This file is indexed.

/usr/include/TiledArray/conversions/make_array.h is in libtiledarray-dev 0.6.0-5.

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
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
/*
 *  This file is a part of TiledArray.
 *  Copyright (C) 2015  Virginia Tech
 *
 *  This program is free software: you can redistribute it and/or modify
 *  it under the terms of the GNU General Public License as published by
 *  the Free Software Foundation, either version 3 of the License, or
 *  (at your option) any later version.
 *
 *  This program is distributed in the hope that it will be useful,
 *  but WITHOUT ANY WARRANTY; without even the implied warranty of
 *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 *  GNU General Public License for more details.
 *
 *  You should have received a copy of the GNU General Public License
 *  along with this program.  If not, see <http://www.gnu.org/licenses/>.
 *
 *  Justus Calvin
 *  Department of Chemistry, Virginia Tech
 *
 *  array_init.h
 *  Dec 15, 2015
 *
 */

#ifndef TILEDARRAY_CONVERSIONS_MAKE_ARRAY_H__INCLUDED
#define TILEDARRAY_CONVERSIONS_MAKE_ARRAY_H__INCLUDED

#include <TiledArray/madness.h>
#include <TiledArray/type_traits.h>

/// Forward declarations
namespace Eigen {
  template <typename> class aligned_allocator;
} // namespace Eigen

namespace TiledArray {

  /// Construct dense Array

  /// This function is used to construct a `DistArray` object. Users must
  /// provide a world object, tiled range object, and function/functor that
  /// generates the tiles for the new array object. For example, if we want to
  /// create an array with were the elements are equal to `1`:
  /// \code
  /// TiledArray::TArray<double> out_array =
  ///     make_array<TiledArray::TArray<double> >(world, trange, pmap,
  ///           [=] (TiledArray::Tensor<double>& tile, const TiledArray::Range& range) {
  ///             tile = TiledArray::Tensor<double>(range);
  ///             for(auto& it : tile)
  ///               *it = 1;
  ///           });
  /// \endcode
  /// Note that the result is default constructed before (contains no data) and
  /// must be initialized inside the function/functor with the provided range
  /// object. The expected signature of the tile operation is:
  /// \code
  /// void op(tile_t& tile, const range_t& range);
  /// \endcode
  /// where `tile_t` and `range_t` are your tile type and tile range type,
  /// respectively.
  /// \tparam Array The `DistArray` type
  /// \tparam Op Tile operation
  /// \param world The world where the array will live
  /// \param trange The tiled range of the array
  /// \param op The tile function/functor
  /// \return An array object of type `Array`
  template <typename Array, typename Op,
      typename std::enable_if<is_dense<Array>::value>::type* = nullptr>
  inline Array
  make_array(World& world, const detail::trange_t<Array>& trange,
      const std::shared_ptr<detail::pmap_t<Array> >& pmap, Op&& op)
  {
    typedef typename Array::value_type value_type;
    typedef typename value_type::range_type range_type;

    // Make an empty result array
    Array result(world, trange);

    // Iterate over local tiles of arg
    for(const auto index : * result.pmap()) {

      // Spawn a task to evaluate the tile
      auto tile =
          world.taskq.add([=] (const range_type& range) -> value_type {
            value_type tile;
            op(tile, range);
            return tile;
          }, trange.make_tile_range(index));

