Change refinement toolbox presets

src/napari_stress/_measurements/toolbox.py

@@ -122,9 +122,15 @@ def eventFilter(self, obj: QObject, event: QEvent):
 
     def _check_minimal_point_number(self) -> None:
         """Check if number of quadrature point complies with max_degree."""
-        minimal_point_number = lebedev_info_SPB.pts_of_lbdv_lookup[
-            self.spinBox_max_degree.value()
-        ]
+        # lebedev_info_SPB.pts_of_lbdv_lookup is a dictionary of the form
+        # {degree: number of quadrature points}
+        # if no value for the given key exists, pick the next higher value.
+        max_degree = self.spinBox_max_degree.value()
+        lookup = lebedev_info_SPB.pts_of_lbdv_lookup
+        for degree in range(max_degree, list(lookup.keys())[-1] + 1):
+            if degree in lookup.keys():
+                minimal_point_number = lookup.get(degree)
+                break
 
         if self.comboBox_quadpoints.currentData() < minimal_point_number:
             index = self.comboBox_quadpoints.findData(minimal_point_number)

src/napari_stress/_reconstruction/toolbox.py

@@ -33,7 +33,8 @@ def __init__(self, napari_viewer):
         # populate comboboxes with allowed values
         self.comboBox_fittype.addItems(["fancy", "quick"])
         self.comboBox_fluorescence_type.addItems(["interior", "surface"])
-        self.comboBox_interpolation_method.addItems(["linear", "cubic"])
+        self.comboBox_interpolation_method.addItems(["cubic", "linear"])
+        self.comboBox_interpolation_method.setCurrentText("linear")
 
         # calculate density/point number
         self.spinBox_n_vertices.setValue(256)
@@ -59,6 +60,10 @@ def _set_scales(self):
             self.doubleSpinBox_voxelsize_x.setValue(scales[2])
             self.doubleSpinBox_voxelsize_y.setValue(scales[1])
             self.doubleSpinBox_voxelsize_z.setValue(scales[0])
+
+            # set target voxel size to mean of scales as default
+            mean_scale = np.mean([scales[0], scales[2]])
+            self.doubleSpinBox_target_voxelsize.setValue(mean_scale)
         except Exception:
             pass
 
@@ -327,7 +332,7 @@ def reconstruct_droplet(
         "surface",
     )
 
-    properties = {"name": "points_patch_fitted", "size": 0.5}
+    properties = {"name": "Droplet pointcloud (smoothed)", "size": 0.5}
     layer_patch_fitted = (
         points * target_voxelsize,
         properties,
@@ -338,6 +343,7 @@ def reconstruct_droplet(
     layer_label_image = (label_image, properties, "labels")
 
     traced_points = list(traced_points)
+    traced_points[1]["name"] = "Droplet pointcloud (traced)"
     traced_points[0] *= target_voxelsize
 
     trace_vectors = list(trace_vectors)

src/napari_stress/_reconstruction/toolbox.ui

@@ -70,15 +70,15 @@
    <item row="1" column="0" colspan="2">
     <widget class="QToolBox" name="toolBox">
      <property name="currentIndex">
-      <number>2</number>
+      <number>0</number>
      </property>
      <widget class="QWidget" name="page_3">
       <property name="geometry">
        <rect>
         <x>0</x>
         <y>0</y>
-        <width>125</width>
-        <height>118</height>
+        <width>855</width>
+        <height>253</height>
        </rect>
       </property>
       <attribute name="label">
@@ -173,8 +173,8 @@
        <rect>
         <x>0</x>
         <y>0</y>
-        <width>147</width>
-        <height>93</height>
+        <width>855</width>
+        <height>253</height>
        </rect>
       </property>
       <attribute name="label">
@@ -237,7 +237,7 @@
        <item row="2" column="3">
         <widget class="QSpinBox" name="spinBox_n_smoothing">
          <property name="value">
-          <number>10</number>
+          <number>15</number>
          </property>
         </widget>
        </item>
@@ -254,9 +254,9 @@
       <property name="geometry">
        <rect>
         <x>0</x>
-        <y>0</y>
+        <y>-29</y>
         <width>838</width>
-        <height>318</height>
+        <height>341</height>
        </rect>
       </property>
       <attribute name="label">
@@ -344,7 +344,7 @@
              <double>1.000000000000000</double>
             </property>
             <property name="value">
-             <double>2.500000000000000</double>
+             <double>5.000000000000000</double>
             </property>
            </widget>
           </item>
@@ -400,7 +400,7 @@
              <double>0.250000000000000</double>
             </property>
             <property name="value">
-             <double>0.500000000000000</double>
+             <double>1.000000000000000</double>
             </property>
            </widget>
           </item>
@@ -420,7 +420,7 @@
              <double>2.000000000000000</double>
             </property>
             <property name="value">
-             <double>10.000000000000000</double>
+             <double>20.000000000000000</double>
             </property>
            </widget>
           </item>
@@ -461,14 +461,17 @@
    <item row="6" column="0">
     <widget class="QCheckBox" name="checkBox_use_dask">
      <property name="text">
-      <string>Parallelize with dask</string>
+      <string>Parallelize with dask (only timelapse)</string>
      </property>
     </widget>
    </item>
    <item row="7" column="0">
     <widget class="QCheckBox" name="checkBox_return_intermediate">
      <property name="text">
-      <string>Return intermediate resultss (may require a lot of memory)</string>
+      <string>Return intermediate results (may require a lot of memory)</string>
+     </property>
+     <property name="checked">
+      <bool>true</bool>
      </property>
     </widget>
    </item>