---
file_transformation: 
  - Prefixed amino acid fasta files with glyso.PI483463.gnm1.ann1. and removed .p suffix:
    - perl -pi -e 's/>(\S+).p />glyso.PI483463.gnm1.ann1.$1 /' *.faa
  - Prefixed gene IDs in nucleotide fasta:
    - perl -pi -e 's/>(\S+) />glyso.PI483463.gnm1.ann1.$1 /' *fna
  - Added chromosome prefix to GFFs:     
    - perl -pi -e 's/^([^#]\S+)/glyso.PI483463.gnm1.$1/' *gff3
  - Added gene prefixes to GFFs (also replacing version suffixes):
    - perl -pi -e 's/\.v1\.1//g; s/=GlysoPI483463./=glyso.PI483463.gnm1.ann1.GlysoPI483463./g' *gff3

changes: 
  - 2018-10-04 initial Legume Federation Data Store file preparation
  - 2018-10-10 Applied prefixes to fasta and GFF files - see file_transformations above.
  - 2020-09-22 added gene family assignments
  - 2021-05-25 updated gene family assignments to use score rather than e-value 
  - 2022-03-05 adf: corrected truncated gene id in gfa file
  - 2024-04-11 sbc: update synopsis to include JGI numbering