megadetector 5.0.11__py3-none-any.whl → 5.0.12__py3-none-any.whl
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- megadetector/api/__init__.py +0 -0
- megadetector/api/batch_processing/__init__.py +0 -0
- megadetector/api/batch_processing/api_core/__init__.py +0 -0
- megadetector/api/batch_processing/api_core/batch_service/__init__.py +0 -0
- megadetector/api/batch_processing/api_core/batch_service/score.py +439 -0
- megadetector/api/batch_processing/api_core/server.py +294 -0
- megadetector/api/batch_processing/api_core/server_api_config.py +98 -0
- megadetector/api/batch_processing/api_core/server_app_config.py +55 -0
- megadetector/api/batch_processing/api_core/server_batch_job_manager.py +220 -0
- megadetector/api/batch_processing/api_core/server_job_status_table.py +152 -0
- megadetector/api/batch_processing/api_core/server_orchestration.py +360 -0
- megadetector/api/batch_processing/api_core/server_utils.py +92 -0
- megadetector/api/batch_processing/api_core_support/__init__.py +0 -0
- megadetector/api/batch_processing/api_core_support/aggregate_results_manually.py +46 -0
- megadetector/api/batch_processing/api_support/__init__.py +0 -0
- megadetector/api/batch_processing/api_support/summarize_daily_activity.py +152 -0
- megadetector/api/batch_processing/data_preparation/__init__.py +0 -0
- megadetector/api/batch_processing/integration/digiKam/setup.py +6 -0
- megadetector/api/batch_processing/integration/digiKam/xmp_integration.py +465 -0
- megadetector/api/batch_processing/integration/eMammal/test_scripts/config_template.py +5 -0
- megadetector/api/batch_processing/integration/eMammal/test_scripts/push_annotations_to_emammal.py +126 -0
- megadetector/api/batch_processing/integration/eMammal/test_scripts/select_images_for_testing.py +55 -0
- megadetector/api/synchronous/__init__.py +0 -0
- megadetector/api/synchronous/api_core/animal_detection_api/__init__.py +0 -0
- megadetector/api/synchronous/api_core/animal_detection_api/api_backend.py +152 -0
- megadetector/api/synchronous/api_core/animal_detection_api/api_frontend.py +266 -0
- megadetector/api/synchronous/api_core/animal_detection_api/config.py +35 -0
- megadetector/api/synchronous/api_core/tests/__init__.py +0 -0
- megadetector/api/synchronous/api_core/tests/load_test.py +110 -0
- megadetector/classification/__init__.py +0 -0
- megadetector/classification/aggregate_classifier_probs.py +108 -0
- megadetector/classification/analyze_failed_images.py +227 -0
- megadetector/classification/cache_batchapi_outputs.py +198 -0
- megadetector/classification/create_classification_dataset.py +627 -0
- megadetector/classification/crop_detections.py +516 -0
- megadetector/classification/csv_to_json.py +226 -0
- megadetector/classification/detect_and_crop.py +855 -0
- megadetector/classification/efficientnet/__init__.py +9 -0
- megadetector/classification/efficientnet/model.py +415 -0
- megadetector/classification/efficientnet/utils.py +610 -0
- megadetector/classification/evaluate_model.py +520 -0
- megadetector/classification/identify_mislabeled_candidates.py +152 -0
- megadetector/classification/json_to_azcopy_list.py +63 -0
- megadetector/classification/json_validator.py +699 -0
- megadetector/classification/map_classification_categories.py +276 -0
- megadetector/classification/merge_classification_detection_output.py +506 -0
- megadetector/classification/prepare_classification_script.py +194 -0
- megadetector/classification/prepare_classification_script_mc.py +228 -0
- megadetector/classification/run_classifier.py +287 -0
- megadetector/classification/save_mislabeled.py +110 -0
- megadetector/classification/train_classifier.py +827 -0
- megadetector/classification/train_classifier_tf.py +725 -0
- megadetector/classification/train_utils.py +323 -0
- megadetector/data_management/__init__.py +0 -0
- megadetector/data_management/annotations/__init__.py +0 -0
- megadetector/data_management/annotations/annotation_constants.py +34 -0
- megadetector/data_management/camtrap_dp_to_coco.py +239 -0
- megadetector/data_management/cct_json_utils.py +395 -0
- megadetector/data_management/cct_to_md.py +176 -0
- megadetector/data_management/cct_to_wi.py +289 -0
- megadetector/data_management/coco_to_labelme.py +272 -0
- megadetector/data_management/coco_to_yolo.py +662 -0
