file_transformation: 
  - "seqlen.awk vigan.Gyeongwon.a3.v1.cds.fa | perl -pe 's/(\w+\.\w+)\.(\d+) (\d+)/$1\t$2\t$3/' | sort -k1,1 -k3nr,3nr | top_line.awk | awk '{print ">" $1 "." $2}' | sort > tmp.longest"
  - "fasta_to_zero_lines.awk vigan.Gyeongwon.a3.v1.cds.fa | sort > tmp.fa.1ln"
  - "join tmp.longest tmp.fa.1ln | perl -pe 's/ zqz /\n/' > vigan.Gyeongwon.gnm3.ann1.3Nz5c.cds_primaryTranscript.fna"
  - "seqlen.awk vigan.Gyeongwon.a3.v1.peptide.fa | perl -pe 's/(\w+\.\w+)\.(\d+) (\d+)/$1\t$2\t$3/' | sort -k1,1 -k3nr,3nr | top_line.awk | awk '{print ">" $1 "." $2}' | sort > tmp.longest"
  - "fasta_to_zero_lines.awk vigan.Gyeongwon.a3.v1.peptide.fa | sort > tmp.fa.1ln"
  - "join tmp.longest tmp.fa.1ln | perl -pe 's/ zqz /\n/' > vigan.Gyeongwon.gnm3.ann1.3Nz5f.protein_primaryTranscript.faa"

changes: 
  - 2018-03-03 Added MANIFEST files
  - 2018-09-15 Changed fastas to include full prefixing (s/vigan/vigan.Gyeongwon.gnm3.ann1/)
  - 2023-02-12 adf: fixed non-unique IDs per https://github.com/legumeinfo/datastore-issues/issues/153 using datastore-specifications/scripts/add_IDs_to_gff_features.pl --clobber CDS --clobber five_prime_UTR --clobber three_prime_UTR