megadetector 5.0.10__py3-none-any.whl → 5.0.11__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Potentially problematic release.
This version of megadetector might be problematic. Click here for more details.
- {megadetector-5.0.10.dist-info → megadetector-5.0.11.dist-info}/LICENSE +0 -0
- {megadetector-5.0.10.dist-info → megadetector-5.0.11.dist-info}/METADATA +12 -11
- megadetector-5.0.11.dist-info/RECORD +5 -0
- megadetector-5.0.11.dist-info/top_level.txt +1 -0
- api/__init__.py +0 -0
- api/batch_processing/__init__.py +0 -0
- api/batch_processing/api_core/__init__.py +0 -0
- api/batch_processing/api_core/batch_service/__init__.py +0 -0
- api/batch_processing/api_core/batch_service/score.py +0 -439
- api/batch_processing/api_core/server.py +0 -294
- api/batch_processing/api_core/server_api_config.py +0 -98
- api/batch_processing/api_core/server_app_config.py +0 -55
- api/batch_processing/api_core/server_batch_job_manager.py +0 -220
- api/batch_processing/api_core/server_job_status_table.py +0 -152
- api/batch_processing/api_core/server_orchestration.py +0 -360
- api/batch_processing/api_core/server_utils.py +0 -92
- api/batch_processing/api_core_support/__init__.py +0 -0
- api/batch_processing/api_core_support/aggregate_results_manually.py +0 -46
- api/batch_processing/api_support/__init__.py +0 -0
- api/batch_processing/api_support/summarize_daily_activity.py +0 -152
- api/batch_processing/data_preparation/__init__.py +0 -0
- api/batch_processing/data_preparation/manage_local_batch.py +0 -2391
- api/batch_processing/data_preparation/manage_video_batch.py +0 -327
- api/batch_processing/integration/digiKam/setup.py +0 -6
- api/batch_processing/integration/digiKam/xmp_integration.py +0 -465
- api/batch_processing/integration/eMammal/test_scripts/config_template.py +0 -5
- api/batch_processing/integration/eMammal/test_scripts/push_annotations_to_emammal.py +0 -126
- api/batch_processing/integration/eMammal/test_scripts/select_images_for_testing.py +0 -55
- api/batch_processing/postprocessing/__init__.py +0 -0
- api/batch_processing/postprocessing/add_max_conf.py +0 -64
- api/batch_processing/postprocessing/categorize_detections_by_size.py +0 -163
- api/batch_processing/postprocessing/combine_api_outputs.py +0 -249
- api/batch_processing/postprocessing/compare_batch_results.py +0 -958
- api/batch_processing/postprocessing/convert_output_format.py +0 -397
- api/batch_processing/postprocessing/load_api_results.py +0 -195
- api/batch_processing/postprocessing/md_to_coco.py +0 -310
- api/batch_processing/postprocessing/md_to_labelme.py +0 -330
- api/batch_processing/postprocessing/merge_detections.py +0 -401
- api/batch_processing/postprocessing/postprocess_batch_results.py +0 -1904
- api/batch_processing/postprocessing/remap_detection_categories.py +0 -170
- api/batch_processing/postprocessing/render_detection_confusion_matrix.py +0 -661
- api/batch_processing/postprocessing/repeat_detection_elimination/find_repeat_detections.py +0 -211
- api/batch_processing/postprocessing/repeat_detection_elimination/remove_repeat_detections.py +0 -82
- api/batch_processing/postprocessing/repeat_detection_elimination/repeat_detections_core.py +0 -1631
- api/batch_processing/postprocessing/separate_detections_into_folders.py +0 -731
- api/batch_processing/postprocessing/subset_json_detector_output.py +0 -696
- api/batch_processing/postprocessing/top_folders_to_bottom.py +0 -223
- api/synchronous/__init__.py +0 -0
