---
file_transformation:
  - prefix reference and gene IDs 
  - cat Faidherbia_albida_genes.gff | perl -pe 's/^([^#]\S+)/faial.unk.gnm1.$1/; s/(\w+)=/$1=faihe.unk.gnm1.ann1./'
  - perl -pe 's/>(\S+)/>faihe.unk.gnm1.ann1.$1/' Faidherbia_albida.cds
  - perl -pe 's/>(\S+)/>faihe.unk.gnm1.ann1.$1/' Faidherbia_albida.pep

changes:
  - 2019-11-27 Initial repository creation
  - 2021-01-06: SHokin - renamed gensp from faihe to faial to match Faidherbia albida in filenames and IDs; was inconsistent before.
  - 2021-01-06: SHokin - changed strain from "unk" to "WAFC" in filenames and IDs for World AgroForestry Center, where the trees were grown
  - 2021-01-21: SCannon - Duplicated cds.fna as mrna.fna (these should be the same, given the GFF structure)
    cp faial.WAFC.gnm1.ann1.RTP9.cds.fna.gz faial.WAFC.gnm1.ann1.RTP9.mrna.fna.gz