public static void graph(reactor rec, int seed, double lambda, int nb){
rec.export_graphviz ("out_" + seed + "_" + lambda + "_" + nb + ".dot");
// rec.export_particles_list ("part.rec");
var g = rec.create_graph ();
IDictionary<int,int> components = new Dictionary<int,int> ();
int count = g.WeaklyConnectedComponents (components);
Console.Write (count + " " + rec.npart + " " + ((double)count) / (rec.npart));
List<particle>[] u = new List<particle>[count];
for (int i = 0; i < count; i++)
u [i] = new List<particle> ();
foreach (KeyValuePair<int,int> kv in components) {
u [kv.Value].Add (rec.get_particle_id (kv.Key));
}
int tk = 0;
for (int i = 0; i < count; i++)
tk += u [i].Count;
Console.WriteLine (" " + ((float)tk) / count);
for (int i = 0; i < count; i++) {
List<particle> l = u [i];
particle p = l.Find (x => x.st.type == 5);
if (p != null) {
particle current = p;
bool done = true;
while (done) {
Console.Write (current.st);
l.Remove (current);
if (current.linked.Count > 0) {
int nc = current.linked.Count;
int z = 0;
while (z < nc && !l.Contains (rec.get_particle_id (current.linked [z]))) {
z++;
}
if (z == nc)
done = false;
else {
current = rec.get_particle_id (current.linked [z]);
}
}
}
Console.WriteLine ("");
} else {
foreach (particle r in l) {
Console.Write (r.st);
}
Console.WriteLine ("");
}
}
}
public static void Main (string[] args)
{
int seed = Int32.Parse (args [0]);
double lambda = double.Parse (args [1]);
int nb = Int32.Parse (args [2]);
//double kappa = double.Parse (args [3]);
string js_name = args [3];
string json;
using (System.IO.StreamReader r = new System.IO.StreamReader (js_name)) {
json = r.ReadToEnd ();
}
ensemble e = JsonConvert.DeserializeObject<ensemble> (json);
reactor rec = new reactor ();
for(int x = 0; x < nb; x++)
rec.insert_ensemble (e);
var lr0 = b_rule.generate_rules (7, false, 5, 8, 5, 0, true, 4, 3,1,lambda);
var lr1 = b_rule.generate_rules (7, true, -1, 4, -2, 1, true, 2, 5,2,lambda);
var lr2 = b_rule.generate_rules (7, false, -1, 5, -1, 0, true, 7, 6,3,lambda);
var lr3 = b_rule.generate_rules (7, false, -1, 3, -2, 6, true, 2, 13, 4,lambda);
var lr4 = b_rule.generate_rules (7, true, -1, 7, -2, 13, true, 4, 3,5,lambda);
var lr5 = b_rule.generate_rules (7, true, 6, 4, 6, 3, false, 8, 8,6,lambda);
var lr6 = b_rule.generate_rules (7, true, -1, 2, -2, 8, true, 9, 1,7,lambda);
var lr7 = b_rule.generate_rules (7, true, -1, 9, -2, 9, false, 8, 8, 8,lambda);
foreach(b_rule r in lr0) rec.add_rule(r);
foreach(b_rule r in lr1) rec.add_rule(r);
foreach(b_rule r in lr2) rec.add_rule(r);
foreach(b_rule r in lr3) rec.add_rule(r);
foreach(b_rule r in lr4) rec.add_rule(r);
foreach(b_rule r in lr5) rec.add_rule(r);
foreach(b_rule r in lr6) rec.add_rule(r);
foreach(b_rule r in lr7) rec.add_rule(r);
double lambda_p = 1e-6;
for (int i = 1; i < 7; i++) {
var er0 = new o_rule (i, 0, lambda_p);
rec.add_rule (er0);
}
double lambda_d = 1e-7;
for (int i = 1; i < 7; i++) {
for (int j = 0; j < 1; j++) {
var er0 = new d_rule (i, j, lambda_d, 0);
rec.add_rule (er0);
}
}
for (int i = 0; i < 10; i++) {
rec.add_particle (new particle (1, 0));
rec.add_particle (new particle (2, 0));
rec.add_particle (new particle (3, 0));
rec.add_particle (new particle (4, 0));
rec.add_particle (new particle (5, 0));
rec.add_particle (new particle (6, 0));
}
double tau;
double total_time = 0.0;
Random rd = new Random (seed);
int step = 0;
int idx;
int ndiv = 0;
while (rec.gillespie_step (rd,out tau, out idx)) {
total_time +=tau;
step++;
int npart = rec.particles.Count;
if (npart>100000)
break;
Console.WriteLine (step+ " " + npart + " " + ndiv + " " + total_time + " " + idx + " " + rec.get_rule(idx).idx + " " + rec.get_rule(idx));
if (idx == 245)
ndiv ++;
if (step % 1000 == 0) {
var g = rec.create_graph ();
IDictionary<int,int> components = new Dictionary<int,int> ();
int count = g.WeaklyConnectedComponents (components);
List<particle>[] u = new List<particle>[count];
for (int i = 0; i < count; i++)
u [i] = new List<particle> ();
foreach (KeyValuePair<int,int> kv in components) {
u [kv.Value].Add (rec.get_particle_id (kv.Key));
}
using(System.IO.StreamWriter str = new System.IO.StreamWriter("out"+step+".out")){
for (int i = 0; i < count; i++)
str.Write(u [i].Count + " ");
}
rec.export_graphviz ("out_" + seed + "_" + lambda + "_" + nb + "_" + step + ".dot");
}
}
/* var g = rec.create_graph ();
IDictionary<int,int> components = new Dictionary<int,int> ();
int count = g.WeaklyConnectedComponents (components);
List<particle>[] u = new List<particle>[count];
for (int i = 0; i < count; i++)
u [i] = new List<particle> ();
foreach (KeyValuePair<int,int> kv in components) {
u [kv.Value].Add (rec.get_particle_id (kv.Key));
}
using(System.IO.StreamWriter str = new System.IO.StreamWriter("out.out")){
for (int i = 0; i < count; i++)
str.Write(u [i].Count + " ");
}
int tk = 0;
for (int i = 0; i < count; i++)
tk += u [i].Count;
*/
/* Console.Write(lambda + " " + nb + " " + kappa + " " + seed + " " + step+" " + total_time+ " " + count + " " + rec.npart + " " + ((double)count) / (rec.npart));
Console.Write (" " + ndiv);
Console.WriteLine (" " + ((float)tk) / count);
*/
rec.export_graphviz ("out_" + seed + "_" + lambda + "_" + nb + ".dot");
}
