Parametric mutex example
This commit is contained in:
Artur Meski
439
examples/smt/mutex_param.py
Normal file
439
examples/smt/mutex_param.py
Normal file
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from rs import *
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from smt import *
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from logics import *
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from rsltl_shortcuts import *
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from itertools import chain, combinations
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import sys
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import resource
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import argparse
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def powerset(iterable, N=None):
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if N is None:
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N = len(s)
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s = list(iterable)
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return chain.from_iterable(combinations(s, r) for r in range(N + 1))
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def mutex_param_bench(cmd_args):
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"""
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Mutex Benchmark
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Parametric
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"""
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base_entities = ["out", "req", "in", "act"]
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shared_entities = ["lock", "done", "s"]
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if not cmd_args.scaling_parameter:
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print("Missing scaling parameter")
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return
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n_proc = int(cmd_args.scaling_parameter)
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r = ReactionSystemWithConcentrationsParam()
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def E(a, b, c=1):
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return (a + "_" + str(b), c)
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for i in range(n_proc):
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for ent in base_entities:
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max_conc = 1
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if ent == "in":
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max_conc = 3
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elif ent == "req":
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max_conc = 2
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r.add_bg_set_entity(E(ent, i, max_conc))
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for ent in shared_entities:
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max_conc = 1
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r.add_bg_set_entity((ent, max_conc))
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###################################################
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Inhib = [("s", 1)]
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for i in range(n_proc):
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r.add_reaction([E("out", i), E("act", i)], Inhib, [E("req", i)])
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r.add_reaction([E("out", i)], [E("act", i)], [E("out", i)])
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for j in range(n_proc):
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if i != j:
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r.add_reaction(
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[E("req", i), E("act", i), E("act", j)], Inhib, [E("req", i)]
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)
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r.add_reaction([E("req", i)], [E("act", i)], [E("req", i, 2)])
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enter_inhib = [E("act", j) for j in range(n_proc) if i != j] + [("lock", 1)]
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r.add_reaction(
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[E("req", i, 2), E("act", i)], enter_inhib, [E("in", i, 3), ("lock", 1)]
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)
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r.add_reaction([E("in", i, 3), E("act", i)], Inhib, [E("in", i, 2)])
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r.add_reaction([E("in", i, 2), E("act", i)], Inhib, [E("in", i, 1)])
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r.add_reaction([E("in", i), E("act", i)], Inhib, [E("out", i), ("done", 1)])
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r.add_reaction([E("in", i)], [E("act", i)], [E("in", i)])
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r.add_reaction([("lock", 1)], [("done", 1)], [("lock", 1)])
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lda1 = r.get_param("lda1")
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lda2 = r.get_param("lda2")
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lda3 = r.get_param("lda3")
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r.add_reaction(lda1, lda2, lda3)
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###################################################
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c = ContextAutomatonWithConcentrations(r)
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c.add_init_state("0")
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c.add_state("1")
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init_ctx = []
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for i in range(n_proc):
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init_ctx.append(E("out", i))
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# the experiments starts with adding x and y:
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c.add_transition("0", init_ctx, "1")
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all_act = powerset([E("act", i) for i in range(n_proc)], 2)
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for actions in all_act:
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actions = list(actions)
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c.add_transition("1", actions, "1")
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# for all the remaining steps we have empty context sequences
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# c.add_transition("1", [], "1")
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# c.add_transition("1", [("h", 1)], "1")
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###################################################
