megadetector 5.0.20__tar.gz → 5.0.22__tar.gz

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  1. {megadetector-5.0.20 → megadetector-5.0.22}/LICENSE +0 -0
  2. {megadetector-5.0.20/megadetector.egg-info → megadetector-5.0.22}/PKG-INFO +143 -142
  3. {megadetector-5.0.20 → megadetector-5.0.22}/README-package.md +0 -0
  4. {megadetector-5.0.20 → megadetector-5.0.22}/README.md +3 -2
  5. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/__init__.py +0 -0
  6. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/__init__.py +0 -0
  7. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/__init__.py +0 -0
  8. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/batch_service/__init__.py +0 -0
  9. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/batch_service/score.py +0 -0
  10. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/server.py +0 -0
  11. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/server_api_config.py +0 -0
  12. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/server_app_config.py +0 -0
  13. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/server_batch_job_manager.py +0 -0
  14. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/server_job_status_table.py +0 -0
  15. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/server_orchestration.py +0 -0
  16. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core/server_utils.py +0 -0
  17. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core_support/__init__.py +0 -0
  18. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_core_support/aggregate_results_manually.py +0 -0
  19. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_support/__init__.py +0 -0
  20. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/api_support/summarize_daily_activity.py +0 -0
  21. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/data_preparation/__init__.py +0 -0
  22. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/integration/digiKam/setup.py +0 -0
  23. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/integration/digiKam/xmp_integration.py +0 -0
  24. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/integration/eMammal/test_scripts/config_template.py +0 -0
  25. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/integration/eMammal/test_scripts/push_annotations_to_emammal.py +0 -0
  26. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/batch_processing/integration/eMammal/test_scripts/select_images_for_testing.py +0 -0
  27. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/synchronous/__init__.py +0 -0
  28. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/synchronous/api_core/animal_detection_api/__init__.py +0 -0
  29. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/synchronous/api_core/animal_detection_api/api_backend.py +0 -0
  30. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/synchronous/api_core/animal_detection_api/api_frontend.py +0 -0
  31. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/synchronous/api_core/animal_detection_api/config.py +0 -0
  32. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/synchronous/api_core/tests/__init__.py +0 -0
  33. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/api/synchronous/api_core/tests/load_test.py +0 -0
  34. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/__init__.py +0 -0
  35. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/aggregate_classifier_probs.py +0 -0
  36. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/analyze_failed_images.py +0 -0
  37. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/cache_batchapi_outputs.py +0 -0
  38. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/create_classification_dataset.py +0 -0
  39. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/crop_detections.py +0 -0
  40. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/csv_to_json.py +0 -0
  41. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/detect_and_crop.py +0 -0
  42. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/efficientnet/__init__.py +0 -0
  43. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/efficientnet/model.py +0 -0
  44. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/efficientnet/utils.py +0 -0
  45. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/evaluate_model.py +0 -0
  46. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/identify_mislabeled_candidates.py +0 -0
  47. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/json_to_azcopy_list.py +0 -0
  48. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/json_validator.py +0 -0
  49. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/map_classification_categories.py +0 -0
  50. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/merge_classification_detection_output.py +0 -0
  51. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/prepare_classification_script.py +0 -0
  52. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/prepare_classification_script_mc.py +0 -0
  53. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/run_classifier.py +0 -0
  54. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/save_mislabeled.py +0 -0
  55. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/train_classifier.py +0 -0
  56. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/train_classifier_tf.py +0 -0
  57. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/classification/train_utils.py +0 -0
  58. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/__init__.py +0 -0
  59. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/annotations/__init__.py +0 -0
  60. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/annotations/annotation_constants.py +0 -0
