ome / ome/ngff

Mesh specification

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Dominant language
Python
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171
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Description

As discussed in the feb. 2021 ngff community call, and following this image.sc thread

The idea is to follow PLY specification to store meshes in ome-zarr. A ply file is organised in:

  • a header (translated in the .attrs of the zarr group)
  • the points (a zarr.Array)
  • for each element (e.g. faces) the list of vertices. Those are group by number of sides, with one zarr.Array per polygon.

There is a draft implementation here: https://github.com/centuri-engineering/ply-zarr

Some questions:

  • I don't know how to deal with binary formats
  • PLY allows for datatype specification at the column level, how to deal with that in zarr?

Contributor guide

No contributing guide indexed for this repository

First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start by reading the linked image.sc discussion and the draft implementation at centuri-engineering/ply-zarr, then review this issue's discussion. Done means an agreed NGFF mesh specification that addresses binary formats and PLY's column-level datatype requirements.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
data
Issue type
Feature
Difficulty
5/5
Estimated time
Over a week
Activity status
Quiet
Clarity
Needs clarification
Newbie friendliness
30/100

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