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ModelSEED / ModelSEEDDatabase

This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno approach
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porting ontology scripts #170

Closed Fxe closed 4 years ago

Fxe commented 5 years ago

First scripts for hierarchical ontology run.py contains the example to run (all parameters at the beginning of the file as uppercase variables)

Two examples of relational compound ontology is also found in the same folder, these were manually built. The scripts process the compound relational graph and generate the reaction hierarchy.

samseaver commented 5 years ago

Can you move the scripts under Scripts/Ontology but also add a README that explains what each script does? Some of the code appears to be redundant, can the code be shorter?

samseaver commented 4 years ago

Closing in favor of newly integrated script in next PR