Disable resolution of Derives_from fields in GFF3 parsing, fixes TAIR gff

[cmdcolin]

works in tandem with GMOD/gff-js#56

can see in screenshot, the "transposable element derived genes" are shown

example text

chr1    TAIR10  transposable_element_gene       433031  433819  .       -       .       ID=AT1G02228;Note=transposable_element_gene;Name=AT1G02228;Derives_from=AT1TE01405
chr1    TAIR10  mRNA_TE_gene    433031  433819  .       -       .       ID=AT1G02228.1;Parent=AT1G02228;Name=AT1G02228.1;Index=1
chr1    TAIR10  exon    433031  433819  .       -       .       Parent=AT1G02228.1
chr1    TAIR10  gene    435174  436776  .       -       .       ID=AT1G02230;Note=protein_coding_gene;Name=AT1G02230
chr1    TAIR10  mRNA    435174  436776  .       -       .       ID=AT1G02230.1;Parent=AT1G02230;Name=AT1G02230.1;Index=1
chr1    TAIR10  protein 435174  436775  .       -       .       ID=AT1G02230.1-Protein;Name=AT1G02230.1;Derives_from=AT1G02230.1
chr1    TAIR10  five_prime_UTR  436776  436776  .       -       .       Parent=AT1G02230.1
chr1    TAIR10  CDS     436622  436775  .       -       0       Parent=AT1G02230.1,AT1G02230.1-Protein;
chr1    TAIR10  exon    436622  436776  .       -       .       Parent=AT1G02230.1
chr1    TAIR10  CDS     436277  436539  .       -       2       Parent=AT1G02230.1,AT1G02230.1-Protein;
chr1    TAIR10  exon    436277  436539  .       -       .       Parent=AT1G02230.1
chr1    TAIR10  CDS     435997  436128  .       -       0       Parent=AT1G02230.1,AT1G02230.1-Protein;
chr1    TAIR10  exon    435997  436128  .       -       .       Parent=AT1G02230.1
chr1    TAIR10  CDS     435650  435916  .       -       0       Parent=AT1G02230.1,AT1G02230.1-Protein;
chr1    TAIR10  exon    435650  435916  .       -       .       Parent=AT1G02230.1

the AT1TE01405 is not in the gff, which previously caused crashes but is more related to the @gmod/gff pr

[cmdcolin]

I updated this so that instead of resolving the Derives_from, to just display the field as is GMOD/gff-js#57

Updated screenshot showing TAIR gff

Has protein features with CDS subfeatures that are displayed now instead of hidden (previously, they would be made "subfeatures" (put into the "derived_from" attribute) of the gene they "derive from")

Could be said that this is visually noisy to display them, but i'd say in general, making it easier to filter a gff is a better approach than trying to optimize out the visual noise in this case

[codecov]

Codecov Report

Merging #3272 (60e1d8d) into main (3bbf659) will decrease coverage by 0.00%.
The diff coverage is n/a.

@@            Coverage Diff             @@
##             main    #3272      +/-   ##
==========================================
- Coverage   59.44%   59.43%   -0.01%     
==========================================
  Files         676      676              
  Lines       28828    28826       -2     
  Branches     7039     7039              
==========================================
- Hits        17138    17134       -4     
- Misses      11416    11418       +2     
  Partials      274      274              

Impacted Files	Coverage Δ
plugins/gff3/src/Gff3Adapter/Gff3Adapter.ts	87.95% <ø> (-0.15%)	⬇️
...gins/gff3/src/Gff3TabixAdapter/Gff3TabixAdapter.ts	87.61% <ø> (-0.12%)	⬇️
plugins/alignments/src/BamAdapter/BamAdapter.ts	72.07% <0.00%> (-0.91%)	⬇️
...ments/src/SNPCoverageAdapter/SNPCoverageAdapter.ts	57.33% <0.00%> (-0.67%)	⬇️
products/jbrowse-web/src/util.ts	48.33% <0.00%> (ø)

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