0.5.0
🚀 Features
Improve error handling for `relabel_sequential_lineage` and `is_valid_lineage` @willgraf (#73)
is_valid_lineage only checks the lineage object itself. However, the lineage object is completely dependent on the y label mask. This function has been changed to require the y array, and is a much stronger validation of lineages. (Closes #72) This PR changes the is_valid_lineage signature, and should be considered a breaking change.
Additionally, relabel_sequential has been found to map unknown integers to 0. This caused some confusion that the original .trk file had a 0 as a daughter value. When this happens, relabel_sequential_lineage will warn the user that the value is getting mapped to 0. This will only happen with invalid lineages.
Finally, the Track object has been updated to only call relabel_sequential_lineage if the lineage is found to be valid. This should help reduce instantiation time by skipping the relabel step for invalid batches.
Migrate `Track` and `concat_tracks` to `deepcell.data.tracking`. @willgraf (#79)
These functions are being updated to use tf.SparseTensors to mitigate their memory footprint. However, tensorflow is not a dependency of deepcell-tracking, and is only used in the deepcell package. Fortunately, these functions are purely used in training pre-processing and are not actually used in this package.
This is a breaking change, to use the Track or concat_tracks functions, please use either deepcell-tracking<0.5.0 or deepcell>=0.11.0.
🐛 Bug Fixes
Fix `norecursedirs` to ignore build directory @willgraf (#80)
Tests started failing due to a duplicate test event found in the build directory. This should be ignored in pytest.ini, but is an erroneous comma in the path. This PR fixes the norecursedirs setting.
Fix bad warning message in `is_valid_lineage` @willgraf (#77)
There is a bad label in one of the parent checks. This PR updates the message for accuracy.
Validate parent lineage field as well as daughters. @willgraf (#76)
#73 updated is_valid_lineage to do better of all cells. However, there is no extra validation of the parent field, which is used in the isbi_utils functions.
This PR adds some basic validation of the parent lineage field to improve the validation of the lineage objects.
