1 /*****************************************************************************
5 ** Purpose: Convert an phantom object to an image file
6 ** Programmer: Kevin Rosenberg
9 ** This is part of the CTSim program
10 ** Copyright (C) 1983-2000 Kevin Rosenberg
12 ** $Id: phm2if.cpp,v 1.25 2002/05/03 10:28:17 kevin Exp $
14 ** This program is free software; you can redistribute it and/or modify
15 ** it under the terms of the GNU General Public License (version 2) as
16 ** published by the Free Software Foundation.
18 ** This program is distributed in the hope that it will be useful,
19 ** but WITHOUT ANY WARRANTY; without even the implied warranty of
20 ** MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
21 ** GNU General Public License for more details.
23 ** You should have received a copy of the GNU General Public License
24 ** along with this program; if not, write to the Free Software
25 ** Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
26 ******************************************************************************/
32 enum { O_PHANTOM, O_DESC, O_NSAMPLE, O_FILTER, O_VIEW_RATIO, O_TRACE, O_VERBOSE, O_HELP,
33 O_PHMFILE, O_FILTER_DOMAIN, O_FILTER_BW, O_FILTER_PARAM, O_DEBUG, O_VERSION };
35 static struct option my_options[] =
37 {"phantom", 1, 0, O_PHANTOM},
38 {"phmfile", 1, 0, O_PHMFILE},
39 {"desc", 1, 0, O_DESC},
40 {"nsample", 1, 0, O_NSAMPLE},
41 {"filter", 1, 0, O_FILTER},
42 {"filter-domain", 1, 0, O_FILTER_DOMAIN},
43 {"filter-bw", 1, 0, O_FILTER_BW},
44 {"filter-param", 1, 0, O_FILTER_PARAM},
45 {"trace", 1, 0, O_TRACE},
46 {"view-ratio", 1, 0, O_VIEW_RATIO},
47 {"verbose", 0, 0, O_VERBOSE},
48 {"debug", 0, 0, O_DEBUG},
49 {"help", 0, 0, O_HELP},
50 {"version", 0, 0, O_VERSION},
54 static const char* g_szIdStr = "$Id: phm2if.cpp,v 1.25 2002/05/03 10:28:17 kevin Exp $";
57 phm2if_usage (const char *program)
59 std::cout << "phm2if_usage: " << fileBasename(program) << " outfile nx ny [--phantom phantom-name] [--phmfile filename] [--filter filter-name] [OPTIONS]\n";
60 std::cout << "Generate phantom image from a predefined --phantom or a --phmfile\n";
61 std::cout << std::endl;
62 std::cout << " outfile Name of output file for image\n";
63 std::cout << " nx Number of pixels X-axis\n";
64 std::cout << " ny Number of pixels Y-axis\n";
65 std::cout << " --view-ratio View diameter to phantom diameter ratio (default = 1)\n";
66 std::cout << " --phantom Phantom to use for projection\n";
67 std::cout << " herman Herman head phantom\n";
68 std::cout << " shepp-logan Shepp-Logan head phantom\n";
69 std::cout << " unit-pulse Unit pulse phantom\n";
70 std::cout << " --phmfile Generate Phantom from phantom file\n";
71 std::cout << " --filter Generate Phantom from a filter function\n";
72 std::cout << " abs_bandlimit Abs * Bandlimiting\n";
73 std::cout << " abs_sinc Abs * Sinc\n";
74 std::cout << " abs_cos Abs * Cosine\n";
75 std::cout << " abs_hamming Abs * Hamming\n";
76 std::cout << " shepp Shepp-Logan\n";
77 std::cout << " bandlimit Bandlimiting\n";
78 std::cout << " sinc Sinc\n";
79 std::cout << " cos Cosine\n";
80 std::cout << " triangle Triangle\n";
81 std::cout << " hamming Hamming\n";
82 std::cout << " --filter-param Alpha level for Hamming filter\n";
83 std::cout << " --filter-domain Set domain of filter\n";
84 std::cout << " spatial Spatial domain (default)\n";
85 std::cout << " freq Frequency domain\n";
86 std::cout << " --filter-bw Filter bandwidth (default = 1)\n";
87 std::cout << " --desc Description of raysum\n";
88 std::cout << " --nsample Number of samples per axis per pixel (default = 1)\n";
89 std::cout << " --trace Trace level to use\n";
90 std::cout << " none No tracing (default)\n";
