From acc4998613adb3150c29cf7333d648f20c0049c0 Mon Sep 17 00:00:00 2001 From: Artur Meski Date: Sun, 22 Sep 2019 18:23:59 +0100 Subject: [PATCH] Examples --- examples/smt/chain_reaction.py | 110 +++++++++++++++------------- examples/smt/heat_shock_response.py | 4 + 2 files changed, 64 insertions(+), 50 deletions(-) diff --git a/examples/smt/chain_reaction.py b/examples/smt/chain_reaction.py index 336c924..9c5205b 100644 --- a/examples/smt/chain_reaction.py +++ b/examples/smt/chain_reaction.py @@ -26,54 +26,63 @@ from smt import * import sys import resource + def chain_reaction(print_system=False): - - if len(sys.argv) < 1+3: - print("provide N M B") - print(" B=1 - RSC") - print(" B=0 - RSC translated into RS") + + if len(sys.argv) < 1 + 3: + print("{source} ".format(source=sys.argv[0])) + print() + print("* N,M -- integers (scaling parameters)") + print("* type:") + print(" - 1 - RSC") + print(" - 0 - RSC translated into RS") + print() exit(1) - chainLen=int(sys.argv[1]) # chain length - maxConc=int(sys.argv[2]) # depth (max concentration) + chainLen = int(sys.argv[1]) + maxConc = int(sys.argv[2]) # depth (max concentration) + + verify_rsc = bool(int(sys.argv[3])) - verify_rsc=bool(int(sys.argv[3])) - if chainLen < 1 or maxConc < 1: print("be reasonable") exit(1) - - r = ReactionSystemWithConcentrations() - r.add_bg_set_entity(("inc",1)) - r.add_bg_set_entity(("dec",1)) - - for i in range(1,chainLen+1): - r.add_bg_set_entity(("e_" + str(i),maxConc)) - - for i in range(1,chainLen+1): - ent = "e_" + str(i) - r.add_reaction_inc(ent, "inc", [(ent, 1)],[(ent,maxConc)]) - r.add_reaction_dec(ent, "dec", [(ent, 1)],[]) - if i < chainLen: - r.add_reaction([(ent,maxConc)],[],[("e_"+str(i+1),1)]) - r.add_reaction([("e_" + str(chainLen),maxConc)],[("dec",1)],[("e_" + str(chainLen),maxConc)]) - + r = ReactionSystemWithConcentrations() + r.add_bg_set_entity(("inc", 1)) + r.add_bg_set_entity(("dec", 1)) + + for i in range(1, chainLen + 1): + r.add_bg_set_entity(("e_" + str(i), maxConc)) + + for i in range(1, chainLen + 1): + ent = "e_" + str(i) + r.add_reaction_inc(ent, "inc", [(ent, 1)], [(ent, maxConc)]) + r.add_reaction_dec(ent, "dec", [(ent, 1)], []) + if i < chainLen: + r.add_reaction([(ent, maxConc)], [], [("e_" + str(i + 1), 1)]) + + r.add_reaction( + [("e_" + str(chainLen), maxConc)], + [("dec", 1)], + [("e_" + str(chainLen), maxConc)], + ) + c = ContextAutomatonWithConcentrations(r) c.add_init_state("init") c.add_state("working") - c.add_transition("init", [("e_1",1),("inc",1)], "working") - c.add_transition("working", [("inc",1)], "working") + c.add_transition("init", [("e_1", 1), ("inc", 1)], "working") + c.add_transition("working", [("inc", 1)], "working") + + rc = ReactionSystemWithAutomaton(r, c) - rc = ReactionSystemWithAutomaton(r,c) - if print_system: rc.show() - + if verify_rsc: smt_rsc = SmtCheckerRSC(rc) - prop = [('e_'+str(chainLen),maxConc)] - smt_rsc.check_reachability((prop,[]),max_level=maxConc*chainLen+10) + prop = [("e_" + str(chainLen), maxConc)] + smt_rsc.check_reachability((prop, []), max_level=maxConc * chainLen + 10) else: orc = rc.get_ordinary_reaction_system_with_automaton() @@ -81,26 +90,26 @@ def chain_reaction(print_system=False): print("\nTranslated:") orc.show() smt_tr_rs = SmtCheckerRS(orc) - smt_tr_rs.check_reachability(['e_'+str(chainLen)+"#"+str(maxConc)]) - - time=0 - mem_usage=resource.getrusage(resource.RUSAGE_SELF).ru_maxrss/(1024*1024) - if verify_rsc: - filename_t="bench_rsc_time.log" - filename_m="bench_rsc_mem.log" - time=smt_rsc.get_verification_time() - else: - filename_t="bench_tr_rs_time.log" - filename_m="bench_tr_rs_mem.log" - time=smt_tr_rs.get_verification_time() + smt_tr_rs.check_reachability(["e_" + str(chainLen) + "#" + str(maxConc)]) - f=open(filename_t, 'a') - log_str="(" + str(chainLen) + "," + str(maxConc) + "," + str(time) + ")\n" + time = 0 + mem_usage = resource.getrusage(resource.RUSAGE_SELF).ru_maxrss / (1024 * 1024) + if verify_rsc: + filename_t = "bench_rsc_time.log" + filename_m = "bench_rsc_mem.log" + time = smt_rsc.get_verification_time() + else: + filename_t = "bench_tr_rs_time.log" + filename_m = "bench_tr_rs_mem.log" + time = smt_tr_rs.get_verification_time() + + f = open(filename_t, "a") + log_str = "(" + str(chainLen) + "," + str(maxConc) + "," + str(time) + ")\n" f.write(log_str) f.close() - - f=open(filename_m, 'a') - log_str="(" + str(chainLen) + "," + str(maxConc) + "," + str(mem_usage) + ")\n" + + f = open(filename_m, "a") + log_str = "(" + str(chainLen) + "," + str(maxConc) + "," + str(mem_usage) + ")\n" f.write(log_str) f.close() @@ -109,7 +118,8 @@ def main(): chain_reaction() + if __name__ == "__main__": main() - + # EOF diff --git a/examples/smt/heat_shock_response.py b/examples/smt/heat_shock_response.py index 67afb5f..3707236 100644 --- a/examples/smt/heat_shock_response.py +++ b/examples/smt/heat_shock_response.py @@ -112,6 +112,10 @@ def heat_shock_response(print_system=True, verify_rsc=True): smt_tr_rs.check_reachability(rs_prop) +def state_translate_rsc2rs(p): + return [e[0] + "#" + str(e[1]) for e in p] + + def main(): heat_shock_response()