  61. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/camtrap_dp_to_coco.py +0 -0
  62. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/cct_json_utils.py +143 -7
  63. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/cct_to_md.py +12 -5
  64. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/cct_to_wi.py +0 -0
  65. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/coco_to_labelme.py +0 -0
  66. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/coco_to_yolo.py +0 -0
  67. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/databases/__init__.py +0 -0
  68. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/databases/add_width_and_height_to_db.py +0 -0
  69. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/databases/combine_coco_camera_traps_files.py +0 -0
  70. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/databases/integrity_check_json_db.py +83 -77
  71. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/databases/subset_json_db.py +0 -0
  72. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/generate_crops_from_cct.py +0 -0
  73. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/get_image_sizes.py +0 -0
  74. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/add_nacti_sizes.py +0 -0
  75. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/add_timestamps_to_icct.py +0 -0
  76. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/animl_results_to_md_results.py +0 -0
  77. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/auckland_doc_test_to_json.py +0 -0
  78. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/auckland_doc_to_json.py +0 -0
  79. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/awc_to_json.py +0 -0
  80. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/bellevue_to_json.py +0 -0
  81. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/cacophony-thermal-importer.py +0 -0
  82. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/carrizo_shrubfree_2018.py +0 -0
  83. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/carrizo_trail_cam_2017.py +0 -0
  84. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/cct_field_adjustments.py +0 -0
  85. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/channel_islands_to_cct.py +0 -0
  86. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/eMammal/copy_and_unzip_emammal.py +0 -0
  87. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/eMammal/eMammal_helpers.py +0 -0
  88. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/eMammal/make_eMammal_json.py +0 -0
  89. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/ena24_to_json.py +0 -0
  90. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/filenames_to_json.py +0 -0
  91. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/helena_to_cct.py +0 -0
  92. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/idaho-camera-traps.py +0 -0
  93. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/idfg_iwildcam_lila_prep.py +0 -0
  94. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/import_desert_lion_conservation_camera_traps.py +0 -0
  95. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/jb_csv_to_json.py +0 -0
  96. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/mcgill_to_json.py +0 -0
  97. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/missouri_to_json.py +0 -0
  98. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/nacti_fieldname_adjustments.py +0 -0
  99. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/noaa_seals_2019.py +0 -0
  100. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/osu-small-animals-to-json.py +4 -4
  101. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/pc_to_json.py +0 -0
  102. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/plot_wni_giraffes.py +0 -0
  103. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/prepare_zsl_imerit.py +0 -0
  104. megadetector-5.0.22/megadetector/data_management/importers/raic_csv_to_md_results.py +416 -0
  105. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/rspb_to_json.py +0 -0
  106. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/save_the_elephants_survey_A.py +0 -0
  107. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/save_the_elephants_survey_B.py +0 -0
  108. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/snapshot_safari_importer.py +0 -0
  109. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/snapshot_serengeti_lila.py +0 -0
  110. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/snapshotserengeti/make_full_SS_json.py +0 -0
  111. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/snapshotserengeti/make_per_season_SS_json.py +0 -0
  112. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/sulross_get_exif.py +0 -0
  113. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/timelapse_csv_set_to_json.py +0 -0
  114. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/ubc_to_json.py +0 -0
  115. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/umn_to_json.py +0 -0
  116. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/wellington_to_json.py +0 -0
  117. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/wi_to_json.py +0 -0
  118. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/importers/zamba_results_to_md_results.py +1 -2
  119. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/labelme_to_coco.py +0 -0
  120. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/labelme_to_yolo.py +0 -0
  121. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/__init__.py +0 -0
  122. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/add_locations_to_island_camera_traps.py +0 -0
  123. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/add_locations_to_nacti.py +0 -0
