buildFivProject.glue

  # Feline lentivirus project extension
  project lentivirus

    # Create modules
    run file glue/build/extension/feline/modulesFeline.glue

    # Import sources
    run file glue/build/extension/feline/sourcesFeline.glue

    # Define extension references
    run file glue/build/extension/feline/referencesFeline.glue

    # Extract and import isolate data for extension sequences
    run file glue/build/extension/feline/importIsolateDataFeline.glue

	# Create the alignment tree for genotyping, rooted on feline viruses
    run file glue/build/extension/feline/alignmentTreeFivGenotyping.glue

	# Import unconstrained alignments
    run file glue/build/extension/feline/importUnconstrainedAlignments.glue

    # Derive constrained alignments from unconstrained
    run file glue/build/extension/feline/deriveConstrainedAlignments.glue

    # Import reference phylogeny
    run file glue/build/extension/feline/importGenotypingPhylogenyFeline.glue

	# Validate
	validate

	exit