X-Git-Url: http://git.kpe.io/?p=ctsim.git;a=blobdiff_plain;f=src%2Fphm2if.cpp;fp=src%2Fphm2if.cpp;h=9d32f1ea069d6d55faad56a955ca130526d1ce4b;hp=0000000000000000000000000000000000000000;hb=f173363bba9997045e5ec825e64d6253ec4da235;hpb=98f0fd3cec5ca685966017168efca4f14ebbf0b9

diff --git a/src/phm2if.cpp b/src/phm2if.cpp
new file mode 100644
index 0000000..9d32f1e
--- /dev/null
+++ b/src/phm2if.cpp
@@ -0,0 +1,503 @@
+/*****************************************************************************
+**  This is part of the CTSim program
+**  Copyright (C) 1983-2000 Kevin Rosenberg
+**
+**  $Id: phm2if.cpp,v 1.1 2000/06/07 02:29:05 kevin Exp $
+**  $Log: phm2if.cpp,v $
+**  Revision 1.1  2000/06/07 02:29:05  kevin
+**  Initial C++ versions
+**
+**  Revision 1.10  2000/05/24 22:50:04  kevin
+**  Added support for new SGP library
+**
+**  Revision 1.9  2000/05/16 04:33:59  kevin
+**  Improved option processing
+**
+**  Revision 1.8  2000/05/11 01:06:30  kevin
+**  Changed sprintf to snprintf
+**
+**  Revision 1.7  2000/05/08 20:02:32  kevin
+**  ANSI C changes
+**
+**  Revision 1.6  2000/05/03 08:49:50  kevin
+**  Code cleanup
+**
+**  Revision 1.5  2000/04/30 19:17:54  kevin
+**  *** empty log message ***
+**
+**  Revision 1.4  2000/04/30 04:06:13  kevin
+**  Update Raysum i/o routines
+**  Fix MPI bug in ctrec (scatter_raysum) that referenced rs_global
+**
+**  Revision 1.3  2000/04/28 18:19:01  kevin
+**  removed unused files
+**
+**  Revision 1.2  2000/04/28 13:50:45  kevin
+**  Removed Makefile Makefile.in that are automatically generated by autoconf
+**
+**  Revision 1.1.1.1  2000/04/28 13:02:44  kevin
+**  Initial CVS import for first public release
+**
+**
+**
+**  This program is free software; you can redistribute it and/or modify
+**  it under the terms of the GNU General Public License (version 2) as
+**  published by the Free Software Foundation.
+**
+**  This program 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 this program; if not, write to the Free Software
+**  Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+******************************************************************************/
+
+/* FILE
+ *   phm2sdf.c			Generate a SDF image from a phantom
+ *
+ * HISTORY
+ *   1984 - Final DOS verion
+ *   1999 - First UNIX version
+ */
+
+#include "ct.h"
+
+enum { O_PHANTOM, O_DESC, O_NSAMPLE, O_FILTER, O_TRACE, O_VERBOSE, O_HELP, 
+       O_PHMFILE, O_FILTER_DOMAIN, O_FILTER_BW, O_FILTER_PARAM, O_DEBUG, O_VERSION };
+
+static struct option my_options[] = 
+{
+  {"phantom", 1, 0, O_PHANTOM},
+  {"phmfile", 1, 0, O_PHMFILE},
+  {"desc", 1, 0, O_DESC},
+  {"nsample", 1, 0, O_NSAMPLE},
+  {"filter", 1, 0, O_FILTER},
+  {"filter-domain", 1, 0, O_FILTER_DOMAIN},
+  {"filter-bw", 1, 0, O_FILTER_BW},
+  {"filter-param", 1, 0, O_FILTER_PARAM},
+  {"trace", 1, 0, O_TRACE},
+  {"verbose", 0, 0, O_VERBOSE},
+  {"debug", 0, 0, O_DEBUG},
+  {"help", 0, 0, O_HELP},
+  {"version", 0, 0, O_VERSION},
+  {0, 0, 0, 0}
+};
+
+void 
+phm2sdf_usage (const char *program)
+{
+  fprintf(stdout,"phm2sdf_usage: %s outfile nx ny [--phantom phantom-name] [--phmfile filename] [--filter filter-name] [OPTIONS]\n",kbasename(program)); 