  124. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/create_lila_blank_set.py +0 -0
  125. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/create_lila_test_set.py +25 -11
  126. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/create_links_to_md_results_files.py +0 -0
  127. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/download_lila_subset.py +9 -2
  128. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/generate_lila_per_image_labels.py +3 -2
  129. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/get_lila_annotation_counts.py +0 -0
  130. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/get_lila_image_counts.py +0 -0
  131. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/lila_common.py +0 -0
  132. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/lila/test_lila_metadata_urls.py +5 -1
  133. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/ocr_tools.py +0 -0
  134. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/read_exif.py +10 -14
  135. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/remap_coco_categories.py +0 -0
  136. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/remove_exif.py +0 -0
  137. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/rename_images.py +1 -1
  138. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/resize_coco_dataset.py +0 -0
  139. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/wi_download_csv_to_coco.py +0 -0
  140. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/yolo_output_to_md_output.py +18 -5
  141. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/data_management/yolo_to_coco.py +0 -0
  142. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/__init__.py +0 -0
  143. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/detector_training/__init__.py +0 -0
  144. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/detector_training/model_main_tf2.py +0 -0
  145. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/process_video.py +14 -3
  146. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/pytorch_detector.py +15 -3
  147. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/run_detector.py +4 -3
  148. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/run_detector_batch.py +0 -0
  149. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/run_inference_with_yolov5_val.py +121 -13
  150. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/run_tiled_inference.py +0 -0
  151. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/tf_detector.py +0 -0
  152. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/detection/video_utils.py +40 -17
  153. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/__init__.py +0 -0
  154. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/add_max_conf.py +0 -0
  155. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/categorize_detections_by_size.py +0 -0
  156. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/classification_postprocessing.py +1 -1
  157. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/combine_api_outputs.py +1 -1
  158. megadetector-5.0.22/megadetector/postprocessing/compare_batch_results.py +1755 -0
  159. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/convert_output_format.py +0 -0
  160. megadetector-5.0.22/megadetector/postprocessing/detector_calibration.py +565 -0
  161. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/load_api_results.py +0 -0
  162. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/md_to_coco.py +85 -19
  163. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/md_to_labelme.py +0 -0
  164. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/merge_detections.py +0 -0
  165. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/postprocess_batch_results.py +32 -21
  166. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/remap_detection_categories.py +0 -0
  167. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/render_detection_confusion_matrix.py +0 -0
  168. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/repeat_detection_elimination/find_repeat_detections.py +0 -0
  169. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/repeat_detection_elimination/remove_repeat_detections.py +0 -0
  170. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/repeat_detection_elimination/repeat_detections_core.py +0 -0
  171. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/separate_detections_into_folders.py +0 -0
  172. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/subset_json_detector_output.py +0 -0
  173. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/postprocessing/top_folders_to_bottom.py +0 -0
  174. megadetector-5.0.22/megadetector/postprocessing/validate_batch_results.py +296 -0
  175. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/__init__.py +0 -0
  176. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/map_lila_taxonomy_to_wi_taxonomy.py +0 -0
  177. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/map_new_lila_datasets.py +15 -12
  178. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/prepare_lila_taxonomy_release.py +1 -1
  179. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/preview_lila_taxonomy.py +3 -1
  180. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/retrieve_sample_image.py +0 -0
  181. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/simple_image_download.py +0 -0
  182. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/species_lookup.py +0 -0
  183. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/taxonomy_csv_checker.py +0 -0
  184. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/taxonomy_graph.py +0 -0
  185. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/taxonomy_mapping/validate_lila_category_mappings.py +0 -0
