Prep datasets as directories, fixes #649 #650 #651#658

Merged

NickleDave merged 83 commits intomainfrom prep-dataset-as-directory

May 30, 2023

Commits on May 27, 2023

Commits on May 29, 2023

Fix SPECT_LIST_NPZ glob in tests/fixtures/spect.py
NickleDave
committed
Remove breakpoint left in src/vak/core/train.py
NickleDave
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Rewrite prep.learncurve.make_learncurve_splits_from_dataset_df to save split metadata in a csv
NickleDave
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Fix unit test in test_prep/test_learncurve.py after rewriting make_learncurve_splits_from_dataset_df
NickleDave
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Fix how core/learncurve/learncurve uses splits csv generated by prep
NickleDave
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Remove previous_run_path attribute from LearncurveConfig, no longer needed
NickleDave
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Remove previous_run_path option from config/valid.toml, no longer needed
NickleDave
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Fix prep.learncurve.make_learncurve_splits_from_dataset_df to need less parameters
NickleDave
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Rewrite core.prep to also prepare splits for learncurve
NickleDave
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Remove parameters that were removed from learncurve docstring
NickleDave
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Remove args that were removed from core/learncurve from call to it in cli/learncurve
NickleDave
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Add missing imports in src/vak/core/prep/prep.py
NickleDave
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Fix cli.prep to call core.prep with extra (needed) args when purpose == 'learncurve'
NickleDave
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Remove attributes train_set_durs and num_replicates from LearnCurveConfig
NickleDave
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Add attributes train_set_durs and num_replicates to PrepConfig
NickleDave
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Move options train_set_durs and num_replicates from [LEARNCURVE] to [PREP] in valid.toml
NickleDave
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Fix cli.prep to pass window size argument from dataloader config into core.prep
NickleDave
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Move train_set_durs and num_replicates options to prep section in two learncurve configs
NickleDave
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Fix how we get values for train_set_durs and num_replicates from config in cli/prep.py
NickleDave
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Remove train_set_durs + num_replicates from LEARNCURVE list in REQUIRED_OPTIONS constant
NickleDave
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Make train_set_durs and num_replicates attributes of PrepConfig optional
NickleDave
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Remove unused imports in src/vak/core/eval.py
NickleDave
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Only save labelmap.json in core/prep if purpose is not 'predict'
NickleDave
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Make labelset be an actual set in src/vak/core/prep/learncurve.py
NickleDave
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Pass dataset_path to eval in core/learncurve, not results_path_this_replicate
NickleDave
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Fix how we validate dataset_csv_path in core/train
NickleDave
committed

Commits on May 30, 2023