2nd.py @@ -4,7 +4,6 @@ """DRIVE dataset for Vessel Segmentation (default protocol). * Split reference: [DRIVE-2004]_ -* This configuration resolution: 544 x 544 (center-crop) * This dataset offers a second-annotator comparison for the test set only """ diff --git a/src/mednet/libs/segmentation/config/data/hrf/default.py b/src/mednet/libs/segmentation/config/data/hrf/default.py index 4b0c97fe..855f6e26 100644 --- a/src/mednet/libs/segmentation/config/data/hrf/default.py +++ b/src/mednet/libs/segmentation/config/data/hrf/default.py @@ -4,7 +4,6 @@ """HRF dataset for Vessel Segmentation (default protocol). * Split reference: [ORLANDO-2017]_ -* Configuration resolution: 1168 x 1648 (about half full HRF resolution) """ from mednet.libs.segmentation.config.data.hrf.datamodule import ( diff --git a/src/mednet/libs/segmentation/config/data/iostar/optic_disc.py b/src/mednet/libs/segmentation/config/data/iostar/optic_disc.py index 2b548bd9..10f9be60 100644 --- a/src/mednet/libs/segmentation/config/data/iostar/optic_disc.py +++ b/src/mednet/libs/segmentation/config/data/iostar/optic_disc.py @@ -5,7 +5,6 @@ """IOSTAR dataset for Optic Disc Segmentation (default protocol). * Split reference: [MEYER-2017]_ -* Configuration resolution: 1024 x 1024 (original resolution) """ from mednet.libs.segmentation.config.data.iostar.datamodule import DataModule diff --git a/src/mednet/libs/segmentation/config/data/iostar/vessel.py b/src/mednet/libs/segmentation/config/data/iostar/vessel.py index 183207d6..0b0c6486 100644 --- a/src/mednet/libs/segmentation/config/data/iostar/vessel.py +++ b/src/mednet/libs/segmentation/config/data/iostar/vessel.py @@ -5,7 +5,6 @@ """IOSTAR dataset for Vessel Segmentation (default protocol). * Split reference: [MEYER-2017]_ -* Configuration resolution: 1024 x 1024 (original resolution) """ from mednet.libs.segmentation.config.data.iostar.datamodule import DataModule diff --git a/src/mednet/libs/segmentation/config/data/jsrt/default.py b/src/mednet/libs/segmentation/config/data/jsrt/default.py index 51c012fd..5b755e28 100644 --- a/src/mednet/libs/segmentation/config/data/jsrt/default.py +++ b/src/mednet/libs/segmentation/config/data/jsrt/default.py @@ -5,7 +5,6 @@ (default protocol). * Split reference: [GAAL-2020]_ -* Configuration resolution: 256 x 256 """ from mednet.libs.segmentation.config.data.jsrt.datamodule import ( diff --git a/src/mednet/libs/segmentation/config/data/montgomery/default.py b/src/mednet/libs/segmentation/config/data/montgomery/default.py index 33e21d79..40b1632a 100644 --- a/src/mednet/libs/segmentation/config/data/montgomery/default.py +++ b/src/mednet/libs/segmentation/config/data/montgomery/default.py @@ -5,7 +5,6 @@ """Montgomery County dataset for Lung Segmentation (default protocol). * Split reference: [GAAL-2020]_ -* Configuration resolution: 256 x 256 """ from mednet.libs.segmentation.config.data.montgomery.datamodule import ( diff --git a/src/mednet/libs/segmentation/config/data/refuge/cup.py b/src/mednet/libs/segmentation/config/data/refuge/cup.py index a4514b58..bf4a5264 100644 --- a/src/mednet/libs/segmentation/config/data/refuge/cup.py +++ b/src/mednet/libs/segmentation/config/data/refuge/cup.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """REFUGE dataset for Optic Cup Segmentation (default protocol). -* Configuration resolution: 1632 x 1632 (after resizing and padding) * Reference (including split): [REFUGE-2018]_ """ diff --git a/src/mednet/libs/segmentation/config/data/refuge/disc.py b/src/mednet/libs/segmentation/config/data/refuge/disc.py index c06ea99c..3c876e7e 100644 --- a/src/mednet/libs/segmentation/config/data/refuge/disc.py +++ b/src/mednet/libs/segmentation/config/data/refuge/disc.