Add accessioned manual annotations to i5k Workspace

[mpoelchau]

Goal: We submit QC'd manual annotations to GenBank for accessioning and re-use. We need to make these available on our browsers, in Tripal, and in our data downloads.

Organisms and files (there are more but these are the easiest):

• Nylanderia fulva, https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/005/281/655/GCA_005281655.2_TAMU_Nfulva_1.1/GCA_005281655.2_TAMU_Nfulva_1.1_genomic.gff.gz
• Hyalella azteca, https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/764/305/GCA_000764305.4_Hazt_2.0.2/GCA_000764305.4_Hazt_2.0.2_genomic.gff.gz
• Cephus cinctus, https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/341/935/GCA_000341935.2_Ccin1v2/GCA_000341935.2_Ccin1v2_genomic.gff.gz
• Neopdiprion lecontei, https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/021/901/455/GCA_021901455.1_iyNeoLeco1.1/GCA_021901455.1_iyNeoLeco1.1_genomic.gff.gz

Tasks:

• add modified GFF as track to genome browser
  • requires running script X to add metadata to mRNA first
  • copy jbrowse directory from prod to ceres
  • use run-flatfile-to-json.sh using copied jbrowse directory
  • move modified directory back to stage for checking
  • then move to prod
  • we will need to think about the track-level metadata (e.g. source, descriptions etc)
• Add dataset in Tripal
  • type: genome annotation
  • need to figure out metadata
• Add data download
  • under '3. additional gene sets'