annotate src/ls-hdf5.cc @ 9892:ac69e6f4b33d

Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
author Kacper Kowalik <xarthisius.kk@gmail.com>
date Tue, 01 Dec 2009 00:49:07 +0100
parents b3089dba88bf
children cd96d29c5efa
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1 /*
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2
8920
eb63fbe60fab update copyright notices
John W. Eaton <jwe@octave.org>
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3 Copyright (C) 1996, 1997, 2003, 2004, 2005, 2006, 2007, 2008,
eb63fbe60fab update copyright notices
John W. Eaton <jwe@octave.org>
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4 2009 John W. Eaton
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5
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6 This file is part of Octave.
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7
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8 Octave is free software; you can redistribute it and/or modify it
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9 under the terms of the GNU General Public License as published by the
7016
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10 Free Software Foundation; either version 3 of the License, or (at your
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11 option) any later version.
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12
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13 Octave is distributed in the hope that it will be useful, but WITHOUT
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14 ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
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15 FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License
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16 for more details.
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17
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18 You should have received a copy of the GNU General Public License
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19 along with Octave; see the file COPYING. If not, see
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20 <http://www.gnu.org/licenses/>.
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21
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22 */
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23
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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24 // Author: Steven G. Johnson <stevenj@alum.mit.edu>
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25
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26 #ifdef HAVE_CONFIG_H
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27 #include <config.h>
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28 #endif
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29
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30 #if defined (HAVE_HDF5)
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31
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32 #include <cfloat>
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33 #include <cstring>
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34 #include <cctype>
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35
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36 #include <fstream>
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37 #include <iomanip>
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38 #include <iostream>
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39 #include <string>
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40 #include <vector>
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41
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42 #include "byte-swap.h"
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43 #include "data-conv.h"
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44 #include "file-ops.h"
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45 #include "glob-match.h"
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46 #include "lo-mappers.h"
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47 #include "mach-info.h"
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48 #include "oct-env.h"
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49 #include "oct-time.h"
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50 #include "quit.h"
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51 #include "str-vec.h"
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52 #include "oct-locbuf.h"
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53
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54 #include "Cell.h"
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55 #include "defun.h"
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56 #include "error.h"
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57 #include "gripes.h"
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58 #include "load-save.h"
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59 #include "oct-obj.h"
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60 #include "oct-map.h"
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61 #include "ov-cell.h"
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62 #include "pager.h"
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63 #include "pt-exp.h"
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64 #include "sysdep.h"
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65 #include "unwind-prot.h"
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66 #include "utils.h"
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67 #include "variables.h"
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68 #include "version.h"
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69 #include "dMatrix.h"
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70
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71 #include "ls-utils.h"
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72 #include "ls-hdf5.h"
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73
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74 static std::string
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75 make_valid_identifier (const std::string& nm)
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76 {
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77 std::string retval;
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78
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79 size_t nm_len = nm.length ();
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80
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81 if (nm_len > 0)
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82 {
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83 if (! isalpha (nm[0]))
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84 retval += '_';
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85
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86 for (size_t i = 0; i < nm_len; i++)
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87 {
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88 char c = nm[i];
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89 retval += (isalnum (c) || c == '_') ? c : '_';
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90 }
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91 }
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92
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93 return retval;
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94 }
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95
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96 // Define this to 1 if/when HDF5 supports automatic conversion between
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97 // integer and floating-point binary data:
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98 #define HAVE_HDF5_INT2FLOAT_CONVERSIONS 0
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99
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100 // Given two compound types t1 and t2, determine whether they
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101 // are compatible for reading/writing. This function only
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102 // works for non-nested types composed of simple elements (ints, floats...),
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103 // which is all we need it for
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104
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105 bool
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106 hdf5_types_compatible (hid_t t1, hid_t t2)
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107 {
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108 int n;
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109 if ((n = H5Tget_nmembers (t1)) != H5Tget_nmembers (t2))
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110 return false;
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111
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112 for (int i = 0; i < n; ++i)
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113 {
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114 hid_t mt1 = H5Tget_member_type (t1, i);
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115 hid_t mt2 = H5Tget_member_type (t2, i);
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116
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117 if (H5Tget_class (mt1) != H5Tget_class (mt2))
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118 return false;
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119
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120 H5Tclose (mt2);
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121 H5Tclose (mt1);
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122 }
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123
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124 return true;
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125 }
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126
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127 // Return true if loc_id has the attribute named attr_name, and false
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128 // otherwise.
