/usr/include/opencv2/flann/hdf5.h is in libopencv-flann-dev 2.4.9.1+dfsg1-2.
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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 | /***********************************************************************
* Software License Agreement (BSD License)
*
* Copyright 2008-2009 Marius Muja (mariusm@cs.ubc.ca). All rights reserved.
* Copyright 2008-2009 David G. Lowe (lowe@cs.ubc.ca). All rights reserved.
*
* Redistribution and use in source and binary forms, with or without
* modification, are permitted provided that the following conditions
* are met:
*
* 1. Redistributions of source code must retain the above copyright
* notice, this list of conditions and the following disclaimer.
* 2. 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.
*
* THIS SOFTWARE IS PROVIDED BY THE AUTHOR ``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 THE AUTHOR 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.
*************************************************************************/
#ifndef OPENCV_FLANN_HDF5_H_
#define OPENCV_FLANN_HDF5_H_
#include <hdf5.h>
#include "matrix.h"
namespace cvflann
{
namespace
{
template<typename T>
hid_t get_hdf5_type()
{
throw FLANNException("Unsupported type for IO operations");
}
template<>
hid_t get_hdf5_type<char>() { return H5T_NATIVE_CHAR; }
template<>
hid_t get_hdf5_type<unsigned char>() { return H5T_NATIVE_UCHAR; }
template<>
hid_t get_hdf5_type<short int>() { return H5T_NATIVE_SHORT; }
template<>
hid_t get_hdf5_type<unsigned short int>() { return H5T_NATIVE_USHORT; }
template<>
hid_t get_hdf5_type<int>() { return H5T_NATIVE_INT; }
template<>
hid_t get_hdf5_type<unsigned int>() { return H5T_NATIVE_UINT; }
template<>
hid_t get_hdf5_type<long>() { return H5T_NATIVE_LONG; }
template<>
hid_t get_hdf5_type<unsigned long>() { return H5T_NATIVE_ULONG; }
template<>
hid_t get_hdf5_type<float>() { return H5T_NATIVE_FLOAT; }
template<>
hid_t get_hdf5_type<double>() { return H5T_NATIVE_DOUBLE; }
}
#define CHECK_ERROR(x,y) if ((x)<0) throw FLANNException((y));
template<typename T>
void save_to_file(const cvflann::Matrix<T>& dataset, const std::string& filename, const std::string& name)
{
#if H5Eset_auto_vers == 2
H5Eset_auto( H5E_DEFAULT, NULL, NULL );
#else
H5Eset_auto( NULL, NULL );
#endif
herr_t status;
hid_t file_id;
file_id = H5Fopen(filename.c_str(), H5F_ACC_RDWR, H5P_DEFAULT);
if (file_id < 0) {
file_id = H5Fcreate(filename.c_str(), H5F_ACC_EXCL, H5P_DEFAULT, H5P_DEFAULT);
}
CHECK_ERROR(file_id,"Error creating hdf5 file.");
hsize_t dimsf[2]; // dataset dimensions
dimsf[0] = dataset.rows;
dimsf[1] = dataset.cols;
hid_t space_id = H5Screate_simple(2, dimsf, NULL);
hid_t memspace_id = H5Screate_simple(2, dimsf, NULL);
hid_t dataset_id;
#if H5Dcreate_vers == 2
dataset_id = H5Dcreate2(file_id, name.c_str(), get_hdf5_type<T>(), space_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
#else
dataset_id = H5Dcreate(file_id, name.c_str(), get_hdf5_type<T>(), space_id, H5P_DEFAULT);
#endif
if (dataset_id<0) {
#if H5Dopen_vers == 2
dataset_id = H5Dopen2(file_id, name.c_str(), H5P_DEFAULT);
#else
dataset_id = H5Dopen(file_id, name.c_str());
#endif
}