- api/synchronous/api_core/animal_detection_api/__init__.py +0 -0
- api/synchronous/api_core/animal_detection_api/api_backend.py +0 -152
- api/synchronous/api_core/animal_detection_api/api_frontend.py +0 -266
- api/synchronous/api_core/animal_detection_api/config.py +0 -35
- api/synchronous/api_core/animal_detection_api/data_management/annotations/annotation_constants.py +0 -47
- api/synchronous/api_core/animal_detection_api/detection/detector_training/copy_checkpoints.py +0 -43
- api/synchronous/api_core/animal_detection_api/detection/detector_training/model_main_tf2.py +0 -114
- api/synchronous/api_core/animal_detection_api/detection/process_video.py +0 -543
- api/synchronous/api_core/animal_detection_api/detection/pytorch_detector.py +0 -304
- api/synchronous/api_core/animal_detection_api/detection/run_detector.py +0 -627
- api/synchronous/api_core/animal_detection_api/detection/run_detector_batch.py +0 -1029
- api/synchronous/api_core/animal_detection_api/detection/run_inference_with_yolov5_val.py +0 -581
- api/synchronous/api_core/animal_detection_api/detection/run_tiled_inference.py +0 -754
- api/synchronous/api_core/animal_detection_api/detection/tf_detector.py +0 -165
- api/synchronous/api_core/animal_detection_api/detection/video_utils.py +0 -495
- api/synchronous/api_core/animal_detection_api/md_utils/azure_utils.py +0 -174
- api/synchronous/api_core/animal_detection_api/md_utils/ct_utils.py +0 -262
- api/synchronous/api_core/animal_detection_api/md_utils/directory_listing.py +0 -251
- api/synchronous/api_core/animal_detection_api/md_utils/matlab_porting_tools.py +0 -97
- api/synchronous/api_core/animal_detection_api/md_utils/path_utils.py +0 -416
- api/synchronous/api_core/animal_detection_api/md_utils/process_utils.py +0 -110
- api/synchronous/api_core/animal_detection_api/md_utils/sas_blob_utils.py +0 -509
- api/synchronous/api_core/animal_detection_api/md_utils/string_utils.py +0 -59
- api/synchronous/api_core/animal_detection_api/md_utils/url_utils.py +0 -144
- api/synchronous/api_core/animal_detection_api/md_utils/write_html_image_list.py +0 -226
- api/synchronous/api_core/animal_detection_api/md_visualization/visualization_utils.py +0 -841
- api/synchronous/api_core/tests/__init__.py +0 -0
- api/synchronous/api_core/tests/load_test.py +0 -110
- classification/__init__.py +0 -0
- classification/aggregate_classifier_probs.py +0 -108
- classification/analyze_failed_images.py +0 -227
- classification/cache_batchapi_outputs.py +0 -198
- classification/create_classification_dataset.py +0 -627
- classification/crop_detections.py +0 -516
- classification/csv_to_json.py +0 -226
- classification/detect_and_crop.py +0 -855
- classification/efficientnet/__init__.py +0 -9
- classification/efficientnet/model.py +0 -415
- classification/efficientnet/utils.py +0 -610
- classification/evaluate_model.py +0 -520
- classification/identify_mislabeled_candidates.py +0 -152
- classification/json_to_azcopy_list.py +0 -63
- classification/json_validator.py +0 -695
- classification/map_classification_categories.py +0 -276
- classification/merge_classification_detection_output.py +0 -506
- classification/prepare_classification_script.py +0 -194
- classification/prepare_classification_script_mc.py +0 -228
- classification/run_classifier.py +0 -286
- classification/save_mislabeled.py +0 -110
- classification/train_classifier.py +0 -825
- classification/train_classifier_tf.py +0 -724
- classification/train_utils.py +0 -322
- data_management/__init__.py +0 -0
