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load_utils.fov_to_ome is prohibitively slow for large cohorts #44

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alex-l-kong opened this issue Mar 13, 2024 · 0 comments
Open

load_utils.fov_to_ome is prohibitively slow for large cohorts #44

alex-l-kong opened this issue Mar 13, 2024 · 0 comments
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enhancement New feature or request

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@alex-l-kong
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Is your feature request related to a problem? Please describe.

There have been use cases where users would like to create corresponding OME-TIFFs for each FOV in a large cohort. This often arises in the need for data ingestion, where OME-TIFFs are often the choice format.

The current schema requires all of the FOVs to be loaded into memory first, then iteratively written. This is prohibitive both from a time and a space standpoint.

Describe the solution you'd like

Instead of loading in all the FOVs at once, iteratively load in each FOV one at a time. In that way, the users can see the FOVs written immediately and there won't be any memory concerns.

@alex-l-kong alex-l-kong added the enhancement New feature or request label Mar 13, 2024
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