---
file_transformation: 
perl -pe 's/^>/>cajca.ICPL87119.gnm2.ann1./' Car.cds.fa >cajca.ICPL87119.gnm2.ann1.L3ZH.cds.fna
perl -pe 's/^>/>cajca.ICPL87119.gnm2.ann1./' Car.pep.fa >cajca.ICPL87119.gnm2.ann1.L3ZH.protein.faa
perl -pe 's/^>/>cajca.ICPL87119.gnm2.ann1./' Car.longestmRNA.cds.fa >cajca.ICPL87119.gnm2.ann1.L3ZH.cds_primary.fna
perl -pe 's/^>/>cajca.ICPL87119.gnm2.ann1./' Car.longestmRNA.pep.fa >cajca.ICPL87119.gnm2.ann1.L3ZH.protein_primary.faa
perl -pe 's/^CcLG(\S+_v2.0/cajca.Asha.gnm2.chr$1/; s/^Cc_(\S+_\S+)_v2.0/cajca.Asha.gnm2.$1/; s/ID=/ID=cajca.Asha.gnm2.ann1./;s/Parent=/Parent=cajca.Asha.gnm2.ann1./' Cca.genes.gff >cajca.Asha.gnm2.ann1.gene_models_main.gff3

changes: 
  - 2022-03-02 initial Legume Federation Data Store file preparation
  - 2022-03-02 Applied prefixes to fasta and GFF files - see file_transformations above
  - 2022-03-03 Add AHRD annotation and gene family assignments
  - 2022-03-22 remove _v2.0 with perl -pe 's/_v2.0//g' in cds, protein fasta files; gene_models_main and iprscan gff3 files; and gfa.tsv file.