  186. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/__init__.py +0 -0
  187. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/azure_utils.py +0 -0
  188. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/ct_utils.py +64 -2
  189. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/directory_listing.py +0 -0
  190. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/md_tests.py +15 -13
  191. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/path_utils.py +153 -37
  192. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/process_utils.py +9 -3
  193. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/sas_blob_utils.py +0 -0
  194. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/split_locations_into_train_val.py +0 -0
  195. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/string_utils.py +0 -0
  196. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/torch_test.py +0 -0
  197. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/url_utils.py +0 -0
  198. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/utils/write_html_image_list.py +21 -6
  199. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/visualization/__init__.py +0 -0
  200. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/visualization/plot_utils.py +0 -0
  201. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/visualization/render_images_with_thumbnails.py +0 -0
  202. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/visualization/visualization_utils.py +329 -102
  203. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/visualization/visualize_db.py +104 -63
  204. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector/visualization/visualize_detector_output.py +0 -0
  205. {megadetector-5.0.20 → megadetector-5.0.22/megadetector.egg-info}/PKG-INFO +143 -142
  206. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector.egg-info/SOURCES.txt +2 -1
  207. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector.egg-info/dependency_links.txt +0 -0
  208. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector.egg-info/requires.txt +1 -0
  209. {megadetector-5.0.20 → megadetector-5.0.22}/megadetector.egg-info/top_level.txt +0 -0
  210. {megadetector-5.0.20 → megadetector-5.0.22}/pyproject.toml +10 -2
  211. {megadetector-5.0.20 → megadetector-5.0.22}/setup.cfg +4 -4
  212. megadetector-5.0.20/megadetector/data_management/importers/prepare-noaa-fish-data-for-lila.py +0 -359
  213. megadetector-5.0.20/megadetector/postprocessing/compare_batch_results.py +0 -966
  214. megadetector-5.0.20/megadetector/postprocessing/validate_batch_results.py +0 -186
File without changes
@@ -1,142 +1,143 @@
1
- Metadata-Version: 2.1
2
- Name: megadetector
3
- Version: 5.0.20
4
- Summary: MegaDetector is an AI model that helps conservation folks spend less time doing boring things with camera trap images.
5
- Author-email: Your friendly neighborhood MegaDetector team <cameratraps@lila.science>
6
- Maintainer-email: Your friendly neighborhood MegaDetector team <cameratraps@lila.science>
7
- License: MIT License
8
-
9
- Permission is hereby granted, free of charge, to any person obtaining a copy
10
- of this software and associated documentation files (the "Software"), to deal
11
- in the Software without restriction, including without limitation the rights
12
- to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
13
- copies of the Software, and to permit persons to whom the Software is
14
- furnished to do so, subject to the following conditions:
15
-
16
- The above copyright notice and this permission notice shall be included in all
17
- copies or substantial portions of the Software.
18
-
19
- THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
20
- IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
21
- FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
22
- AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
23
- LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
24
- OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
25
- SOFTWARE.
26
-
27
- Project-URL: Homepage, https://github.com/agentmorris/MegaDetector
28
- Project-URL: Documentation, https://megadetector.readthedocs.io
29
- Project-URL: Bug Reports, https://github.com/agentmorris/MegaDetector/issues
30
- Project-URL: Source, https://github.com/agentmorris/MegaDetector
31
- Keywords: camera traps,conservation,wildlife,ai,megadetector
32
- Classifier: Development Status :: 3 - Alpha
33
- Classifier: License :: OSI Approved :: MIT License
34
- Classifier: Programming Language :: Python :: 3
35
- Requires-Python: <3.12,>=3.9
36
- Description-Content-Type: text/markdown
37
- License-File: LICENSE
38
- Requires-Dist: Pillow>=9.5
39
- Requires-Dist: tqdm>=4.64.0
40
- Requires-Dist: jsonpickle>=3.0.2
41
- Requires-Dist: humanfriendly>=10.0
42
- Requires-Dist: numpy<1.24,>=1.22
43
- Requires-Dist: matplotlib>=3.8.0
44
- Requires-Dist: opencv-python>=4.8.0
45
- Requires-Dist: requests>=2.31.0
46
- Requires-Dist: pyqtree>=1.0.0
47
- Requires-Dist: seaborn>=0.12.2
48
- Requires-Dist: scikit-learn>=1.3.1
49
- Requires-Dist: pandas>=2.1.1
50
- Requires-Dist: PyYAML>=6.0.1
51
- Requires-Dist: ultralytics-yolov5==0.1.1
52
-
53
- # MegaDetector
54
-
55
- This package is a pip-installable version of the support/inference code for [MegaDetector](https://github.com/agentmorris/MegaDetector/?tab=readme-ov-file#megadetector), an object detection model that helps conservation biologists spend less time doing boring things with camera trap images. Complete documentation for this Python package is available at [megadetector.readthedocs.io](https://megadetector.readthedocs.io).
