feat: checkboxes for body part

app/assets/config/config_checkbox_physical.json

@@ -0,0 +1,68 @@
+{
+    "Common":
+    {
+        "Blackened/burnt skin": {
+            "Description": "Burnt/ blackened/ charred skin or feathers"},
+        "Blood": {
+            "Description": "Visible blood"},
+        "Foreign body": {
+            "Description": "Objects in feathers"},
+        "Fracture": {
+            "Description": "Obvious bone fracture"},
+        "Injury": {
+            "Description": "Visible skin injury"},
+        "Parasites": {
+            "Description": "Maggots, fleas, lice, louseflies"},
+        "Swelling": {
+            "Description": "Marked swelling without injury"},
+        "Warty or tumor-like growth, crusts": {
+            "Description": "Unusual growth, crusty tumor-like growth"}
+    },
+    "Head incl. eyes": 
+    {
+        "Ear changes": {
+            "Description": "Swollen, crusts, plugged, discharge"},
+        "Eye changes": {
+            "Description": "Red, swollen, discharge, crusts, eyes shut"},
+        "Tilted head": {
+            "Description": "Wry neck, unusual neck posture, torticollis"}
+    },
+    "Beak":
+    {
+        "Adhesion": {
+            "Description": "Material (food, saliva) around/ in the beak"
+            },
+        "Deformation": {
+            "Description": "Unusual beak growth"
+            }
+    },
+    "Body": 
+    {
+        "Emaciation": {
+            "Description": "Breast muscles are not well developed"},
+        "Fluffed up": {
+            "Description": "Plumage is fluffed up"},
+        "Stained feathers": {
+            "Description": "Feces, dirt, dried blood"}
+    },
+    "Legs":
+    {
+        "Missing limb": {
+            "Description": "Missing limb"},
+        "Deformation": {
+            "Description": "Abnormal form of limbs, toes, legs"}
+    },
+    "Feathers/Wings/Tail":
+    {
+        "Fluffed up": {
+            "Description": "Plumage is fluffed up"},
+        "Feather abnormalities": {
+            "Description": "Discoloration, broken/ missing feathers"},
+        "Stained feathers": {
+            "Description": "Feces, dirt, dried blood"},
+        "Abnormal wing posture": {
+            "Description": "Wing is not used/ hangs on the side"},
+        "Missing limb": {
+            "Description": "Missing limb"}
+    }
+}

app/checkbox_physical.py

@@ -0,0 +1,33 @@
+import gradio as gr
+from config_utils import get_custom_config_dropdowns
+from dropdowns_conditions import retrieve_config_options
+
+
+#--------------------------------------------------------- 
+def get_options_description(value):
+        dropdown_config = get_custom_config_dropdowns("/assets/config/config_checkbox_physical.json")
+        # get options
+        options = retrieve_config_options(value, dropdown_config)
+        common = retrieve_config_options("Common", dropdown_config)
+        options.extend(common)
+        # get descriptions
+        descriptions = []
+        for key, sub_dict in dropdown_config.items():
+            if key==value or key=="Common":
+                for _, option_dict in sub_dict.items():
+                    for description_tag, description in option_dict.items():
+                        if "Description"==description_tag:
+                            descriptions.append(description)
+        return options, descriptions
+#---------------------------------------------------------
+def checkbox(body_part):
+    options, decriptions = get_options_description(body_part)
+    descriptions = "".join([f"\t{option}: {description}\n" for option, description in zip(options, decriptions)])
+    checkbox = gr.CheckboxGroup(options, 
+                     label=f"Physical changes observed on {body_part}:",
+                     visible=True)
+    text = gr.Textbox(descriptions, 
+               label = "Info", 
+               interactive=False,
+               visible=True)
+    return checkbox, text