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129
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130 bool
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131 hdf5_check_attr (hid_t loc_id, const char *attr_name)
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132 {
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133 bool retval = false;
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134
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135 // we have to pull some shenanigans here to make sure
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136 // HDF5 doesn't print out all sorts of error messages if we
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137 // call H5Aopen for a non-existing attribute
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138
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139 H5E_auto_t err_func;
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140 void *err_func_data;
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141
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142 // turn off error reporting temporarily, but save the error
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143 // reporting function:
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144
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145 #if HAVE_HDF5_18
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146 H5Eget_auto (H5E_DEFAULT, &err_func, &err_func_data);
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147 H5Eset_auto (H5E_DEFAULT, 0, 0);
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148 #else
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149 H5Eget_auto (&err_func, &err_func_data);
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150 H5Eset_auto (0, 0);
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151 #endif
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152
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153 hid_t attr_id = H5Aopen_name (loc_id, attr_name);
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154
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155 if (attr_id >= 0)
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156 {
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157 // successful
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158 retval = 1;
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159 H5Aclose (attr_id);
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160 }
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161
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162 // restore error reporting:
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163 #if HAVE_HDF5_18
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diff changeset
164 H5Eset_auto (H5E_DEFAULT, err_func, err_func_data);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
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diff changeset
165 #else
4634
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166 H5Eset_auto (err_func, err_func_data);
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
167 #endif
4634
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diff changeset
168 return retval;
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169 }
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170
4687
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diff changeset
171 // The following subroutines creates an HDF5 representations of the way
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diff changeset
172 // we will store Octave complex types (pairs of floating-point numbers).
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diff changeset
173 // NUM_TYPE is the HDF5 numeric type to use for storage (e.g.
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diff changeset
174 // H5T_NATIVE_DOUBLE to save as 'double'). Note that any necessary
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diff changeset
175 // conversions are handled automatically by HDF5.
4634
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176
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diff changeset
177 hid_t
4634
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178 hdf5_make_complex_type (hid_t num_type)
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parents:
diff changeset
179 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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diff changeset
180 hid_t type_id = H5Tcreate (H5T_COMPOUND, sizeof (double) * 2);
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diff changeset
181
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182 H5Tinsert (type_id, "real", 0 * sizeof (double), num_type);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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183 H5Tinsert (type_id, "imag", 1 * sizeof (double), num_type);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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184
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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185 return type_id;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
186 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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diff changeset
187
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
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188 // This function is designed to be passed to H5Giterate, which calls it
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
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189 // on each data item in an HDF5 file. For the item whose name is NAME in
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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diff changeset
190 // the group GROUP_ID, this function sets dv->tc to an Octave representation
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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191 // of that item. (dv must be a pointer to hdf5_callback_data.) (It also
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
192 // sets the other fields of dv).
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
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193 //
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
194 // It returns 1 on success (in which case H5Giterate stops and returns),
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
195 // -1 on error, and 0 to tell H5Giterate to continue on to the next item
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
196 // (e.g. if NAME was a data type we don't recognize).
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197
4687
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diff changeset
198 herr_t
4634
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diff changeset
199 hdf5_read_next_data (hid_t group_id, const char *name, void *dv)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
200 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
201 hdf5_callback_data *d = static_cast <hdf5_callback_data *> (dv);
4687
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diff changeset
202 hid_t type_id = -1, type_class_id = -1, data_id = -1, subgroup_id = -1,
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diff changeset
203 space_id = -1;
4634
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diff changeset
204
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
205 H5G_stat_t info;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
206 herr_t retval = 0;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
207 bool ident_valid = valid_identifier (name);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
208
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
209 std::string vname = name;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
210
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
211 // Allow identifiers as all digits so we can load lists saved by
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
212 // earlier versions of Octave.