+  fprintf(stdout,"Generate phantom image from a predefined --phantom or a --phmfile\n");
+  fprintf(stdout,"\n");
+  fprintf(stdout,"     outfile         Name of output file for image\n");
+  fprintf(stdout,"     nx              Number of pixels X-axis\n");
+  fprintf(stdout,"     ny              Number of pixels Y-axis\n");
+  fprintf(stdout,"     --phantom       Phantom to use for projection\n");
+  fprintf(stdout,"        herman       Herman head phantom\n");
+  fprintf(stdout,"        rowland      Rowland head phantom\n");
+  fprintf(stdout,"        browland     Bordered Rowland head phantom\n");
+  fprintf(stdout,"        unitpulse    Unit pulse phantom\n");
+  fprintf(stdout,"     --phmfile       Generate Phantom from phantom file\n");
+  fprintf(stdout,"     --filter        Generate Phantom from a filter function\n");
+  fprintf(stdout,"       abs_bandlimit Abs * Bandlimiting\n");
+  fprintf(stdout,"       abs_sinc      Abs * Sinc\n");
+  fprintf(stdout,"       abs_cos       Abs * Cosine\n");
+  fprintf(stdout,"       abs_hamming   Abs * Hamming\n");
+  fprintf(stdout,"       shepp         Shepp-Logan\n");
+  fprintf(stdout,"       bandlimit     Bandlimiting\n");
+  fprintf(stdout,"       sinc          Sinc\n");
+  fprintf(stdout,"       cos           Cosine\n");
+  fprintf(stdout,"       triangle      Triangle\n");
+  fprintf(stdout,"       hamming       Hamming\n");
+  fprintf(stdout,"     --filter-param  Alpha level for Hamming filter\n");
+  fprintf(stdout,"     --filter-domain Set domain of filter\n");
+  fprintf(stdout,"         spatial     Spatial domain (default)\n");
+  fprintf(stdout,"         freq        Frequency domain\n");
+  fprintf(stdout,"     --filter-bw     Filter bandwidth (default = 1)\n");
+  fprintf(stdout,"     --desc          Description of raysum\n");
+  fprintf(stdout,"     --nsample       Number of samples per axis per pixel (default = 1)\n");
+  fprintf(stdout,"     --trace         Trace level to use\n");
+  fprintf(stdout,"        none         No tracing (default)\n");
+  fprintf(stdout,"        text         Trace text level\n");
+  fprintf(stdout,"        phm          Trace phantom\n");
+  fprintf(stdout,"        rays         Trace rays\n");
+  fprintf(stdout,"        plot         Trace plot\n");
+  fprintf(stdout,"        clipping     Trace clipping\n");
+  fprintf(stdout,"     --debug         Debug mode\n");
+  fprintf(stdout,"     --verbose       Verbose mode\n");
+  fprintf(stdout,"     --version       Print version\n");
+  fprintf(stdout,"     --help          Print this help message\n");
+}
+
+#ifdef MPI_CT
+void mpi_gather_image (ImageFile *im_global, ImageFile *im_local, const int opt_debug);
+#endif
+
+int 
+phm2sdf_main (const int argc, char *const argv[])
+{
+  ImageFile *im_global = NULL;
+  PHANTOM *phm = NULL;
+  int opt_nx = 0, opt_ny = 0;
+  int opt_nsample = 1;
+  int opt_phmnum = -1;
+  FilterType opt_filter = static_cast<FilterType>(-1);
+  DomainType opt_filter_domain = D_SPATIAL;
+  char *opt_outfile = NULL;
+  int opt_debug = 0;
+  char str[256];
+  char opt_desc[256], opt_phmfilename[256];
+  char *endstr, *endptr;
+  double opt_filter_param = 1;
+  double opt_filter_bw = 1.;
+  int opt_trace = TRACE_NONE;
+  int opt_verbose = 0;