      // Store result tile
      result.set(index, tile);
    }

    return result;
  }

  /// Construct sparse Array

  /// This function is used to construct a `DistArray` object. Users must
  /// provide a world object, tiled range object, process map, and function/
  /// functor that generates the tiles for the new array object. For example,
  /// if we want to create an array with all elements equal to `1`:
  /// \code
  /// TiledArray::TSpArray<double> array =
  ///     make_array<TiledArray::TSpArray<double> >(world, trange, pmap,
  ///           [=] (TiledArray::Tensor<double>& tile, const TiledArray::Range& range) -> double {
  ///             tile = TiledArray::Tensor<double>(range);
  ///             for(auto& it : tile)
  ///               *it = 1;
  ///             return tile.norm();
  ///           });
  /// \endcode
  /// You may choose not to initialize a tile inside the tile initialization
  /// function (not shown in the example) by returning `0` for the tile norm.
  /// Note that the result is default constructed before (contains no data) and
  /// must be initialized inside the function/functor with the provided range
  /// object unless the returned tile norm is zero. The expected signature of
  /// the tile operation is:
  /// \code
  /// value_t op(tile_t& tile, const range_t& range);
  /// \endcode
  /// where `value_t`, `tile_t` and `range_t` are your tile value type, tile
  /// type, and tile range type, respectively.
  /// \tparam Array The `DistArray` type
  /// \tparam Op Tile operation
  /// \param world The world where the array will live
  /// \param trange The tiled range of the array
  /// \param pmap A shared pointer to the array process map
  /// \param op The tile function/functor
  /// \return An array object of type `Array`
  template <typename Array, typename Op,
      typename std::enable_if<! is_dense<Array>::value>::type* = nullptr>
  inline Array
  make_array(World& world, const detail::trange_t<Array>& trange,
      const std::shared_ptr<detail::pmap_t<Array> >& pmap, Op&& op)
  {
    typedef typename Array::value_type value_type;
    typedef typename Array::size_type size_type;
    typedef std::pair<size_type, Future<value_type> > datum_type;

    // Create a vector to hold local tiles
    std::vector<datum_type> tiles;
    tiles.reserve(pmap->size());

    // Construct a tensor to hold updated tile norms for the result shape.
    TiledArray::Tensor<typename detail::shape_t<Array>::value_type,
        Eigen::aligned_allocator<typename detail::shape_t<Array>::value_type> >
    tile_norms(trange.tiles_range(), 0);

    // Construct the task function used to construct the result tiles.
    madness::AtomicInt counter; counter = 0;
    int task_count = 0;
    auto task = [&](const size_type index) -> value_type {
      value_type tile;
      tile_norms[index] = op(tile, trange.make_tile_range(index));
      ++counter;
      return tile;
    };

    for(const auto index : *pmap) {
      auto result_tile = world.taskq.add(task, index);
      ++task_count;
      tiles.push_back(datum_type(index, result_tile));
    }

    // Wait for tile norm data to be collected.
    if(task_count > 0)
      world.await([&counter,task_count] () -> bool { return counter == task_count; });

    // Construct the new array
    Array result(world, trange,
        shape_type(world, tile_norms, trange), pmap);
    for(auto& it : tiles) {
      const size_type index = it.first;
      if(! result.is_zero(index))
        result.set(it.first, it.second);
    }

    return result;
  }


  /// Construct an Array

  /// This function is used to construct a `DistArray` object. Users must
  /// provide a world object, tiled range object, and function/functor that
  /// generates the tiles for the new array object. For example, if we want to
  /// create an array with were the elements are equal to `1`:
  /// \code
  /// TiledArray::TSpArray<double> array =
  ///     make_array<TiledArray::TSpArray<double> >(world, trange,
  ///           [=] (TiledArray::Tensor<double>& tile, const TiledArray::Range& range) -> double {
  ///             tile = TiledArray::Tensor<double>(range);
  ///             for(auto& it : tile)
  ///               *it = 1;
  ///             return tile.norm();
  ///           });
  /// \endcode
  /// For sparse arrays, you may choose not to initialize a tile inside the
  /// tile initialization (not shown in the example) by returning `0` for the
  /// tile norm. Note that the result is default constructed before (contains
  /// no data) and must be initialized inside the function/functor with the
  /// provided range object unless the returned tile norm is zero. The expected
  /// signature of the tile operation is:
  /// \code
  /// value_t op(tile_t& tile, const range_t& range);
  /// \endcode
  /// where `value_t`, `tile_t` and `range_t` are your tile value type, tile
  /// type, and tile range type, respectively.
  /// \tparam Array The `DistArray` type
  /// \tparam Op Tile operation
  /// \param world The world where the array will live
  /// \param trange The tiled range of the array
  /// \param op The tile function/functor
  /// \return An array object of type `Array`
  template <typename Array, typename Op>
  inline Array
  make_array(World& world, const detail::trange_t<Array>& trange, Op&& op) {
    return make_array<Array>(world, trange,
        detail::policy_t<Array>::default_pmap(world,
        trange.tiles_range().volume()), op);
  }

} // namespace TiledArray

#endif // TILEDARRAY_CONVERSIONS_MAKE_ARRAY_H__INCLUDED