Update Cell organelle segmentation of Nile Red fluorescent images

[bioimageiobot]

This is an automatic PR created by the @bioimageiobot regarding changes to the resource item 10.5281/zenodo.7653695.
The following version(s) will be added:

• 7653696 (version 1)

Please review the changes and make sure the new item or version(s) pass the following check list:

• Passed the BioImage.IO CI tests: static (and dynamic) validations
• The meta information for the RDF item is complete
  • The tags are complete and describe the model
  • Naming is intuitive and descriptive, example: Multi-Organ Nucleus Segmentation (StarDist 2D)
  • Authors are provided
  • Documentation is complete
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• Approved by at least one of the BioImage.IO admin team member.

Maintainers: @karl.hao.zhang@gmail.com

Note: If you updated or re-uploaded another version for the current item on Zenodo, this PR won't be changed automatically. To proceed, you can do the following:

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Previous PRs of this resource: none

[bioimageiobot]

preview
preview-collection-json

[FynnBe]

Yay! CI passes!! 🥇

Couple small things:

• Is this superseding Update LiCAI5 #527 ?

Delete the test_input.npy and test_output.npy when used with illastic, because illastic only supports model files <100Mb.
--doc.md

• ilastik (not illastic, btw) has no 100Mb model limit. If you experience an issue with the model size, plase open an ilastik bug report here. Please update doc.md and remove this last sentence.

• I suggest to add 'Ilastik_Test.tif' as sample_inputs: [Ilastik_Test.tif]. Otherwise they will not be be included in the packaged model.

• In your Ilastik_instruction.png (currently also not included in the package) under 1. you mark the remote NN workflow, but in the other screenshots it shows that you run the local NN workflow. If you like you can instead link the ilastik NN docs: https://www.ilastik.org/documentation/nn/nn . They are maintained and will stay up-to-date.

• under maintainers[]:github_user you put your email, not your actual github user name. If you want to add your email, you can do so under maintainers[]:email. Please update your github_user in the rdf.yaml.

[FynnBe]

@KarlZhanghao , pinging you here as the maintainer

[esgomezm]

@FynnBe could we merge this one :) ?

[FynnBe]

@FynnBe could we merge this one :) ?

I'd say no. The above todo's should be adressed first.