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Add provider for metacyc prefix and consider new prefix for unique IDs #1294

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@nagutm nagutm commented Dec 6, 2024

PubMed: https://pubmed.ncbi.nlm.nih.gov/39558185/
Database: PlantCyc

This resource has 4 different sematic spaces: Compunds, Reactions, Pathways and Gene/Proteins

The first 3 use the same identifier information from metacyc.compound, metacyc.pathway and metacyc.reaction. They are curated as providers for these resources respectively.

The Gene/Protein subspace seems to have a mix of IDs used.

  • Some of them are TAIR IDs , however the current resolver links on the tair pages in the Bioregistry seem to be outdated and not resolving IDs as expected so I have not curated anything under this prefix until I fix those. example of a tair ID
  • The other category of IDs seem to be unique to this resource with a general pattern of ^G-\d+$. These could be curated as a separate prefix. example of a unique ID

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codecov bot commented Dec 7, 2024

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 46.62%. Comparing base (8950e70) to head (9f24be8).
Report is 180 commits behind head on main.

Additional details and impacted files
@@            Coverage Diff             @@
##             main    #1294      +/-   ##
==========================================
+ Coverage   42.51%   46.62%   +4.10%     
==========================================
  Files         117      118       +1     
  Lines        8327     8286      -41     
  Branches     1963     1362     -601     
==========================================
+ Hits         3540     3863     +323     
+ Misses       4582     4238     -344     
+ Partials      205      185      -20     

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