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
213
4687
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parents: 4675
diff changeset
214 if (! ident_valid )
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
215 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
216 // fix the identifier, replacing invalid chars with underscores
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
217 vname = make_valid_identifier (vname);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
218
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
219 // check again (in case vname was null, empty, or some such thing):
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
220 ident_valid = valid_identifier (vname);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
221 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
222
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
223 H5Gget_objinfo (group_id, name, 1, &info);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
224
4687
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diff changeset
225 if (info.type == H5G_GROUP && ident_valid)
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
226 {
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
227 #if HAVE_HDF5_18
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
228 subgroup_id = H5Gopen (group_id, name, H5P_DEFAULT);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
229 #else
4687
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diff changeset
230 subgroup_id = H5Gopen (group_id, name);
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
231 #endif
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
232
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
233 if (subgroup_id < 0)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
234 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
235 retval = subgroup_id;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
236 goto done;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
237 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
238
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
239 if (hdf5_check_attr (subgroup_id, "OCTAVE_NEW_FORMAT"))
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
240 {
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
241 #if HAVE_HDF5_18
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
242 data_id = H5Dopen (subgroup_id, "type", H5P_DEFAULT);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
243 #else
4687
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diff changeset
244 data_id = H5Dopen (subgroup_id, "type");
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
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diff changeset
245 #endif
4634
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diff changeset
246
4687
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diff changeset
247 if (data_id < 0)
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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diff changeset
248 {
4687
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parents: 4675
diff changeset
249 retval = data_id;
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
250 goto done;
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
251 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
252
4687
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diff changeset
253 type_id = H5Dget_type (data_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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diff changeset
254
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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diff changeset
255 type_class_id = H5Tget_class (type_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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diff changeset
256
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
257 if (type_class_id != H5T_STRING)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
258 goto done;
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
259
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
260 space_id = H5Dget_space (data_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
261 hsize_t rank = H5Sget_simple_extent_ndims (space_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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diff changeset
262
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
263 if (rank != 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
264 goto done;
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
265
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
266 int slen = H5Tget_size (type_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
267 if (slen < 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
268 goto done;
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
269
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
270 OCTAVE_LOCAL_BUFFER (char, typ, slen);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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diff changeset
271
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
272 // create datatype for (null-terminated) string to read into:
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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diff changeset
273 hid_t st_id = H5Tcopy (H5T_C_S1);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
274 H5Tset_size (st_id, slen);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
275
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
276 if (H5Dread (data_id, st_id, H5S_ALL, H5S_ALL, H5P_DEFAULT,
5760
8d7162924bd3 [project @ 2006-04-14 04:01:37 by jwe]
jwe
parents: 5351
diff changeset
277 typ) < 0)
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
278 goto done;
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
279
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
280 H5Tclose (st_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
281 H5Dclose (data_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
282
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
283 d->tc = octave_value_typeinfo::lookup_type (typ);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
284
9881
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Kacper Kowalik
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diff changeset
285 retval = (d->tc.load_hdf5 (subgroup_id, "value") ? 1 : -1);
4687
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parents: 4675
diff changeset
286
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
287 // check for OCTAVE_GLOBAL attribute:
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
288 d->global = hdf5_check_attr (subgroup_id, "OCTAVE_GLOBAL");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
289
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
290 H5Gclose (subgroup_id);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
291 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
292 else
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
293 {
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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diff changeset
294 // an HDF5 group is treated as an octave structure by
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
295 // default (since that preserves name information), and an
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
296 // octave list otherwise.
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
297
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
298 if (hdf5_check_attr (subgroup_id, "OCTAVE_LIST"))
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
299 d->tc = octave_value_typeinfo::lookup_type ("list");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
300 else
4948
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
301 d->tc = octave_value_typeinfo::lookup_type ("struct");
4687
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parents: 4675
diff changeset
302
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
303 // check for OCTAVE_GLOBAL attribute:
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
304 d->global = hdf5_check_attr (subgroup_id, "OCTAVE_GLOBAL");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
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parents: 4675
diff changeset
305
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
306 H5Gclose (subgroup_id);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
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parents:
diff changeset
307
9881
b3089dba88bf Remove HDF5 cruft for older versions of HDF5
Kacper Kowalik
parents: 8920
diff changeset
308 retval = (d->tc.load_hdf5 (group_id, name) ? 1 : -1);
4687
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parents: 4675
diff changeset
309 }
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
310
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
311 }
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
312 else if (info.type == H5G_DATASET && ident_valid)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
313 {
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
314 // For backwards compatiability.
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
315 #if HAVE_HDF5_18
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
316 data_id = H5Dopen (group_id, name, H5P_DEFAULT);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
317 #else
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
318 data_id = H5Dopen (group_id, name);
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
319 #endif
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
320
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
321 if (data_id < 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
322 {
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
323 retval = data_id;
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
324 goto done;
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
325 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
326
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
327 type_id = H5Dget_type (data_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
328
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
329 type_class_id = H5Tget_class (type_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
330
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
331 if (type_class_id == H5T_FLOAT)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
332 {
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
333 space_id = H5Dget_space (data_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
334
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
335 hsize_t rank = H5Sget_simple_extent_ndims (space_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
336
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
337 if (rank == 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
338 d->tc = octave_value_typeinfo::lookup_type ("scalar");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
339 else
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
340 d->tc = octave_value_typeinfo::lookup_type ("matrix");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
341
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
342 H5Sclose (space_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
343 }
4948
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
344 else if (type_class_id == H5T_INTEGER)
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
345 {
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
346 // What integer type do we really have..
