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Refactor aggregate taxon model #5

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esteinig opened this issue Nov 4, 2023 · 0 comments
Open

Refactor aggregate taxon model #5

esteinig opened this issue Nov 4, 2023 · 0 comments
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dev Development related issues and tasks refactor

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esteinig commented Nov 4, 2023

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Currently the cerebro.taxa section of the Cerebro data model is a HashMap<taxid, Taxon> where type taxid = String. This is a result of the aggregation function which uses sequential HashMaps to group taxa by their taxid.

Problem

HashMap is not able to be queried efficiently using MongoDB aggregation pipelines. Downstream applications eventually use a Vec<Taxon> particularly endpoints on the API.

Refactoring to Vec is necessary, but at this stage may affect a number of dependent subsystems.
@esteinig esteinig self-assigned this Nov 4, 2023
@esteinig esteinig added the dev Development related issues and tasks label Nov 17, 2023
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