- data_management/annotations/__init__.py +0 -0
- data_management/annotations/annotation_constants.py +0 -34
- data_management/camtrap_dp_to_coco.py +0 -238
- data_management/cct_json_utils.py +0 -395
- data_management/cct_to_md.py +0 -176
- data_management/cct_to_wi.py +0 -289
- data_management/coco_to_labelme.py +0 -272
- data_management/coco_to_yolo.py +0 -662
- data_management/databases/__init__.py +0 -0
- data_management/databases/add_width_and_height_to_db.py +0 -33
- data_management/databases/combine_coco_camera_traps_files.py +0 -206
- data_management/databases/integrity_check_json_db.py +0 -477
- data_management/databases/subset_json_db.py +0 -115
- data_management/generate_crops_from_cct.py +0 -149
- data_management/get_image_sizes.py +0 -188
- data_management/importers/add_nacti_sizes.py +0 -52
- data_management/importers/add_timestamps_to_icct.py +0 -79
- data_management/importers/animl_results_to_md_results.py +0 -158
- data_management/importers/auckland_doc_test_to_json.py +0 -372
- data_management/importers/auckland_doc_to_json.py +0 -200
- data_management/importers/awc_to_json.py +0 -189
- data_management/importers/bellevue_to_json.py +0 -273
- data_management/importers/cacophony-thermal-importer.py +0 -796
- data_management/importers/carrizo_shrubfree_2018.py +0 -268
- data_management/importers/carrizo_trail_cam_2017.py +0 -287
- data_management/importers/cct_field_adjustments.py +0 -57
- data_management/importers/channel_islands_to_cct.py +0 -913
- data_management/importers/eMammal/copy_and_unzip_emammal.py +0 -180
- data_management/importers/eMammal/eMammal_helpers.py +0 -249
- data_management/importers/eMammal/make_eMammal_json.py +0 -223
- data_management/importers/ena24_to_json.py +0 -275
- data_management/importers/filenames_to_json.py +0 -385
- data_management/importers/helena_to_cct.py +0 -282
- data_management/importers/idaho-camera-traps.py +0 -1407
- data_management/importers/idfg_iwildcam_lila_prep.py +0 -294
- data_management/importers/jb_csv_to_json.py +0 -150
- data_management/importers/mcgill_to_json.py +0 -250
- data_management/importers/missouri_to_json.py +0 -489
- data_management/importers/nacti_fieldname_adjustments.py +0 -79
- data_management/importers/noaa_seals_2019.py +0 -181
- data_management/importers/pc_to_json.py +0 -365
- data_management/importers/plot_wni_giraffes.py +0 -123
- data_management/importers/prepare-noaa-fish-data-for-lila.py +0 -359
- data_management/importers/prepare_zsl_imerit.py +0 -131
- data_management/importers/rspb_to_json.py +0 -356
- data_management/importers/save_the_elephants_survey_A.py +0 -320
- data_management/importers/save_the_elephants_survey_B.py +0 -332
- data_management/importers/snapshot_safari_importer.py +0 -758
- data_management/importers/snapshot_safari_importer_reprise.py +0 -665
- data_management/importers/snapshot_serengeti_lila.py +0 -1067
- data_management/importers/snapshotserengeti/make_full_SS_json.py +0 -150
- data_management/importers/snapshotserengeti/make_per_season_SS_json.py +0 -153
- data_management/importers/sulross_get_exif.py +0 -65
- data_management/importers/timelapse_csv_set_to_json.py +0 -490
- data_management/importers/ubc_to_json.py +0 -399
- data_management/importers/umn_to_json.py +0 -507
- data_management/importers/wellington_to_json.py +0 -263
- data_management/importers/wi_to_json.py +0 -441
- data_management/importers/zamba_results_to_md_results.py +0 -181
- data_management/labelme_to_coco.py +0 -548
- data_management/labelme_to_yolo.py +0 -272