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
347 std::string int_typ;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
348 #ifdef HAVE_H5T_GET_NATIVE_TYPE
5775
ace8d8d26933 [project @ 2006-04-24 19:13:06 by jwe]
jwe
parents: 5765
diff changeset
349 // FIXME test this code and activated with an autoconf
5351
05adf9de7657 [project @ 2005-05-16 20:07:36 by dbateman]
dbateman
parents: 5307
diff changeset
350 // test!! It is also incorrect for 64-bit indexing!!
05adf9de7657 [project @ 2005-05-16 20:07:36 by dbateman]
dbateman
parents: 5307
diff changeset
351
4948
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
352 switch (H5Tget_native_type (type_id, H5T_DIR_ASCEND))
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
353 {
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
354 case H5T_NATIVE_CHAR:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
355 int_typ = "int8 ";
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
356 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
357
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
358 case H5T_NATIVE_SHORT:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
359 int_typ = "int16 ";
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
360 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
361
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
362 case H5T_NATIVE_INT:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
363 case H5T_NATIVE_LONG:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
364 int_typ = "int32 ";
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
365 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
366
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
367 case H5T_NATIVE_LLONG:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
368 int_typ = "int64 ";
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
369 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
370
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
371 case H5T_NATIVE_UCHAR:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
372 int_typ = "uint8 ";
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
373 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
374
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
375 case H5T_NATIVE_USHORT:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
376 int_typ = "uint16 ";
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
377 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
378
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
379 case H5T_NATIVE_UINT:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
380 case H5T_NATIVE_ULONG:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
381 int_typ = "uint32 ";
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
382 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
383
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
384 case H5T_NATIVE_ULLONG:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
385 int_typ = "uint64 ";
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
386 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
387 }
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
388 #else
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
389 hid_t int_sign = H5Tget_sign (type_id);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
390
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
391 if (int_sign == H5T_SGN_ERROR)
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
392 warning ("load: can't read `%s' (unknown datatype)", name);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
393 else
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
394 {
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
395 if (int_sign == H5T_SGN_NONE)
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
396 int_typ.append ("u");
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
397 int_typ.append ("int");
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
398
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
399 int slen = H5Tget_size (type_id);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
400 if (slen < 0)
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
401 warning ("load: can't read `%s' (unknown datatype)", name);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
402 else
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
403 {
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
404 switch (slen)
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
405 {
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
406 case 1:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
407 int_typ.append ("8 ");
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
408 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
409
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
410 case 2:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
411 int_typ.append ("16 ");
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
412 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
413
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
414 case 4:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
415 int_typ.append ("32 ");
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
416 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
417
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
418 case 8:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
419 int_typ.append ("64 ");
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
420 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
421
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
422 default:
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
423 warning ("load: can't read `%s' (unknown datatype)",
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
424 name);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
425 int_typ = "";
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
426 break;
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
427 }
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
428 }
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
429 }
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
430 #endif
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
431 if (int_typ == "")
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
432 warning ("load: can't read `%s' (unknown datatype)", name);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
433 else
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
434 {
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
435 // Matrix or scalar?
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
436 space_id = H5Dget_space (data_id);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
437
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
438 hsize_t rank = H5Sget_simple_extent_ndims (space_id);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
439
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
440 if (rank == 0)
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
441 int_typ.append ("scalar");
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
442 else
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
443 int_typ.append ("matrix");
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
444
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
445 d->tc = octave_value_typeinfo::lookup_type (int_typ);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
446 H5Sclose (space_id);
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
447 }
7124436476cb [project @ 2004-08-31 17:57:21 by jwe]
jwe
parents: 4805
diff changeset
448 }
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
449 else if (type_class_id == H5T_STRING)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
450 d->tc = octave_value_typeinfo::lookup_type ("string");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
451 else if (type_class_id == H5T_COMPOUND)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
452 {
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
453 hid_t complex_type = hdf5_make_complex_type (H5T_NATIVE_DOUBLE);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
454
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
455 if (hdf5_types_compatible (type_id, complex_type))
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
456 {
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
457 // read complex matrix or scalar variable
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
458 space_id = H5Dget_space (data_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
459 hsize_t rank = H5Sget_simple_extent_ndims (space_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
460
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
461 if (rank == 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
462 d->tc = octave_value_typeinfo::lookup_type ("complex scalar");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
463 else
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
464 d->tc = octave_value_typeinfo::lookup_type ("complex matrix");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
465
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
466 H5Sclose (space_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
467 }
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
468 else
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
469 // Assume that if its not complex its a range. If its not
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
470 // it'll be rejected later in the range code
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
471 d->tc = octave_value_typeinfo::lookup_type ("range");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
472
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
473 H5Tclose (complex_type);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
474 }
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
475 else
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
476 {
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
477 warning ("load: can't read `%s' (unknown datatype)", name);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
478 retval = 0; // unknown datatype; skip
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
479 }
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
480
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
481 // check for OCTAVE_GLOBAL attribute:
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
482 d->global = hdf5_check_attr (data_id, "OCTAVE_GLOBAL");
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
483
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
484 H5Tclose (type_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
485 H5Dclose (data_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
486
9881
b3089dba88bf Remove HDF5 cruft for older versions of HDF5
Kacper Kowalik
parents: 8920
diff changeset
487 retval = (d->tc.load_hdf5 (group_id, name) ? 1 : -1);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
488 }
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
489
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
490 if (!ident_valid)
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
491 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
492 // should we attempt to handle invalid identifiers by converting
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
493 // bad characters to '_', say?