+  double time_start=0, time_end=0;
+#ifdef MPI_CT
+  ImageFile *im_local = NULL;
+  int mpi_argc = argc;
+  char **mpi_argv = (char **) argv;
+  double mpi_t1, mpi_t2, mpi_t, mpi_t_g;
+
+  MPI_Init(&mpi_argc, &mpi_argv);
+  MPI_Comm_dup (MPI_COMM_WORLD, &mpi_ct.comm);
+  MPI_Comm_size(mpi_ct.comm, &mpi_ct.nproc);
+  MPI_Comm_rank(mpi_ct.comm, &mpi_ct.my_rank);
+
+  if (mpi_ct.nproc > MPI_MAX_PROCESS) {
+    sys_error(ERR_FATAL, "Number of mpi processes (%d) exceeds max processes (%d)",
+	      mpi_ct.nproc, MPI_MAX_PROCESS);
+  }
+#endif
+
+#ifdef MPI_CT
+  time_start = MPI_Wtime();
+#else
+  time_start = td_current_sec();
+#endif
+  
+#ifdef MPI_CT
+  if (mpi_ct.my_rank == 0) {
+#endif
+
+    strcpy(opt_desc, "");
+    strcpy(opt_phmfilename, "");
+    while (1) {
+      int c = getopt_long(argc, argv, "", my_options, NULL);
+      char *endptr = NULL;
+      char *endstr;
+      
+      if (c == -1)
+	break;
+      
+      switch (c) {
+      case O_PHANTOM:
+	if ((opt_phmnum = opt_set_phantom(optarg)) < 0) {
+	  phm2sdf_usage(argv[0]);
+	  return (1);
+	}
+	break;
+      case O_PHMFILE:
+	strncpy(opt_phmfilename, optarg, sizeof(opt_phmfilename));
+	phm = phm_create_from_file(opt_phmfilename);
+#ifdef MPI_CT
+	if (mpi_ct.my_rank == 0) 
+	  fprintf(stderr, "Can't use phantom from file in MPI mode\n");
+	return (1);
+#endif
+	break;
+      case O_VERBOSE:
+	opt_verbose = 1;
+	break;
+      case O_DEBUG:
+	opt_debug = 1;
+	break;
+      case O_TRACE:
+	if ((opt_trace = opt_set_trace(optarg)) < 0) {
+	  phm2sdf_usage(argv[0]);
+	  return (1);
+	}
+	break;
+      case O_FILTER:
+	if ((opt_filter = opt_set_filter(optarg)) < 0) {
+	  phm2sdf_usage (argv[0]);
+	  return (1);
+	}
+	break;
+      case O_FILTER_DOMAIN:
+	if ((opt_filter_domain = opt_set_filter_domain(optarg)) < 0) {
+	  phm2sdf_usage (argv[0]);
+	  return (1);
+	}
+	break;
+      case O_DESC:
+	strncpy(opt_desc, optarg, sizeof(opt_desc));
+	break;
+      case O_FILTER_BW:
+	opt_filter_bw = strtod(optarg, &endptr);
+	endstr = optarg + strlen(optarg);
+	if (endptr != endstr) {
+	  fprintf(stderr,"Error setting --filter-bw to %s\n", optarg);
+	  phm2sdf_usage(argv[0]);
+	  return (1);
+	}
+	break;
+      case O_FILTER_PARAM:
+	opt_filter_param = strtod(optarg, &endptr);
+	endstr = optarg + strlen(optarg);
+	if (endptr != endstr) {
+	  fprintf(stderr,"Error setting --filter-param to %s\n", optarg);
+	  phm2sdf_usage(argv[0]);
+	  return (1);
+	}
+	break;
+      case O_NSAMPLE:
+	opt_nsample = strtol(optarg, &endptr, 10);
+	endstr = optarg + strlen(optarg);
+	if (endptr != endstr) {
+	  fprintf(stderr,"Error setting --nsample to %s\n", optarg);
+	  phm2sdf_usage(argv[0]);
+	  return (1);
+	}
+	break;
+        case O_VERSION:
+#ifdef VERSION
+	  fprintf(stdout, "Version %s\n", VERSION);
+#else
+	  fprintf(stderr, "Unknown version number");
+#endif
+      case O_HELP:
+      case '?':
+	phm2sdf_usage(argv[0]);
+	return (0);
+      default:
+	phm2sdf_usage(argv[0]);
+	return (1);
+      }
+    }
+    
+    if (phm == NULL && opt_phmnum == -1 && opt_filter == -1) {
+      fprintf(stderr, "No phantom defined\n");
+      phm2sdf_usage(argv[0]);
+      return (1);
+    }
+
+    if (optind + 3 != argc) {
+      phm2sdf_usage(argv[0]);
