milli VS heed

Is this a posting list? There is a lot of bioinformatics in this post, but if I squint, some of the problems do look like general information retrieval problems. Even the discussion of ordering the arrays by mass sounds like search relevance scores and makes me wonder if it makes sense to try to get something off the shelf like meillisearch/milli or tantavy to support this use case.

I'm currently not using any tool, although I am playing around with binding Milli and the most up-to-date Mentat fork to emacs with emacs-module-rs.

Yeah, we have already done that, the internal engine is called milli and could even be published on crates.io one day! The issue is with the design of the storage system itself, we use LMDB right now but maybe we can find another way to index faster and to be more oriented to distributed systems.

They have another prototype engine with more advanced features and performance too.

https://github.com/meilisearch/milli

You can look at the milli repository this is the library that we use and work on. MeiliSearch is the HTTP actix-web based server that serves the milli indices.

This library is the main bottleneck of the new MeiliSearch search engine. We will soon release a beta version, keep watching!

Working on the new MeiliSearch engine, reworked from scratch! There already is excellent external contributions 🎉

At Meilisearch we are currently trying to add a better error handling in heed v0.20, our LMDB key-value store wrapper. Unfortunately, when there are a lot of generics it can become harder to play with…

There are issues and pull requests but I advise you to look at the milli folder in the Meilisearch repository, it’s where all the logic is done. We extensively use RoaringBitmaps, heed the LMDB wrapper and grenad when indexing.

I’ll continue to introduce new features and new safety guards until v0.20.0. Can you tell me more about your project? Or is it private?

LMDB support multiple readers and one writer at the same time. It is ensured by the library. Note that LMDB is a key-value store. You can use the heed library which is the most maintained Rust wrapper.

Note that heed is ensuring that you are not trying to use transactions, databases and environments in the right way. I have added much more work in that regard in the important update that I am working on too!

I am currently working on exposing the new LMDB encryption feature from heed the safe LMDB wrapper with the help of the Cryptography community.

Have you considered heed or even sanakirja?

rkv hasn't been updated for a while. I recommend using heed - https://docs.rs/heed

For wrappers around LMBD, I'd recommend RKV or Heed https://github.com/mozilla/rkv https://github.com/Kerollmops/heed