Fix-GPR curation for Linoleate_metabolism and Fatty_acid_elongation_and Beta oxidation

[JHL-452b]

Main improvements in this PR:

As proposed in #875

• Remove ENSG00000137869 from MAR02455;
• Remove ENSG00000108242, ENSG00000137869 from MAR02456;
• Remove ENSG00000160870, ENSG00000186377, ENSG00000137869 from MAR02457;
• Remove ENSG00000137869, ENSG00000108242 from MAR02458;
• Remove ENSG00000164303 from MAR07606;
• Remove ENSG00000177465, ENSG00000119673, ENSG00000130377 from MAR00249;
• Remove ENSG00000146066 from MAR02269;
• Change the GPR of MAR03315 into ENSG00000060971 or ENSG00000116171;
• Change the GPR of MAR03067 into ENSG00000113790 or ENSG00000133835;
• Change the GPR of MAR03091 into ENSG00000113790 or ENSG00000133835;
• Change the GPR of MAR03093 into ENSG00000060971 or ENSG00000116171;
• Remove ENSG00000161533 from MAR03102;
• Remove ENSG00000198721 from MAR03058;
• Remove ENSG00000198721 from MAR03103;
• Change the GPR of MAR03506 into ENSG00000087008 or ENSG00000168306;
• Remove MAR03102 and MAR03103 from Human-GEM.

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

[github-actions]

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

Starting dead-end test...
 - Found 1515 dead-end metabolites.
 - Found 1320 reactions incapable of sustaining steady-state fluxes in either direction due to these dead-ends.
 - Found 1980 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.

[github-actions]

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

     cellLine     TP     TN     FP     FN     accuracy    sensitivity    specificity       F1         MCC   
    __________    __    ____    ___    ___    ________    ___________    ___________    ________    ________

    {'DLD1'  }    38    2162     65    276     0.8658       0.12102        0.97081       0.18225     0.15324
    {'GBM'   }    34    2143     69    294    0.85709       0.10366        0.96881       0.15777      0.1232
    {'HCT116'}    47    2186     60    304    0.85984        0.1339        0.97329       0.20524     0.18438
    {'HELA'  }    31    2242     76    249     0.8749       0.11071        0.96721       0.16021      0.1216
    {'RPE1'  }    14    2181     89    256    0.86417      0.051852        0.96079      0.075067    0.019759
    {'all'   }     6    2381    101    110    0.91878      0.051724        0.95931      0.053812    0.011465

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

[feiranl]

Please double check the deadend metabolites and try to fix this before merging.