app/{dropdowns.py → dropdowns_conditions.py}

@@ -3,8 +3,7 @@ from config_utils import get_custom_config_dropdowns
 
 
 #--------------------------------------------------------- LEVEL 1 DROPDOWNS
-def retrieve_config_options(label):
-    dropdown_config = get_custom_config_dropdowns("/assets/dropdowns/dropdown_config.json")
+def retrieve_config_options(label, dropdown_config):
     options = list(dropdown_config[label].keys())
     options = [option.title() for option in options]
     return options
@@ -16,7 +15,8 @@ def reinitialise_level2():
     return dropdown_level2, openfield_level2, dropdown_extra_level2
 
 def create_dropdown_level1(label): 
-    options = retrieve_config_options(label)
+    dropdown_config = get_custom_config_dropdowns("/assets/config/config_dropdown_conditions.json")
+    options = retrieve_config_options(label, dropdown_config)
     dropdown = gr.Dropdown(choices=options, label=label, interactive=True)
     dropdown_level2, openfield_level2, dropdown_extra_level2 = reinitialise_level2()
     return dropdown, dropdown_level2, openfield_level2, dropdown_extra_level2
@@ -45,7 +45,7 @@ def get_options(value):
         open_field = None
         extras = None
         extras_label = None
-        dropdown_config = get_custom_config_dropdowns("/assets/dropdowns/dropdown_config.json")
+        dropdown_config = get_custom_config_dropdowns("/assets/config/config_dropdown_conditions.json")
         for _, sub_dict in dropdown_config.items():
             nested_dict = sub_dict.get(value)
             if nested_dict is not None: 

app/followup_events.py

@@ -2,7 +2,7 @@ import gradio as gr
 from config_utils import get_custom_config_dropdowns
 
 def create_followup_section():
-    followup_config = get_custom_config_dropdowns("/assets/dropdowns/followup_config.json")
+    followup_config = get_custom_config_dropdowns("/assets/config/config_followup.json")
     followup_config = followup_config["Event follow-up"]
     gr.Markdown("## Follow-Up Events", label="Title")
     gr.Markdown("Please tell us what you did with the animal.", label="description")

app/main.py

@@ -2,7 +2,7 @@ import gradio as gr
 from functools import partial
 from dead import show_section_dead
 from wounded import show_section_wounded
-from dropdowns import *
+from dropdowns_conditions import *
 from maps import get_location
 from style import *
 from theme import theme, css
@@ -38,71 +38,6 @@ with gr.Blocks(theme=theme, css=css) as demo:
                 #to submit it
                 submit_location = gr.Button("Get GPS Coordinates", visible=True, interactive=True, scale=3)
                 submit_location.click(get_location, inputs=[location], outputs=[identified_location])
-    
-    # ---------------------------------------------------------
-    # ---------------------------------------------------------
-    # ---------------------------------------------------------
-
-    import random
-    import numpy as np  
-
-    section_labels = [
-        "apple",
-        "banana",
-        "carrot",
-        "donut",
-        "eggplant",
-        "fish",
-        "grapes",
-        "hamburger",
-        "ice cream",
-        "juice",
-    ]
-
-    with gr.Row():
-        num_boxes = gr.Slider(0, 5, 2, step=1, label="Number of boxes")
-        num_segments = gr.Slider(0, 5, 1, step=1, label="Number of segments")
-
-    with gr.Row():
-        img_input = gr.Image()
-        img_output = gr.AnnotatedImage(
-            color_map={"banana": "#a89a00", "carrot": "#ffae00"}
-        )
-
-    section_btn = gr.Button("Identify Sections")
-    selected_section = gr.Textbox(label="Selected Section")
-
-    def section(img, num_boxes, num_segments):
-        sections = []
-        for a in range(num_boxes):
-            x = random.randint(0, img.shape[1])
-            y = random.randint(0, img.shape[0])
-            w = random.randint(0, img.shape[1] - x)
-            h = random.randint(0, img.shape[0] - y)
-            sections.append(((x, y, x + w, y + h), section_labels[a]))
-        for b in range(num_segments):
-            x = random.randint(0, img.shape[1])
-            y = random.randint(0, img.shape[0])
-            r = random.randint(0, min(x, y, img.shape[1] - x, img.shape[0] - y))
-            mask = np.zeros(img.shape[:2])
-            for i in range(img.shape[0]):
-                for j in range(img.shape[1]):
-                    dist_square = (i - y) ** 2 + (j - x) ** 2
-                    if dist_square < r**2:
-                        mask[i, j] = round((r**2 - dist_square) / r**2 * 4) / 4
-            sections.append((mask, section_labels[b + num_boxes]))
-        return (img, sections)
-
-    section_btn.click(section, [img_input, num_boxes, num_segments], img_output)
-
-    def select_section(evt: gr.SelectData):
-        return section_labels[evt.index]
-
-    img_output.select(select_section, None, selected_section)
-
-    # ---------------------------------------------------------
-    # ---------------------------------------------------------
-    # ---------------------------------------------------------
 
