megadetector 10.0.15__py3-none-any.whl

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Files changed (147) hide show
  1. megadetector/__init__.py +0 -0
  2. megadetector/api/__init__.py +0 -0
  3. megadetector/api/batch_processing/integration/digiKam/setup.py +6 -0
  4. megadetector/api/batch_processing/integration/digiKam/xmp_integration.py +465 -0
  5. megadetector/api/batch_processing/integration/eMammal/test_scripts/config_template.py +5 -0
  6. megadetector/api/batch_processing/integration/eMammal/test_scripts/push_annotations_to_emammal.py +125 -0
  7. megadetector/api/batch_processing/integration/eMammal/test_scripts/select_images_for_testing.py +55 -0
  8. megadetector/classification/__init__.py +0 -0
  9. megadetector/classification/aggregate_classifier_probs.py +108 -0
  10. megadetector/classification/analyze_failed_images.py +227 -0
  11. megadetector/classification/cache_batchapi_outputs.py +198 -0
  12. megadetector/classification/create_classification_dataset.py +626 -0
  13. megadetector/classification/crop_detections.py +516 -0
  14. megadetector/classification/csv_to_json.py +226 -0
  15. megadetector/classification/detect_and_crop.py +853 -0
  16. megadetector/classification/efficientnet/__init__.py +9 -0
  17. megadetector/classification/efficientnet/model.py +415 -0
  18. megadetector/classification/efficientnet/utils.py +608 -0
  19. megadetector/classification/evaluate_model.py +520 -0
  20. megadetector/classification/identify_mislabeled_candidates.py +152 -0
  21. megadetector/classification/json_to_azcopy_list.py +63 -0
  22. megadetector/classification/json_validator.py +696 -0
  23. megadetector/classification/map_classification_categories.py +276 -0
  24. megadetector/classification/merge_classification_detection_output.py +509 -0
  25. megadetector/classification/prepare_classification_script.py +194 -0
  26. megadetector/classification/prepare_classification_script_mc.py +228 -0
  27. megadetector/classification/run_classifier.py +287 -0
  28. megadetector/classification/save_mislabeled.py +110 -0
  29. megadetector/classification/train_classifier.py +827 -0
  30. megadetector/classification/train_classifier_tf.py +725 -0
  31. megadetector/classification/train_utils.py +323 -0
  32. megadetector/data_management/__init__.py +0 -0
  33. megadetector/data_management/animl_to_md.py +161 -0
  34. megadetector/data_management/annotations/__init__.py +0 -0
  35. megadetector/data_management/annotations/annotation_constants.py +33 -0
  36. megadetector/data_management/camtrap_dp_to_coco.py +270 -0
  37. megadetector/data_management/cct_json_utils.py +566 -0
  38. megadetector/data_management/cct_to_md.py +184 -0
  39. megadetector/data_management/cct_to_wi.py +293 -0
  40. megadetector/data_management/coco_to_labelme.py +284 -0
  41. megadetector/data_management/coco_to_yolo.py +701 -0
  42. megadetector/data_management/databases/__init__.py +0 -0
  43. megadetector/data_management/databases/add_width_and_height_to_db.py +107 -0
  44. megadetector/data_management/databases/combine_coco_camera_traps_files.py +210 -0
  45. megadetector/data_management/databases/integrity_check_json_db.py +563 -0
  46. megadetector/data_management/databases/subset_json_db.py +195 -0
  47. megadetector/data_management/generate_crops_from_cct.py +200 -0
  48. megadetector/data_management/get_image_sizes.py +164 -0
  49. megadetector/data_management/labelme_to_coco.py +559 -0
  50. megadetector/data_management/labelme_to_yolo.py +349 -0
  51. megadetector/data_management/lila/__init__.py +0 -0
  52. megadetector/data_management/lila/create_lila_blank_set.py +556 -0
  53. megadetector/data_management/lila/create_lila_test_set.py +192 -0
  54. megadetector/data_management/lila/create_links_to_md_results_files.py +106 -0
  55. megadetector/data_management/lila/download_lila_subset.py +182 -0
  56. megadetector/data_management/lila/generate_lila_per_image_labels.py +777 -0
  57. megadetector/data_management/lila/get_lila_annotation_counts.py +174 -0
  58. megadetector/data_management/lila/get_lila_image_counts.py +112 -0
  59. megadetector/data_management/lila/lila_common.py +319 -0
  60. megadetector/data_management/lila/test_lila_metadata_urls.py +164 -0
  61. megadetector/data_management/mewc_to_md.py +344 -0
  62. megadetector/data_management/ocr_tools.py +873 -0
  63. megadetector/data_management/read_exif.py +964 -0
  64. megadetector/data_management/remap_coco_categories.py +195 -0
  65. megadetector/data_management/remove_exif.py +156 -0
  66. megadetector/data_management/rename_images.py +194 -0
  67. megadetector/data_management/resize_coco_dataset.py +665 -0
  68. megadetector/data_management/speciesnet_to_md.py +41 -0
  69. megadetector/data_management/wi_download_csv_to_coco.py +247 -0
  70. megadetector/data_management/yolo_output_to_md_output.py +594 -0
  71. megadetector/data_management/yolo_to_coco.py +984 -0
  72. megadetector/data_management/zamba_to_md.py +188 -0
  73. megadetector/detection/__init__.py +0 -0
  74. megadetector/detection/change_detection.py +840 -0