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
494 warning ("load: skipping invalid identifier `%s' in hdf5 file",
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
495 name);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
496 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
497
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
498 done:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
499 if (retval < 0)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
500 error ("load: error while reading hdf5 item %s", name);
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
501
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
502 if (retval > 0)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
503 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
504 // get documentation string, if any:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
505 int comment_length = H5Gget_comment (group_id, name, 0, 0);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
506
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
507 if (comment_length > 1)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
508 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
509 OCTAVE_LOCAL_BUFFER (char, tdoc, comment_length);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
510 H5Gget_comment (group_id, name, comment_length, tdoc);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
511 d->doc = tdoc;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
512 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
513 else if (vname != name)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
514 {
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
515 // the name was changed; store the original name
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
516 // as the documentation string:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
517 d->doc = name;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
518 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
519
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
520 // copy name (actually, vname):
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
521 d->name = vname;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
522 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
523
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
524 return retval;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
525 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
526
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
527 // Read the next Octave variable from the stream IS, which must really be
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
528 // an hdf5_ifstream. Return the variable value in tc, its doc string
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
529 // in doc, and whether it is global in global. The return value is
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
530 // the name of the variable, or NULL if none were found or there was
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
531 // and error.
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
532 std::string
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
533 read_hdf5_data (std::istream& is, const std::string& /* filename */,
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
534 bool& global, octave_value& tc, std::string& doc)
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
535 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
536 std::string retval;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
537
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
538 doc.resize (0);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
539
5760
8d7162924bd3 [project @ 2006-04-14 04:01:37 by jwe]
jwe
parents: 5351
diff changeset
540 hdf5_ifstream& hs = dynamic_cast<hdf5_ifstream&> (is);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
541 hdf5_callback_data d;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
542
4696
fcab389ad291 [project @ 2004-01-15 02:11:59 by jwe]
jwe
parents: 4687
diff changeset
543 herr_t H5Giterate_retval = -1;
fcab389ad291 [project @ 2004-01-15 02:11:59 by jwe]
jwe
parents: 4687
diff changeset
544
fcab389ad291 [project @ 2004-01-15 02:11:59 by jwe]
jwe
parents: 4687
diff changeset
545 hsize_t num_obj = 0;
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
546 #if HAVE_HDF5_18
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
547 hid_t group_id = H5Gopen (hs.file_id, "/", H5P_DEFAULT);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
548 #else
5060
34a904ac130d [project @ 2004-11-02 03:08:10 by jwe]
jwe
parents: 4948
diff changeset
549 hid_t group_id = H5Gopen (hs.file_id, "/");
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
550 #endif
5060
34a904ac130d [project @ 2004-11-02 03:08:10 by jwe]
jwe
parents: 4948
diff changeset
551 H5Gget_num_objs (group_id, &num_obj);
34a904ac130d [project @ 2004-11-02 03:08:10 by jwe]
jwe
parents: 4948
diff changeset
552 H5Gclose (group_id);
4696
fcab389ad291 [project @ 2004-01-15 02:11:59 by jwe]
jwe
parents: 4687
diff changeset
553 if (hs.current_item < static_cast<int> (num_obj))
fcab389ad291 [project @ 2004-01-15 02:11:59 by jwe]
jwe
parents: 4687
diff changeset
554 H5Giterate_retval = H5Giterate (hs.file_id, "/", &hs.current_item,
fcab389ad291 [project @ 2004-01-15 02:11:59 by jwe]
jwe
parents: 4687
diff changeset
555 hdf5_read_next_data, &d);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
556
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
557 if (H5Giterate_retval > 0)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
558 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
559 global = d.global;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
560 tc = d.tc;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
561 doc = d.doc;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
562 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
563 else
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
564 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
565 // an error occurred (H5Giterate_retval < 0) or there are no
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
566 // more datasets print an error message if retval < 0?
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
567 // hdf5_read_next_data already printed one, probably.
