/usr/include/seqan/index/find_quasar.h is in seqan-dev 1.3.1-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 | // ==========================================================================
// SeqAn - The Library for Sequence Analysis
// ==========================================================================
// Copyright (c) 2006-2010, Knut Reinert, FU Berlin
// All rights reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions are met:
//
// * Redistributions of source code must retain the above copyright
// notice, this list of conditions and the following disclaimer.
// * Redistributions in binary form must reproduce the above copyright
// notice, this list of conditions and the following disclaimer in the
// documentation and/or other materials provided with the distribution.
// * Neither the name of Knut Reinert or the FU Berlin nor the names of
// its contributors may be used to endorse or promote products derived
// from this software without specific prior written permission.
//
// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
// AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
// IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
// ARE DISCLAIMED. IN NO EVENT SHALL KNUT REINERT OR THE FU BERLIN BE LIABLE
// FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
// DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
// SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
// CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
// LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
// OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH
// DAMAGE.
//
// ==========================================================================
// Author: Tobias Rausch <rausch@embl.de>
// ==========================================================================
#ifndef SEQAN_HEADER_FIND_QUASAR_H
#define SEQAN_HEADER_FIND_QUASAR_H
namespace SEQAN_NAMESPACE_MAIN
{
//////////////////////////////////////////////////////////////////////////////
// Quasar
//////////////////////////////////////////////////////////////////////////////
//DISABLED .Class.Pattern.param.TSpec.type:Spec.Quasar
struct Quasar_;
typedef Tag<Quasar_> Quasar;
//////////////////////////////////////////////////////////////////////////////
template <typename TNeedle>
class Pattern<TNeedle, Quasar> {
//____________________________________________________________________________
private:
Pattern(Pattern const& other);
Pattern const& operator=(Pattern const & other);
//____________________________________________________________________________
public:
Holder<TNeedle> data_host;
//____________________________________________________________________________
Pattern() {
}
template <typename TNeedle2>
Pattern(TNeedle2 const & ndl)
{
SEQAN_CHECKPOINT
setHost(*this, ndl);
}
~Pattern() {
SEQAN_CHECKPOINT
}
//____________________________________________________________________________
};
//////////////////////////////////////////////////////////////////////////////
// Host Metafunctions
//////////////////////////////////////////////////////////////////////////////
template <typename TNeedle>
struct Host< Pattern<TNeedle, Quasar> >
{
typedef TNeedle Type;
};
template <typename TNeedle>
struct Host< Pattern<TNeedle, Quasar> const>
{
typedef TNeedle const Type;
};
//////////////////////////////////////////////////////////////////////////////
// Functions
//////////////////////////////////////////////////////////////////////////////
template <typename TNeedle, typename TNeedle2>
inline void
setHost (Pattern<TNeedle, Quasar> & me, TNeedle2 const& needle)
{
SEQAN_CHECKPOINT
setValue(me.data_host, needle);
}
template <typename TNeedle, typename TNeedle2>
inline void
setHost (Pattern<TNeedle, Quasar> & me, TNeedle2 & needle)
{
setHost(me, reinterpret_cast<TNeedle2 const &>(needle));
}
//____________________________________________________________________________
template <typename TNeedle>
inline void _patternInit (Pattern<TNeedle, Quasar> & /*me*/)
{
SEQAN_CHECKPOINT
}
//____________________________________________________________________________
template <typename TNeedle>
inline typename Host<Pattern<TNeedle, Quasar>const>::Type &
host(Pattern<TNeedle, Quasar> & me)
{
SEQAN_CHECKPOINT
return value(me.data_host);
}
template <typename TNeedle>
inline typename Host<Pattern<TNeedle, Quasar>const>::Type &
host(Pattern<TNeedle, Quasar> const & me)
{
SEQAN_CHECKPOINT
return value(me.data_host);
}
//____________________________________________________________________________
template <typename TFinder, typename TNeedle>
inline bool
find(TFinder & finder, Pattern<TNeedle, Quasar> & me)
{
SEQAN_CHECKPOINT
if (empty(finder)) {
_patternInit(me);
_finderSetNonEmpty(finder);
} else {
finder+=4;
}
return true;
}
}// namespace SEQAN_NAMESPACE_MAIN
#endif //#ifndef SEQAN_HEADER_FIND_SHIFTAND_H
|