#khum
#   run_araCe produces the file of plain landmarks (list-formatted
#   output of kkno=khum) for the best l value for this region, to be used in
#   displaying the alignment boxes with llat/maps (similar to Fig. 5 of
#   the "Comparison..." paper). Absolute paths for the files might change.

run_araCe:
	ln /net/finch/usr/local/globin/bin/khum  kkno
	kkno araCe.a -I /home/galapagos/florea/test.d -l 12 -g -a 5 > tmp
	mv tmp /home/galapagos/florea/promoter.d/align.d/kkno.araCe.l12.list