56
-
57
- If you aren't looking for the Python package specifically, and you just want to learn more about what MegaDetector is all about, head over to the [MegaDetector repo](https://github.com/agentmorris/MegaDetector/?tab=readme-ov-file#megadetector).
58
-
59
-
60
- ## Reasons you might not be looking for this package
61
-
62
- ### If you are an ecologist...
63
-
64
- If you are an ecologist looking to use MegaDetector to help you get through your camera trap images, you probably don't want this package, or at least you probably don't want to start at this page. We recommend starting with our "[Getting started with MegaDetector](https://github.com/agentmorris/MegaDetector/blob/main/getting-started.md)" page, then digging in to the [MegaDetector User Guide](https://github.com/agentmorris/MegaDetector/blob/main/megadetector.md), which will walk you through the process of using MegaDetector.
65
-
66
- ### If you are a computer-vision-y type...
67
-
68
- If you are a computer-vision-y person looking to run or fine-tune MegaDetector programmatically, you probably don't want this package. MegaDetector is just a fine-tuned version of [YOLOv5](https://github.com/ultralytics/yolov5), and the [ultralytics](https://github.com/ultralytics/ultralytics/) package (from the developers of YOLOv5) has a zillion bells and whistles for both inference and fine-tuning that this package doesn't.
69
-
70
- ## Reasons you might want to use this package
71
-
72
- If you want to programmatically interact with the postprocessing tools from the MegaDetector repo, or programmatically run MegaDetector in a way that produces [Timelapse](https://saul.cpsc.ucalgary.ca/timelapse)-friendly output (i.e., output in the standard [MegaDetector output format](https://github.com/agentmorris/MegaDetector/tree/main/megadetector/api/batch_processing#megadetector-batch-output-format)), this package might be for you.
73
-
74
- ## If I haven't talked you out of using this package...
75
-
76
- To install:
77
-
78
- `pip install megadetector`
79
-
80
- MegaDetector model weights aren't downloaded at pip-install time, but they will be (optionally) automatically downloaded the first time you run the model.
81
-
82
- ## Package reference
83
-
84
- See [megadetector.readthedocs.io](https://megadetector.readthedocs.io).
85
-
86
-
87
- ## Examples of things you can do with this package
88
-
89
- ### Run MegaDetector on one image and count the number of detections
90
-
91
- ```
92
- from megadetector.utils import url_utils
93
- from megadetector.visualization import visualization_utils as vis_utils
94
- from megadetector.detection import run_detector
95
-
96
- # This is the image at the bottom of this page, it has one animal in it
97
- image_url = 'https://github.com/agentmorris/MegaDetector/raw/main/images/orinoquia-thumb-web.jpg'
98
- temporary_filename = url_utils.download_url(image_url)
99
-
100
- image = vis_utils.load_image(temporary_filename)
101
-
102
- # This will automatically download MDv5a; you can also specify a filename.
103
- model = run_detector.load_detector('MDV5A')
104
-
105
- result = model.generate_detections_one_image(image)
106
-
107
- detections_above_threshold = [d for d in result['detections'] if d['conf'] > 0.2]
108
- print('Found {} detections above threshold'.format(len(detections_above_threshold)))
109
- ```
110
-
111
- ### Run MegaDetector on a folder of images
112
-
113
- ```
114
- from megadetector.detection.run_detector_batch import \
115
- load_and_run_detector_batch, write_results_to_file
116
- from megadetector.utils import path_utils
117
- import os
118
-
119
- # Pick a folder to run MD on recursively, and an output file
120
- image_folder = os.path.expanduser('~/megadetector_test_images')
121
- output_file = os.path.expanduser('~/megadetector_output_test.json')
122
-
123
- # Recursively find images
124
- image_file_names = path_utils.find_images(image_folder,recursive=True)
125
-
126
- # This will automatically download MDv5a; you can also specify a filename.
