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// $Id$ |
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/* |
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Copyright (C) 2013, 2018 Peter Johansson |
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This file is part of the yat library, http://dev.thep.lu.se/yat |
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The yat library is free software; you can redistribute it and/or |
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modify it under the terms of the GNU General Public License as |
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published by the Free Software Foundation; either version 3 of the |
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License, or (at your option) any later version. |
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The yat library is distributed in the hope that it will be useful, |
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but WITHOUT ANY WARRANTY; without even the implied warranty of |
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MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
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General Public License for more details. |
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You should have received a copy of the GNU General Public License |
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along with yat. If not, see <http://www.gnu.org/licenses/>. |
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*/ |
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#include <config.h> |
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#include "BamReadFilter.h" |
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#include "BamRead.h" |
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namespace theplu { |
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namespace yat { |
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namespace omic { |
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BamReadFilter::BamReadFilter(unsigned char q, unsigned int filtered, |
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unsigned int required) |
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: mapQ_(q), filtered_(filtered), required_(required) |
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{ |
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} |
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bool BamReadFilter::operator()(const BamRead& bam) const |
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{ |
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if (bam.core().qual < mapQ_) |
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return false; |
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if (bam.core().flag & filtered_) |
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return false; |
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return (bam.core().flag & required_) == required_; |
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} |
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}}} |