Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
CompareHdf5ResultsFiles.cpp
1/*
2
3Copyright (c) 2005-2024, University of Oxford.
4All rights reserved.
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6University of Oxford means the Chancellor, Masters and Scholars of the
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8Square, Oxford OX1 2JD, UK.
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10This file is part of Chaste.
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12Redistribution and use in source and binary forms, with or without
13modification, are permitted provided that the following conditions are met:
14 * Redistributions of source code must retain the above copyright notice,
15 this list of conditions and the following disclaimer.
16 * Redistributions in binary form must reproduce the above copyright notice,
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19 * Neither the name of the University of Oxford nor the names of its
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21 software without specific prior written permission.
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23THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
24AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
25IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
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32OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
33
34*/
35
36#include "CompareHdf5ResultsFiles.hpp"
37
38#include <iostream>
39#include <vector>
40#include "DistributedVectorFactory.hpp"
41#include "Hdf5DataReader.hpp"
42#include "petscvec.h"
43
44bool CompareFilesViaHdf5DataReader(std::string pathname1, std::string filename1, bool makeAbsolute1,
45 std::string pathname2, std::string filename2, bool makeAbsolute2,
46 double tol, std::string datasetName)
47{
48 Hdf5DataReader reader1(pathname1, filename1, makeAbsolute1, datasetName);
49 Hdf5DataReader reader2(pathname2, filename2, makeAbsolute2, datasetName);
50
51 unsigned number_nodes1 = reader1.GetNumberOfRows();
52 unsigned number_nodes2 = reader2.GetNumberOfRows();
53 if (number_nodes1 != number_nodes2)
54 {
55 std::cout << "Number of nodes " << number_nodes1 << " and " << number_nodes2 << " don't match\n";
56 return false;
57 }
58
59 // Check the variable names and units
60 std::vector<std::string> variable_names1 = reader1.GetVariableNames();
61 std::vector<std::string> variable_names2 = reader2.GetVariableNames();
62 std::string unlimited_variable1 = reader1.GetUnlimitedDimensionName();
63 std::string unlimited_variable2 = reader2.GetUnlimitedDimensionName();
64 std::string unlimited_variable_unit1 = reader1.GetUnlimitedDimensionUnit();
65 std::string unlimited_variable_unit2 = reader2.GetUnlimitedDimensionUnit();
66
67 unsigned num_vars = variable_names1.size();
68 if (num_vars != variable_names2.size())
69 {
70 std::cout << "Number of variables " << variable_names1.size()
71 << " and " << variable_names2.size() << " don't match\n";
72 return false;
73 }
74 if (unlimited_variable1 != unlimited_variable2)
75 {
76 std::cout << "Unlimited variable names " << unlimited_variable1 << " and "
77 << unlimited_variable2 << " don't match\n";
78 return false;
79 }
80 if (unlimited_variable_unit1 != unlimited_variable_unit2)
81 {
82 std::cout << "Unlimited variable units " << unlimited_variable_unit1 << " and "
83 << unlimited_variable_unit2 << " don't match\n";
84 return false;
85 }
86 for (unsigned var = 0; var < num_vars; var++)
87 {
88 std::string var_name = variable_names1[var];
89 if (var_name != variable_names2[var])
90 {
91 std::cout << "Variable names " << var_name << " and "
92 << variable_names2[var] << " don't match\n";
93 return false;
94 }
95 if (reader1.GetUnit(var_name) != reader2.GetUnit(var_name))
96 {
97 std::cout << "Units names " << reader1.GetUnit(var_name)
98 << " and " << reader2.GetUnit(var_name) << " don't match\n";
99 return false;
100 }
101 }
102
103 // Check the timestep vectors
104 std::vector<double> times1 = reader1.GetUnlimitedDimensionValues();
105 std::vector<double> times2 = reader2.GetUnlimitedDimensionValues();
106
107 if (times1.size() != times2.size())
108 {
109 std::cout << "Number of time steps " << times1.size()
110 << " and " << times2.size() << " don't match\n";
111 return false;
112 }
113
114 for (unsigned timestep = 0; timestep < times1.size(); timestep++)
115 {
117 if (fabs(times1[timestep] - times2[timestep]) > 1e-8)
118 {
119 std::cout << "Time step " << timestep << " doesn't match. First file says " << times1[timestep]
