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fix: GPR curation for transport reactions (8) #958

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Main improvements in this PR:

As proposed in #903 #908 :

  • Remove ENSG00000103064 from MAR05616, MAR05617, MAR05633, MAR05635, MAR05637, MAR05638, MAR05641, MAR05642, MAR05643, MAR05644, MAR05645, MAR05648, MAR05652, MAR05655, MAR05656, MAR05658, MAR05660, MAR05666, MAR05667, MAR05668, MAR05672, MAR05674, MAR05680, MAR05681, MAR05688, MAR05689, MAR05692, MAR05693, MAR05697, MAR05700, MAR05701, MAR05703, MAR05704, MAR05705, MAR05713, MAR05714, MAR05718;
  • Remove ENSG00000103064, ENSG00000151012 from MAR05719;

I hereby confirm that I have:

  • Tested my code on my own computer for running the model
  • Selected develop as a target branch
  • Any removed reactions and metabolites have been moved to the corresponding deprecated identifier lists

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This PR has been automatically tested with GH Actions. Here is the output of the MACAW test:

Starting dead-end test...
- Found 1523 dead-end metabolites.
- Found 1328 reactions incapable of sustaining steady-state fluxes in either direction due to these dead-ends.
- Found 1975 reversible reactions that can only carry steady-state fluxes in a single direction due to dead-ends.
Starting duplicate test...
- Skipping redox duplicates because no redox_pairs and/or proton_ids were provided.
- Found 447 reactions that were some type of duplicate:
- 0 were completely identical to at least one other reaction.
- 13 involve the same metabolites but go in the opposite direction or have the opposite reversibility as at least one other reaction.
- 447 involve the same metabolites but with different coefficients as at least one other reaction.

This and a more detailed output from MACAW are also committed to data/macawResults/.

Note: In the case of multiple test runs, this post will be edited.

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LGTM!

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