adding widget for adding points layer

src/napari_brainbow_diagnose/__init__.py

@@ -10,11 +10,13 @@
 )
 from ._tooltip_pointer import tooltip_pointer_widget
 from ._widget import DiagnoseWidget
+from ._read_csv_widget import read_csv_widget
 
 __all__ = (
     "tooltip_pointer_widget",
     "make_rgb_cube_data",
     "fetch_chroms_data",
     "load_chroms_data_sample",
     "DiagnoseWidget",
+    "read_csv_widget",
 )

src/napari_brainbow_diagnose/_read_csv_widget.py

@@ -0,0 +1,33 @@
+import napari
+
+import pandas as pd
+import numpy as np
+
+from magicgui import magicgui
+from magicgui import magic_factory
+import pathlib
+
+def rgb_to_xy(r, g, b):
+    s = r+g+b
+    r = r/s
+    g = g/s
+    b = b/s
+    x = (r-b)/np.sqrt(3)
+    y = g
+    return x, y
+
+@magic_factory(call_button="Create a Points layer", auto_call=False)
+def read_csv_widget(filename = pathlib.Path('/path/to/csv/file.csv')):
+    # Getting the current viewer
+    viewer = napari.current_viewer()
+    # Import data
+    df = pd.read_csv(filename, names=['axis-0', 'axis-1', 'axis-2', 'red', 'green', 'blue'])
+    # Create points layer
+    coordinates = df[['axis-0', 'axis-1', 'axis-2']].values
+    colors = df[['red', 'green', 'blue']].values
+    points_layer = viewer.add_points(coordinates, name='points', face_color=colors, edge_color=colors, size=20, out_of_slice_display=True)
+
+    # Add Maxwell coordinates
+    df['x'], df['y'] = rgb_to_xy(df['red'], df['green'], df['blue'])
+    features_table = {'red': df['red'].values, 'green': df['green'].values, 'blue': df['blue'].values, 'x': df['x'].values, 'y': df['y'].values}
+    points_layer.features = features_table

src/napari_brainbow_diagnose/napari.yaml

@@ -14,6 +14,9 @@ contributions:
     - id: napari-brainbow-diagnose.DiagnoseWidget
       python_name: napari_brainbow_diagnose._widget:DiagnoseWidget
       title: Diagnose Brainbow Image
+    - id: napari-brainbow-diagnose.read_csv_widget
+      python_name: napari_brainbow_diagnose._read_csv_widget:read_csv_widget
+      title: Load a Points layer
   sample_data:
     - command: napari-brainbow-diagnose.make_rgb_cube_data
       display_name: RGB Cube
@@ -26,3 +29,6 @@ contributions:
       display_name: Diagnose Brainbow Image
     - command: napari-brainbow-diagnose.tooltip_pointer_widget
       display_name: Brainbow Tooltip
+    - command: napari-brainbow-diagnose.read_csv_widget
+      display_name: Load a Points layer
+