source: trunk/yat/omic/BamReadFilter.cc @ 3417

Last change on this file since 3417 was 3417, checked in by Peter, 4 years ago

updating copyright statements

  • Property svn:eol-style set to native
  • Property svn:keywords set to Id
File size: 1.2 KB
Line 
1// $Id: BamReadFilter.cc 3417 2015-05-25 01:35:59Z peter $
2
3/*
4  Copyright (C) 2013, 2014 Peter Johansson
5
6  This file is part of the yat library, http://dev.thep.lu.se/yat
7
8  The yat library is free software; you can redistribute it and/or
9  modify it under the terms of the GNU General Public License as
10  published by the Free Software Foundation; either version 3 of the
11  License, or (at your option) any later version.
12
13  The yat library is distributed in the hope that it will be useful,
14  but WITHOUT ANY WARRANTY; without even the implied warranty of
15  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
16  General Public License for more details.
17
18  You should have received a copy of the GNU General Public License
19  along with this program. If not, see <http://www.gnu.org/licenses/>.
20*/
21
22#include <config.h>
23
24#include "BamReadFilter.h"
25
26#include "BamRead.h"
27
28namespace theplu {
29namespace yat {
30namespace omic {
31
32  BamReadFilter::BamReadFilter(unsigned char q, unsigned int filtered,
33                               unsigned int required)
34    : mapQ_(q), filtered_(filtered), required_(required)
35  {
36  }
37
38
39  bool BamReadFilter::operator()(const BamRead& bam) const
40  {
41    if (bam.core().qual < mapQ_)
42      return false;
43    if (bam.core().flag & filtered_)
44      return false;
45    return (bam.core().flag & required_) == required_;
46  }
47
48}}}
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