From 71c20a0eee187c48d53e76668dbfec7bca30711d Mon Sep 17 00:00:00 2001
From: Anthony Lombardi <anthony.lombardi@kitware.com>
Date: Mon, 18 Mar 2024 12:58:02 -0400
Subject: [PATCH] ENH: Ensure RAS to LPS flips are enabled by default

---
 AutoscoperM/AutoscoperMLib/IO.py        | 9 ---------
 AutoscoperM/Resources/UI/AutoscoperM.ui | 8 +++++++-
 2 files changed, 7 insertions(+), 10 deletions(-)

diff --git a/AutoscoperM/AutoscoperMLib/IO.py b/AutoscoperM/AutoscoperMLib/IO.py
index 414a731..c04d787 100644
--- a/AutoscoperM/AutoscoperMLib/IO.py
+++ b/AutoscoperM/AutoscoperMLib/IO.py
@@ -159,17 +159,8 @@ def writeVolume(volumeNode: slicer.vtkMRMLVolumeNode, filename: str):
     :param volumeNode: Volume node
     :param filename: Output file name
     """
-    # tfm = vtk.vtkMatrix4x4()
-    # tfm.Identity()
-    # tfm.SetElement(0, 0, -1)
-    # tfm.SetElement(1, 1, -1)
-    # transformNode = slicer.vtkMRMLLinearTransformNode()
-    # transformNode.SetMatrixTransformToParent(tfm)
-    # slicer.mrmlScene.AddNode(transformNode)
     slicer.util.exportNode(volumeNode, filename, {"useCompression": False}, world=True)
 
-    # slicer.mrmlScene.RemoveNode(transformNode)
-
 
 def castVolumeForTIFF(volumeNode: slicer.vtkMRMLVolumeNode):
     """
diff --git a/AutoscoperM/Resources/UI/AutoscoperM.ui b/AutoscoperM/Resources/UI/AutoscoperM.ui
index a3092ef..ecd300d 100644
--- a/AutoscoperM/Resources/UI/AutoscoperM.ui
+++ b/AutoscoperM/Resources/UI/AutoscoperM.ui
@@ -286,7 +286,7 @@
              <item row="3" column="2" colspan="2">
               <widget class="QLineEdit" name="cameraSubDir">
                <property name="enabled">
-                <bool>true</bool>
+                <bool>false</bool>
                </property>
                <property name="text">
                 <string>Calibration</string>
@@ -726,6 +726,9 @@
             <property name="text">
              <string>Flip Y</string>
             </property>
+            <property name="checked">
+             <bool>true</bool>
+            </property>
            </widget>
           </item>
           <item row="0" column="3">
@@ -760,6 +763,9 @@
             <property name="text">
              <string>Flip X</string>
             </property>
+            <property name="checked">
+             <bool>true</bool>
+            </property>
            </widget>
           </item>
           <item row="0" column="2">