     # ---------------------------------------------------------
     # Dead and Wounded Buttons
@@ -117,35 +52,44 @@ with gr.Blocks(theme=theme, css=css) as demo:
     # ---------------------------------------------------------
     # Initiate sections
     section_dead, button_collision_dead, button_deliberate_destruction_dead, button_indirect_destruction_dead, button_natural_cause_dead, dropdown_dead, dropdown_level2_dead, openfield_level2_dead, dropdown_extra_level2_dead = show_section_dead(False)
-    section_wounded, button_collision_wounded, button_deliberate_destruction_wounded, button_indirect_destruction_wounded, button_natural_cause_wounded, dropdown_wounded, dropdown_level2_wounded, openfield_level2_wounded, dropdown_extra_level2_wounded, img_with_boxes, matched_box= show_section_wounded(False)
+    section_wounded, button_collision_wounded, button_deliberate_destruction_wounded, button_indirect_destruction_wounded, button_natural_cause_wounded, dropdown_wounded, dropdown_level2_wounded, openfield_level2_wounded, dropdown_extra_level2_wounded, img_with_boxes, physical_checkbox, physical_text= show_section_wounded(False)
 
     # ---------------------------------------------------------
     # Dead Button Logic
     partial_show_section_dead = partial(show_section_dead, True)
     partial_hide_section_wounded = partial(show_section_wounded, False)
-    butt_dead.click(partial_show_section_dead, inputs=None, outputs=[section_dead, 
-                                                                     button_collision_dead, button_deliberate_destruction_dead, button_indirect_destruction_dead, button_natural_cause_dead, 
-                                                                     dropdown_dead, dropdown_level2_dead, openfield_level2_dead, dropdown_extra_level2_dead
-                                                                     ])
-    butt_dead.click(partial_hide_section_wounded, inputs=None, outputs=[section_wounded, 
-                                                                        button_collision_wounded, button_deliberate_destruction_wounded, button_indirect_destruction_wounded, button_natural_cause_wounded, 
-                                                                        dropdown_wounded, dropdown_level2_wounded, openfield_level2_wounded, dropdown_extra_level2_wounded
-                                                                        ])
+    butt_dead.click(partial_show_section_dead, 
+                    inputs=None, 
+                    outputs=[section_dead, 
+                            button_collision_dead, button_deliberate_destruction_dead, button_indirect_destruction_dead, button_natural_cause_dead, 
+                            dropdown_dead, dropdown_level2_dead, openfield_level2_dead, dropdown_extra_level2_dead
+                            ])
+    butt_dead.click(partial_hide_section_wounded, 
+                    inputs=None, 
+                    outputs=[section_wounded, 
+                            button_collision_wounded, button_deliberate_destruction_wounded, button_indirect_destruction_wounded, button_natural_cause_wounded, 
+                            dropdown_wounded, dropdown_level2_wounded, openfield_level2_wounded, dropdown_extra_level2_wounded
+                            ])
     # ---------------------------------------------------------
     # Wounded Button Logic
     partial_show_section_wounded = partial(show_section_wounded, True)
     partial_hide_section_dead = partial(show_section_dead, False)
-    butt_wounded.click(partial_show_section_wounded, inputs=None, outputs=[section_wounded, 
-                                                                        button_collision_wounded, button_deliberate_destruction_wounded, button_indirect_destruction_wounded, button_natural_cause_wounded, 
-                                                                        dropdown_wounded, dropdown_level2_wounded, openfield_level2_wounded, dropdown_extra_level2_wounded
-                                                                        ])
-    butt_wounded.click(partial_hide_section_dead, inputs=None, outputs=[section_dead, 
-                                                                        button_collision_dead, button_deliberate_destruction_dead, button_indirect_destruction_dead, button_natural_cause_dead, 
-                                                                        dropdown_dead, dropdown_level2_dead, openfield_level2_dead, dropdown_extra_level2_dead
-                                                                        ])
+    butt_wounded.click(partial_show_section_wounded, 
+                       inputs=None, 
+                       outputs=[section_wounded, 
+                                button_collision_wounded, button_deliberate_destruction_wounded, button_indirect_destruction_wounded, button_natural_cause_wounded, 
+                                dropdown_wounded, dropdown_level2_wounded, openfield_level2_wounded, dropdown_extra_level2_wounded
+                                ])
+    butt_wounded.click(partial_hide_section_dead, 
+                       inputs=None, 
+                       outputs=[section_dead, 
+                                button_collision_dead, button_deliberate_destruction_dead, button_indirect_destruction_dead, button_natural_cause_dead, 
+                                dropdown_dead, dropdown_level2_dead, openfield_level2_dead, dropdown_extra_level2_dead
+                                ])
+    
     img_with_boxes.select(find_bounding_box, 
                      inputs=[img_with_boxes], 
-                     outputs=[matched_box])
+                     outputs=[physical_checkbox, physical_text])
     # ---------------------------------------------------------
     # Dropdowns Dead
     button_collision_dead.click(dropdown_collision,  