+      return (1);
+    }
+    opt_outfile = argv[optind];
+    opt_nx = strtol(argv[optind+1], &endptr, 10);
+    endstr = argv[optind+1] + strlen(argv[optind+1]);
+    if (endptr != endstr) {
+      fprintf(stderr,"Error setting nx to %s\n", argv[optind+1]);
+      phm2sdf_usage(argv[0]);
+      return (1);
+    }
+    opt_ny = strtol(argv[optind+2], &endptr, 10);
+    endstr = argv[optind+2] + strlen(argv[optind+2]);
+    if (endptr != endstr) {
+      fprintf(stderr,"Error setting ny to %s\n", argv[optind+2]);
+      phm2sdf_usage(argv[0]);
+      return (1);
+    }
+    
+    snprintf(str, sizeof(str), "nx=%d, ny=%d, nsample=%d, ", opt_nx, opt_ny, opt_nsample);
+    if (opt_phmfilename[0]) {
+      strncat(str, "phantom=", sizeof(str));
+      strncat(str, opt_phmfilename, sizeof(str));
+    }
+    else if (opt_phmnum != -1) {
+      strncat(str, "phantom=", sizeof(str));
+      strncat(str, name_of_phantom(opt_phmnum), sizeof(str));
+    }
+    else if (opt_filter != -1) {
+      strncat(str, "filter=", sizeof(str));
+      strncat(str, name_of_filter(opt_filter), sizeof(str));
+      strncat(str, " - ", sizeof(str));
+      strncat(str, name_of_filter_domain(opt_filter_domain), sizeof(str));
+    }
+    if (opt_desc[0]) {
+      strncat(str, ": ", sizeof(str));
+      strncat(str, opt_desc, sizeof(str));
+    }
+    strncpy(opt_desc, str, sizeof(opt_desc));
+    
+    if (opt_verbose)
+      printf("Rasterize Phantom to Image\n\n");
+#ifdef MPI_CT
+  }
+#endif
+
+#ifdef MPI_CT
+  mpi_t1 = MPI_Wtime();
+  MPI_Bcast(&opt_verbose, 1, MPI_INT, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_debug, 1, MPI_INT, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_trace, 1, MPI_INT, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_nx, 1, MPI_INT, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_ny, 1, MPI_INT, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_nsample, 1, MPI_INT, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_phmnum, 1, MPI_INT, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_filter, 1, MPI_INT, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_filter_domain, 1, MPI_INT, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_filter_param, 1, MPI_DOUBLE, 0, mpi_ct.comm);
+  MPI_Bcast(&opt_filter_bw, 1, MPI_DOUBLE, 0, mpi_ct.comm);
+
+  if (opt_verbose) {
+    mpi_t2 = MPI_Wtime();
+    mpi_t = mpi_t2 - mpi_t1;
+    MPI_Reduce(&mpi_t, &mpi_t_g, 1, MPI_DOUBLE, MPI_MAX, 0, mpi_ct.comm);
+    if (mpi_ct.my_rank == 0)
+      printf("Time to Bcast vars = %f secs, Max time = %f\n", mpi_t, mpi_t_g);
+  }
+
+  mpi_ct_calc_work_units(opt_nx);
+
+  if (mpi_ct.my_rank == 0) {
+    im_global = new ImageFile (opt_outfile, opt_nx, opt_ny);
+    im_global->adf.fileCreate();
+  }
+
+  im_local = new ImageFile (opt_nx, opt_ny);
+#else
+  im_global = new ImageFile (opt_outfile, opt_nx, opt_ny);
+  im_global->adf.fileCreate ();
+#endif
+
+  if (opt_phmnum >= 0)
+      phm = phm_create (opt_phmnum);
+
+#ifdef MPI_CT
+  else {
+    if (mpi_ct.my_rank == 0)
+      fprintf(stderr, "phmnum < 0\n");
+    exit(1);
+  }
+#endif
+
+  ImageFileArray v = im_global->adf.getArray ();
+  double calctime = 0;
+
+#ifdef MPI_CT
