simulation

test_tube_scanner/home/settings.py

@@ -407,3 +407,4 @@ CALIBRATION_AUTO_DURATION = 45.0
 CALIBRATION_AUTO_TIMEOUT = 2.5
 
 
+

test_tube_scanner/make_videos.sh

@@ -0,0 +1,56 @@
+#!/bin/bash
+
+# Génère 24 vidéos pour simuler le balayage d'un multi-puit de 6x24 
+#   A1..A6, B1..B6, C1..C6, D1..D6
+#  
+
+PATH="data"
+default_width=1000      # px
+default_height=1000     # px
+default_diameter=16.0   # mm
+
+declare -A arguments=(
+    # key count len width sec fps seed thigmotaxis bg-color arena-color arena-border shadow-color body-color body-dark body-light head-color
+    ["F0"]="1  0.90 0.30  60  5    64     0.45     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5A7896    #3C5570   #8CA0B4     #46645F"
+)
+
+declare -A arguments2=(
+    # key count len width sec fps seed thigmotaxis bg-color arena-color arena-border shadow-color body-color body-dark body-light head-color
+    ["D1"]="3  0.90 0.30  60  5    64     0.45     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5A7896    #3C5570   #8CA0B4     #46645F"
+    ["D2"]="2  0.75 0.40  60  5    96     0.50     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5B7896    #3D5570   #8DA0B4     #47645F"
+    ["D3"]="1  0.80 0.50  60  5    42     0.60     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["D4"]="1  0.85 0.40  60  5    28     0.70     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["D5"]="3  0.60 0.35  60  5    132    0.65     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["D6"]="2  0.65 0.35  60  5    256    0.85     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["C6"]="1  0.90 0.30  60  5    64     0.45     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5A7896    #3C5570   #8CA0B4     #46645F"
+    ["C5"]="3  0.75 0.40  60  5    96     0.50     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5B7896    #3D5570   #8DA0B4     #47645F"
+    ["C4"]="2  0.80 0.50  60  5    42     0.60     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["C3"]="1  0.85 0.40  60  5    28     0.70     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["C2"]="2  0.60 0.35  60  5    132    0.65     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["C1"]="3  0.65 0.35  60  5    256    0.85     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["B1"]="2  0.90 0.30  60  5    64     0.45     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5A7896    #3C5570   #8CA0B4     #46645F"
+    ["B2"]="1  0.75 0.40  60  5    96     0.50     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5B7896    #3D5570   #8DA0B4     #47645F"
+    ["B3"]="1  0.80 0.50  60  5    42     0.60     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["B4"]="3  0.85 0.40  60  5    28     0.70     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["B5"]="1  0.60 0.35  60  5    132    0.65     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["B6"]="2  0.65 0.35  60  5    256    0.85     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["A6"]="1  0.90 0.30  60  5    64     0.45     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5A7896    #3C5570   #8CA0B4     #46645F"
+    ["A5"]="1  0.75 0.40  60  5    96     0.50     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5B7896    #3D5570   #8DA0B4     #47645F"
+    ["A4"]="3  0.80 0.50  60  5    42     0.60     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["A3"]="1  0.85 0.40  60  5    28     0.70     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["A2"]="1  0.60 0.35  60  5    132    0.65     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"
+    ["A1"]="4  0.65 0.35  60  5    256    0.85     #D4DADC  #BDBDF0       #B4AFA8      #BEBCB6     #5C7896    #3E5570   #8EA0B4     #48645F"   
+)
+
+
+for key in "${!arguments[@]}"; do
+    args="${arguments[$key]}"
+    read -r count length width duration fps seed thigmotaxis bg_color arena_color arena_border shadow_color body_color body_dark body_light head_color <<< "$args"
+    
+    echo "==== Exécution de $PATH/$key.mp4"
+    
+    ./planarian_sim.py --output "$PATH/$key.mp4" --default_width "$default_width" --default_height "$default_height" --default_diameter "$default_diameter" \
+        --count "$count" --length "$length" --width "$width" --duration "$duration" --fps "$fps" --seed "$seed" --thigmotaxis "$thigmotaxis" \
+        --bg-color  "$bg_color" --arena-color "$arena_color" --arena-border "$arena_border" --shadow-color "$shadow_color" \
+        --body-color "$body_color" --body-dark  "$body_dark" --body-light "$body_light" --head-color "$head_color"  --no-csv
+done

test_tube_scanner/scanner/process.py

@@ -468,6 +468,10 @@ class ScannerProcess(Task):
                             msg = self.manager.set_well_position()
                             self._send(**msg)
                             
+                        elif topic == 'track':
+                            self.cam.use_tracking = value=="1"      
+                            self._send(state=topic, msg=f"Tracking: {self.cam.use_tracking}")                                
+                                                    
                         elif topic in ['min_area_px', 'max_area_ratio', 'max_planarians', 'merge_kernel_size', 'min_contour_dist_px']:
                             value = int(value) if topic in ['min_area_px', 'max_planarians', 'merge_kernel_size', 'min_contour_dist_px'] else float(value)
                             self.manager.tracker_config[topic] = value

test_tube_scanner/scanner/static/scanner/js/calibration.js

@@ -48,6 +48,7 @@ class ScannerManager {
         this.max_planarians = options.max_planarians;
         this.merge_kernel_size = options.merge_kernel_size;
         this.min_contour_dist_px = options.min_contour_dist_px;
+        this.track = options.track;
         
     }
     
@@ -84,7 +85,7 @@ class ScannerManager {
         this.max_planarians.addEventListener('change',      (e) => { this._send({ type: 'calibrate', topic: "max_planarians",  value: e.target.value}); });
         this.merge_kernel_size.addEventListener('change',   (e) => { this._send({ type: 'calibrate', topic: "merge_kernel_size",  value: e.target.value}); });
         this.min_contour_dist_px.addEventListener('change', (e) => { this._send({ type: 'calibrate', topic: "min_contour_dist_px", value: e.target.value }); });
-        
+        this.track.addEventListener('click',                (e) => { this._send({ type: 'calibrate', topic: "track", value: e.target.value }); });
     }
 
     registerSocket(socket)  {

test_tube_scanner/scanner/templates/scanner/calibration.html

@@ -150,7 +150,9 @@
         </div>    
         {% if conf.tracking %}
         <div class="w3-row w3-row-padding w3-light-grey w3-margin-1 w3-round w3-round-large"> 
-             <div class="w3-col">{% trans 'Configuration du tracking' %}</div>
+             <div class="w3-col"><input id="_track" type="checkbox" value="0" onclick="if (this.checked){this.value='1';}else{ this.value='0';}"> 
+                {% trans 'Configuration du tracking' %}
+             </div>
              <div class="w3-half">
                 <input id="_min_area_px" type="number" min="5" max="100" step="1" class="w3-round" value="{{ conf.min_area_px }}"
                     title="{% trans 'surface minimale de contour pour être considéré valide (px carré)' %}"><br>{% trans 'Min contour' %}            
@@ -257,7 +259,8 @@
             max_area_ratio : sId("_max_area_ratio"),
             max_planarians : sId("_max_planarians"),
             merge_kernel_size : sId("_merge_kernel_size"),
-            min_contour_dist_px : sId("_min_contour_dist_px")
+            min_contour_dist_px : sId("_min_contour_dist_px"),
+            track : sId("_track")
         };          
     </script>
     <script src="/static/scanner/js/calibration.js"></script>