---
file_transformation: 
perl -pe 's/^>/>cicar.CDCFrontier.gnm2.ann1./' Car.cds.fa >cicar.CDCFrontier.gnm2.ann1.9M1L.cds.fna
perl -pe 's/^>/>cicar.CDCFrontier.gnm2.ann1./' Car.pep.fa >cicar.CDCFrontier.gnm2.ann1.9M1L.protein.faa
perl -pe 's/^>/>cicar.CDCFrontier.gnm2.ann1./' Car.longestmRNA.cds.fa >cicar.CDCFrontier.gnm2.ann1.9M1L.cds_primary.fna
perl -pe 's/^>/>cicar.CDCFrontier.gnm2.ann1./' Car.longestmRNA.pep.fa >cicar.CDCFrontier.gnm2.ann1.9M1L.protein_primary.faa
perl -pe 's/^Ca(\d+)_v2.0/cicar.CDCFrontier.gnm2.chr0$1/; s/^Ca_(sca\S+_\S+)_v2.0/cicar.CDCFrontier.gnm2.$1/; s/ID=(\S+);/ID=cicar.CDCFrontier.gnm2.ann1.$1;/; s/Parent=(\S+)/Parent=cicar.CDCFrontier.gnm2.ann1.$1/' Car.genes.gff >cicar.CDCFrontier.gnm2.ann1.9M1L.gene_models_main.gff3

changes:
  - 2022-02-18 initial Legume Federation Data Store file preparation
  - Applied prefixes to fasta and GFF files - see file_transformations above
  - 2022-03-04 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.
  - 2022-08-08 adf: add gffread-derived mrna fasta files; fixes https://github.com/legumeinfo/datastore-issues/issues/118
  - 2022-11-04 sc: add bed file, derived from gene_models_main.gff3