neuropoly / axondeepseg / 589

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Implemented axon-wise morphometrics based on output segmentation (#176)

* compute_morphometrics: Fixed minor PEP8 requirements

* compute_morphometrics: Started implemented watershed for extracting axonwise myelin property

* test_compute_morphometrics: Added test for myelin morphometrics (unfinished)

* compute_morphometrics: Cleaned imports

* compute_morphometrics: Working implementation of myelin-based metrics

* compute_morphometrics: Renamed gratio->gratio_aggr to avoid confusion

* compute_morphometrics: Put back non-OO matplotlib call

This will be addressed in PR #177

* test_compute_morphometrics: Updated test with myelin morphometrics

* compute_morphometrics: Added area measures

* test_compute_morphometrics: Added axon_area in expected_key test

* [BUG] Override type of myelin centroid label image from bool to int

* [BUG] Increment axon label integer by 1 to avoid labels with value of 0 (due to an if statement use-case, and also partly because it is already the background label too)

* [BUG] Increase label datasize from 8bit to 16 bit; for 8 bit, if there are more than 255 objects, it resets the counter to 0 which makes one axon fail

* Add morphometrics test using simulated axons

99 of 99 new or added lines in 1 file covered. (100.0%)

1890 of 2317 relevant lines covered (81.57%)

0.82 hits per line