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276 feature implement bioacoustic quality control framework #277

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@ibevers ibevers commented Mar 14, 2025

Description

Related Issue(s)

Motivation and Context

How Has This Been Tested?

Screenshots (if appropriate):

Types of changes

  • Bug fix (non-breaking change which fixes an issue)
  • New feature (non-breaking change which adds functionality)
  • Breaking change (fix or feature that would cause existing functionality to change)

Checklist:

  • I have added tests to cover my changes.
  • All new and existing tests passed.
  • My code follows the code style of this project.

ibevers added 30 commits February 26, 2025 15:05
@ibevers
Add bioacoustic_task taxonomy
28f2efb
@ibevers
Add __init__.py
561d716
@ibevers
Update taxonomy constant name
591df75
@ibevers
Add test file with taxonomy check
3850b7c
@ibevers
Update taxonomy
3a9ebb1
@ibevers
Update taxonomy tree with subclass and checks keys
d1a1bdd
@ibevers
Add skeleton code for bioacoustic_qc.py
f26dda8
@ibevers
Add checks for non-zero length and non-zero intensity
1845c81
@ibevers
Update taxonomy.py to constants.py
5b22af7
@ibevers
Add computational complexity to check dict
166a339
@ibevers
Add default complexity for check_quality
82012a0
@ibevers
Add audio_intensity_positive_check and audio_length_positive_check to…
f8a0e69 
… bioacoustic
@ibevers
Implement audios_to_task_dict
7a1f94e
@ibevers
Add Google docstring to audios_to_task_dict
90d3482
@ibevers
Fix task tree test
657775a
@ibevers
Make bioacoustic_qc.py functions importable
ae08881
@ibevers
Add test_audios_to_task_dict
88c8333
@ibevers
Implement tasks_to_taxonomy_tree_path
fbe9714
@ibevers
Add test for task_to_taxonomy_tree_path
bc55462
@ibevers
Implement task_dict_to_dataset_taxonomy_subtree
5522cea
@ibevers
Add test_task_dict_to_dataset_taxonomy_subtree
a1cbebf
@ibevers
Ensure empty subclass entries are None
ed11675
@ibevers
Add check_node function
29237c9
@ibevers
Update check_node function
29eb630
@ibevers
Fix audio_length_positive_check
ace6953
@ibevers
Update audio_intensity_positive_check to conform to required format
44c16c2
@ibevers
Fix type issue
730031f
@ibevers
Remove None from type annotation in checks
43f9d47
@ibevers
Add tests for quality control checks
0e92545
@ibevers
Fix mypy issues in bioacoustic_qc
426c253
ibevers added 22 commits March 21, 2025 17:43
@ibevers
Add dynamic_range_metric
b24688d
@ibevers
Add test_dynamic_range_metric
0cc91c5
@ibevers
Add mean_absolute_amplitude_metric
59f968c
@ibevers
Add test_mean_absolute_amplitude_metric
b584016
@ibevers
Add mean_absolute_deviation_metric
48289ad
@ibevers
Add test_mean_absolute_deviation_metric
3f13748
@ibevers
Add shannon_entropy_metric
a78746e
@ibevers
Add shannon_entropy_metric
8739130
@ibevers
Add test_shannon_entropy_metric
db4ecbd
@ibevers
Specify that shannon entropy is amplitude
468f2b1
@ibevers
Add crest_factor_metric
8f3e8cb
@ibevers
Add test_crest_factor_metric
77457a5
@ibevers
Add peak_snr_from_spectral_metric
da190d7
@ibevers
Add test_peak_snr_from_spectral_metric
a399dac
@ibevers
Add amplitude_skew_metric
784c806
@ibevers
Add test_amplitude_skew_metric
a5ad0f4
@ibevers
Add amplitude_kurtosis_metric
3c926d9
@ibevers
Add test_amplitude_kurtosis_metric
f43c62f
@ibevers
Add amplitude_interquartile_range_metric
b9836aa
@ibevers
Add test_amplitude_interquartile_range_metric
ecf7dd6
@ibevers
Add phase_correlation_metric
45b990a
@ibevers
Add phase correlation tests
1c556db
@ibevers ibevers self-assigned this Mar 24, 2025
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Feature: bioacoustic quality control framework
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