megadetector 5.0.7__py3-none-any.whl → 5.0.9__py3-none-any.whl

data_management/cct_to_md.py

@@ -1,158 +1,176 @@
-########
-#
-# cct_to_md.py
-#
-# "Converts" a COCO Camera Traps file to a MD results file.  Currently ignores
-# non-bounding-box annotations, and gives all annotations a confidence of 1.0.
-#
-# The only reason to do this is if you are going to add information to an existing
-# CCT-formatted dataset, and want to do that in Timelapse.
-#
-# Currently assumes that width and height are present in the input data, does not
-# read them from images.
-#
-########
-
-#%% Constants and imports
-
-import os
-import json
-
-from collections import defaultdict
-from tqdm import tqdm
-
-
-#%% Functions
-
-def cct_to_md(input_filename,output_filename=None):
-    
-    ## Validate input
-    
-    assert os.path.isfile(input_filename)
-    
-    if (output_filename is None):
-        
-        tokens = os.path.splitext(input_filename)
-        assert len(tokens) == 2
-        output_filename = tokens[0] + '_md-format' + tokens[1]
-    
-        
-    ## Read input
-    
-    with open(input_filename,'r') as f:
-        d = json.load(f)
-        
-    for s in ['annotations','images','categories']:
-        assert s in d.keys(), 'Cannot find category {} in input file, is this a CCT file?'.format(s)
-        
-    
-    ## Prepare metadata
-    
-    image_id_to_annotations = defaultdict(list)
-    
-    # ann = d['annotations'][0]
-    for ann in tqdm(d['annotations']):
-        image_id_to_annotations[ann['image_id']].append(ann)
-    
-    category_id_to_name = {}
-    for cat in d['categories']:
-        category_id_to_name[str(cat['id'])] = cat['name']
-        
-    results = {}
-    
-    info = {}
-    info['format_version'] = "1.3"
-    info['detector'] = 'cct_to_md'
-    results['info'] = info
-    results['detection_categories'] = category_id_to_name
-        
-    
-    ## Process images
-    
-    images_out = []
-    
-    # im = d['images'][0]
-    for im in tqdm(d['images']):
-        
-        im_out = {}
-        im_out['file'] = im['file_name']
-        im_out['location'] = im['location']
-        im_out['id'] = im['id']
-        
-        image_h = im['height']
-        image_w = im['width']
-        
-        detections = []
-        
-        annotations_this_image = image_id_to_annotations[im['id']]
-        
-        # This field is no longer included in MD output files by default
-        # max_detection_conf = 0
-        
-        for ann in annotations_this_image:
-            
-               if 'bbox' in ann:
-                   
-                   det = {}
-                   det['category'] = str(ann['category_id'])
-                   det['conf'] = 1.0
-                   # max_detection_conf = 1.0
-                   
-                   # MegaDetector: [x,y,width,height] (normalized, origin upper-left)
-                   # CCT: [x,y,width,height] (absolute, origin upper-left)
-                   bbox_in = ann['bbox']
-                   bbox_out = [bbox_in[0]/image_w,bbox_in[1]/image_h,
-                               bbox_in[2]/image_w,bbox_in[3]/image_h]
-                   det['bbox'] = bbox_out
-                   detections.append(det)
-                   
-              # ...if there's a bounding box
-              
-        # ...for each annotation
-        
-        im_out['detections'] = detections
-        
-        # This field is no longer included in MD output files by default
-        # im_out['max_detection_conf'] = max_detection_conf
-    
-        images_out.append(im_out)
-        
-    # ...for each image
-    
-    
-    ## Write output
-    
-    results['images'] = images_out
-    
-    with open(output_filename,'w') as f:
-        json.dump(results, f, indent=1)
-        
-    return output_filename
-
-# ...cct_to_md()    
-    
-
-#%% Interactive driver
-
-if False:
-    
-    pass
-
-    #%%
-
-    input_filename = r"G:\temp\noaa_estuary_fish.json"
-    output_filename = None
-    output_filename = cct_to_md(input_filename,output_filename)
-    
-    #%%
-    
-    from md_visualization import visualize_detector_output
-    
-    visualize_detector_output.visualize_detector_output(
-                              detector_output_path=output_filename,
-                              out_dir=r'g:\temp\fish_output',
-                              images_dir=r'G:\temp\noaa_estuary_fish-images\JPEGImages',
-                              output_image_width=-1,
-                              sample=100,
-                              render_detections_only=True)
-
+"""
+
+cct_to_md.py
+
+"Converts" a COCO Camera Traps file to a MD results file.  Currently ignores
+non-bounding-box annotations, and gives all annotations a confidence of 1.0.
