Deepcell-tracking

🚀 Features

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<summary>Update metrics for evaluating tracking performance msschwartz21 (95)</summary>

This PR introduces several substantial changes
- Reorganization of functions with the addition of two new modules: `metrics` and `trk_io`. Backwards compatible imports were maintained whenever possible.
- `load_trks`, `trk_folder_to_trks`, `save_trks`, `save_trk`, `save_track_data` from `utils` to `trk_io`
- `match_nodes`, `contig_tracks` from `isbi_utils` to `utils`
- `classify_divisions`, `calculate_summary_stats` from `isbi_utils` to `metrics`
- `benchmark_division_performance` deprecated in `isbi_utils` and renamed to `benchmark_tracking_performance` in `metrics`
- Fixes bugs in how we built graphs of tracks and compared between ground truth and predictions
- Originally we converted lineage data to isbi format prior to generating a graph. This intermediate step unintentionally removed any discontinuities that were present in a lineage. There is now a new function `deepcell_tracking.utils.trk_to_graph` that faithfully converts lineage data to a graph without any intermediate steps.
- The use of a `node_key` generated by `match_nodes` unintentionally dropped lineages if more than one predicted lineage was mapped onto a single ground truth lineage. Instead of mapping cell ids when we create the graph, we instead map cell ids on the fly when we are comparing graphs which eliminates the risk of accidentally dropping lineages from consideration.
- Introduces Association Accuracy as a new metric that evaluates how many edges in the tracking graph are correctly assigned. This score discounts edges involved with a division, but does detect discontinuities in lineages.
- Introduces Target Effectiveness as a new metric that evaluates how many cells in a lineage are correctly assigned to the lineage.
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🧰 Maintenance

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<summary>Bump version to 0.6.0 msschwartz21 (97)</summary>


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🧰 Maintenance

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<summary>Drop support for python 3.6 and bump deepcell-toolbox requirement msschwartz21 (94)</summary>

Updates deepcell-toolbox to ~=0.11.2.
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🐛 Bug Fixes

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<summary>Add additional metrics to report in classify_divisions msschwartz21 (92)</summary>

Addresses 91 and bumps version to 0.5.6 for the next patch release after this PR is complete. I tested the new functionality in the model-registry and those updates can be seen in this branch: https://github.com/vanvalenlab/model-registry/compare/mrgn/tracking-evaluation. I added rounding after running this test, but decimals will now be truncated to 2 digits.
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🧰 Maintenance

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<summary>Bump copyright to 2022 and improve error message msschwartz21 (90)</summary>


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🐛 Bug Fixes

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<summary>Update `utils.trk_stats` to return a dictionary of stats as output msschwartz21 (89)</summary>

The `trk_stats` function originally printed stats, but did not return them to the user. This PR updates the function to return a dictionary of statistics and makes it possible to input `X`, `y` and `lineages` instead of loading the data from `filename`.
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🐛 Bug Fixes

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<summary>Fix bug in `is_valid_lineage`; daughters can be \< parent. willgraf (88)</summary>

No need to check if the daughters are in `all_cells`, as we check that for each lineage. Just check that the daughter is in the lineage.

Don't return False as a shortcut, just warn and continue to the next label. This will enable all warnings to be shown.
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🐛 Bug Fixes

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<summary>Remove `pathlib` from `setup.py`; fix build issues zverozabr (86)</summary>

Fixes 85

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🧰 Maintenance

<details>
<summary>Bump version to 0.5.3. willgraf (87)</summary>


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