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
568 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
569
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
570 if (! d.name.empty ())
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
571 retval = d.name;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
572
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
573 return retval;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
574 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
575
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
576 // Add an attribute named attr_name to loc_id (a simple scalar
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
577 // attribute with value 1). Return value is >= 0 on success.
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
578 static herr_t
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
579 hdf5_add_attr (hid_t loc_id, const char *attr_name)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
580 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
581 herr_t retval = 0;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
582
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
583 hid_t as_id = H5Screate (H5S_SCALAR);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
584
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
585 if (as_id >= 0)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
586 {
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
587 #if HAVE_HDF5_18
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
588 hid_t a_id = H5Acreate (loc_id, attr_name, H5T_NATIVE_UCHAR,
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
589 as_id, H5P_DEFAULT, H5P_DEFAULT);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
590 #else
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
591 hid_t a_id = H5Acreate (loc_id, attr_name,
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
592 H5T_NATIVE_UCHAR, as_id, H5P_DEFAULT);
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
593 #endif
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
594 if (a_id >= 0)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
595 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
596 unsigned char attr_val = 1;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
597
5760
8d7162924bd3 [project @ 2006-04-14 04:01:37 by jwe]
jwe
parents: 5351
diff changeset
598 retval = H5Awrite (a_id, H5T_NATIVE_UCHAR, &attr_val);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
599
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
600 H5Aclose (a_id);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
601 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
602 else
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
603 retval = a_id;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
604
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
605 H5Sclose (as_id);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
606 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
607 else
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
608 retval = as_id;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
609
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
610 return retval;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
611 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
612
4805
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
613 // Save an empty matrix, if needed. Returns
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
614 // > 0 Saved empty matrix
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
615 // = 0 Not an empty matrix; did nothing
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
616 // < 0 Error condition
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
617 int
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
618 save_hdf5_empty (hid_t loc_id, const char *name, const dim_vector d)
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
619 {
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
620 hsize_t sz = d.length ();
6276
d26c558691cd [project @ 2007-02-07 09:01:24 by jwe]
jwe
parents: 5775
diff changeset
621 OCTAVE_LOCAL_BUFFER (octave_idx_type, dims, sz);
4805
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
622 bool empty = false;
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
623 hid_t space_hid = -1, data_hid = -1;
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
624 int retval;
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
625 for (hsize_t i = 0; i < sz; i++)
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
626 {
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
627 dims[i] = d(i);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
628 if (dims[i] < 1)
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
629 empty = true;
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
630 }
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
631
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
632 if (!empty)
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
633 return 0;
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
634
5760
8d7162924bd3 [project @ 2006-04-14 04:01:37 by jwe]
jwe
parents: 5351
diff changeset
635 space_hid = H5Screate_simple (1, &sz, 0);
4805
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
636 if (space_hid < 0) return space_hid;
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
637 #if HAVE_HDF5_18
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
638 data_hid = H5Dcreate (loc_id, name, H5T_NATIVE_IDX, space_hid,
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
639 H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
640 #else
5351
05adf9de7657 [project @ 2005-05-16 20:07:36 by dbateman]
dbateman
parents: 5307
diff changeset
641 data_hid = H5Dcreate (loc_id, name, H5T_NATIVE_IDX, space_hid,
4805
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
642 H5P_DEFAULT);
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
643 #endif
4805
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
644 if (data_hid < 0)
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
645 {
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
646 H5Sclose (space_hid);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
647 return data_hid;
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
648 }
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
649
5351
05adf9de7657 [project @ 2005-05-16 20:07:36 by dbateman]
dbateman
parents: 5307
diff changeset
650 retval = H5Dwrite (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL,
5760
8d7162924bd3 [project @ 2006-04-14 04:01:37 by jwe]
jwe
parents: 5351
diff changeset
651 H5P_DEFAULT, dims) >= 0;
4805
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
652
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
653 H5Dclose (data_hid);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
654 H5Sclose (space_hid);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
655
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
656 if (retval >= 0)
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
657 retval = hdf5_add_attr (loc_id, "OCTAVE_EMPTY_MATRIX");
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
658
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
659 return (retval == 0 ? 1 : retval);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
660 }
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
661
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
662 // Load an empty matrix, if needed. Returns
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
663 // > 0 loaded empty matrix, dimensions returned
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
664 // = 0 Not an empty matrix; did nothing
