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comparison BEDTools-Version-2.14.3/src/linksBed/linksBed.h @ 0:dfcd8b6c1bda

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author aaronquinlan
date Thu, 03 Nov 2011 10:25:04 -0400
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1 /*****************************************************************************
2 linksBed.h
3
4 (c) 2009 - Aaron Quinlan
5 Hall Laboratory
6 Department of Biochemistry and Molecular Genetics
7 University of Virginia
8 aaronquinlan@gmail.com
9
10 Licenced under the GNU General Public License 2.0 license.
11 ******************************************************************************/
12 #include "bedFile.h"
13 #include <vector>
14 #include <algorithm>
15 #include <iostream>
16 #include <fstream>
17
18 using namespace std;
19
20 //************************************************
21 // Class methods and elements
22 //************************************************
23 class BedLinks {
24
25 public:
26
27 // constructor
28 BedLinks(string &bedFile, string &base, string &org, string &db);
29
30 // destructor
31 ~BedLinks(void);
32
33 private:
34 string _bedFile;
35 string _base;
36 string _org;
37 string _db;
38
39 // instance of a bed file class.
40 BedFile *_bed;
41
42 void WriteURL(BED &bed, string &base);
43 void CreateLinks(); // the default. sorts by chrom (asc.) then by start (asc.)
44 };