107 lines
4.3 KiB
Python
107 lines
4.3 KiB
Python
#!/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 heat_shock_response(print_system=True,verify_rsc=True):
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if len(sys.argv) < 1+1:
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print("provide 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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verify_rsc=bool(int(sys.argv[1]))
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stress_temp = 42
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max_temp = 50
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r = ReactionSystemWithConcentrations()
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r.add_bg_set_entity(("hsp",1))
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r.add_bg_set_entity(("hsf",1))
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r.add_bg_set_entity(("hsf2",1))
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r.add_bg_set_entity(("hsf3",1))
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r.add_bg_set_entity(("hse",1))
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r.add_bg_set_entity(("mfp",1))
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r.add_bg_set_entity(("prot",1))
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r.add_bg_set_entity(("hsf3:hse",1))
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r.add_bg_set_entity(("hsp:mfp",1))
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r.add_bg_set_entity(("hsp:hsf",1))
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r.add_bg_set_entity(("temp",max_temp))
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r.add_bg_set_entity(("heat",1))
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r.add_bg_set_entity(("cool",1))
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r.add_reaction([("hsf",1)], [("hsp",1)], [("hsf3",1)])
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r.add_reaction([("hsf",1),("hsp",1),("mfp",1)], [], [("hsf3",1)])
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r.add_reaction([("hsf3",1)], [("hse",1),("hsp",1)],[("hsf",1)])
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r.add_reaction([("hsf3",1),("hsp",1),("mfp",1)], [("hse",1)], [("hsf",1)])
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r.add_reaction([("hsf3",1),("hse",1)], [("hsp",1)], [("hsf3:hse",1)])
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r.add_reaction([("hsp",1),("hsf3",1),("mfp",1),("hse",1)],[], [("hsf3:hse",1)])
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r.add_reaction([("hse",1)], [("hsf3",1)], [("hse",1)])
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r.add_reaction([("hsp",1),("hsf3",1),("hse",1)], [("mfp",1)], [("hse",1)])
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r.add_reaction([("hsf3:hse",1)], [("hsp",1)], [("hsp",1),("hsf3:hse",1)])
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r.add_reaction([("hsp",1),("mfp",1),("hsf3:hse",1)],[], [("hsp",1),("hsf3:hse",1)])
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r.add_reaction([("hsf",1),("hsp",1)], [("mfp",1)], [("hsp:hsf",1)])
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r.add_reaction([("hsp:hsf",1),("temp",stress_temp)],[], [("hsf",1),("hsp",1)])
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r.add_reaction([("hsp:hsf",1)], [("temp",stress_temp)],[("hsp:hsf",1)])
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r.add_reaction([("hsp",1),("hsf3:hse",1)], [("mfp",1)], [("hse",1),("hsp:hsf",1)])
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r.add_reaction([("temp",stress_temp),("prot",1)], [], [("mfp",1),("prot",1)])
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r.add_reaction([("prot",1)], [("temp",stress_temp)], [("prot",1)])
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r.add_reaction([("hsp",1),("mfp",1)], [], [("hsp:mfp",1)])
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r.add_reaction([("mfp",1)], [("hsp",1)], [("mfp",1)])
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r.add_reaction([("hsp:mfp",1)], [], [("hsp",1),("prot",1)])
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r.add_reaction_inc("temp", "heat", [("temp",1)],[("temp",max_temp)])
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r.add_reaction_dec("temp", "cool", [("temp",1)],[])
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r.add_permanency("temp",[("heat",1),("cool",1)])
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#r.add_permanency("temp",[])
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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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# c.add_transition("0", [("prot",1), ("temp",35)], "1")
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c.add_transition("0", [("hsf",1),("prot",1),("hse",1),("temp",35)], "1")
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#-> c.add_transition("0", [("hse",1),("prot",1),("hsp:hsf",1),("temp",stress_temp)], "1")
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# c.add_transition("0", [("hsp",1),("prot",1),("hsf3:hse",1),("mfp",1),("hsp:mfp",1),("temp",30)], "1")
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c.add_transition("1", [("cool",1)], "1")
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c.add_transition("1", [("heat",1)], "1")
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c.add_transition("1", [], "1")
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# c.add_transition("1", [("sugar",1)], "1")
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rc = ReactionSystemWithAutomaton(r,c)
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if print_system:
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rc.show()
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# prop_req = [("hsp:hsf",1),("hse",1),("prot",1)]
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# prop_block = [("temp",stress_temp)]
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prop_req = [ ("mfp",1) ]
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prop_block = [ ]
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prop = (prop_req,prop_block)
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rs_prop = (state_translate_rsc2rs(prop_req),state_translate_rsc2rs(prop_block))
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if verify_rsc:
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smt_rsc = SmtCheckerRSC(rc)
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smt_rsc.check_reachability(prop,max_level=40)
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else:
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orc = rc.get_ordinary_reaction_system_with_automaton()
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if print_system:
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print("\nTranslated:")
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orc.show()
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smt_tr_rs = SmtCheckerRS(orc)
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smt_tr_rs.check_reachability(rs_prop)
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def main():
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heat_shock_response()
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if __name__ == "__main__":
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main()
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# EOF
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