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Artur Meski
2016-03-07 21:29:02 +01:00
parent 3a6d771f04
commit 2387e8ad26
3 changed files with 15 additions and 16 deletions
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22
rs_examples.py
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@@ -475,8 +475,8 @@ def heat_shock_response(print_system=True,verify_rsc=True):
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)], [("hsp",1),("hse",1)],[("hsf",1)])
r.add_reaction([("hsp",1),("hsf3",1),("mfp",1)], [("hse",1)], [("hsf",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)])
@@ -487,8 +487,8 @@ def heat_shock_response(print_system=True,verify_rsc=True):
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)],[("mfp",1),("prot",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)])
@@ -504,7 +504,7 @@ def heat_shock_response(print_system=True,verify_rsc=True):
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", [("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")
@@ -516,15 +516,15 @@ def heat_shock_response(print_system=True,verify_rsc=True):
if print_system:
rc.show()
prop_req = [("hsp",1),("prot",1),("hsf3:hse",1),("mfp",1),("hsp:mfp",1),("temp",30)]
prop_block = [("temp",stress_temp)]
prop = (prop_req,prop_block)
rs_prop = (state_translate_rsc2rs(prop_req),state_translate_rsc2rs(prop_block))
# 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)
# prop = ([("mfp",1)],[("temp",21)]) # no stress
#prop = ([("temp",36)],[]) # no stress
smt_rsc.check_reachability(prop,max_level=40)
else:
orc = rc.get_ordinary_reaction_system_with_automaton()

5
rssmt.py
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@@ -29,9 +29,8 @@ rsmc_banner = """
def process():
# rs_examples.run_counter_exp()
# rs_examples.chain_reaction(print_system=True)
# rs_examples.blood_glucose_regulation()
rs_examples.heat_shock_response()
rs_examples.chain_reaction(print_system=True)
# rs_examples.heat_shock_response()
##################################################################

4
run_3d.sh
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@@ -6,12 +6,12 @@
for i in `seq 1 20`
for i in `seq 1 2 20`
do
#./rssmt.py $i | tee "out/result_$i.out"
#echo "$i: $(tail -1 out/result_$i.out)" >> out/all.out
echo $i
for j in `seq 1 20`
for j in `seq 1 2 20`
do
echo $i $j
for t in 1 0