  75. megadetector/detection/process_video.py +479 -0
  76. megadetector/detection/pytorch_detector.py +1451 -0
  77. megadetector/detection/run_detector.py +1267 -0
  78. megadetector/detection/run_detector_batch.py +2172 -0
  79. megadetector/detection/run_inference_with_yolov5_val.py +1314 -0
  80. megadetector/detection/run_md_and_speciesnet.py +1604 -0
  81. megadetector/detection/run_tiled_inference.py +1044 -0
  82. megadetector/detection/tf_detector.py +209 -0
  83. megadetector/detection/video_utils.py +1379 -0
  84. megadetector/postprocessing/__init__.py +0 -0
  85. megadetector/postprocessing/add_max_conf.py +72 -0
  86. megadetector/postprocessing/categorize_detections_by_size.py +166 -0
  87. megadetector/postprocessing/classification_postprocessing.py +1943 -0
  88. megadetector/postprocessing/combine_batch_outputs.py +249 -0
  89. megadetector/postprocessing/compare_batch_results.py +2110 -0
  90. megadetector/postprocessing/convert_output_format.py +403 -0
  91. megadetector/postprocessing/create_crop_folder.py +629 -0
  92. megadetector/postprocessing/detector_calibration.py +570 -0
  93. megadetector/postprocessing/generate_csv_report.py +522 -0
  94. megadetector/postprocessing/load_api_results.py +223 -0
  95. megadetector/postprocessing/md_to_coco.py +428 -0
  96. megadetector/postprocessing/md_to_labelme.py +351 -0
  97. megadetector/postprocessing/md_to_wi.py +41 -0
  98. megadetector/postprocessing/merge_detections.py +392 -0
  99. megadetector/postprocessing/postprocess_batch_results.py +2140 -0
  100. megadetector/postprocessing/remap_detection_categories.py +226 -0
  101. megadetector/postprocessing/render_detection_confusion_matrix.py +677 -0
  102. megadetector/postprocessing/repeat_detection_elimination/find_repeat_detections.py +206 -0
  103. megadetector/postprocessing/repeat_detection_elimination/remove_repeat_detections.py +82 -0
  104. megadetector/postprocessing/repeat_detection_elimination/repeat_detections_core.py +1665 -0
  105. megadetector/postprocessing/separate_detections_into_folders.py +795 -0
  106. megadetector/postprocessing/subset_json_detector_output.py +964 -0
  107. megadetector/postprocessing/top_folders_to_bottom.py +238 -0
  108. megadetector/postprocessing/validate_batch_results.py +332 -0
  109. megadetector/taxonomy_mapping/__init__.py +0 -0
  110. megadetector/taxonomy_mapping/map_lila_taxonomy_to_wi_taxonomy.py +491 -0
  111. megadetector/taxonomy_mapping/map_new_lila_datasets.py +211 -0
  112. megadetector/taxonomy_mapping/prepare_lila_taxonomy_release.py +165 -0
  113. megadetector/taxonomy_mapping/preview_lila_taxonomy.py +543 -0
  114. megadetector/taxonomy_mapping/retrieve_sample_image.py +71 -0
  115. megadetector/taxonomy_mapping/simple_image_download.py +231 -0
  116. megadetector/taxonomy_mapping/species_lookup.py +1008 -0
  117. megadetector/taxonomy_mapping/taxonomy_csv_checker.py +159 -0
  118. megadetector/taxonomy_mapping/taxonomy_graph.py +346 -0
  119. megadetector/taxonomy_mapping/validate_lila_category_mappings.py +83 -0
  120. megadetector/tests/__init__.py +0 -0
  121. megadetector/tests/test_nms_synthetic.py +335 -0
  122. megadetector/utils/__init__.py +0 -0
  123. megadetector/utils/ct_utils.py +1857 -0
  124. megadetector/utils/directory_listing.py +199 -0
  125. megadetector/utils/extract_frames_from_video.py +307 -0
  126. megadetector/utils/gpu_test.py +125 -0
  127. megadetector/utils/md_tests.py +2072 -0
  128. megadetector/utils/path_utils.py +2872 -0
  129. megadetector/utils/process_utils.py +172 -0
  130. megadetector/utils/split_locations_into_train_val.py +237 -0
  131. megadetector/utils/string_utils.py +234 -0
  132. megadetector/utils/url_utils.py +825 -0
  133. megadetector/utils/wi_platform_utils.py +968 -0
  134. megadetector/utils/wi_taxonomy_utils.py +1766 -0
  135. megadetector/utils/write_html_image_list.py +239 -0
  136. megadetector/visualization/__init__.py +0 -0
  137. megadetector/visualization/plot_utils.py +309 -0
  138. megadetector/visualization/render_images_with_thumbnails.py +243 -0
  139. megadetector/visualization/visualization_utils.py +1973 -0
  140. megadetector/visualization/visualize_db.py +630 -0
  141. megadetector/visualization/visualize_detector_output.py +498 -0
  142. megadetector/visualization/visualize_video_output.py +705 -0
  143. megadetector-10.0.15.dist-info/METADATA +115 -0
  144. megadetector-10.0.15.dist-info/RECORD +147 -0
  145. megadetector-10.0.15.dist-info/WHEEL +5 -0
  146. megadetector-10.0.15.dist-info/licenses/LICENSE +19 -0
  147. megadetector-10.0.15.dist-info/top_level.txt +1 -0
@@ -0,0 +1,115 @@
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+ Metadata-Version: 2.4
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+ Name: megadetector
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+ Version: 10.0.15
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+ Summary: MegaDetector is an AI model that helps conservation folks spend less time doing boring things with camera trap images.