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
665 // < 0 Error condition
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
666 int
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
667 load_hdf5_empty (hid_t loc_id, const char *name, dim_vector &d)
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
668 {
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
669 if (!hdf5_check_attr(loc_id, "OCTAVE_EMPTY_MATRIX"))
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
670 return 0;
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
671
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
672 hsize_t hdims, maxdims;
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
673 #if HAVE_HDF5_18
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
674 hid_t data_hid = H5Dopen (loc_id, name, H5P_DEFAULT);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
675 #else
4805
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
676 hid_t data_hid = H5Dopen (loc_id, name);
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
677 #endif
4805
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
678 hid_t space_id = H5Dget_space (data_hid);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
679 H5Sget_simple_extent_dims (space_id, &hdims, &maxdims);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
680 int retval;
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
681
5351
05adf9de7657 [project @ 2005-05-16 20:07:36 by dbateman]
dbateman
parents: 5307
diff changeset
682 OCTAVE_LOCAL_BUFFER (octave_idx_type, dims, hdims);
05adf9de7657 [project @ 2005-05-16 20:07:36 by dbateman]
dbateman
parents: 5307
diff changeset
683
05adf9de7657 [project @ 2005-05-16 20:07:36 by dbateman]
dbateman
parents: 5307
diff changeset
684 retval = H5Dread (data_hid, H5T_NATIVE_IDX, H5S_ALL, H5S_ALL,
5760
8d7162924bd3 [project @ 2006-04-14 04:01:37 by jwe]
jwe
parents: 5351
diff changeset
685 H5P_DEFAULT, dims);
4805
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
686 if (retval >= 0)
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
687 {
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
688 d.resize (hdims);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
689 for (hsize_t i = 0; i < hdims; i++)
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
690 d(i) = dims[i];
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
691 }
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
692
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
693 H5Sclose (space_id);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
694 H5Dclose (data_hid);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
695
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
696 return (retval == 0 ? hdims : retval);
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
697 }
b0d6da24caeb [project @ 2004-03-02 03:43:15 by jwe]
jwe
parents: 4726
diff changeset
698
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
699 // save_type_to_hdf5 is not currently used, since hdf5 doesn't yet support
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
700 // automatic float<->integer conversions:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
701
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
702 #if HAVE_HDF5_INT2FLOAT_CONVERSIONS
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
703
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
704 // return the HDF5 type id corresponding to the Octave save_type
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
705
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
706 hid_t
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
707 save_type_to_hdf5 (save_type st)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
708 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
709 switch (st)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
710 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
711 case LS_U_CHAR:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
712 return H5T_NATIVE_UCHAR;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
713
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
714 case LS_U_SHORT:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
715 return H5T_NATIVE_USHORT;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
716
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
717 case LS_U_INT:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
718 return H5T_NATIVE_UINT;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
719
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
720 case LS_CHAR:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
721 return H5T_NATIVE_CHAR;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
722
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
723 case LS_SHORT:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
724 return H5T_NATIVE_SHORT;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
725
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
726 case LS_INT:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
727 return H5T_NATIVE_INT;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
728
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
729 case LS_FLOAT:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
730 return H5T_NATIVE_FLOAT;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
731
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
732 case LS_DOUBLE:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
733 default:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
734 return H5T_NATIVE_DOUBLE;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
735 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
736 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
737 #endif /* HAVE_HDF5_INT2FLOAT_CONVERSIONS */
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
738
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
739 // Add the data from TC to the HDF5 location loc_id, which could
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
740 // be either a file or a group within a file. Return true if
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
741 // successful. This function calls itself recursively for lists
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
742 // (stored as HDF5 groups).
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
743
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
744 bool
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
745 add_hdf5_data (hid_t loc_id, const octave_value& tc,
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
746 const std::string& name, const std::string& doc,
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
747 bool mark_as_global, bool save_as_floats)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
748 {
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
749 hsize_t dims[3];
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
750 hid_t type_id = -1, space_id = -1, data_id = -1, data_type_id = -1;
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
751 bool retval = false;
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
752 octave_value val = tc;
8401
712cfdc2e417 allow saving diagonal & permutation matrices to hdf5 as full
Jaroslav Hajek <highegg@gmail.com>
parents: 8377
diff changeset
753 // FIXME: diagonal & permutation matrices currently don't know how to save
712cfdc2e417 allow saving diagonal & permutation matrices to hdf5 as full
Jaroslav Hajek <highegg@gmail.com>
parents: 8377
diff changeset
754 // themselves, so we convert them first to normal matrices using A = A(:,:).
712cfdc2e417 allow saving diagonal & permutation matrices to hdf5 as full
Jaroslav Hajek <highegg@gmail.com>
parents: 8377
diff changeset
755 // This is a temporary hack.
