add sqlite output config; fix installation from pypath fork

biocypher / metalinks

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add sqlite output config; fix installation from pypath fork #6

Closed nilskre closed 5 months ago

nilskre commented 5 months ago

Hi @dbdimitrov and @EliasFarr , this is a follow-up from #3. With the latest BioCypher version v0.5.40 the output to sqlite is supported. In this PR I have added a BioCypher config to export metalinks to sqlite.

dbdimitrov commented 5 months ago

Hi @nilskre,

Thanks a lot again for looking into this!

At this stage, the sqlite3 db that it creates is not something that we can use - but it's a great first step, see: https://github.com/biocypher/biocypher/issues/334

@EliasFarr we can merge because in addition to adding the sqllite schema, @nilskre did some minor improvements :)

Daniel