- data_management/lila/__init__.py +0 -0
- data_management/lila/add_locations_to_island_camera_traps.py +0 -97
- data_management/lila/add_locations_to_nacti.py +0 -147
- data_management/lila/create_lila_blank_set.py +0 -557
- data_management/lila/create_lila_test_set.py +0 -151
- data_management/lila/create_links_to_md_results_files.py +0 -106
- data_management/lila/download_lila_subset.py +0 -177
- data_management/lila/generate_lila_per_image_labels.py +0 -515
- data_management/lila/get_lila_annotation_counts.py +0 -170
- data_management/lila/get_lila_image_counts.py +0 -111
- data_management/lila/lila_common.py +0 -300
- data_management/lila/test_lila_metadata_urls.py +0 -132
- data_management/ocr_tools.py +0 -874
- data_management/read_exif.py +0 -681
- data_management/remap_coco_categories.py +0 -84
- data_management/remove_exif.py +0 -66
- data_management/resize_coco_dataset.py +0 -189
- data_management/wi_download_csv_to_coco.py +0 -246
- data_management/yolo_output_to_md_output.py +0 -441
- data_management/yolo_to_coco.py +0 -676
- detection/__init__.py +0 -0
- detection/detector_training/__init__.py +0 -0
- detection/detector_training/model_main_tf2.py +0 -114
- detection/process_video.py +0 -703
- detection/pytorch_detector.py +0 -337
- detection/run_detector.py +0 -779
- detection/run_detector_batch.py +0 -1219
- detection/run_inference_with_yolov5_val.py +0 -917
- detection/run_tiled_inference.py +0 -935
- detection/tf_detector.py +0 -188
- detection/video_utils.py +0 -606
- docs/source/conf.py +0 -43
- md_utils/__init__.py +0 -0
- md_utils/azure_utils.py +0 -174
- md_utils/ct_utils.py +0 -612
- md_utils/directory_listing.py +0 -246
- md_utils/md_tests.py +0 -968
- md_utils/path_utils.py +0 -1044
- md_utils/process_utils.py +0 -157
- md_utils/sas_blob_utils.py +0 -509
- md_utils/split_locations_into_train_val.py +0 -228
- md_utils/string_utils.py +0 -92
- md_utils/url_utils.py +0 -323
- md_utils/write_html_image_list.py +0 -225
- md_visualization/__init__.py +0 -0
- md_visualization/plot_utils.py +0 -293
- md_visualization/render_images_with_thumbnails.py +0 -275
- md_visualization/visualization_utils.py +0 -1537
- md_visualization/visualize_db.py +0 -551
- md_visualization/visualize_detector_output.py +0 -406
- megadetector-5.0.10.dist-info/RECORD +0 -224
- megadetector-5.0.10.dist-info/top_level.txt +0 -8
- taxonomy_mapping/__init__.py +0 -0
- taxonomy_mapping/map_lila_taxonomy_to_wi_taxonomy.py +0 -491
- taxonomy_mapping/map_new_lila_datasets.py +0 -154
- taxonomy_mapping/prepare_lila_taxonomy_release.py +0 -142
- taxonomy_mapping/preview_lila_taxonomy.py +0 -591
- taxonomy_mapping/retrieve_sample_image.py +0 -71
- taxonomy_mapping/simple_image_download.py +0 -218
- taxonomy_mapping/species_lookup.py +0 -834
- taxonomy_mapping/taxonomy_csv_checker.py +0 -159
- taxonomy_mapping/taxonomy_graph.py +0 -346
- taxonomy_mapping/validate_lila_category_mappings.py +0 -83
- {megadetector-5.0.10.dist-info → megadetector-5.0.11.dist-info}/WHEEL +0 -0
|
@@ -1,152 +0,0 @@
|
|
|
1
|
-
# Copyright (c) Microsoft Corporation. All rights reserved.
|
|
2
|
-
# Licensed under the MIT License.
|
|
3
|
-
|
|
4
|
-
"""
|
|
5
|
-
This script can be run in a separate process to monitor all instances of the batch API.
|
|
6
|
-
It sends a digest of submissions within the past day to a Teams channel webhook.
|
|
7
|
-
|
|
8
|
-
It requires the environment variables TEAMS_WEBHOOK, COSMOS_ENDPOINT and COSMOS_READ_KEY to be set.