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rc = ReactionSystemWithAutomaton(r, c)
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rc.show()
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f_attack = ltl_F(
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True, bag_And(bag_entity("in_0") == 1, bag_entity("in_" + str(n_proc - 1)) == 1)
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)
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ent_of_Nth_proc = [
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ent + "_" + str(n_proc - 1) for ent in base_entities
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] + shared_entities
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disallow = ["in_" + str(n_proc - 1)]
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for ent in r.background_set:
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if ent not in ent_of_Nth_proc:
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disallow.append(ent)
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# disallow.append("act_" + str(n_proc-1))
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# disallow = ["in_0", "in_" + str(n_proc)] #, "req_0", "req_1"]
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lda1_disallow = [param_entity(lda1, ent) == 0 for ent in disallow]
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lda2_disallow = [param_entity(lda2, ent) == 0 for ent in disallow]
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lda3_disallow = [param_entity(lda3, ent) == 0 for ent in disallow]
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lda_disallow = lda1_disallow + lda2_disallow + lda3_disallow
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# for bent in base_entities:
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# print(param_entity(lda3, bent + "_0"))
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param_constr = param_And(*lda_disallow)
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smt_rsc = SmtCheckerRSCParam(rc, optimise=cmd_args.optimise)
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smt_rsc.check_rsltl(
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formulae_list=[f_attack], param_constr=param_constr
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) # , max_level=4, cont_if_sat=True)
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log_suffix = ""
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if cmd_args.optimise:
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log_suffix = "_OPT"
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time = 0
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mem_usage = resource.getrusage(resource.RUSAGE_SELF).ru_maxrss / (1024 * 1024)
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filename_t = "bench_mutex_param" + log_suffix + "_time.dat"
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filename_m = "bench_mutex_param" + log_suffix + "_mem.dat"
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time = smt_rsc.get_verification_time()
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with open(filename_t, "a") as f:
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log_str = "{:d} {:f}\n".format(n_proc, time)
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f.write(log_str)
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with open(filename_m, "a") as f:
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log_str = "{:d} {:f}\n".format(n_proc, mem_usage)
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f.write(log_str)
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def mutex_nonparam_bench(cmd_args):
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"""
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Mutex Benchmark
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Parametric
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"""
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base_entities = ["out", "req", "in", "act"]
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shared_entities = ["lock", "done", "s"]
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if not cmd_args.scaling_parameter:
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raise RuntimeError("Missing scaling parameter")
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n_proc = int(cmd_args.scaling_parameter)
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r = ReactionSystemWithConcentrationsParam()
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def E(a, b):
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return (a + "_" + str(b), 1)
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for i in range(n_proc):
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for ent in base_entities:
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r.add_bg_set_entity(E(ent, i))
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for ent in shared_entities:
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r.add_bg_set_entity((ent, 1))
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###################################################
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Inhib = [("s", 1)]
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for i in range(n_proc):
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r.add_reaction([E("out", i), E("act", i)], Inhib, [E("req", i)])
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r.add_reaction([E("out", i)], [E("act", i)], [E("out", i)])
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for j in range(n_proc):
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if i != j:
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r.add_reaction(
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[E("req", i), E("act", i), E("act", j)], Inhib, [E("req", i)]
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)
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r.add_reaction([E("req", i)], [E("act", i)], [E("req", i)])
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enter_inhib = [E("act", j) for j in range(n_proc) if i != j] + [("lock", 1)]
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r.add_reaction(
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[E("req", i), E("act", i)], enter_inhib, [E("in", i), ("lock", 1)]
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)
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r.add_reaction([E("in", i), E("act", i)], Inhib, [E("out", i), ("done", 1)])
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r.add_reaction([E("in", i)], [E("act", i)], [E("in", i)])
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r.add_reaction([("lock", 1)], [("done", 1)], [("lock", 1)])
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r.add_reaction(
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[E("out", n_proc - 1)], [("s", 1)], [("done", 1), E("req", n_proc - 1)]