91 std::cout << " console Trace text level\n";
92 std::cout << " --debug Debug mode\n";
93 std::cout << " --verbose Verbose mode\n";
94 std::cout << " --version Print version\n";
95 std::cout << " --help Print this help message\n";
99 void mpi_gather_image (MPIWorld& mpiWorld, ImageFile* pImGlobal, ImageFile* pImLocal, const int optDebug);
103 phm2if_main (int argc, char* const argv[])
105 ImageFile* pImGlobal = NULL;
107 std::string optPhmName;
108 std::string optFilterName;
109 std::string optDomainName (SignalFilter::convertDomainIDToName (SignalFilter::DOMAIN_SPATIAL));
110 std::string optOutFilename;
112 std::string optPhmFilename;
116 double optViewRatio = 1.;
117 double optFilterParam = 1.;
118 double optFilterBW = 1.;
119 int optTrace = Trace::TRACE_NONE;
120 bool optVerbose = false;
121 bool optDebug = false;
127 ImageFile* pImLocal = NULL;
128 MPIWorld mpiWorld (argc, argv);
129 if (mpiWorld.getRank() == 0) {
132 int c = getopt_long(argc, argv, "", my_options, NULL);
141 optPhmFilename = optarg;
150 if ((optTrace = Trace::convertTraceNameToID(optarg)) == Trace::TRACE_INVALID) {
151 phm2if_usage(argv[0]);
156 optFilterName = optarg;
158 case O_FILTER_DOMAIN:
159 optDomainName = optarg;
165 optFilterBW = strtod(optarg, &endptr);
166 endstr = optarg + strlen(optarg);
167 if (endptr != endstr) {
168 sys_error(ERR_SEVERE,"Error setting --filter-bw to %s\n", optarg);
169 phm2if_usage(argv[0]);
174 optViewRatio = strtod(optarg, &endptr);
175 endstr = optarg + strlen(optarg);
176 if (endptr != endstr) {
177 sys_error(ERR_SEVERE,"Error setting --view-ratio to %s\n", optarg);
178 phm2if_usage(argv[0]);
183 optFilterParam = strtod(optarg, &endptr);
184 endstr = optarg + strlen(optarg);
185 if (endptr != endstr) {
186 sys_error(ERR_SEVERE,"Error setting --filter-param to %s\n", optarg);
187 phm2if_usage(argv[0]);
192 opt_nsample = strtol(optarg, &endptr, 10);
193 endstr = optarg + strlen(optarg);
194 if (endptr != endstr) {
195 sys_error(ERR_SEVERE,"Error setting --nsample to %s\n", optarg);
196 phm2if_usage(argv[0]);
202 std::cout << "Version " << VERSION << std::endl << g_szIdStr << std::endl;
204 std::cerr << "Unknown version number\n";
208 phm2if_usage(argv[0]);
211 phm2if_usage(argv[0]);
216 if (optPhmName == "" && optFilterName == "" && optPhmFilename == "") {
217 std::cerr << "No phantom defined\n" << std::endl;
218 phm2if_usage(argv[0]);
222 if (optind + 3 != argc) {
223 phm2if_usage(argv[0]);
226 optOutFilename = argv[optind];
227 opt_nx = strtol(argv[optind+1], &endptr, 10);
228 endstr = argv[optind+1] + strlen(argv[optind+1]);
229 if (endptr != endstr) {
230 sys_error(ERR_SEVERE,"Error setting nx to %s\n", argv[optind+1]);
231 phm2if_usage(argv[0]);
234 opt_ny = strtol(argv[optind+2], &endptr, 10);
235 endstr = argv[optind+2] + strlen(argv[optind+2]);
236 if (endptr != endstr) {
237 sys_error(ERR_SEVERE,"Error setting ny to %s\n", argv[optind+2]);
238 phm2if_usage(argv[0]);
242 std::ostringstream oss;
243 oss << "phm2if: nx=" << opt_nx << ", ny=" << opt_ny << ", viewRatio=" << optViewRatio << ", nsample=" << opt_nsample << ", ";
244 if (optPhmFilename != "")
245 oss << "phantomFile=" << optPhmFilename;
246 else if (optPhmName != "")
247 oss << "phantom=" << optPhmName;
248 else if (optFilterName != "") {
249 oss << "filter=" << optFilterName << " - " << optDomainName;
252 oss << ": " << optDesc;
255 if (optPhmName != "") {
256 phm.createFromPhantom (optPhmName.c_str());
258 std::cout << phm.failMessage() << std::endl << std::endl;
259 phm2if_usage(argv[0]);
264 if (optPhmFilename != "") {
265 phm.createFromFile(optPhmFilename.c_str());
267 if (mpiWorld.getRank() == 0)