|
|
9
|
-
"""
|
|
10
|
-
|
|
11
|
-
import time
|
|
12
|
-
import os
|
|
13
|
-
import json
|
|
14
|
-
from datetime import datetime, timezone, timedelta
|
|
15
|
-
from collections import defaultdict
|
|
16
|
-
|
|
17
|
-
import requests
|
|
18
|
-
from azure.cosmos.cosmos_client import CosmosClient
|
|
19
|
-
|
|
20
|
-
|
|
21
|
-
# Cosmos DB `batch-api-jobs` table for job status
|
|
22
|
-
COSMOS_ENDPOINT = os.environ['COSMOS_ENDPOINT']
|
|
23
|
-
COSMOS_READ_KEY = os.environ['COSMOS_READ_KEY']
|
|
24
|
-
|
|
25
|
-
TEAMS_WEBHOOK = os.environ['TEAMS_WEBHOOK']
|
|
26
|
-
|
|
27
|
-
|
|
28
|
-
def send_message():
|
|
29
|
-
cosmos_client = CosmosClient(COSMOS_ENDPOINT, credential=COSMOS_READ_KEY)
|
|
30
|
-
db_client = cosmos_client.get_database_client('camera-trap')
|
|
31
|
-
db_jobs_client = db_client.get_container_client('batch_api_jobs')
|
|
32
|
-
|
|
33
|
-
yesterday = datetime.now(timezone.utc).date() - timedelta(days=1)
|
|
34
|
-
|
|
35
|
-
query = f'''
|
|
36
|
-
SELECT *
|
|
37
|
-
FROM job
|
|
38
|
-
WHERE job.job_submission_time >= "{yesterday.isoformat()}T00:00:00Z"
|
|
39
|
-
'''
|
|
40
|
-
|
|
41
|
-
result_iterable = db_jobs_client.query_items(query=query,
|
|
42
|
-
enable_cross_partition_query=True)
|
|
43
|
-
|
|
44
|
-
# aggregate the number of images, country and organization names info from each job
|
|
45
|
-
# submitted during yesterday (UTC time)
|
|
46
|
-
instance_num_images = defaultdict(lambda: defaultdict(int))
|
|
47
|
-
instance_countries = defaultdict(set)
|
|
48
|
-
instance_orgs = defaultdict(set)
|
|
49
|
-
|
|
50
|
-
total_images_received = 0
|
|
51
|
-
|
|
52
|
-
for job in result_iterable:
|
|
53
|
-
api_instance = job['api_instance']
|
|
54
|
-
status = job['status']
|
|
55
|
-
call_params = job['call_params']
|
|
56
|
-
|
|
57
|
-
if status['request_status'] == 'completed':
|
|
58
|
-
instance_num_images[api_instance]['num_images_completed'] += status.get('num_images', 0)
|
|
59
|
-
instance_num_images[api_instance]['num_images_total'] += status.get('num_images', 0)
|
|
60
|
-
total_images_received += status.get('num_images', 0)
|
|
61
|
-
|
|
62
|
-
instance_countries[api_instance].add(call_params.get('country', 'unknown'))
|
|
63
|
-
instance_orgs[api_instance].add(call_params.get('organization_name', 'unknown'))
|
|
64
|
-
|
|
65
|
-
print(f'send_message, number of images received yesterday: {total_images_received}')
|
|
66
|
-
|
|
67
|
-
if total_images_received < 1:
|
|
68
|
-
print('send_message, no images submitted yesterday, not sending a summary')
|
|
69
|
-
print('')
|
|
70
|
-
return
|
|
71
|
-
|
|
72
|
-
# create the card
|
|
73
|
-
sections = []
|
|
74
|
-
|
|
75
|
-
for instance_name, num_images in instance_num_images.items():
|
|
76
|
-
entry = {
|
|
77
|
-
'activityTitle': f'API instance: {instance_name}',
|
|
78
|
-
'facts': [
|
|
79
|
-
{
