ncbiHbvUpdate.glue

# this file expects the core HBV project and NCBI extension to be in place.
# by the end of the script, new sequence files and placements have been added on disk
# so that next time the whole thing is rebuilt they will be included.

project hbv

  # synchronize ncbi-curated live source and disk files with NCBI database
  module ncbiHbvUpdateCuratedSequences
  	invoke-function syncCurated
    exit

  # mark new sequences as "incoming"
  multi-set field sequence -w "source.name = 'ncbi-curated' and ncbi_incoming = null" ncbi_incoming true

  # create placements for the incoming sequences.
  module ncbiHbvUpdateCuratedSequences
    invoke-function placeCuratedIncoming
    exit

  exit


project hbv
  run script ncbiHbvRecordNumIncoming.js
  multi-set field sequence -w "source.name = 'ncbi-curated'" ncbi_incoming false
  exit