kreshuklab / plant-seg

A tool for cell instance aware segmentation in densely packed 3D volumetric images
https://kreshuklab.github.io/plant-seg/
MIT License
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Headless: Handle multi-channel prediction output and add docs #239

Closed qin-yu closed 4 months ago

qin-yu commented 4 months ago

With this PR, I make --headless mode handle a special case: a workflow of "open file -> multi-channel network prediction -> export file". A workflow combined with any post-processing step may still fail. Multi-channel output from networks were not handled until #184. Back then, --headless mode with DAG was not considered as an important use case, because

  1. I made --config mode available for processing multi-channel network output;
  2. Lorenzo will refactor headless mode with a new design.