Example Program
Index Finder
Example for using a Finder of an Index.
This example shows how to use the Finder class for an Index search.
File "index_find.cpp"
1#include <iostream>
2#include <seqan/index.h>
3
4using namespace std;
5using namespace seqan;
6
7int main ()
8{
The following code creates an Index of "tobeornottobe". As there is no second template parameter given to Index<..>, the default index based on an enhanced suffix array is used.
9    Index< String<char> > index_esa("tobeornottobe");
10    Finder< Index< String<char> > > finder_esa(index_esa);
11
12    cout << "hit at ";
13    while (find(finder_esa, "be"))
14        cout << position(finder_esa) << " ";
15    cout << endl;
16
Now we explicitly create a q-gram index using an ungapped 2-gram and do the same. Instead of this fixed-size shape you can use arbitrary shapes and assign them before calling find via indexShape.
17    typedef Index< String<char>, Index_QGram< FixedShape<2> > > TQGramIndex;
18    TQGramIndex index_2gram("tobeornottobe");
19    Finder< TQGramIndex > finder_2gram(index_2gram);
20
21    cout << "hit at ";
22    while (find(finder_2gram, "be"))
23        cout << position(finder_2gram) << " ";
24    cout << endl;
25
26    return 0;
27}
Output
weese@tanne:~/seqan$ cd demos
weese@tanne:~/seqan/demos$ make index_find
weese@tanne:~/seqan/demos$ ./index_find
hit at 11 2 
hit at 2 11
weese@tanne:~/seqan/demos$
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