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wormjam-consortium / wormjam

Website/Repository containing the WormJam genome scale model
https://wormjam.life
Creative Commons Attribution 4.0 International
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Update to WormJam infrastructure #44

Closed JakeHattwell closed 4 years ago

JakeHattwell commented 4 years ago

Key changes: Introduced a databases table (Will need further development and population) that contains information about the databases used inside the wormjam model. This is important for both annotation and the conversion to SBML.

Rewrote much of the SBML converter to incorporate this change and integrate the databases table. Improved annotation. Improved commented and documentation in SBML converter and helper_classes.py

Tidied up identifiers - IMPORTANT: Some IDs, such as GO identifiers, begin with leading zeroes. Make sure that when editing these TSVs that the leading Zeroes are conserved.

Awaiting Travis Build results

JakeHattwell commented 4 years ago

Build passed. I'm going to merge this into devel if there are no objections, and delete devel-jake in preparation for CI curation.

JakeHattwell commented 4 years ago

A few more infrastructure changes that I'm making as I test what it's like for a new user to create a fork.