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+ Author-email: Your friendly neighborhood MegaDetector team <cameratraps@lila.science>
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+ Maintainer-email: Your friendly neighborhood MegaDetector team <cameratraps@lila.science>
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+ License-Expression: MIT
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+ Project-URL: Homepage, https://github.com/agentmorris/MegaDetector
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+ Project-URL: Documentation, https://megadetector.readthedocs.io
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+ Project-URL: Bug Reports, https://github.com/agentmorris/MegaDetector/issues
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+ Project-URL: Source, https://github.com/agentmorris/MegaDetector
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+ Keywords: camera traps,conservation,wildlife,ai,megadetector
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+ Classifier: Programming Language :: Python :: 3
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+ Requires-Python: <3.14,>=3.9
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+ Description-Content-Type: text/markdown
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+ License-File: LICENSE
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+ Requires-Dist: mkl==2024.0; sys_platform != "darwin"
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+ Requires-Dist: numpy>=1.26.4
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+ Requires-Dist: Pillow>=9.5
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+ Requires-Dist: tqdm>=4.64.0
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+ Requires-Dist: jsonpickle>=3.0.2
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+ Requires-Dist: humanfriendly>=2.1
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+ Requires-Dist: matplotlib>=3.8.0
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+ Requires-Dist: opencv-python>=4.8.0
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+ Requires-Dist: requests>=2.31.0
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+ Requires-Dist: fastquadtree>=1.1.2
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+ Requires-Dist: scikit-learn>=1.3.1
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+ Requires-Dist: pandas>=2.1.1
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+ Requires-Dist: python-dateutil
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+ Requires-Dist: send2trash
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+ Requires-Dist: clipboard
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+ Requires-Dist: dill
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+ Requires-Dist: ruff
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+ Requires-Dist: pytest
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+ Requires-Dist: ultralytics-yolov5==0.1.1
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+ Requires-Dist: yolov9pip==0.0.4
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+ Dynamic: license-file
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+
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+ # MegaDetector
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+
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+ 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).
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+
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+ 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).
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+
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+ If you don't want to run MegaDetector, and you just want to use the utilities in this package - postprocessing, manipulating large volumes of camera trap images, etc. - you may want to check out the [megadetector-utils](https://pypi.org/project/megadetector-utils/) package, which is identical to this one, but excludes all of the PyTorch/YOLO dependencies, and is thus approximately one zillion times smaller.
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+
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+ ## Installation
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+
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+ Install with:
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+
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+ `pip install megadetector`
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+
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+ MegaDetector model weights aren't downloaded at the time you install the package, but they will be (optionally) automatically downloaded the first time you run the model.
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+
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+ ## Package reference
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+
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+ See [megadetector.readthedocs.io](https://megadetector.readthedocs.io).
