Linked the latest runtime flags - stable segmentation. RADS part to b…

…e re-connected. [skip ci]

Raidionics/Raidionics/src/gui/Diagnosis/DiagnosisInterfaceWidget.py

@@ -166,6 +166,9 @@ def on_diagnosis_selection(self, index):
 
         self.diagnosis_model_parameters.destroy()
         json_model = self.find_json_model(selected_model_name=selected_model)
+        if not json_model:
+            return
+
         self.diagnosis_model_parameters.create(json_model)
 
         if "briefdescription" in json_model:

Raidionics/Raidionics/src/gui/Segmentation/ModelsExecutionWidget.py

@@ -46,8 +46,18 @@ def setup_execution_area(self):
         tmp_layout = qt.QGridLayout()
         self.advanced_use_gpu_label = qt.QLabel('Use GPU')
         self.advanced_use_gpu_checkbox = qt.QCheckBox()
+        self.advanced_use_gpu_checkbox.setEnabled(False)
         tmp_layout.addWidget(self.advanced_use_gpu_label, 0, 0)
         tmp_layout.addWidget(self.advanced_use_gpu_checkbox, 0, 1)
+        self.advanced_use_stripped_inputs_label = qt.QLabel('Stripped inputs')
+        self.advanced_use_stripped_inputs_checkbox = qt.QCheckBox()
+        tmp_layout.addWidget(self.advanced_use_stripped_inputs_label, 0, 2)
+        tmp_layout.addWidget(self.advanced_use_stripped_inputs_checkbox, 0, 3)
+        self.advanced_use_registered_inputs_label = qt.QLabel('Registered inputs')
+        self.advanced_use_registered_inputs_checkbox = qt.QCheckBox()
+        tmp_layout.addWidget(self.advanced_use_registered_inputs_label, 0, 4)
+        tmp_layout.addWidget(self.advanced_use_registered_inputs_checkbox, 0, 5)
+
         self.advanced_predictions_type_label = qt.QLabel('Predictions')
         self.advanced_predictions_type_combobox = qt.QComboBox()
         self.advanced_predictions_type_combobox.addItems(['Probabilities', 'Binary'])
@@ -103,6 +113,8 @@ def setup_interactive_results_area(self):
 
     def setup_connections(self):
         self.advanced_use_gpu_checkbox.connect("stateChanged(int)", self.on_use_gpu_change)
+        self.advanced_use_stripped_inputs_checkbox.connect("stateChanged(int)", self.on_use_stripped_inputs_change)
+        self.advanced_use_registered_inputs_checkbox.connect("stateChanged(int)", self.on_use_registered_inputs_change)
         self.advanced_resampling_combobox.connect("currentIndexChanged(QString)", self.on_sampling_strategy_change)
         self.advanced_predictions_type_combobox.connect("currentIndexChanged(QString)", self.on_predictions_type_change)
 
@@ -132,6 +144,18 @@ def on_use_gpu_change(self, state):
         elif state == qt.Qt.Unchecked:
             SharedResources.getInstance().use_gpu = False
 
+    def on_use_stripped_inputs_change(self, state):
+        if state == qt.Qt.Checked:
+            SharedResources.getInstance().user_configuration['Runtime']['use_stripped_data'] = 'True'
+        elif state == qt.Qt.Unchecked:
+            SharedResources.getInstance().user_configuration['Runtime']['use_stripped_data'] = 'False'
+
+    def on_use_registered_inputs_change(self, state):
+        if state == qt.Qt.Checked:
+            SharedResources.getInstance().user_configuration['Runtime']['use_registered_data'] = 'True'
+        elif state == qt.Qt.Unchecked:
+            SharedResources.getInstance().user_configuration['Runtime']['use_registered_data'] = 'False'
+
     def on_sampling_strategy_change(self, order):
         if order == 'First':
             SharedResources.getInstance().user_configuration['Predictions']['reconstruction_order'] = 'resample_first'

Raidionics/Raidionics/src/utils/backend_utilities.py

@@ -33,11 +33,14 @@ def generate_backend_config(input_folder: str, parameters, logic_target_space: s
         rads_config.set('System', 'model_folder', '/home/ubuntu/resources/models')
         rads_config.set('System', 'pipeline_filename', '/home/ubuntu/resources/models/' + model_name + '/pipeline.json')
         rads_config.add_section('Runtime')
-        # @TODO. The backend disregards those parameters after the latest RADS lib update, has to be fixed
         rads_config.set('Runtime', 'reconstruction_method',
                         SharedResources.getInstance().user_configuration['Predictions']['reconstruction_method'])
         rads_config.set('Runtime', 'reconstruction_order',
                         SharedResources.getInstance().user_configuration['Predictions']['reconstruction_order'])
+        rads_config.set('Runtime', 'use_stripped_data',
+                        SharedResources.getInstance().user_configuration['Runtime']['use_stripped_data'])
+        rads_config.set('Runtime', 'use_registered_data',
+                        SharedResources.getInstance().user_configuration['Runtime']['use_registered_data'])
         # rads_config.add_section('Neuro')
         # if SoftwareConfigResources.getInstance().user_preferences.compute_cortical_structures:
         #     rads_config.set('Neuro', 'cortical_features', 'MNI, Schaefer7, Schaefer17, Harvard-Oxford')

Raidionics/Raidionics/src/utils/resources.py

@@ -80,6 +80,9 @@ def __set_runtime_parameters(self):
         self.user_configuration['Predictions']['non_overlapping'] = 'true'
         self.user_configuration['Predictions']['reconstruction_method'] = 'probabilities'
         self.user_configuration['Predictions']['reconstruction_order'] = 'resample_first'
+        self.user_configuration['Runtime'] = {}
+        self.user_configuration['Runtime']['use_stripped_data'] = 'False'
+        self.user_configuration['Runtime']['use_registered_data'] = 'False'
         self.user_configuration['Neuro'] = {}
         self.user_configuration['Neuro']['brain_segmentation_filename'] = ''
         self.user_configuration['Mediastinum'] = {}
@@ -94,4 +97,3 @@ def __set_runtime_parameters(self):
         self.user_diagnosis_configuration['Neuro'] = {}
         self.user_diagnosis_configuration['Neuro']['tumor_segmentation_filename'] = ''
         self.user_diagnosis_configuration['Neuro']['brain_segmentation_filename'] = ''
-        self.user_diagnosis_configuration['Neuro']['tumor_type'] = ''