File: CommandFileReadTime.cxx

package info (click to toggle)
caret 5.6.1.3~dfsg.1-4
  • links: PTS, VCS
  • area: main
  • in suites: squeeze
  • size: 23,352 kB
  • ctags: 27,394
  • sloc: cpp: 363,314; python: 6,718; ansic: 5,507; makefile: 227; sh: 9
file content (261 lines) | stat: -rw-r--r-- 8,776 bytes parent folder | download
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
/*LICENSE_START*/
/*
 *  Copyright 1995-2002 Washington University School of Medicine
 *
 *  http://brainmap.wustl.edu
 *
 *  This file is part of CARET.
 *
 *  CARET is free software; you can redistribute it and/or modify
 *  it under the terms of the GNU General Public License as published by
 *  the Free Software Foundation; either version 2 of the License, or
 *  (at your option) any later version.
 *
 *  CARET is distributed in the hope that it will be useful,
 *  but WITHOUT ANY WARRANTY; without even the implied warranty of
 *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 *  GNU General Public License for more details.
 *
 *  You should have received a copy of the GNU General Public License
 *  along with CARET; if not, write to the Free Software
 *  Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
 *
 */
/*LICENSE_END*/

#include <iostream>

#include <QFileInfo>
#include <QTime>

#include "BrainSet.h"
#include "CommandFileReadTime.h"
#include "CoordinateFile.h"
#include "BorderProjectionFile.h"
#include "FileFilters.h"
#include "FileUtilities.h"
#include "FociProjectionFile.h"
#include "FreeSurferSurfaceFile.h"
#include "GiftiDataArrayFile.h"
#include "MetricFile.h"
#include "PreferencesFile.h"
#include "ProgramParameters.h"
#include "ScriptBuilderParameters.h"
#include "SpecFile.h"
#include "SurfaceShapeFile.h"
#include "TopologyFile.h"
#include "VtkModelFile.h"

/**
 * constructor.
 */
CommandFileReadTime::CommandFileReadTime()
   : CommandBase("-file-read-time",
                 "FILE READ TIME")
{
   iterations = 3;
   numberOfThreads = 1;
}

/**
 * destructor.
 */
CommandFileReadTime::~CommandFileReadTime()
{
}

/**
 * get the script builder parameters.
 */
void 
CommandFileReadTime::getScriptBuilderParameters(ScriptBuilderParameters& paramsOut) const
{
   paramsOut.clear();
   
   QStringList filters;
   filters << FileFilters::getCoordinateGenericFileFilter();
   filters << FileFilters::getBorderProjectionFileFilter();
   filters << FileFilters::getFociProjectionFileFilter();
   filters << FileFilters::getMetricFileFilter();
   filters << FileFilters::getSpecFileFilter();
   filters << FileFilters::getSurfaceShapeFileFilter();
   filters << FileFilters::getTopologyGenericFileFilter();
   
   paramsOut.addFile("File Name", filters);
   paramsOut.addVariableListOfParameters("File Timing");
}

/**
 * get full help information.
 */
QString 
CommandFileReadTime::getHelpInformation() const
{
   QString helpInfo =
      (indent3 + getShortDescription() + "\n"
       + indent6 + parameters->getProgramNameWithoutPath() + " " + getOperationSwitch() + "  \n"
       + indent9 + "<filename>\n"
       + indent9 + "[-iter iterations]\n"
       + indent9 + "[-threads number-of-threads] \n"
       + indent9 + "\n"
       + indent9 + "Time the reading of a caret data file.  Not all caret files\n"
       + indent9 + "are supported for this command.\n"
       + indent9 + "\n"
       + indent9 + "The file is read \"iteration\" times and the average of \n"
       + indent9 + "those times is printed.  The default number of iterations\n"
       + indent9 + "is " + QString::number(iterations) + ". \n"
       + indent9 + "\n"
       + indent9 + "File types supported at this time are\n"
       + indent9 + "   Coordinate \n"
       + indent9 + "   Border Projection \n"
       + indent9 + "   Foci Projection \n"
       + indent9 + "   Metric \n"
       + indent9 + "   Spec File \n"
       + indent9 + "   Surface Shape File \n"
       + indent9 + "   Topology File \n"
       + indent9 + "\n"
       + indent9 + "The time for a Spec File is the time to read all of the\n"
       + indent9 + "spec file's data files.\n"
       + indent9 + "\n"
       + indent9 + "The number of threads parameter applied only to the \n"
       + indent9 + "reading of Spec Files.  The default number of threads \n"
       + indent9 + "is " + QString::number(numberOfThreads) + ". \n"
       + indent9 + "\n");
      
   return helpInfo;
}

/**
 * read the file for timing purposes.
 */
void 
CommandFileReadTime::readFileForTiming(AbstractFile* dataFile,
                                       const QString& fileName,
                                       float& timeToReadOut,
                                       float& fileSizeInMBOut)
{
   float timeTotal = 0.0;
   for (int i = 0; i < iterations; i++) {
      dataFile->readFile(fileName);
      timeTotal += dataFile->getTimeToReadFileInSeconds();
   }
   
   timeToReadOut = timeTotal / static_cast<float>(iterations);
   
   const float oneMegabyte = 1048576.0;
   QFileInfo fi(dataFile->getFileName());
   fileSizeInMBOut = fi.size() / oneMegabyte;
}