- megadetector/data_management/databases/__init__.py +0 -0
- megadetector/data_management/databases/add_width_and_height_to_db.py +33 -0
- megadetector/data_management/databases/combine_coco_camera_traps_files.py +206 -0
- megadetector/data_management/databases/integrity_check_json_db.py +477 -0
- megadetector/data_management/databases/subset_json_db.py +115 -0
- megadetector/data_management/generate_crops_from_cct.py +149 -0
- megadetector/data_management/get_image_sizes.py +189 -0
- megadetector/data_management/importers/add_nacti_sizes.py +52 -0
- megadetector/data_management/importers/add_timestamps_to_icct.py +79 -0
- megadetector/data_management/importers/animl_results_to_md_results.py +158 -0
- megadetector/data_management/importers/auckland_doc_test_to_json.py +373 -0
- megadetector/data_management/importers/auckland_doc_to_json.py +201 -0
- megadetector/data_management/importers/awc_to_json.py +191 -0
- megadetector/data_management/importers/bellevue_to_json.py +273 -0
- megadetector/data_management/importers/cacophony-thermal-importer.py +796 -0
- megadetector/data_management/importers/carrizo_shrubfree_2018.py +269 -0
- megadetector/data_management/importers/carrizo_trail_cam_2017.py +289 -0
- megadetector/data_management/importers/cct_field_adjustments.py +58 -0
- megadetector/data_management/importers/channel_islands_to_cct.py +913 -0
- megadetector/data_management/importers/eMammal/copy_and_unzip_emammal.py +180 -0
- megadetector/data_management/importers/eMammal/eMammal_helpers.py +249 -0
- megadetector/data_management/importers/eMammal/make_eMammal_json.py +223 -0
- megadetector/data_management/importers/ena24_to_json.py +276 -0
- megadetector/data_management/importers/filenames_to_json.py +386 -0
- megadetector/data_management/importers/helena_to_cct.py +283 -0
- megadetector/data_management/importers/idaho-camera-traps.py +1407 -0
- megadetector/data_management/importers/idfg_iwildcam_lila_prep.py +294 -0
- megadetector/data_management/importers/jb_csv_to_json.py +150 -0
- megadetector/data_management/importers/mcgill_to_json.py +250 -0
- megadetector/data_management/importers/missouri_to_json.py +490 -0
- megadetector/data_management/importers/nacti_fieldname_adjustments.py +79 -0
- megadetector/data_management/importers/noaa_seals_2019.py +181 -0
- megadetector/data_management/importers/pc_to_json.py +365 -0
- megadetector/data_management/importers/plot_wni_giraffes.py +123 -0
- megadetector/data_management/importers/prepare-noaa-fish-data-for-lila.py +359 -0
- megadetector/data_management/importers/prepare_zsl_imerit.py +131 -0
- megadetector/data_management/importers/rspb_to_json.py +356 -0
- megadetector/data_management/importers/save_the_elephants_survey_A.py +320 -0
- megadetector/data_management/importers/save_the_elephants_survey_B.py +329 -0
- megadetector/data_management/importers/snapshot_safari_importer.py +758 -0
- megadetector/data_management/importers/snapshot_safari_importer_reprise.py +665 -0
- megadetector/data_management/importers/snapshot_serengeti_lila.py +1067 -0
- megadetector/data_management/importers/snapshotserengeti/make_full_SS_json.py +150 -0
- megadetector/data_management/importers/snapshotserengeti/make_per_season_SS_json.py +153 -0
- megadetector/data_management/importers/sulross_get_exif.py +65 -0
- megadetector/data_management/importers/timelapse_csv_set_to_json.py +490 -0
- megadetector/data_management/importers/ubc_to_json.py +399 -0
- megadetector/data_management/importers/umn_to_json.py +507 -0
- megadetector/data_management/importers/wellington_to_json.py +263 -0
- megadetector/data_management/importers/wi_to_json.py +442 -0
- megadetector/data_management/importers/zamba_results_to_md_results.py +181 -0
- megadetector/data_management/labelme_to_coco.py +547 -0
- megadetector/data_management/labelme_to_yolo.py +272 -0
- megadetector/data_management/lila/__init__.py +0 -0
- megadetector/data_management/lila/add_locations_to_island_camera_traps.py +97 -0
- megadetector/data_management/lila/add_locations_to_nacti.py +147 -0
- megadetector/data_management/lila/create_lila_blank_set.py +558 -0
- megadetector/data_management/lila/create_lila_test_set.py +152 -0
- megadetector/data_management/lila/create_links_to_md_results_files.py +106 -0