127
- results = load_and_run_detector_batch('MDV5A', image_file_names)
128
-
129
- # Write results to a format that Timelapse and other downstream tools like.
130
- write_results_to_file(results,
131
- output_file,
132
- relative_path_base=image_folder,
133
- detector_file=detector_filename)
134
- ```
135
-
136
- ## Contact
137
-
138
- Contact <a href="cameratraps@lila.science">cameratraps@lila.science</a> with questions.
139
-
140
- ## Gratuitous animal picture
141
-
142
- <img src="https://github.com/agentmorris/MegaDetector/raw/main/images/orinoquia-thumb-web_detections.jpg"><br/>Image credit University of Minnesota, from the [Orinoquía Camera Traps](http://lila.science/datasets/orinoquia-camera-traps/) data set.
1
+ Metadata-Version: 2.2
2
+ Name: megadetector
3
+ Version: 5.0.22
4
+ Summary: MegaDetector is an AI model that helps conservation folks spend less time doing boring things with camera trap images.
5
+ Author-email: Your friendly neighborhood MegaDetector team <cameratraps@lila.science>
6
+ Maintainer-email: Your friendly neighborhood MegaDetector team <cameratraps@lila.science>
7
+ License: MIT License
8
+
9
+ Permission is hereby granted, free of charge, to any person obtaining a copy
10
+ of this software and associated documentation files (the "Software"), to deal
11
+ in the Software without restriction, including without limitation the rights
12
+ to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
13
+ copies of the Software, and to permit persons to whom the Software is
14
+ furnished to do so, subject to the following conditions:
15
+
16
+ The above copyright notice and this permission notice shall be included in all
17
+ copies or substantial portions of the Software.
18
+
19
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
20
+ IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
21
+ FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
22
+ AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
23
+ LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
24
+ OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
25
+ SOFTWARE.
26
+
27
+ Project-URL: Homepage, https://github.com/agentmorris/MegaDetector
28
+ Project-URL: Documentation, https://megadetector.readthedocs.io
29
+ Project-URL: Bug Reports, https://github.com/agentmorris/MegaDetector/issues
30
+ Project-URL: Source, https://github.com/agentmorris/MegaDetector
31
+ Keywords: camera traps,conservation,wildlife,ai,megadetector
32
+ Classifier: Development Status :: 3 - Alpha
33
+ Classifier: License :: OSI Approved :: MIT License
34
+ Classifier: Programming Language :: Python :: 3
35
+ Requires-Python: <3.12,>=3.9
36
+ Description-Content-Type: text/markdown
37
+ License-File: LICENSE
38
+ Requires-Dist: Pillow>=9.5
39
+ Requires-Dist: tqdm>=4.64.0
40
+ Requires-Dist: jsonpickle>=3.0.2
41
+ Requires-Dist: humanfriendly>=10.0
42
+ Requires-Dist: numpy<1.24,>=1.22
43
+ Requires-Dist: matplotlib>=3.8.0
44
+ Requires-Dist: opencv-python>=4.8.0
45
+ Requires-Dist: requests>=2.31.0
46
+ Requires-Dist: pyqtree>=1.0.0
47
+ Requires-Dist: seaborn>=0.12.2
48
+ Requires-Dist: scikit-learn>=1.3.1
49
+ Requires-Dist: pandas>=2.1.1
50
+ Requires-Dist: PyYAML>=6.0.1
51
+ Requires-Dist: ultralytics-yolov5==0.1.1
52
+ Requires-Dist: python-dateutil
53
+
54
+ # MegaDetector
55
+
56
+ This package is a pip-installable version of the support/inference code for [MegaDetector](https://github.com/agentmorris/MegaDetector/?tab=readme-ov-file#megadetector), an object detection model that helps conservation biologists spend less time doing boring things with camera trap images. Complete documentation for this Python package is available at [megadetector.readthedocs.io](https://megadetector.readthedocs.io).