app/select_bird.py

@@ -2,6 +2,7 @@ import gradio as gr
 # from gradio_image_prompter import ImagePrompter
 from typing import List
 from shapely.geometry import Point
+from checkbox_physical import *
 
 from boxes_define import gdf
 
@@ -12,9 +13,10 @@ def find_bounding_box(evt: gr.SelectData, img):
     match = gdf[gdf.contains(point)]
     if not match.empty:
         matched_box = match.iloc[0]['name']
+        physical_checkbox, physical_text = checkbox(matched_box)
     else:
         matched_box = "No bounding box found"
-    return matched_box
+    return physical_checkbox, physical_text
 
 # Gradio app
 def create_bird_anatomy():
@@ -22,8 +24,10 @@ def create_bird_anatomy():
     img_with_boxes = gr.Image(value='assets/images/bird_boxed.png', 
                               show_label=False, 
                               height="600px")
-    matched_box = gr.Textbox(label="Selected box")
-    return img_with_boxes, matched_box
+    #templates
+    checkbox = gr.CheckboxGroup([], label="")
+    text = gr.Textbox("", label = "", interactive=False,) 
+    return img_with_boxes, checkbox, text
 
 
 

app/wounded.py

@@ -11,9 +11,9 @@ def show_section_wounded(visible):
         image_row, button_collision, button_deliberate_destruction, button_indirect_destruction, button_natural_cause = create_top_section(visible)      
         dropdown_row, dropdown, dropdown_level2, openfield_level2, dropdown_extra_level2 = create_dropdown(visible)
         
-        img_with_boxes, matched_box = create_bird_anatomy()
+        img_with_boxes, physical_checkbox, physical_text = create_bird_anatomy()
         
         create_followup_section()
 
     # Change variables and names
-    return wounded_section, button_collision, button_deliberate_destruction, button_indirect_destruction, button_natural_cause, dropdown, dropdown_level2, openfield_level2, dropdown_extra_level2, img_with_boxes, matched_box
+    return wounded_section, button_collision, button_deliberate_destruction, button_indirect_destruction, button_natural_cause, dropdown, dropdown_level2, openfield_level2, dropdown_extra_level2, img_with_boxes, physical_checkbox, physical_text