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+
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+
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+ ## Examples of things you can do with this package
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+
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+ ### Run MegaDetector on one image and count the number of detections
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+
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+ ```
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+ from megadetector.utils import url_utils
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+ from megadetector.visualization import visualization_utils as vis_utils
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+ from megadetector.detection import run_detector
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+
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+ # This is the image at the bottom of this page, it has one animal in it
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+ image_url = 'https://github.com/agentmorris/MegaDetector/raw/main/images/orinoquia-thumb-web.jpg'
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+ temporary_filename = url_utils.download_url(image_url)
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+
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+ image = vis_utils.load_image(temporary_filename)
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+
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+ # This will automatically download MDv5a; you can also specify a filename.
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+ model = run_detector.load_detector('MDV5A')
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+
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+ result = model.generate_detections_one_image(image)
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+
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+ detections_above_threshold = [d for d in result['detections'] if d['conf'] > 0.2]
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+ print('Found {} detections above threshold'.format(len(detections_above_threshold)))
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+ ```
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+
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+ ### Run MegaDetector on a folder of images
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+
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+ ```
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+ from megadetector.detection.run_detector_batch import \
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+ load_and_run_detector_batch, write_results_to_file
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+ from megadetector.utils import path_utils
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+ import os
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+
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+ # Pick a folder to run MD on recursively, and an output file
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+ image_folder = os.path.expanduser('~/megadetector_test_images')
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+ output_file = os.path.expanduser('~/megadetector_output_test.json')
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+
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+ # Recursively find images
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+ image_file_names = path_utils.find_images(image_folder,recursive=True)
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+
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+ # This will automatically download MDv5a; you can also specify a filename.
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+ results = load_and_run_detector_batch('MDV5A', image_file_names)
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+
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+ # Write results to a format that Timelapse and other downstream tools like.
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+ write_results_to_file(results,
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+ 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.
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+ megadetector/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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+ megadetector/api/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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+ megadetector/api/batch_processing/integration/digiKam/setup.py,sha256=7P1X3JYrBDXmLUeLRrzxNfDkL5lo-pY8nXsp9Cz8rOI,203
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+ megadetector/api/batch_processing/integration/digiKam/xmp_integration.py,sha256=dbib8WseSrNpLnSTKvnmEseii5ls5WAi1C612ovmwps,17796
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+ megadetector/api/batch_processing/integration/eMammal/test_scripts/push_annotations_to_emammal.py,sha256=86MluxfHY5JsslX0OWgmVUyuPP6DMDE-o6kYKdlTtMI,3583
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+ megadetector/classification/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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+ megadetector/classification/aggregate_classifier_probs.py,sha256=ScRlN7yV6qOES8hDwyAylKQ92Vn-klbdPGqDbPM3pGw,3417
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+ megadetector/classification/create_classification_dataset.py,sha256=Sv79ocsy1sWAWzzkKg4tWruQD434faOpJGBHb4Kt3XY,25404
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+ megadetector/classification/json_to_azcopy_list.py,sha256=Om8efCzRwlfA5LRXtzOgdrY0P5YDofs0vuewQvKNmsA,1669
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+ megadetector/classification/train_classifier.py,sha256=ksAcLpIn-D1sq8jdJjpjru8cUNXLhEoNVJsfWRayfLA,32334
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+ megadetector/classification/train_utils.py,sha256=BNOnGl2dNegsQdOYzfq5IE3hsS2gL3eUd9q-Tgimf_E,11293
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+ megadetector/data_management/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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+ megadetector/data_management/animl_to_md.py,sha256=N9SYd-1nXavY-T9kVmfSdBNaCVH_Lvavq4gBXGgsC5w,4615
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+ megadetector/data_management/camtrap_dp_to_coco.py,sha256=HoCGMzZTEvnudnAjbOr-mCizXHmc8mMNSUChy_Q9PkI,9673
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+ Root-Is-Purelib: true
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+
@@ -0,0 +1,19 @@
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+ MIT License
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+
3
+ Permission is hereby granted, free of charge, to any person obtaining a copy
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+ of this software and associated documentation files (the "Software"), to deal
5
+ in the Software without restriction, including without limitation the rights
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+ to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
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+ copies of the Software, and to permit persons to whom the Software is
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+ furnished to do so, subject to the following conditions:
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+
10
+ The above copyright notice and this permission notice shall be included in all
11
+ copies or substantial portions of the Software.
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+
13
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
14
+ IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
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+ FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
16
+ AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
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+ LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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+ OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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+ SOFTWARE.
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+ megadetector