268 std::cerr << "Can't use phantom from file in MPI mode\n";
274 std::cout << "Rasterize Phantom to Image\n" << std::endl;
280 TimerCollectiveMPI timerBcast (mpiWorld.getComm());
281 mpiWorld.BcastString (optPhmName);
282 mpiWorld.getComm().Bcast (&optVerbose, 1, MPI::INT, 0);
283 mpiWorld.getComm().Bcast (&optDebug, 1, MPI::INT, 0);
284 mpiWorld.getComm().Bcast (&optTrace, 1, MPI::INT, 0);
285 mpiWorld.getComm().Bcast (&opt_nx, 1, MPI::INT, 0);
286 mpiWorld.getComm().Bcast (&opt_ny, 1, MPI::INT, 0);
287 mpiWorld.getComm().Bcast (&opt_nsample, 1, MPI::INT, 0);
288 mpiWorld.getComm().Bcast (&optViewRatio, 1, MPI::DOUBLE, 0);
289 mpiWorld.getComm().Bcast (&optFilterParam, 1, MPI::DOUBLE, 0);
290 mpiWorld.getComm().Bcast (&optFilterBW, 1, MPI::DOUBLE, 0);
292 mpiWorld.BcastString (optFilterName);
293 mpiWorld.BcastString (optDomainName);
296 timerBcast.timerEndAndReport ("Time to broadcast variables");
298 mpiWorld.setTotalWorkUnits (opt_nx);
300 if (mpiWorld.getRank() > 0 && optPhmName != "")
301 phm.createFromPhantom (optPhmName.c_str());
303 if (mpiWorld.getRank() == 0) {
304 pImGlobal = new ImageFile (opt_nx, opt_ny);
306 pImLocal = new ImageFile (opt_nx, opt_ny);
308 pImGlobal = new ImageFile (opt_nx, opt_ny);
311 ImageFileArray v = NULL;
313 if (mpiWorld.getRank() == 0)
314 v = pImGlobal->getArray ();
316 if (phm.getComposition() == P_UNIT_PULSE) {
317 if (mpiWorld.getRank() == 0) {
318 v[opt_nx/2][opt_ny/2] = 1.;
320 } else if (optFilterName != "") {
321 if (mpiWorld.getRank() == 0) {
322 pImGlobal->filterResponse (optDomainName.c_str(), optFilterBW, optFilterName.c_str(), optFilterParam);
325 TimerCollectiveMPI timerRasterize (mpiWorld.getComm());
326 phm.convertToImagefile (*pImLocal, optViewRatio, opt_nsample, optTrace, mpiWorld.getMyStartWorkUnit(), mpiWorld.getMyLocalWorkUnits(), false);
328 timerRasterize.timerEndAndReport ("Time to rasterize phantom");
330 TimerCollectiveMPI timerGather (mpiWorld.getComm());
331 mpi_gather_image (mpiWorld, pImGlobal, pImLocal, optDebug);
333 timerGather.timerEndAndReport ("Time to gather image");
336 v = pImGlobal->getArray ();
337 if (phm.getComposition() == P_UNIT_PULSE) {
338 v[opt_nx/2][opt_ny/2] = 1.;
339 } else if (optFilterName != "") {
340 pImGlobal->filterResponse (optDomainName.c_str(), optFilterBW, optFilterName.c_str(), optFilterParam);
342 phm.convertToImagefile (*pImGlobal, optViewRatio, opt_nsample, optTrace);
347 if (mpiWorld.getRank() == 0)
350 double calctime = timerProgram.timerEnd ();
351 pImGlobal->labelAdd (Array2dFileLabel::L_HISTORY, optDesc.c_str(), calctime);
352 pImGlobal->fileWrite (optOutFilename.c_str());
354 std::cout << "Time to rasterize phantom: " << calctime << " seconds\n";
368 void mpi_gather_image (MPIWorld& mpiWorld, ImageFile* pImGlobal, ImageFile* pImLocal, const int optDebug)
370 ImageFileArray vLocal = pImLocal->getArray();
371 ImageFileArray vGlobal = NULL;
372 int nyLocal = pImLocal->ny();
374 if (mpiWorld.getRank() == 0)
375 vGlobal = pImGlobal->getArray();
377 for (int iw = 0; iw < mpiWorld.getMyLocalWorkUnits(); iw++)
378 mpiWorld.getComm().Send(vLocal[iw], nyLocal, pImLocal->getMPIDataType(), 0, 0);
380 if (mpiWorld.getRank() == 0) {
381 for (int iProc = 0; iProc < mpiWorld.getNumProcessors(); iProc++) {
382 for (int iw = mpiWorld.getStartWorkUnit(iProc); iw <= mpiWorld.getEndWorkUnit(iProc); iw++) {
384 mpiWorld.getComm().Recv(vGlobal[iw], nyLocal, pImLocal->getMPIDataType(), iProc, 0, status);
394 main (int argc, char* argv[])
399 retval = phm2if_main(argc, argv);
400 } catch (exception e) {
401 std::cerr << "Exception: " << e.what() << std::endl;
403 std::cerr << "Unknown exception\n";