Luiz Irber

[WIP] Loading revindex from zipstorage

1

Very early manifest support in Rust

add reqs for Binder

1

Hi! I was watching your #BioData18 talk and saw you have some notebooks in the repo. I added the requirements to be able to run the repo on Binder, here...

[WIP] Bring mastiff into core

1

This is likely going to pick some bits from #1943, probably focusing on exposing mastiff as the `RevIndex` for the Python API. Also removes `BIGSI` and `SBT` implementations in Rust,...

[WIP] Remove min_n_below from search code

6

There are three main cases when searching an index in sourmash (I'll use `Q` as query signature and `s` as a signature/internal node for the analysis): ## Case 1: similarity...

Still need to validate before merging (run with both fastq-dump and sracat, see if signatures match)

Schemathesis for API testing

1

https://github.com/kiwicom/schemathesis

Using the `computed` field from the models

For now only keeping the latest version for each assembly, but might be useful to add previous versions (if data is still available) too, especially because other databases (like GTDB)...

Pointers for fungi in https://github.com/luizirber/2017-jgi-download

At the moment the Celery tasks results are being saved to S3 but removed without extra checks. It might be useful to add an extra model and connect it to...