|
public Build ( |
||
| bitmap | ||
| B | short | |
| Résultat | void | |
public void Save_CSA_BWT(string sa_name, int sample_step)
{
Console.WriteLine ("Save_CSA_BWT destroys the SA, if you need the plain SA");
Console.WriteLine ("first save it and reload it after the call");
using (var Output = new BinaryWriter (File.Create (sa_name + ".structs"))) {
RankSelectGenericIO.Save (Output, this.newF);
PrimitiveIO<int>.WriteVector (Output, this.charT);
}
using (var Output = new BinaryWriter (File.Create (sa_name + ".samples"))) {
Output.Write ((short)sample_step);
var B = new BitStream32 ();
int numbits = (int)Math.Ceiling (Math.Log (this.SA.Length, 2));
var SA_samples = new List<int> ();
var SA_invsamples = new List<int> ();
for (int i = 0; i < this.SA.Length; i++) {
var s = this.SA[i];
if ((s + 1 == this.SA.Length) || (s % sample_step == 0)) {
B.Write (true);
SA_samples.Add (s);
SA_invsamples.Add (i);
} else {
B.Write (false);
}
}
GGMN G = new GGMN ();
G.Build (B, 8);
RankSelectGenericIO.Save (Output, G);
{
var _SA_samples = new ListIFS (numbits);
foreach (var u in SA_samples) {
_SA_samples.Add (u);
}
_SA_samples.Save (Output);
}
{
Sorting.Sort<int, int> (SA_samples, SA_invsamples);
var _SA_invsamples = new ListIFS (numbits);
foreach (var u in SA_invsamples) {
_SA_invsamples.Add (u);
}
_SA_invsamples.Save (Output);
SA_samples = null;
SA_invsamples = null;
}
}
// building bwt
using (var Output = new BinaryWriter (File.Create (sa_name + ".bwt"))) {
int alphabet_numbits = (int)Math.Ceiling (Math.Log (this.charT.Count + 1, 2));
var L = new ListIFS (alphabet_numbits);
int bwt_len = this.SA.Length;
for (int i = 0; i < bwt_len; i++) {
var v = this.SA[i];
if (v == 0) {
L.Add (0);
} else {
// Output.Write ("{0} ", (int)this.Text[v - 1]);
var c = this.Text[v - 1];
var u = GenericSearch.FindLast<int> (c, this.charT, 1, this.charT.Count);
L.Add (u);
}
}
L.Save (Output);
// for (int i = 0; i < bwt_len; i++) {
// var v = this.SA[i];
// if (v == 0) {
// Output.Write ("{0} ", -1);
// } else {
// // Output.Write ("{0} ", (int)this.Text[v - 1]);
// var c = this.Text[v - 1];
// var u = GenericSearch.FindLast<int> (c, this.charT);
// Output.Write ("{0} ", u);
// }
// }
// PrimitiveIO<byte>.WriteVector (Output, BWT);
}
// building psi
using (var Output = new BinaryWriter (File.Create (sa_name + ".psi"))) {
var INV = new int[this.SA.Length];
for (int i = 0; i < INV.Length; i++) {
INV[this.SA[i]] = i;
}
var PSI = this.SA;
for (int i = 0; i < PSI.Length; i++) {
var p = (PSI[i] + 1) % PSI.Length;
PSI[i] = INV[p];
}
PrimitiveIO<int>.WriteVector (Output, PSI);
/*Console.Write ("charT => ");
for (int i = 0; i < this.charT.Count; i++) {
Console.Write ("[{0}] ", (char)this.charT[i]);
}
Console.WriteLine ();
Console.Write ("newF => ");
for (int i = 0; i < this.newF.Count1; i++) {
Console.Write ("{0} ", this.newF.Select1(i+1));
}
Console.WriteLine ();
Console.Write ("PSI => ");
for (int i = 0; i < PSI.Length; i++) {
Console.Write ("{0} ", PSI[i]);
}
Console.WriteLine ();
*/
INV = null;
}
this.SA = null;
}
public GGMN GetGGMN(short step)
{
var g = new GGMN ();
g.Build (this.B, step);
return g;
}
public static BitmapFromList GetGGMN(short sample_step)
{
return delegate (IList<int> L) {
var rs = new GGMN ();
rs.Build (L, sample_step);
return rs;
};
}