Error parsing GFF3 file for AvP hgt local score analysis

[aldendirks]

Your software has worked really well for me! I'm now trying to run the HGT local score script but am getting errors parsing the GFF3 file.

Traceback (most recent call last):
  File "/nfs/turbo/lsa-tyjames/mycology/Alden/software/AvP/aux_scripts/hgt_local_score.py", line 169, in <module>
    main()
  File "/nfs/turbo/lsa-tyjames/mycology/Alden/software/AvP/aux_scripts/hgt_local_score.py", line 86, in main
    gene_scaf = gene_location[gene]
                ~~~~~~~~~~~~~^^^^^^
KeyError: 'Hydnotrya_cerebriformis_MICH67763_scaffold_3601_FUN_011721'

I wasn't sure if the GFF3 file should be the full annotations (gene, mRNA, exon, and CDS) or just the lines that are annotated as "gene" or just those annotated as "mRNA". I've tried all the different combos and it gives the same error. When I grep that ID it is found as a match in the file. My GFF3 has 9 columns in the same format specified so I'm not sure why it can't find the right line.