Renaming process ongoing.

Author: dbouget

.idea/DeepSintef.iml

@@ -32,7 +32,7 @@ More information about the different models provided and architectures used can
 2.3 Load the plugin into 3DSlicer:   
 	∘ All Modules > Extension Wizard.  
 	∘ (Slicer v4.11) Developer Tools > Extension Wizard.  
-	∘ Select Extension > point to the folder and add it to the path (tick the small box at the bottom).  
+	∘ Select Extension > point to the folder (second Raidionics) and add it to the path (tick the small box at the bottom).  
 A restart of 3DSlicer is necessary after the initial launch with the plugin to have the proper Python environment.  
 
 :warning: old trick necessary for 3DSlicer using Python 2.7  
@@ -65,7 +65,8 @@ Then click on the downloaded executable and follow the instructions.
 
 ### 3.2 Setup the Docker images
 • All used Docker images are public, therefore an account is not necessary. 
-All images will be automatically downloaded upon model selection.  
+All images will be automatically downloaded upon model selection, which might 
+take some minutes while the 3DSlicer interface won't be responding.  
 
 ## 4. Options
 • A global option should be ticked to check for models update.  

.idea/modules.xml

@@ -6,7 +6,7 @@ project(Raidionics)
 # Extension meta-information
 set(EXTENSION_HOMEPAGE "http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/Raidionics")
 set(EXTENSION_CATEGORY "AI")
-set(EXTENSION_CONTRIBUTORS ", David (SINTEF)")
+set(EXTENSION_CONTRIBUTORS ", David Bouget (Medical Technology, SINTEF Digital)")
 set(EXTENSION_DESCRIPTION "This is an example of a simple extension")
 set(EXTENSION_ICONURL "http://www.example.com/Slicer/Extensions/Raidionics.png")
 set(EXTENSION_SCREENSHOTURLS "http://www.example.com/Slicer/Extensions/Raidionics/Screenshots/1.png")

README.md

@@ -19,10 +19,6 @@
 from src.RaidionicsLogic import *
 from src.gui.RaidionicsWidget import *
 
-"""
-Raidionics is based upon the DeepInfer code (available at https://github.com/DeepInfer/Slicer-DeepInfer)
-"""
-
 
 class Raidionics(ScriptedLoadableModule):
   """Uses ScriptedLoadableModule base class, available at:
@@ -34,10 +30,13 @@ def __init__(self, parent):
     self.parent.title = "Raidionics"
     self.parent.categories = ["Machine Learning"]
     self.parent.dependencies = []
-    self.parent.contributors = ["David Bouget (SINTEF)"]
+    self.parent.contributors = ["David Bouget (Medical Technology, SINTEF Digital) david.bouget@sintef.no"]
     self.parent.helpText = """
-    This is a plugin developped by SINTEF MedTek, allowing users to run pre-trained models on neuro and mediastinum
-    data."""
+    The Raidionics plugin for 3D Slicer allows users to run pre-trained models for segmentation and standardized
+    reporting (RADS) over MRI volumes for patients diagnosed with brain cancer, and CT volumes for patients diagnosed 
+    with lung cancer.
+    The plugin has been developed in the Medical Technology group, Health Research Department, SINTEF Digital.
+    """
     self.parent.helpText += self.getDefaultModuleDocumentationLink()
     self.parent.acknowledgementText = """
     This plugin is based upon the DeepInfer plugin (available at https://github.com/DeepInfer/Slicer-DeepInfer), 

DeepSintef/CMakeLists.txt Raidionics/CMakeLists.txtDeepSintef/CMakeLists.txt renamed to Raidionics/CMakeLists.txt

@@ -52,7 +52,7 @@ def __init_base_variables(self):
         self.abort = False
         self.dockerPath = SharedResources.getInstance().docker_path
         self.file_extension_docker = '.nii.gz'
-        self.logic_task = 'segmentation'  # segmentation or diagnosis for now
+        self.logic_task = 'segmentation'  # segmentation or diagnosis (RADS) for now
 
     def yieldPythonGIL(self, seconds=0):
         sleep(seconds)
@@ -303,7 +303,8 @@ def executeDocker(self, dockerName, modelName, dataPath, iodict, inputs, outputs
 
         dataPath = '/home/ubuntu/resources'
         if self.logic_task == 'diagnosis':
-            dataPath = '/home/ubuntu/sintef-segmenter/resources'
+            # dataPath = '/home/ubuntu/sintef-segmenter/resources'
+            dataPath = '/home/ubuntu/Raidionics-segmenter/resources'
 
         # if widgetPresent:
         #     self.cmdStartEvent()