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """REFUGE dataset for Optic Disc Segmentation (default protocol). -* Configuration resolution: 1632 x 1632 (after resizing and padding) * Reference (including split): [REFUGE-2018]_ """ diff --git a/src/mednet/libs/segmentation/config/data/rimoner3/cup_exp1.py b/src/mednet/libs/segmentation/config/data/rimoner3/cup_exp1.py index 79208027..19ed62d0 100644 --- a/src/mednet/libs/segmentation/config/data/rimoner3/cup_exp1.py +++ b/src/mednet/libs/segmentation/config/data/rimoner3/cup_exp1.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """RIM-ONE r3 for Optic Cup Segmentation (expert #1 annotations). -* Configuration resolution: 1440 x 1088 (after padding) * Split reference: [MANINIS-2016]_ """ diff --git a/src/mednet/libs/segmentation/config/data/rimoner3/cup_exp2.py b/src/mednet/libs/segmentation/config/data/rimoner3/cup_exp2.py index 79208027..19ed62d0 100644 --- a/src/mednet/libs/segmentation/config/data/rimoner3/cup_exp2.py +++ b/src/mednet/libs/segmentation/config/data/rimoner3/cup_exp2.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """RIM-ONE r3 for Optic Cup Segmentation (expert #1 annotations). -* Configuration resolution: 1440 x 1088 (after padding) * Split reference: [MANINIS-2016]_ """ diff --git a/src/mednet/libs/segmentation/config/data/rimoner3/disc_exp1.py b/src/mednet/libs/segmentation/config/data/rimoner3/disc_exp1.py index 203f8620..19c1cb09 100644 --- a/src/mednet/libs/segmentation/config/data/rimoner3/disc_exp1.py +++ b/src/mednet/libs/segmentation/config/data/rimoner3/disc_exp1.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """RIM-ONE r3 for Optic Disc Segmentation (expert #1 annotations). -* Configuration resolution: 1440 x 1088 (after padding) * Split reference: [MANINIS-2016]_ """ diff --git a/src/mednet/libs/segmentation/config/data/rimoner3/disc_exp2.py b/src/mednet/libs/segmentation/config/data/rimoner3/disc_exp2.py index db0c41b3..bb17c246 100644 --- a/src/mednet/libs/segmentation/config/data/rimoner3/disc_exp2.py +++ b/src/mednet/libs/segmentation/config/data/rimoner3/disc_exp2.py @@ -3,7 +3,6 @@ # SPDX-License-Identifier: GPL-3.0-or-later """RIM-ONE r3 for Optic Disc Segmentation (expert #2 annotations). -* Configuration resolution: 1440 x 1088 (after padding) * Split reference: [MANINIS-2016]_ """ diff --git a/src/mednet/libs/segmentation/config/data/shenzhen/default.py b/src/mednet/libs/segmentation/config/data/shenzhen/default.py index 4ef32734..c66e34ad 100644 --- a/src/mednet/libs/segmentation/config/data/shenzhen/default.py +++ b/src/mednet/libs/segmentation/config/data/shenzhen/default.py @@ -4,7 +4,6 @@ """Shenzhen dataset for Lung Segmentation (default protocol). * Split reference: [GAAL-2020]_ -* Configuration resolution: 256 x 256 """ from mednet.libs.segmentation.config.data.shenzhen.datamodule import DataModule diff --git a/src/mednet/libs/segmentation/config/data/stare/ah.py b/src/mednet/libs/segmentation/config/data/stare/ah.py index 811d0a0f..1bde293d 100644 --- a/src/mednet/libs/segmentation/config/data/stare/ah.py +++ b/src/mednet/libs/segmentation/config/data/stare/ah.py @@ -4,7 +4,6 @@ """STARE dataset for Vessel Segmentation (annotator AH). -* Configuration resolution: 704 x 608 (after padding) * Split reference: [MANINIS-2016]_ * This dataset offers a second-annotator comparison (using protocol "vk") """ diff --git a/src/mednet/libs/segmentation/config/data/stare/vk.py b/src/mednet/libs/segmentation/config/data/stare/vk.py index 5a871186..2084c8eb 100644 --- a/src/mednet/libs/segmentation/config/data/stare/vk.py +++ b/src/mednet/libs/segmentation/config/data/stare/vk.py @@ -4,7 +4,6 @@ """STARE dataset for Vessel Segmentation (annotator VK). -* Configuration resolution: 704 x 608 (after padding) * Split reference: [MANINIS-2016]_ * This dataset offers a second-annotator comparison (using protocol "ah") """ -- GitLab