Feature: improve coverage, fix warnings, fix bugs #160
Description
improve coverage from 67% to 80%
running a full test with coverage:
pytest --cov oceanstream
results in a bunch of warnings (-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html) and:
---------- coverage: platform darwin, python 3.9.18-final-0 ----------
Name Stmts Miss Cover
---------------------------------------------------------------------------
oceanstream/__init__.py 0 0 100%
oceanstream/cli.py 108 108 0%
oceanstream/denoise/__init__.py 2 0 100%
oceanstream/denoise/apply_masks.py 35 26 26%
oceanstream/denoise/applying_masks_handler.py 34 3 91%
oceanstream/denoise/background_noise_remover.py 16 0 100%
oceanstream/denoise/create_masks.py 44 31 30%
oceanstream/denoise/noise_masks.py 46 6 87%
oceanstream/denoise/types.py 53 0 100%
oceanstream/echodata/__init__.py 5 0 100%
oceanstream/echodata/ensure_time_continuity.py 17 1 94%
oceanstream/echodata/processed_data_io.py 46 9 80%
oceanstream/echodata/raw_handler.py 179 40 78%
oceanstream/echodata/read_file.py 48 39 19%
oceanstream/echodata/sv_computation.py 54 16 70%
oceanstream/echodata/sv_dataset_extension.py 30 4 87%
oceanstream/echodata/sv_interpolation.py 88 0 100%
oceanstream/echodata/target_strength_computation.py 41 6 85%
oceanstream/exports/__init__.py 3 0 100%
oceanstream/exports/csv/__init__.py 3 0 100%
oceanstream/exports/csv/csv_export_from_Sv.py 30 9 70%
oceanstream/exports/csv/csv_export_from_raw.py 30 9 70%
oceanstream/exports/csv/csv_export_nasc.py 58 4 93%
oceanstream/exports/frequency_differencing_handler.py 30 0 100%
oceanstream/exports/mvbs_computation.py 19 1 95%
oceanstream/exports/nasc.py 15 11 27%
oceanstream/exports/nasc_computation.py 15 1 93%
oceanstream/exports/plot.py 27 1 96%
oceanstream/exports/shoals/__init__.py 1 0 100%
oceanstream/exports/shoals/shoal_detection_handler.py 13 0 100%
oceanstream/exports/shoals/shoal_process.py 76 5 93%
oceanstream/exports/shoals/shoals_handler.py 28 19 32%
oceanstream/report/__init__.py 1 0 100%
oceanstream/report/echogram.py 30 30 0%
oceanstream/report/profiling.py 37 32 14%
oceanstream/settings/__init__.py 1 1 0%
oceanstream/settings/config.py 12 12 0%
oceanstream/utils.py 26 0 100%
---------------------------------------------------------------------------
TOTAL 1301 424 67%
=============== 83 passed, 591 warnings in 1120.57s (0:18:40) =====================================