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)
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###################################################
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c = ContextAutomatonWithConcentrations(r)
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c.add_init_state("0")
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c.add_state("1")
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init_ctx = []
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for i in range(n_proc):
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init_ctx.append(E("out", i))
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# the experiments starts with adding x and y:
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c.add_transition("0", init_ctx, "1")
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all_act = powerset([E("act", i) for i in range(n_proc)], 2)
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for actions in all_act:
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actions = list(actions)
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c.add_transition("1", actions, "1")
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# for all the remaining steps we have empty context sequences
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# c.add_transition("1", [], "1")
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# c.add_transition("1", [("h", 1)], "1")
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###################################################
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rc = ReactionSystemWithAutomaton(r, c)
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rc.show()
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f_attack = ltl_F(
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True, bag_And(bag_entity("in_0") == 1, bag_entity("in_" + str(n_proc - 1)) == 1)
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)
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smt_rsc = SmtCheckerRSCParam(rc, optimise=cmd_args.optimise)
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smt_rsc.check_rsltl(formulae_list=[f_attack])
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time = 0
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mem_usage = resource.getrusage(resource.RUSAGE_SELF).ru_maxrss / (1024 * 1024)
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filename_t = "bench_mutex_nonparam_time.dat"
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filename_m = "bench_mutex_nonparam_mem.dat"
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time = smt_rsc.get_verification_time()
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with open(filename_t, "a") as f:
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log_str = "{:d} {:f}\n".format(n_proc, time)
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f.write(log_str)
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with open(filename_m, "a") as f:
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log_str = "{:d} {:f}\n".format(n_proc, mem_usage)
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f.write(log_str)
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def mutex_nonparam_bench_oldimpl(cmd_args):
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"""
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Mutex Benchmark
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Parametric
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"""
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base_entities = ["out", "req", "in", "act"]
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shared_entities = ["lock", "done", "s"]
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if not cmd_args.scaling_parameter:
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raise RuntimeError("Missing scaling parameter")
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n_proc = int(cmd_args.scaling_parameter)
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r = ReactionSystemWithConcentrations()
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def E(a, b):
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return (a + "_" + str(b), 1)
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for i in range(n_proc):
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for ent in base_entities:
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r.add_bg_set_entity(E(ent, i))
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for ent in shared_entities:
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r.add_bg_set_entity((ent, 1))
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###################################################
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Inhib = [("s", 1)]
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for i in range(n_proc):
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r.add_reaction([E("out", i), E("act", i)], Inhib, [E("req", i)])
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r.add_reaction([E("out", i)], [E("act", i)], [E("out", i)])
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for j in range(n_proc):
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if i != j:
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r.add_reaction(
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[E("req", i), E("act", i), E("act", j)], Inhib, [E("req", i)]
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)
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r.add_reaction([E("req", i)], [E("act", i)], [E("req", i)])
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enter_inhib = [E("act", j) for j in range(n_proc) if i != j] + [("lock", 1)]
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r.add_reaction(
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[E("req", i), E("act", i)], enter_inhib, [E("in", i), ("lock", 1)]
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)
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r.add_reaction([E("in", i), E("act", i)], Inhib, [E("out", i), ("done", 1)])
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r.add_reaction([E("in", i)], [E("act", i)], [E("in", i)])
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r.add_reaction([("lock", 1)], [("done", 1)], [("lock", 1)])
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r.add_reaction(
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[E("out", n_proc - 1)], [("s", 1)], [("done", 1), E("req", n_proc - 1)]
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)
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###################################################
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c = ContextAutomatonWithConcentrations(r)
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c.add_init_state("0")
