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cleanup

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Artur Meski
2017-09-03 15:15:26 +01:00
parent a2dc2ec31f
commit 2957a7ac52
1 changed files with 67 additions and 54 deletions
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27
rs/reaction_system_with_concentrations_param.py
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@@ -323,7 +323,9 @@ class ReactionSystemWithConcentrationsParam(ReactionSystem):
if command in self.max_conc_per_ent:
max_cmd_c = self.max_conc_per_ent[command]
else:
print("WARNING:\n\tThere is no maximal concentration level defined for " + self.get_entity_name(command))
print(
"WARNING:\n\tThere is no maximal concentration level defined for "
+ self.get_entity_name(command))
print("\tThis is a very bad idea -- expect degraded performance\n")
for l in range(1, max_cmd_c + 1):
@@ -342,12 +344,16 @@ class ReactionSystemWithConcentrationsParam(ReactionSystem):
new_products = []
succ_value = i + l
for j in range(1, succ_value + 1):
if j > self.max_concentration: break
if j > self.max_concentration:
break
new_p = param_ent_name + "#" + str(j)
rs.ensure_bg_set_entity(new_p)
new_products.append(new_p)
if new_products != []:
rs.add_reaction(set(new_reactants + [pre_conc,cmd_ent]), set(new_inhibitors), set(new_products))
rs.add_reaction(
set(new_reactants + [pre_conc, cmd_ent]),
set(new_inhibitors),
set(new_products))
elif r_type == "dec":
for i in range(1, self.max_concentration + 1):
@@ -356,15 +362,20 @@ class ReactionSystemWithConcentrationsParam(ReactionSystem):
new_products = []
succ_value = i - l
for j in range(1, succ_value + 1):
if j > self.max_concentration: break
if j > self.max_concentration:
break
new_p = param_ent_name + "#" + str(j)
rs.ensure_bg_set_entity(new_p)
new_products.append(new_p)
if new_products != []:
rs.add_reaction(set(new_reactants + [pre_conc,cmd_ent]), set(new_inhibitors), set(new_products))
rs.add_reaction(
set(new_reactants + [pre_conc, cmd_ent]),
set(new_inhibitors),
set(new_products))
else:
raise RuntimeError("Unknown meta-reaction type: " + repr(r_type))
raise RuntimeError(
"Unknown meta-reaction type: " + repr(r_type))
for ent, inhibitors in self.permanent_entities.items():
@@ -372,7 +383,9 @@ class ReactionSystemWithConcentrationsParam(ReactionSystem):
if ent in self.max_conc_per_ent:
max_c = self.max_conc_per_ent[ent]
else:
print("WARNING:\n\tThere is no maximal concentration level defined for " + self.get_entity_name(ent))
print(
"WARNING:\n\tThere is no maximal concentration level defined for "
+ self.get_entity_name(ent))
print("\tThis is a very bad idea -- expect degraded performance\n")
def e_value(i):