+  if (phm->type == P_UNIT_PULSE) {
+    if (mpi_ct.my_rank == 0) {
+      v[opt_nx/2][opt_ny/2] = 1.;
+      calctime = 0;
+    }
+  } else if (opt_filter != -1) {
+    if (mpi_ct.my_rank == 0) {
+      image_filter_response (im_global, opt_filter_domain, opt_filter_bw, opt_filter, opt_filter_param, opt_trace);
+      calctime = 0;
+    }
+  } else {
+    if (opt_verbose)
+      mpi_t1 = MPI_Wtime();
+    phm_to_image (phm, im_local, mpi_ct.start_work_unit[mpi_ct.my_rank],
+		  mpi_ct.local_work_units[mpi_ct.my_rank], opt_nsample, opt_trace);
+    if (opt_verbose) {
+      mpi_t2 = MPI_Wtime();
+      mpi_t = mpi_t2 - mpi_t1;
+      MPI_Reduce(&mpi_t, &mpi_t_g, 1, MPI_DOUBLE, MPI_MAX, 0, mpi_ct.comm);
+      if (mpi_ct.my_rank == 0)
+	printf("Time to compile phm = %f secs, Max time = %f\n", mpi_t, mpi_t_g);
+    }
+    mpi_gather_image(im_global, im_local, opt_debug);
+  }
+#else
+  if (phm->type == P_UNIT_PULSE) {
+    v[opt_nx/2][opt_ny/2] = 1.;
+    calctime = 0;
+  } else if (opt_filter != -1) {
+    // image_filter_response (im_global, opt_filter_domain, opt_filter_bw, opt_filter, opt_filter_param, opt_trace);
+    calctime = 0;
+  } else {
+#if HAVE_SGP
+      if (opt_trace >= TRACE_PHM)
+	phm_show(phm);
+#endif
+      // phm_to_image (phm, im_global, 0, opt_nx, opt_nsample, opt_trace);
+  }
+#endif
+
+#ifdef MPI_CT
+  time_end = MPI_Wtime();
+#else
+  time_end = td_current_sec();
+#endif
+
+#ifdef MPI_CT
+  if (mpi_ct.my_rank == 0) 
+#endif
+  {
+    im_global->adf.arrayDataWrite ();
+    calctime = time_end - time_start;
+    im_global->adf.labelAdd (Array2dFileLabel::L_HISTORY, opt_desc, calctime);
+    im_global->adf.fileClose ();
+    if (opt_verbose)
+      fprintf (stdout, "Time to compile image = %.2f sec\n\n", calctime);
+  }
+
+  if (opt_trace >= TRACE_PHM)
+    {
+      double dmin, dmax;
+      int nscale;
+
+      printf ("Enter display size scale (nominal = 1): ");
+      scanf ("%d", &nscale);
+      printf ("Enter minimum and maximum densities (min, max): ");
+      scanf ("%lf %lf", &dmin, &dmax);
+      // image_display_scale (im_global, nscale, dmin, dmax);
+    }
+
+  phm_free (phm);
+
+  return (0);
+}
+
+
+
+#ifdef MPI_CT
+void mpi_gather_image (ImageFile *im_global, ImageFile *im_local, const int opt_debug)
+{
+  int iproc;
+  int end_work_unit;
+  int iw;
+
+  end_work_unit = mpi_ct.local_work_units[mpi_ct.my_rank] - 1;
+  for (iw = 0; iw <= end_work_unit; iw++) {
+    MPI_Send(im_local->v[iw], im_local->ny, im_local->getMPIDataType(), 0, 0, mpi_ct.comm);
+  }
+
+  if (mpi_ct.my_rank == 0) {
+    for (iproc = 0; iproc < mpi_ct.nproc; iproc++) {
+      end_work_unit = mpi_ct.start_work_unit[iproc] 
+	+ mpi_ct.local_work_units[iproc] 
+	- 1;
+
+      if (opt_debug) {
+	fprintf(stdout, "Recv rs data from process %d (%d-%d)\n", iproc,
+		mpi_ct.start_work_unit[iproc], end_work_unit);
+	fflush(stdout);
+      }
+
+
+      for (iw = mpi_ct.start_work_unit[iproc]; iw <= end_work_unit; iw++) {
+	MPI_Status status;
+
+	MPI_Recv(im_global->v[iw], im_global->ny, MPI_FLOAT, iproc, 0, mpi_ct.comm, &status);
+      }
+    }
+  }
+
+}
+#endif
+
+#ifndef NO_MAIN
+int 
+main (const int argc, char *const argv[])
+{
+  return (phm2sdf_main(argc, argv));
+}
+#endif