- megadetector/data_management/lila/download_lila_subset.py +178 -0
- megadetector/data_management/lila/generate_lila_per_image_labels.py +516 -0
- megadetector/data_management/lila/get_lila_annotation_counts.py +170 -0
- megadetector/data_management/lila/get_lila_image_counts.py +112 -0
- megadetector/data_management/lila/lila_common.py +300 -0
- megadetector/data_management/lila/test_lila_metadata_urls.py +132 -0
- megadetector/data_management/ocr_tools.py +874 -0
- megadetector/data_management/read_exif.py +681 -0
- megadetector/data_management/remap_coco_categories.py +84 -0
- megadetector/data_management/remove_exif.py +66 -0
- megadetector/data_management/resize_coco_dataset.py +189 -0
- megadetector/data_management/wi_download_csv_to_coco.py +246 -0
- megadetector/data_management/yolo_output_to_md_output.py +441 -0
- megadetector/data_management/yolo_to_coco.py +676 -0
- megadetector/detection/__init__.py +0 -0
- megadetector/detection/detector_training/__init__.py +0 -0
- megadetector/detection/detector_training/model_main_tf2.py +114 -0
- megadetector/detection/process_video.py +702 -0
- megadetector/detection/pytorch_detector.py +341 -0
- megadetector/detection/run_detector.py +779 -0
- megadetector/detection/run_detector_batch.py +1219 -0
- megadetector/detection/run_inference_with_yolov5_val.py +917 -0
- megadetector/detection/run_tiled_inference.py +934 -0
- megadetector/detection/tf_detector.py +189 -0
- megadetector/detection/video_utils.py +606 -0
- megadetector/postprocessing/__init__.py +0 -0
- megadetector/postprocessing/add_max_conf.py +64 -0
- megadetector/postprocessing/categorize_detections_by_size.py +163 -0
- megadetector/postprocessing/combine_api_outputs.py +249 -0
- megadetector/postprocessing/compare_batch_results.py +958 -0
- megadetector/postprocessing/convert_output_format.py +396 -0
- megadetector/postprocessing/load_api_results.py +195 -0
- megadetector/postprocessing/md_to_coco.py +310 -0
- megadetector/postprocessing/md_to_labelme.py +330 -0
- megadetector/postprocessing/merge_detections.py +401 -0
- megadetector/postprocessing/postprocess_batch_results.py +1902 -0
- megadetector/postprocessing/remap_detection_categories.py +170 -0
- megadetector/postprocessing/render_detection_confusion_matrix.py +660 -0
- megadetector/postprocessing/repeat_detection_elimination/find_repeat_detections.py +211 -0
- megadetector/postprocessing/repeat_detection_elimination/remove_repeat_detections.py +83 -0
- megadetector/postprocessing/repeat_detection_elimination/repeat_detections_core.py +1631 -0
- megadetector/postprocessing/separate_detections_into_folders.py +730 -0
- megadetector/postprocessing/subset_json_detector_output.py +696 -0
- megadetector/postprocessing/top_folders_to_bottom.py +223 -0
- megadetector/taxonomy_mapping/__init__.py +0 -0
- megadetector/taxonomy_mapping/map_lila_taxonomy_to_wi_taxonomy.py +491 -0
- megadetector/taxonomy_mapping/map_new_lila_datasets.py +150 -0
- megadetector/taxonomy_mapping/prepare_lila_taxonomy_release.py +142 -0
- megadetector/taxonomy_mapping/preview_lila_taxonomy.py +590 -0
- megadetector/taxonomy_mapping/retrieve_sample_image.py +71 -0
- megadetector/taxonomy_mapping/simple_image_download.py +219 -0
- megadetector/taxonomy_mapping/species_lookup.py +834 -0
- megadetector/taxonomy_mapping/taxonomy_csv_checker.py +159 -0
- megadetector/taxonomy_mapping/taxonomy_graph.py +346 -0
- megadetector/taxonomy_mapping/validate_lila_category_mappings.py +83 -0
- megadetector/utils/__init__.py +0 -0
- megadetector/utils/azure_utils.py +178 -0
- megadetector/utils/ct_utils.py +612 -0
- megadetector/utils/directory_listing.py +246 -0
- megadetector/utils/md_tests.py +968 -0
- megadetector/utils/path_utils.py +1044 -0
- megadetector/utils/process_utils.py +157 -0
- megadetector/utils/sas_blob_utils.py +509 -0
- megadetector/utils/split_locations_into_train_val.py +228 -0
- megadetector/utils/string_utils.py +92 -0
- megadetector/utils/url_utils.py +323 -0
- megadetector/utils/write_html_image_list.py +225 -0
- megadetector/visualization/__init__.py +0 -0
- megadetector/visualization/plot_utils.py +293 -0
- megadetector/visualization/render_images_with_thumbnails.py +275 -0
- megadetector/visualization/visualization_utils.py +1536 -0
- megadetector/visualization/visualize_db.py +550 -0
