kbaseapps/biochemistryapi

BiochemistryAPI

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This module serves Biochemistry data for KBase

Release Notes

v0.4.0 (06/30/20)

• Major update of data from ModelSEED Biochemistry Database

0.3.0 (10/04/18)

• Updated the search methods to approximate a poor man's search engine. Terms are tokenized on _-; and space, and matching results returned in the same order as they appear in the source.
• Added a optional limit on search results
• Added a search_reactions method

0.2.0 (06/26/18)

• convert to Python3 module

0.1.4 (06/25/18)

• Add basic compound search methods
• Add 3D compound generation method

0.1.3 (05/04/18)

• Add the ability to perform similarity and substructure searches

0.1.2 (10/20/17)

Adds the ability to generate SVG depictions of chemical structures submitted in SMILES and InChI format.

biochemistryapi's Issues

Transition to using the RE as the primary source of biochemistry data

As the RE is now up, and being actively used in the biochemistry search interface, it'd make sense to transition away from using a local cache of tsv files within this repository to querying the RE directly, and enable us to make sure the data only needs to be updated in one place.

As far as I'm concerned, this only needs to be done for all the get_ and search_ functions in the implementation.