120 << " and second says " << times2[timestep] << std::endl;
121 return false;
122 }
123 }
124
125 bool is_complete1 = reader1.IsDataComplete();
126 bool is_complete2 = reader2.IsDataComplete();
127
128 if (is_complete1 != is_complete2)
129 {
130 std::cout << "One of the readers has incomplete data and the other doesn't\n";
131 return false;
132 }
133
134 if (is_complete1)
135 {
136 DistributedVectorFactory factory(number_nodes1);
137
138 Vec data1 = factory.CreateVec();
139 Vec data2 = factory.CreateVec();
140
141 for (unsigned timestep = 0; timestep < times1.size(); timestep++)
142 {
143 for (unsigned var = 0; var < num_vars; var++)
144 {
145 reader1.GetVariableOverNodes(data1, variable_names1[var], timestep);
146 reader2.GetVariableOverNodes(data2, variable_names2[var], timestep);
147
148#if (PETSC_VERSION_MAJOR == 2 && PETSC_VERSION_MINOR == 2) //PETSc 2.2
149 double minus_one = -1.0;
150 VecAXPY(&minus_one, data2, data1);
151#else
152 //[note: VecAXPY(y,a,x) computes y = ax+y]
153 VecAXPY(data1, -1.0, data2);
154#endif
155
156 PetscReal difference_norm;
157 VecNorm(data1, NORM_2, &difference_norm);
158
159 if (difference_norm > tol)
160 {
161 std::cout << "Time " << times1[timestep] << ": vectors differ in NORM_2 by " << difference_norm << std::endl;
162 return false;
163 }
164 }
165 }
166 PetscTools::Destroy(data1);
167 PetscTools::Destroy(data2);
168 }
169 else
170 {
171 // Incomplete data
172
173 // Check the index vectors
174 std::vector<unsigned> indices1 = reader1.GetIncompleteNodeMap();
175 std::vector<unsigned> indices2 = reader2.GetIncompleteNodeMap();
176
177 if (indices1.size() != indices2.size())
178 {
179 std::cout << "Index map sizes " << indices1.size() << " and " << indices2.size() << " don't match\n";
180 return false;
181 }
182
183 for (unsigned index = 0; index < indices1.size(); index++)
184 {
185 if (indices1[index] != indices2[index])
186 {
187 std::cout << "Node indices " << indices1[index] << " and " << indices2[index] << " don't match\n";
188 return false;
189 }
190 }
191
192 // Check all the data
193 for (unsigned index = 0; index < indices1.size(); index++)
194 {
195 unsigned node_index = indices1[index];
196 for (unsigned var = 0; var < num_vars; var++)
197 {
198 std::vector<double> var_over_time1 = reader1.GetVariableOverTime(variable_names1[var], node_index);
199 std::vector<double> var_over_time2 = reader2.GetVariableOverTime(variable_names1[var], node_index);
200 for (unsigned time_step = 0; time_step < var_over_time1.size(); time_step++)
201 {
202 if (fabs(var_over_time1[time_step] - var_over_time2[time_step]) > tol)
203 {
204 std::cout << "Node " << node_index << " at time step " << time_step << " variable " << variable_names1[var]
205 << " differs (" << var_over_time1[time_step] << " != " << var_over_time2[time_step] << ")" << std::endl;
206 return false;
207 }
208 }
209 }
210 }
211 }
212 return true;
213}
214
215bool CompareFilesViaHdf5DataReaderGlobalNorm(std::string pathname1, std::string filename1, bool makeAbsolute1,
216 std::string pathname2, std::string filename2, bool makeAbsolute2,
217 double tol, std::string datasetName)
218{
219 Hdf5DataReader reader1(pathname1, filename1, makeAbsolute1, datasetName);
220 Hdf5DataReader reader2(pathname2, filename2, makeAbsolute2, datasetName);
221
222 unsigned number_nodes1 = reader1.GetNumberOfRows();
223 bool is_the_same = true;
224 std::vector<std::string> variable_names1 = reader1.GetVariableNames();
225 std::vector<std::string> variable_names2 = reader2.GetVariableNames();
226 std::vector<double> times1 = reader1.GetUnlimitedDimensionValues();
227 unsigned num_vars = variable_names1.size();
228 DistributedVectorFactory factory(number_nodes1);
229
230 Vec data1 = factory.CreateVec();
231 Vec data2 = factory.CreateVec();
232
233 for (unsigned timestep = 0; timestep < times1.size(); timestep++)
234 {
235 for (unsigned var = 0; var < num_vars; var++)
236 {
237 reader1.GetVariableOverNodes(data1, variable_names1[var], timestep);
238 reader2.GetVariableOverNodes(data2, variable_names2[var], timestep);
239
240 PetscReal data1_norm;
241 PetscReal data2_norm;
242 VecNorm(data1, NORM_2, &data1_norm);
243 VecNorm(data2, NORM_2, &data2_norm);
244 PetscReal norm = fabs(data1_norm - data2_norm);
245 if (norm > tol)
246 {
247 is_the_same = false;
248 std::cout << "Vectors differ in global NORM_2 by " << norm << std::endl;
249 }
250 }
251 }
252
253 PetscTools::Destroy(data1);
254 PetscTools::Destroy(data2);
255
256 return is_the_same;
257}
static void Destroy(Vec &rVec)