+
+The only reason to do this is if you are going to add information to an existing
+CCT-formatted dataset, and you want to do that in Timelapse.
+
+Currently assumes that width and height are present in the input data, does not
+read them from images.
+
+"""
+
+#%% Constants and imports
+
+import os
+import json
+
+from collections import defaultdict
+from tqdm import tqdm
+
+
+#%% Functions
+
+def cct_to_md(input_filename,output_filename=None):
+    """
+    "Converts" a COCO Camera Traps file to a MD results file.  Currently ignores
+    non-bounding-box annotations, and gives all annotations a confidence of 1.0.
+
+    The only reason to do this is if you are going to add information to an existing
+    CCT-formatted dataset, and you want to do that in Timelapse.
+
+    Currently assumes that width and height are present in the input data, does not
+    read them from images.
+    
+    Args:
+        input_filename (str): the COCO Camera Traps .json file to read
+        output_filename (str, optional): the .json file to write in MD results format
+        
+    Returns:
+        dict: MD-formatted results, identical to the content of [output_filename] if
+        [output_filename] is not None
+    """
+    
+    ## Validate input
+    
+    assert os.path.isfile(input_filename)
+    
+    if (output_filename is None):
+        
+        tokens = os.path.splitext(input_filename)
+        assert len(tokens) == 2
+        output_filename = tokens[0] + '_md-format' + tokens[1]
+    
+        
+    ## Read input
+    
+    with open(input_filename,'r') as f:
+        d = json.load(f)
+        
+    for s in ['annotations','images','categories']:
+        assert s in d.keys(), 'Cannot find category {} in input file, is this a CCT file?'.format(s)
+        
+    
+    ## Prepare metadata
+    
+    image_id_to_annotations = defaultdict(list)
+    
+    # ann = d['annotations'][0]
+    for ann in tqdm(d['annotations']):
+        image_id_to_annotations[ann['image_id']].append(ann)
+    
+    category_id_to_name = {}
+    for cat in d['categories']:
+        category_id_to_name[str(cat['id'])] = cat['name']
+        
+    results = {}
+    
+    info = {}
+    info['format_version'] = "1.3"
+    info['detector'] = 'cct_to_md'
+    results['info'] = info
+    results['detection_categories'] = category_id_to_name
+        
+    
+    ## Process images
+    
+    images_out = []
+    
+    # im = d['images'][0]
+    for im in tqdm(d['images']):
+        
+        im_out = {}
+        im_out['file'] = im['file_name']
+        im_out['location'] = im['location']
+        im_out['id'] = im['id']
+        
+        image_h = im['height']
+        image_w = im['width']
+        
+        detections = []
+        
+        annotations_this_image = image_id_to_annotations[im['id']]
+        
+        # This field is no longer included in MD output files by default
+        # max_detection_conf = 0
+        
+        for ann in annotations_this_image:
+            
+               if 'bbox' in ann:
+                   
+                   det = {}
+                   det['category'] = str(ann['category_id'])
+                   det['conf'] = 1.0
+                   # max_detection_conf = 1.0
+                   
+                   # MegaDetector: [x,y,width,height] (normalized, origin upper-left)
+                   # CCT: [x,y,width,height] (absolute, origin upper-left)
+                   bbox_in = ann['bbox']
+                   bbox_out = [bbox_in[0]/image_w,bbox_in[1]/image_h,
+                               bbox_in[2]/image_w,bbox_in[3]/image_h]
+                   det['bbox'] = bbox_out
+                   detections.append(det)
+                   
+              # ...if there's a bounding box
+              
+        # ...for each annotation
+        
+        im_out['detections'] = detections
+        
+        # This field is no longer included in MD output files by default
+        # im_out['max_detection_conf'] = max_detection_conf
+    
+        images_out.append(im_out)
+        
+    # ...for each image
+    
+    
+    ## Write output
+    
+    results['images'] = images_out
+    
+    with open(output_filename,'w') as f:
+        json.dump(results, f, indent=1)
+        
+    return output_filename
+
+# ...cct_to_md()    
+    
+
+#%% Interactive driver
+
+if False:
+    
+    pass
+
+    #%%
+
+    input_filename = r"G:\temp\noaa_estuary_fish.json"
+    output_filename = None
+    output_filename = cct_to_md(input_filename,output_filename)
+    
+    #%%
+    
+    from md_visualization import visualize_detector_output
+    
+    visualize_detector_output.visualize_detector_output(
+                              detector_output_path=output_filename,
+                              out_dir=r'g:\temp\fish_output',
+                              images_dir=r'g:\temp\noaa_estuary_fish-images\JPEGImages',
+                              output_image_width=-1,
+                              sample=100,
+                              render_detections_only=True)
+