/**
 * execute the command.
 */
void 
CommandFileReadTime::executeCommand() throw (BrainModelAlgorithmException,
                                     CommandException,
                                     FileException,
                                     ProgramParametersException,
                                     StatisticException)
{
   //
   // Get the parameters
   //
   const QString fileName = parameters->getNextParameterAsString("File Name");
   while (parameters->getParametersAvailable()) {
      const QString paramName = parameters->getNextParameterAsString("Param Name");
      if (paramName == "-iter") {
         iterations = parameters->getNextParameterAsInt("Iterations");
      }
      else if (paramName == "-threads") {
         numberOfThreads = parameters->getNextParameterAsInt("Number of Threads");
      }
      else {
         throw CommandException("Unrecognized parameter: " + paramName);
      }
   }
   const QString fileNameNoPath = FileUtilities::basename(fileName);
   
   //
   // Create a file based upon the file name extension
   //
   float timeInSeconds = 0.0;
   float fileSizeInMB = 0.0;
   if (fileName.endsWith(SpecFile::getCoordinateFileExtension())) {
      CoordinateFile cf;
      readFileForTiming(&cf, fileName, timeInSeconds, fileSizeInMB);
   }
   else if (fileName.endsWith(SpecFile::getBorderProjectionFileExtension())) {
      BorderProjectionFile bpf;
      readFileForTiming(&bpf, fileName, timeInSeconds, fileSizeInMB);
   }
   else if (fileName.endsWith(SpecFile::getFociProjectionFileExtension())) {
      FociProjectionFile fpf;
      readFileForTiming(&fpf, fileName, timeInSeconds, fileSizeInMB);
   }
   else if (fileName.endsWith(SpecFile::getFreeSurferAsciiSurfaceFileExtension())) {
      FreeSurferSurfaceFile fs;
      readFileForTiming(&fs, fileName, timeInSeconds, fileSizeInMB);
   }
   else if (fileName.endsWith(SpecFile::getGiftiGenericFileExtension())) {
      GiftiDataArrayFile gifti;
      readFileForTiming(&gifti, fileName, timeInSeconds, fileSizeInMB);
   }
   else if (fileName.endsWith(SpecFile::getMetricFileExtension())) {
      MetricFile mf;
      readFileForTiming(&mf, fileName, timeInSeconds, fileSizeInMB);
   }
   else if (fileName.endsWith(SpecFile::getSpecFileExtension())) {
      for (int i = 0; i < iterations; i++) {
         SpecFile sf;
         sf.readFile(fileName);
         sf.setAllFileSelections(SpecFile::SPEC_TRUE);
         BrainSet bs;
         PreferencesFile* pf = bs.getPreferencesFile();
         pf->setNumberOfFileReadingThreads(numberOfThreads);
         QString errorMessage;
         QTime timer;
         timer.start();
         bs.readSpecFile(sf,
                         fileName,
                         errorMessage);
         if (errorMessage.isEmpty() == false) {
            throw CommandException("Spec File Read error, timing test invalid\n"
                                   + errorMessage);
         }
         timeInSeconds += (static_cast<float>(timer.elapsed()) / 1000.0);
      }
      
      timeInSeconds /= static_cast<float>(iterations);
   }
   else if (fileName.endsWith(SpecFile::getSurfaceShapeFileExtension())) {
      SurfaceShapeFile ssf;
      readFileForTiming(&ssf, fileName, timeInSeconds, fileSizeInMB);
   }
   else if (fileName.endsWith(SpecFile::getTopoFileExtension())) {
      TopologyFile tf;
      readFileForTiming(&tf, fileName, timeInSeconds, fileSizeInMB);
   }
   else if (fileName.endsWith(SpecFile::getVtkModelFileExtension())) {
      VtkModelFile vmf;
      readFileForTiming(&vmf, fileName, timeInSeconds, fileSizeInMB);
   }
   else  {
      throw CommandException("Unsupported file type for timing.");
   }
   
   std::cout << "------ "
             << fileNameNoPath.toAscii().constData()
             << " ------"
             << std::endl;
   std::cout << "   Average time to read: "
             << timeInSeconds
             << " seconds." << std::endl;
   if (fileSizeInMB > 0) {
      std::cout << "   File Size (MB): "
                << fileSizeInMB
                << std::endl;
   }
}