buildBovineExtension.glue

  # Build species-level extension projects
  
  # Bovine lentiviruses
  project lentivirus

    # Delete previous extension build
    #run file glue/build/extension/bovine/deleteExtensionBuildBovine.glue

    # Import sources
    run file glue/build/extension/bovine/sourcesBovine.glue

    # Define extension references
    run file glue/build/extension/bovine/referencesBovine.glue

    # Extract and import isolate data for extension sequences
    run file glue/build/extension/bovine/importIsolateDataBovine.glue

	# Import alignments
	run file glue/build/extension/bovine/alignmentBovine.glue

	# Add extension set sequences constrained alignment tree
	run file glue/build/extension/bovine/alignmentTreeBovine.glue
	
	# Compute alignments
	run file glue/build/extension/bovine/createAlignmentsBovine.glue
	
	# Record feature presence
	run file glue/build/extension/bovine/recordFeaturePresenceBovine.glue

	# Validate
	validate

	exit