712cfdc2e417 allow saving diagonal & permutation matrices to hdf5 as full
Jaroslav Hajek <highegg@gmail.com>
parents: 8377
diff changeset
756 if (val.is_diag_matrix () || val.is_perm_matrix ())
8914
354179c24c79 fix hdf5 saving of diag & perm matrices
Jaroslav Hajek <highegg@gmail.com>
parents: 8676
diff changeset
757 val = val.full_value ();
8401
712cfdc2e417 allow saving diagonal & permutation matrices to hdf5 as full
Jaroslav Hajek <highegg@gmail.com>
parents: 8377
diff changeset
758
712cfdc2e417 allow saving diagonal & permutation matrices to hdf5 as full
Jaroslav Hajek <highegg@gmail.com>
parents: 8377
diff changeset
759 std::string t = val.type_name();
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
760 #if HAVE_HDF5_18
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
761 data_id = H5Gcreate (loc_id, name.c_str (), H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
762 #else
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
763 data_id = H5Gcreate (loc_id, name.c_str (), 0);
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
764 #endif
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
765 if (data_id < 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
766 goto error_cleanup;
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
767
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
768 // attach the type of the variable
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
769 type_id = H5Tcopy (H5T_C_S1); H5Tset_size (type_id, t.length () + 1);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
770 if (type_id < 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
771 goto error_cleanup;
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
772
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
773 dims[0] = 0;
5760
8d7162924bd3 [project @ 2006-04-14 04:01:37 by jwe]
jwe
parents: 5351
diff changeset
774 space_id = H5Screate_simple (0 , dims, 0);
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
775 if (space_id < 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
776 goto error_cleanup;
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
777 #if HAVE_HDF5_18
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
778 data_type_id = H5Dcreate (data_id, "type", type_id, space_id,
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
779 H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
780 #else
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
781 data_type_id = H5Dcreate (data_id, "type", type_id, space_id, H5P_DEFAULT);
9892
ac69e6f4b33d Add HDF5-1.8 compatibility while maintaining compatibility with HDF5-1.6 versions
Kacper Kowalik <xarthisius.kk@gmail.com>
parents: 9881
diff changeset
782 #endif
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
783 if (data_type_id < 0 || H5Dwrite (data_type_id, type_id, H5S_ALL, H5S_ALL,
5760
8d7162924bd3 [project @ 2006-04-14 04:01:37 by jwe]
jwe
parents: 5351
diff changeset
784 H5P_DEFAULT, t.c_str ()) < 0)
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
785 goto error_cleanup;
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
786
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
787 // Now call the real function to save the variable
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
788 retval = val.save_hdf5 (data_id, "value", save_as_floats);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
789
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
790 // attach doc string as comment:
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
791 if (retval && doc.length () > 0
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
792 && H5Gset_comment (loc_id, name.c_str (), doc.c_str ()) < 0)
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
793 retval = false;
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
794
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
795 // if it's global, add an attribute "OCTAVE_GLOBAL" with value 1
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
796 if (retval && mark_as_global)
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
797 retval = hdf5_add_attr (data_id, "OCTAVE_GLOBAL") >= 0;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
798
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
799 // We are saving in the new variable format, so mark it
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
800 if (retval)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
801 retval = hdf5_add_attr (data_id, "OCTAVE_NEW_FORMAT") >= 0;
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
802
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
803 error_cleanup:
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
804
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
805 if (data_type_id >= 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
806 H5Dclose (data_type_id);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
807
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
808 if (type_id >= 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
809 H5Tclose (type_id);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
810
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
811 if (space_id >= 0)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
812 H5Sclose (space_id);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
813
4687
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
814 if (data_id >= 0)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
815 H5Gclose (data_id);
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
816
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
817 if (! retval)
e95c86d48732 [project @ 2004-01-06 21:53:34 by jwe]
jwe
parents: 4675
diff changeset
818 error ("save: error while writing `%s' to hdf5 file", name.c_str ());
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
819
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
820 return retval;
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
821 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
822
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
823 // Write data from TC in HDF5 (binary) format to the stream OS,
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
824 // which must be an hdf5_ofstream, returning true on success.
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
825
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
826 bool
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
827 save_hdf5_data (std::ostream& os, const octave_value& tc,
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
828 const std::string& name, const std::string& doc,
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
829 bool mark_as_global, bool save_as_floats)
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
830 {
5760
8d7162924bd3 [project @ 2006-04-14 04:01:37 by jwe]
jwe
parents: 5351
diff changeset
831 hdf5_ofstream& hs = dynamic_cast<hdf5_ofstream&> (os);
4634
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
832
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
833 return add_hdf5_data (hs.file_id, tc, name, doc,
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
834 mark_as_global, save_as_floats);
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
835 }
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
836
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
837 #endif
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
838
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
839 /*
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
840 ;;; Local Variables: ***
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
841 ;;; mode: C++ ***
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
842 ;;; End: ***
79fe96966ca0 [project @ 2003-11-19 21:22:39 by jwe]
jwe
parents:
diff changeset
843 */