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c.add_state("1")
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init_ctx = []
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for i in range(n_proc):
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init_ctx.append(E("out", i))
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# the experiments starts with adding x and y:
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c.add_transition("0", init_ctx, "1")
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all_act = powerset([E("act", i) for i in range(n_proc)], 2)
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for actions in all_act:
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actions = list(actions)
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c.add_transition("1", actions, "1")
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# for all the remaining steps we have empty context sequences
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# c.add_transition("1", [], "1")
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# c.add_transition("1", [("h", 1)], "1")
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###################################################
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rc = ReactionSystemWithAutomaton(r, c)
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rc.show()
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f_attack = ltl_F(
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True, bag_And(bag_entity("in_0") == 1, bag_entity("in_" + str(n_proc - 1)) == 1)
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)
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smt_rsc = SmtCheckerRSC(rc)
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smt_rsc.check_rsltl(formula=f_attack)
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time = 0
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mem_usage = resource.getrusage(resource.RUSAGE_SELF).ru_maxrss / (1024 * 1024)
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filename_t = "bench_mutex_nonparam_oldimpl_time.dat"
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filename_m = "bench_mutex_nonparam_oldimpl_mem.dat"
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time = smt_rsc.get_verification_time()
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with open(filename_t, "a") as f:
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log_str = "{:d} {:f}\n".format(n_proc, time)
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f.write(log_str)
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with open(filename_m, "a") as f:
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log_str = "{:d} {:f}\n".format(n_proc, mem_usage)
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f.write(log_str)
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def state_translate_rsc2rs(p):
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return [e[0] + "#" + str(e[1]) for e in p]
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def mutex_bench_main(cmd_args):
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if not cmd_args.special_mode:
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print("Missing special mode parameter")
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print("* 1 - parametric")
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print("* 2 - non-parametric (with parametric implementation)")
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print("* 3 - non-parametric (with non-parametric implementation)")
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return
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smode = int(cmd_args.special_mode)
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if smode == 1:
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mutex_param_bench(cmd_args)
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elif smode == 2:
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mutex_nonparam_bench(cmd_args)
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elif smode == 3:
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mutex_nonparam_bench_oldimpl(cmd_args)
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else:
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print("Unrecognised mode")
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return
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def main():
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parser = argparse.ArgumentParser()
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parser.add_argument(
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"-v", "--verbose", help="turn verbosity on", action="store_true"
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)
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parser.add_argument(
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"-o",
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"--optimise",
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help="minimise the parametric computation result",
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action="store_true",
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)
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parser.add_argument(
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"-n",
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"--scaling-parameter",
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help="scaling parameter value (used in some benchmarks)",
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)
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parser.add_argument(
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"-s", "--special_mode", help="special mode (used in some benchmarks)"
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)
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args = parser.parse_args()
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mutex_bench_main(args)
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if __name__ == "__main__":
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main()
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# EOF
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@@ -1,190 +0,0 @@
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#!/usr/bin/env python
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from rs import *
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from smt import *
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import sys
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import resource
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def chain_reaction(print_system=False):
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if len(sys.argv) < 1+3:
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print("provide N M B")
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print(" B=1 - RSC")