CHECK_ERROR(dataset_id,"Error creating or opening dataset in file.");
status = H5Dwrite(dataset_id, get_hdf5_type<T>(), memspace_id, space_id, H5P_DEFAULT, dataset.data );
CHECK_ERROR(status, "Error writing to dataset");
H5Sclose(memspace_id);
H5Sclose(space_id);
H5Dclose(dataset_id);
H5Fclose(file_id);
}
template<typename T>
void load_from_file(cvflann::Matrix<T>& dataset, const std::string& filename, const std::string& name)
{
herr_t status;
hid_t file_id = H5Fopen(filename.c_str(), H5F_ACC_RDWR, H5P_DEFAULT);
CHECK_ERROR(file_id,"Error opening hdf5 file.");
hid_t dataset_id;
#if H5Dopen_vers == 2
dataset_id = H5Dopen2(file_id, name.c_str(), H5P_DEFAULT);
#else
dataset_id = H5Dopen(file_id, name.c_str());
#endif
CHECK_ERROR(dataset_id,"Error opening dataset in file.");
hid_t space_id = H5Dget_space(dataset_id);
hsize_t dims_out[2];
H5Sget_simple_extent_dims(space_id, dims_out, NULL);
dataset = cvflann::Matrix<T>(new T[dims_out[0]*dims_out[1]], dims_out[0], dims_out[1]);
status = H5Dread(dataset_id, get_hdf5_type<T>(), H5S_ALL, H5S_ALL, H5P_DEFAULT, dataset[0]);
CHECK_ERROR(status, "Error reading dataset");
H5Sclose(space_id);
H5Dclose(dataset_id);
H5Fclose(file_id);
}
#ifdef HAVE_MPI
namespace mpi
{
/**
* Loads a the hyperslice corresponding to this processor from a hdf5 file.
* @param flann_dataset Dataset where the data is loaded
* @param filename HDF5 file name
* @param name Name of dataset inside file
*/
template<typename T>
void load_from_file(cvflann::Matrix<T>& dataset, const std::string& filename, const std::string& name)
{
MPI_Comm comm = MPI_COMM_WORLD;
MPI_Info info = MPI_INFO_NULL;
int mpi_size, mpi_rank;
MPI_Comm_size(comm, &mpi_size);
MPI_Comm_rank(comm, &mpi_rank);
herr_t status;
hid_t plist_id = H5Pcreate(H5P_FILE_ACCESS);
H5Pset_fapl_mpio(plist_id, comm, info);
hid_t file_id = H5Fopen(filename.c_str(), H5F_ACC_RDWR, plist_id);
CHECK_ERROR(file_id,"Error opening hdf5 file.");
H5Pclose(plist_id);
hid_t dataset_id;
#if H5Dopen_vers == 2
dataset_id = H5Dopen2(file_id, name.c_str(), H5P_DEFAULT);
#else
dataset_id = H5Dopen(file_id, name.c_str());
#endif
CHECK_ERROR(dataset_id,"Error opening dataset in file.");
hid_t space_id = H5Dget_space(dataset_id);
hsize_t dims[2];
H5Sget_simple_extent_dims(space_id, dims, NULL);
hsize_t count[2];
hsize_t offset[2];
hsize_t item_cnt = dims[0]/mpi_size+(dims[0]%mpi_size==0 ? 0 : 1);
hsize_t cnt = (mpi_rank<mpi_size-1 ? item_cnt : dims[0]-item_cnt*(mpi_size-1));
count[0] = cnt;
count[1] = dims[1];
offset[0] = mpi_rank*item_cnt;
offset[1] = 0;
hid_t memspace_id = H5Screate_simple(2,count,NULL);
H5Sselect_hyperslab(space_id, H5S_SELECT_SET, offset, NULL, count, NULL);
dataset.rows = count[0];
dataset.cols = count[1];
dataset.data = new T[dataset.rows*dataset.cols];
plist_id = H5Pcreate(H5P_DATASET_XFER);
H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_COLLECTIVE);
status = H5Dread(dataset_id, get_hdf5_type<T>(), memspace_id, space_id, plist_id, dataset.data);
CHECK_ERROR(status, "Error reading dataset");
H5Pclose(plist_id);
H5Sclose(space_id);
H5Sclose(memspace_id);
H5Dclose(dataset_id);
H5Fclose(file_id);
}
}
#endif // HAVE_MPI
} // namespace cvflann::mpi
#endif /* OPENCV_FLANN_HDF5_H_ */
|