# this is the sample for the aa alphabet directory.
# when you copy to a new directory, change these values.
ALPHANAME ?= aa
ALPHADIR  ?= bys_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 ?= bystroff.alphabet

#This is for running the results for the predict-2nd paper.
# ARCHITECTURE ?= Gbys-3-11-5-11-7-11-9
ARCHITECTURE ?= Gbys-5-20-5-20-5
TXXALIGN ?= bys

MAX_JOBS ?= 10

local-default: 
	echo run \"make trAB-mult50\" then wait for cluster to finish
	echo you can do \"make collect-mult50-data\" to see results of run
	echo run \"make trAB-mult150\" then wait for cluster to finish
	echo run \"make trAB-mult250\" then wait for cluster to finish
	echo run \"make trAB-test\" then wait for cluster to finish
	echo run \"make collect-test-data\"
nrm:
	rm -r net[0-9]* run-scripts/ logs/ quality-reports/

include ../Make.alphabet