track_imgt_config.yaml

# the species of interest

species:
  Homo sapiens:
    alias: Human
  Salmo salar:
    alias: Atlantic Salmon

# location of the file on imgt
file_url: http://www.imgt.org/download/GENE-DB/IMGTGENEDB-ReferenceSequences.fasta-nt-WithoutGaps-F+ORF+inframeP
gapped_file_url: http://www.imgt.org/download/GENE-DB/IMGTGENEDB-ReferenceSequences.fasta-nt-WithGaps-F+ORF+inframeP

# prefix for stored versions of IMGT files. Filenames will be of the form <file_prefix>_date.fasta
file_prefix: imgt_ref

# directory in which to store IMGT files for archival purposes
file_dir: imgt/imgt_files

# filename of log file
log_file: imgt/imgt_files/log.txt

# filename of reference file used by ogre. Will be kept up to date by track_imgt_ref.py
ogre_ref_file: IMGT_REF.fasta
gapped_ogre_ref_file: IMGT_REF_GAPPED.fasta

# pickle files created to speed up boot
imgt_ref_pickle: ref_genes.pickle
imgt_gapped_ref_pickle: ref_gapped_genes.pickle

#filename of file to touch to restart ogre (eg ogre.wsgi). Or 'none' for none
ogre_touch: none