# this is the sample for the aa alphabet directory.
# when you copy to a new directory, change these values.
ALPHANAME = aa
ALPHADIR  = near-backbone-11_rev
# watch out for this one. some files contain several alphabets.
# for example, str,str2,str3 are all defined in str.alphabet
# alphalibfile indicates the output alphabet ??
ALPHALIBFILE = two-spot-burial.alphabet

#This is for running the results for the predict-2nd paper.
ARCHITECTURE = Gnear-backbone-11-3-11-5-11-7-11-9
TXXALIGN = near-backbone-11

#To test my version of predict-2nd 
#PREDICT-2ND = /cse/ugrads/rbingham/private/predict-2nd/bin/i686/opt/predict-2nd

nrm:
	rm -r *n* logs/ quality-reports/

include ../Make.alphabet