57
+
58
+ If you aren't looking for the Python package specifically, and you just want to learn more about what MegaDetector is all about, head over to the [MegaDetector repo](https://github.com/agentmorris/MegaDetector/?tab=readme-ov-file#megadetector).
59
+
60
+
61
+ ## Reasons you might not be looking for this package
62
+
63
+ ### If you are an ecologist...
64
+
65
+ If you are an ecologist looking to use MegaDetector to help you get through your camera trap images, you probably don't want this package, or at least you probably don't want to start at this page. We recommend starting with our "[Getting started with MegaDetector](https://github.com/agentmorris/MegaDetector/blob/main/getting-started.md)" page, then digging in to the [MegaDetector User Guide](https://github.com/agentmorris/MegaDetector/blob/main/megadetector.md), which will walk you through the process of using MegaDetector.
66
+
67
+ ### If you are a computer-vision-y type...
68
+
69
+ If you are a computer-vision-y person looking to run or fine-tune MegaDetector programmatically, you probably don't want this package. MegaDetector is just a fine-tuned version of [YOLOv5](https://github.com/ultralytics/yolov5), and the [ultralytics](https://github.com/ultralytics/ultralytics/) package (from the developers of YOLOv5) has a zillion bells and whistles for both inference and fine-tuning that this package doesn't.
70
+
71
+ ## Reasons you might want to use this package
72
+
73
+ If you want to programmatically interact with the postprocessing tools from the MegaDetector repo, or programmatically run MegaDetector in a way that produces [Timelapse](https://saul.cpsc.ucalgary.ca/timelapse)-friendly output (i.e., output in the standard [MegaDetector output format](https://github.com/agentmorris/MegaDetector/tree/main/megadetector/api/batch_processing#megadetector-batch-output-format)), this package might be for you.
74
+
75
+ ## If I haven't talked you out of using this package...
76
+
77
+ To install:
78
+
79
+ `pip install megadetector`
80
+
81
+ MegaDetector model weights aren't downloaded at pip-install time, but they will be (optionally) automatically downloaded the first time you run the model.
82
+
83
+ ## Package reference
84
+
85
+ See [megadetector.readthedocs.io](https://megadetector.readthedocs.io).
86
+
87
+
88
+ ## Examples of things you can do with this package
89
+
90
+ ### Run MegaDetector on one image and count the number of detections
91
+
92
+ ```
93
+ from megadetector.utils import url_utils
94
+ from megadetector.visualization import visualization_utils as vis_utils
95
+ from megadetector.detection import run_detector
96
+
97
+ # This is the image at the bottom of this page, it has one animal in it
98
+ image_url = 'https://github.com/agentmorris/MegaDetector/raw/main/images/orinoquia-thumb-web.jpg'
99
+ temporary_filename = url_utils.download_url(image_url)
100
+
101
+ image = vis_utils.load_image(temporary_filename)
102
+
103
+ # This will automatically download MDv5a; you can also specify a filename.
104
+ model = run_detector.load_detector('MDV5A')
105
+
106
+ result = model.generate_detections_one_image(image)
107
+
108
+ detections_above_threshold = [d for d in result['detections'] if d['conf'] > 0.2]
109
+ print('Found {} detections above threshold'.format(len(detections_above_threshold)))
110
+ ```
111
+
112
+ ### Run MegaDetector on a folder of images
113
+
114
+ ```
115
+ from megadetector.detection.run_detector_batch import \
116
+ load_and_run_detector_batch, write_results_to_file
117
+ from megadetector.utils import path_utils
118
+ import os
119
+
120
+ # Pick a folder to run MD on recursively, and an output file
121
+ image_folder = os.path.expanduser('~/megadetector_test_images')
122
+ output_file = os.path.expanduser('~/megadetector_output_test.json')
123
+
124
+ # Recursively find images
125
+ image_file_names = path_utils.find_images(image_folder,recursive=True)
126
+
127
+ # This will automatically download MDv5a; you can also specify a filename.