- megadetector/visualization/visualize_detector_output.py +405 -0
- {megadetector-5.0.11.dist-info → megadetector-5.0.12.dist-info}/METADATA +1 -1
- megadetector-5.0.12.dist-info/RECORD +199 -0
- megadetector-5.0.12.dist-info/top_level.txt +1 -0
- megadetector-5.0.11.dist-info/RECORD +0 -5
- megadetector-5.0.11.dist-info/top_level.txt +0 -1
- {megadetector-5.0.11.dist-info → megadetector-5.0.12.dist-info}/LICENSE +0 -0
- {megadetector-5.0.11.dist-info → megadetector-5.0.12.dist-info}/WHEEL +0 -0
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"""
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json_to_azcopy_list.py
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Given a queried_images.json file output from json_validator.py, generates
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one text file <dataset>_images.txt for every dataset included.
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See: https://github.com/Azure/azure-storage-azcopy/wiki/Listing-specific-files-to-transfer
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"""
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#%% Imports and constants
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import json
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import os
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from tqdm import tqdm
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from megadetector.data_management.megadb import megadb_utils
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from megadetector.utils import sas_blob_utils
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images_dir = ''
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queried_images_json_path = 'run_idfg2/queried_images.json'
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output_dir = 'run_idfg2/'
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#%% Prepare AzCopy list
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with open(queried_images_json_path, 'r') as f:
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js = json.load(f)
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datasets_table = megadb_utils.MegadbUtils().get_datasets_table()
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output_files = {}
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pbar = tqdm(js.items())
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for img_path, img_info in pbar:
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save_path = os.path.join(images_dir, img_path)
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if os.path.exists(save_path):
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continue
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ds, img_file = img_path.split('/', maxsplit=1)
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if ds not in output_files:
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output_path = os.path.join(output_dir, f'{ds}_images.txt')
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output_files[ds] = open(output_path, 'w')
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dataset_info = datasets_table[ds]
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account = dataset_info['storage_account']
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container = dataset_info['container']
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if 'public' in datasets_table[ds]['access']:
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url = sas_blob_utils.build_azure_storage_uri(
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account, container)
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else:
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url = sas_blob_utils.build_azure_storage_uri(
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account, container,
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sas_token=dataset_info['container_sas_key'][1:])
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pbar.write(f'"{url}"')
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output_files[ds].write(img_file + '\n')
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for f in output_files.values():
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f.close()
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