1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
use crate::{BinaryOp, BooleanNetwork, FnUpdate, VariableId};
use regex::Regex;
impl BooleanNetwork {
pub fn to_bnet(&self, rename_if_necessary: bool) -> Result<String, String> {
let mut network = self.clone();
let name_re = Regex::new(r"^[a-zA-Z_][a-zA-Z0-9_]*$").unwrap();
for var in network.variables() {
let name = network.get_variable_name(var);
if !name_re.is_match(name) {
if rename_if_necessary {
let new_name = format!("_{}", name);
network.as_graph_mut().set_variable_name(var, &new_name)?;
} else {
return Err(format!(
"Variable {} cannnot be exported to bnet. Please rename it first.",
name
));
}
}
}
let mut model = "targets,factors\n".to_string();
for v in network.variables() {
let name = network.get_variable_name(v);
if let Some(function) = network.get_update_function(v) {
let function_string = fn_update_to_bnet_string(v, function, self)?;
let line = format!("{}, {}\n", name, function_string);
model.push_str(line.as_str());
} else {
if self.regulators(v).is_empty() {
continue;
} else {
return Err("Parametrised network cannot be converted to .bnet.".to_string());
}
}
}
Ok(model)
}
}
fn fn_update_to_bnet_string(
var: VariableId,
function: &FnUpdate,
network: &BooleanNetwork,
) -> Result<String, String> {
Ok(match function {
FnUpdate::Var(id) => network.get_variable_name(*id).clone(),
FnUpdate::Param(id, args) => {
if args.is_empty() {
network.get_parameter(*id).get_name().to_string()
} else {
return Err(
"Networks with free functions cannot be converted to .bnet.".to_string()
);
}
}
FnUpdate::Const(value) => {
let name = network.get_variable_name(var);
if *value {
format!("({} | !{})", name, name)
} else {
format!("({} & !{})", name, name)
}
}
FnUpdate::Not(inner) => {
format!("!{}", fn_update_to_bnet_string(var, inner, network)?)
}
FnUpdate::Binary(op, left, right) => {
let left = fn_update_to_bnet_string(var, left, network)?;
let right = fn_update_to_bnet_string(var, right, network)?;
match *op {
BinaryOp::And => format!("({} & {})", left, right),
BinaryOp::Or => format!("({} | {})", left, right),
BinaryOp::Imp => format!("(!{} | {})", left, right),
BinaryOp::Iff => format!("(({} & {}) | (!{} & !{}))", left, right, left, right),
BinaryOp::Xor => format!("(({} & !{}) | (!{} & {}))", left, right, left, right),
}
}
})
}
#[cfg(test)]
mod tests {
use crate::BooleanNetwork;
use std::convert::TryFrom;
#[test]
fn test_network_to_bnet() {
let model = std::fs::read_to_string("aeon_models/g2a_instantiated.aeon").unwrap();
let network = BooleanNetwork::try_from(model.as_str()).unwrap();
let network_after =
BooleanNetwork::try_from_bnet(network.to_bnet(false).unwrap().as_str()).unwrap();
assert_eq!(network.graph.num_vars(), network_after.graph.num_vars());
for v in network.graph.variables() {
assert_eq!(
network.graph.get_variable(v),
network_after.graph.get_variable(v)
);
assert_eq!(
network.graph.regulators(v),
network_after.graph.regulators(v)
);
assert_eq!(
network.get_update_function(v),
network_after.get_update_function(v)
);
for reg in network.graph.regulators(v) {
let r1 = network.graph.find_regulation(reg, v).unwrap();
let r2 = network_after.graph.find_regulation(reg, v).unwrap();
assert_eq!(r1.regulator, r2.regulator);
assert_eq!(r1.target, r2.target);
}
}
}
#[test]
fn test_network_to_bnet_invalid() {
let bn = BooleanNetwork::try_from("A -> B \n B -> A").unwrap();
assert!(bn.to_bnet(false).is_err());
let bn = BooleanNetwork::try_from("3A -> B \n B -> 3A \n $B:3A \n $3A:B").unwrap();
assert!(bn.to_bnet(false).is_err());
assert!(bn.to_bnet(true).is_ok());
}
}