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print(" B=0 - Translated RSC into RS")
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exit(1)
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chainLen=int(sys.argv[1]) # chain length
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maxConc=int(sys.argv[2]) # depth (max concentration)
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verify_rsc=bool(int(sys.argv[3]))
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if chainLen < 1 or maxConc < 1:
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print("be reasonable")
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exit(1)
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r = ReactionSystemWithConcentrations()
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r.add_bg_set_entity(("inc",1))
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# r.add_bg_set_entity(("reset",1))
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r.add_bg_set_entity(("dec",1))
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# r.add_bg_set_entity(("x",1))
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for i in range(1,chainLen+1):
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r.add_bg_set_entity(("e_" + str(i),maxConc))
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for i in range(1,chainLen+1):
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ent = "e_" + str(i)
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# r.add_reaction_inc(ent, "inc", [(ent, 1)],[("reset",1),(ent,maxConc)])
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r.add_reaction_inc(ent, "inc", [(ent, 1)],[(ent,maxConc)])
|
||||
r.add_reaction_dec(ent, "dec", [(ent, 1)],[])
|
||||
# r.add_reaction([(ent,1),("reset",1)],[],[(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.add_reaction([("e_" + str(chainLen),maxConc)],[],[("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("working", [("reset",1)], "working")
|
||||
# c.add_transition("working",[("x",1)],"working")
|
||||
|
||||
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)
|
||||
# smt_rsc.show_encoding(prop,print_time=True,max_level=maxConc*chainLen+10)
|
||||
|
||||
else:
|
||||
orc = rc.get_ordinary_reaction_system_with_automaton()
|
||||
if print_system:
|
||||
print("\nTranslated:")
|
||||
orc.show()
|
||||
smt_tr_rs = SmtCheckerRS(orc)
|
||||
smt_tr_rs.check_reachability(['e_'+str(chainLen)+"#"+str(maxConc)])
|
||||
|
||||
# print("Reaction System with Concentrations:", smt_rsc.get_verification_time())
|
||||
# print("Reaction System from translating RSC:", smt_tr_rs.get_verification_time())
|
||||
|
||||
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.write(log_str)
|
||||
f.close()
|
||||
|
||||
|
||||
def heat_shock_response(print_system=True,verify_rsc=True):
|
||||
|
||||
if len(sys.argv) < 1+1:
|
||||
print("provide B")
|
||||
print(" B=1 - RSC")
|
||||
print(" B=0 - Translated RSC into RS")
|
||||
exit(1)
|
||||
|
||||
verify_rsc=bool(int(sys.argv[1]))
|
||||
|
||||
stress_temp = 42
|
||||
max_temp = 50
|
||||
|
||||
r = ReactionSystemWithConcentrations()
|
||||
r.add_bg_set_entity(("hsp",1))
|
||||
r.add_bg_set_entity(("hsf",1))
|
||||
r.add_bg_set_entity(("hsf2",1))
|
||||
r.add_bg_set_entity(("hsf3",1))
|
||||
r.add_bg_set_entity(("hse",1))
|
||||
r.add_bg_set_entity(("mfp",1))
|
||||
r.add_bg_set_entity(("prot",1))
|
||||
r.add_bg_set_entity(("hsf3:hse",1))
|
||||
r.add_bg_set_entity(("hsp:mfp",1))
|
||||
r.add_bg_set_entity(("hsp:hsf",1))
|
||||
r.add_bg_set_entity(("temp",max_temp))
|
||||
r.add_bg_set_entity(("heat",1))
|
||||
r.add_bg_set_entity(("cool",1))
|
||||
|
||||
r.add_reaction([("hsf",1)], [("hsp",1)], [("hsf3",1)])
|
||||
r.add_reaction([("hsf",1),("hsp",1),("mfp",1)], [], [("hsf3",1)])
|
||||
r.add_reaction([("hsf3",1)], [("hse",1),("hsp",1)],[("hsf",1)])
|
||||
r.add_reaction([("hsf3",1),("hsp",1),("mfp",1)], [("hse",1)], [("hsf",1)])
|
||||
r.add_reaction([("hsf3",1),("hse",1)], [("hsp",1)], [("hsf3:hse",1)])
|
||||
r.add_reaction([("hsp",1),("hsf3",1),("mfp",1),("hse",1)],[], [("hsf3:hse",1)])
|
||||
r.add_reaction([("hse",1)], [("hsf3",1)], [("hse",1)])
|
||||
r.add_reaction([("hsp",1),("hsf3",1),("hse",1)], [("mfp",1)], [("hse",1)])
|
||||
r.add_reaction([("hsf3:hse",1)], [("hsp",1)], [("hsp",1),("hsf3:hse",1)])
|
||||
r.add_reaction([("hsp",1),("mfp",1),("hsf3:hse",1)],[], [("hsp",1),("hsf3:hse",1)])
|
||||
r.add_reaction([("hsf",1),("hsp",1)], [("mfp",1)], [("hsp:hsf",1)])
|
||||
r.add_reaction([("hsp:hsf",1),("temp",stress_temp)],[], [("hsf",1),("hsp",1)])
|
||||
r.add_reaction([("hsp:hsf",1)], [("temp",stress_temp)],[("hsp:hsf",1)])
|
||||
r.add_reaction([("hsp",1),("hsf3:hse",1)], [("mfp",1)], [("hse",1),("hsp:hsf",1)])
|
||||
r.add_reaction([("temp",stress_temp),("prot",1)], [], [("mfp",1),("prot",1)])
|
||||
r.add_reaction([("prot",1)], [("temp",stress_temp)], [("prot",1)])
|
||||
r.add_reaction([("hsp",1),("mfp",1)], [], [("hsp:mfp",1)])
|
||||
r.add_reaction([("mfp",1)], [("hsp",1)], [("mfp",1)])
|
||||
r.add_reaction([("hsp:mfp",1)], [], [("hsp",1),("prot",1)])
|
||||
|
||||
r.add_reaction_inc("temp", "heat", [("temp",1)],[("temp",max_temp)])
|
||||
r.add_reaction_dec("temp", "cool", [("temp",1)],[])
|
||||
|
||||
r.add_permanency("temp",[("heat",1),("cool",1)])
|
||||
#r.add_permanency("temp",[])
|
||||
|
||||
c = ContextAutomatonWithConcentrations(r)
|
||||
c.add_init_state("0")
|
||||
c.add_state("1")
|
||||
# c.add_transition("0", [("prot",1), ("temp",35)], "1")
|
||||
c.add_transition("0", [("hsf",1),("prot",1),("hse",1),("temp",35)], "1")
|
||||
#-> c.add_transition("0", [("hse",1),("prot",1),("hsp:hsf",1),("temp",stress_temp)], "1")
|
||||
# c.add_transition("0", [("hsp",1),("prot",1),("hsf3:hse",1),("mfp",1),("hsp:mfp",1),("temp",30)], "1")
|
||||
c.add_transition("1", [("cool",1)], "1")
|
||||
c.add_transition("1", [("heat",1)], "1")
|
||||
c.add_transition("1", [], "1")
|
||||
# c.add_transition("1", [("sugar",1)], "1")
|
||||
|
||||
rc = ReactionSystemWithAutomaton(r,c)
|
||||
|
||||
if print_system:
|
||||
rc.show()
|
||||
|
||||
# prop_req = [("hsp:hsf",1),("hse",1),("prot",1)]
|
||||
# prop_block = [("temp",stress_temp)]
|
||||
prop_req = [ ("mfp",1) ]
|
||||
prop_block = [ ]
|
||||
prop = (prop_req,prop_block)
|
||||
rs_prop = (state_translate_rsc2rs(prop_req),state_translate_rsc2rs(prop_block))
|
||||
|
||||
if verify_rsc:
|
||||
smt_rsc = SmtCheckerRSC(rc)
|
||||
smt_rsc.check_reachability(prop,max_level=40)
|
||||
else:
|
||||
orc = rc.get_ordinary_reaction_system_with_automaton()
|
||||
if print_system:
|
||||
print("\nTranslated:")
|
||||
orc.show()
|
||||
smt_tr_rs = SmtCheckerRS(orc)
|
||||
smt_tr_rs.check_reachability(rs_prop)
|
||||
|
||||
def state_translate_rsc2rs(p):
|
||||
return [e[0] + "#" + str(e[1]) for e in p]
|
||||
|
||||
# EOF
|
||||
Reference in New Issue
Block a user