From 732c73952a39b0e8b40d7fb2197c3d56770206f3 Mon Sep 17 00:00:00 2001
From: saima safdar <80670821+saimasafdar2021@users.noreply.github.com>
Date: Tue, 13 Feb 2024 10:27:18 +0800
Subject: [PATCH 1/3] BatchBrainMRTumorSegmentation

does tumor segmentation for a batch using T1, T1c, flair and T2 images. It uses the brats toolkit to perform segmentation. Its a wrapper for brats toolkit for performing batch processing.
---
 BatchBrainMRTumorSegmentation.s4ext | 43 +++++++++++++++++++++++++++++
 1 file changed, 43 insertions(+)
 create mode 100644 BatchBrainMRTumorSegmentation.s4ext

diff --git a/BatchBrainMRTumorSegmentation.s4ext b/BatchBrainMRTumorSegmentation.s4ext
new file mode 100644
index 000000000..e9322af96
--- /dev/null
+++ b/BatchBrainMRTumorSegmentation.s4ext
@@ -0,0 +1,43 @@
+#
+# First token of each non-comment line is the keyword and the rest of the line
+# (including spaces) is the value.
+# - the value can be blank
+#
+
+# This is source code manager (i.e. svn)
+scm git
+scmurl https://github.com/UWA-Medical-Physics/SlicerBatchBrainMRTumorSegmentation
+scmrevision main
+
+# list dependencies
+# - These should be names of other modules that have .s4ext files
+# - The dependencies will be built first
+depends NA
+
+# Inner build directory (default is ".")
+build_subdirectory .
+
+# homepage
+homepage https://github.com/UWA-Medical-Physics/SlicerBatchBrainMRTumorSegmentation
+
+# Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2)
+# For example: 
+
+# Match category in the xml description of the module (where it shows up in Modules menu)
+category Segmentation
+
+# url to icon (png, size 128x128 pixels)
+iconurl https://github.com/UWA-Medical-Physics/SlicerBatchBrainMRTumorSegmentation/blob/main/BatchBrainMRTumorSegmentation.png
+
+# Give people an idea what to expect from this code
+#  - Is it just a test or something you stand behind?
+status Beta
+
+# One line stating what the module does
+Supports segmentation of brain tumor for a cohort at once without any human intervention.
+
+# Space separated list of urls
+screenshoturls https://github.com/UWA-Medical-Physics/SlicerBatchBrainMRTumorSegmentation/blob/main/Screenshot%20from%202024-02-06%2012-11-03.png
+
+# 0 or 1: Define if the extension should be enabled after its installation.
+enabled 1

From 50b6023bded53b2f1214cba59cbcae198dbd5972 Mon Sep 17 00:00:00 2001
From: saima safdar <80670821+saimasafdar2021@users.noreply.github.com>
Date: Fri, 12 Apr 2024 13:20:36 +0800
Subject: [PATCH 2/3] Update BatchBrainMRTumorSegmentation.s4ext

added contributors field and the description field
---
 BatchBrainMRTumorSegmentation.s4ext | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/BatchBrainMRTumorSegmentation.s4ext b/BatchBrainMRTumorSegmentation.s4ext
index e9322af96..153966d9c 100644
--- a/BatchBrainMRTumorSegmentation.s4ext
+++ b/BatchBrainMRTumorSegmentation.s4ext
@@ -22,6 +22,7 @@ homepage https://github.com/UWA-Medical-Physics/SlicerBatchBrainMRTumorSegmentat
 
 # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2)
 # For example: 
+contributors Saima Safdar (The University of Western Australia)
 
 # Match category in the xml description of the module (where it shows up in Modules menu)
 category Segmentation
@@ -34,7 +35,7 @@ iconurl https://github.com/UWA-Medical-Physics/SlicerBatchBrainMRTumorSegmentati
 status Beta
 
 # One line stating what the module does
-Supports segmentation of brain tumor for a cohort at once without any human intervention.
+description Supports segmentation of brain tumor for a cohort at once without any human intervention.
 
 # Space separated list of urls
 screenshoturls https://github.com/UWA-Medical-Physics/SlicerBatchBrainMRTumorSegmentation/blob/main/Screenshot%20from%202024-02-06%2012-11-03.png

From 4714e6da56cddff0fd2e55ec894c8198a7c6c0d9 Mon Sep 17 00:00:00 2001
From: saima safdar <80670821+saimasafdar2021@users.noreply.github.com>
Date: Mon, 15 Jul 2024 11:07:12 +0800
Subject: [PATCH 3/3] file uploaded

---
 SlicerBratsPreprocessor.s4ext | 44 +++++++++++++++++++++++++++++++++++
 1 file changed, 44 insertions(+)
 create mode 100644 SlicerBratsPreprocessor.s4ext

diff --git a/SlicerBratsPreprocessor.s4ext b/SlicerBratsPreprocessor.s4ext
new file mode 100644
index 000000000..8f9820db7
--- /dev/null
+++ b/SlicerBratsPreprocessor.s4ext
@@ -0,0 +1,44 @@
+#
+# First token of each non-comment line is the keyword and the rest of the line
+# (including spaces) is the value.
+# - the value can be blank
+#
+
+# This is source code manager (i.e. svn)
+scm git
+scmurl https://github.com/UWA-Medical-Physics/SlicerBratsPreprocessor
+scmrevision main
+
+# list dependencies
+# - These should be names of other modules that have .s4ext files
+# - The dependencies will be built first
+depends NA
+
+# Inner build directory (default is ".")
+build_subdirectory .
+
+# homepage
+homepage https://github.com/UWA-Medical-Physics/SlicerBratsPreprocessor
+
+# Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2)
+# For example: 
+contributors Saima Safdar (The University of Western Australia)
+
+# Match category in the xml description of the module (where it shows up in Modules menu)
+category Slicer-Bratstoolkit
+
+# url to icon (png, size 128x128 pixels)
+iconurl https://github.com/UWA-Medical-Physics/SlicerBatchBrainMRTumorSegmentation/blob/main/BatchBrainMRTumorSegmentation.png
+
+# Give people an idea what to expect from this code
+#  - Is it just a test or something you stand behind?
+status Beta
+
+# One line stating what the module does
+Supports image preprocessing steps and is based on the brats toolkit preprocessor. 
+
+# Space separated list of urls
+screenshoturls https://github.com/UWA-Medical-Physics/SlicerBatchBrainMRTumorSegmentation/blob/main/Screenshot%20from%202024-02-06%2012-11-03.png
+
+# 0 or 1: Define if the extension should be enabled after its installation.
+enabled 1