128
+ results = load_and_run_detector_batch('MDV5A', image_file_names)
129
+
130
+ # Write results to a format that Timelapse and other downstream tools like.
131
+ write_results_to_file(results,
132
+ output_file,
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+ relative_path_base=image_folder,
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+ detector_file=detector_filename)
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+ ```
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+
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+ ## Contact
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+
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+ Contact <a href="cameratraps@lila.science">cameratraps@lila.science</a> with questions.
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+
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+ ## Gratuitous animal picture
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+
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+ <img src="https://github.com/agentmorris/MegaDetector/raw/main/images/orinoquia-thumb-web_detections.jpg"><br/>Image credit University of Minnesota, from the [Orinoquía Camera Traps](http://lila.science/datasets/orinoquia-camera-traps/) data set.
@@ -107,7 +107,7 @@ Here are a few of the organizations that have used MegaDetector... we're only li
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  * [Wildlife Coexistence Lab](https://wildlife.forestry.ubc.ca/), University of British Columbia
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  * [Wildlife Research](https://www.dfw.state.or.us/wildlife/research/index.asp), Oregon Department of Fish and Wildlife
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  * [Wildlife Division](https://www.michigan.gov/dnr/about/contact/wildlife), Michigan Department of Natural Resources
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-
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+ * [Kohl Wildlife Lab](https://kohlwildlifelab.com/), University of Georgia
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  * Department of Ecology, TU Berlin
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  * Ghost Cat Analytics
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  * Protected Areas Unit, Canadian Wildlife Service
@@ -129,7 +129,8 @@ Here are a few of the organizations that have used MegaDetector... we're only li
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  * [Q42](https://www.q42.nl/en) ([blog post](https://engineering.q42.nl/ai-bear-repeller/))
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  * [Agouti](https://agouti.eu/) ([report](https://efsa.onlinelibrary.wiley.com/doi/pdf/10.2903/sp.efsa.2023.EN-8217))
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  * [Trapper](https://trapper-project.readthedocs.io/en/latest/overview.html) ([tutorial](https://trapper-project.readthedocs.io/en/latest/tutorial.html))
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- * [BirdLife Malta](https://birdlifemalta.org/) ([tweet](https://x.com/BirdLife_Malta/status/1817456839862173783?t=S-KRiZ5R1-CoW8-tbYNjqQ&s=03))
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+ * [BirdLife Malta](https://birdlifemalta.org/) ([tweet](https://x.com/BirdLife_Malta/status/1817456839862173783?t=S-KRiZ5R1-CoW8-tbYNjqQ&s=03)) ([LI post](https://www.linkedin.com/posts/birdlifemalta_worldnatureconservationday-shearwater-colony-activity-7223220656589463553-X2Mc/?utm_source=share&utm_medium=member_android))
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+ * [Endangered Landscapes and Seascapes Programme](https://www.endangeredlandscapes.org/), Cambridge Conservation Initiative ([blog post](https://www.endangeredlandscapes.org/news/ai-for-wildlife-monitoring-a-real-time-alert-system-for-bears-and-wild-boars-in-romanias-carpathian-mountains/))
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  * [Road Ecology Center](https://roadecology.ucdavis.edu/), University of California, Davis ([Wildlife Observer Network platform](https://wildlifeobserver.net/))
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  * [The Nature Conservancy in California](https://www.nature.org/en-us/about-us/where-we-work/united-states/california/) ([Animl platform](https://github.com/tnc-ca-geo/animl-frontend)) ([story](https://www.vision-systems.com/non-factory/environment-agriculture/article/14304433/the-nature-conservancy-brings-cameras-ai-to-invasive-species-prevention))