|
|
80
|
-
'name': 'Total images',
|
|
81
|
-
'value': '{:,}'.format(num_images['num_images_total'])
|
|
82
|
-
},
|
|
83
|
-
{
|
|
84
|
-
'name': 'Images completed',
|
|
85
|
-
'value': '{:,}'.format(num_images['num_images_completed'])
|
|
86
|
-
},
|
|
87
|
-
{
|
|
88
|
-
'name': 'Countries',
|
|
89
|
-
'value': ', '.join(sorted(list(instance_countries[instance_name])))
|
|
90
|
-
},
|
|
91
|
-
{
|
|
92
|
-
'name': 'Organizations',
|
|
93
|
-
'value': ', '.join(sorted(list(instance_orgs[instance_name])))
|
|
94
|
-
}
|
|
95
|
-
]
|
|
96
|
-
}
|
|
97
|
-
sections.append(entry)
|
|
98
|
-
|
|
99
|
-
card = {
|
|
100
|
-
'@type': 'MessageCard',
|
|
101
|
-
'@context': 'http://schema.org/extensions',
|
|
102
|
-
'themeColor': 'ffcdb2',
|
|
103
|
-
'summary': 'Digest of batch API activities over the past 24 hours',
|
|
104
|
-
'title': f'Camera traps batch API activities on {yesterday.strftime("%b %d, %Y")}',
|
|
105
|
-
'sections': sections,
|
|
106
|
-
'potentialAction': [
|
|
107
|
-
{
|
|
108
|
-
'@type': 'OpenUri',
|
|
109
|
-
'name': 'View Batch account in Azure Portal',
|
|
110
|
-
'targets': [
|
|
111
|
-
{
|
|
112
|
-
'os': 'default',
|
|
113
|
-
'uri': 'https://ms.portal.azure.com/#@microsoft.onmicrosoft.com/resource/subscriptions/74d91980-e5b4-4fd9-adb6-263b8f90ec5b/resourcegroups/camera_trap_api_rg/providers/Microsoft.Batch/batchAccounts/cameratrapssc/accountOverview'
|
|
114
|
-
}
|
|
115
|
-
]
|
|
116
|
-
}
|
|
117
|
-
]
|
|
118
|
-
}
|
|
119
|
-
|
|
120
|
-
response = requests.post(TEAMS_WEBHOOK, data=json.dumps(card))
|
|
121
|
-
print(f'send_message, card to send:')
|
|
122
|
-
print(json.dumps(card, indent=4))
|
|
123
|
-
print(f'send_message, sent summary to webhook, response code: {response.status_code}')
|
|
124
|
-
print('')
|
|
125
|
-
|
|
126
|
-
|
|
127
|
-
def main():
|
|
128
|
-
"""
|
|
129
|
-
Wake up at 5 minutes past midnight UTC to send a summary of yesterday's activities if there were any.
|
|
130
|
-
Then goes in a loop to wake up and send a summary every 24 hours.
|
|
131
|
-
"""
|
|
132
|
-
current = datetime.utcnow()
|
|
133
|
-
future = current.replace(day=current.day, hour=0, minute=5, second=0, microsecond=0) + timedelta(
|
|
134
|
-
days=1) # current has been modified
|
|
135
|
-
|
|
136
|
-
current = datetime.utcnow()
|
|
137
|
-
duration = future - current
|
|
138
|
-
|
|
139
|
-
duration_hours = duration.seconds / (60 * 60)
|
|
140
|
-
print(f'Current time: {current}')
|
|
141
|
-
print(f'Will wake up at {future}, in {duration_hours} hours')
|
|
142
|
-
print('')
|
|
143
|
-
|
|
144
|
-
time.sleep(duration.seconds)
|
|
145
|
-
|
|
146
|
-
while True:
|
|
147
|
-
print(f'Woke up at {datetime.utcnow()}')
|
|
148
|
-
send_message()
|
|
149
|
-
time.sleep(24 * 60 * 60)
|
|
150
|
-
|
|
151
|
-
if __name__ == '__main__':
|
|
152
|
-
main()
|
|
File without changes
|