src/math/ConvexHull.cpp

/* Copyright (c) 2010 The University of Notre Dame. All Rights Reserved.
 *
 * The University of Notre Dame grants you ("Licensee") a
 * non-exclusive, royalty free, license to use, modify and
 * redistribute this software in source and binary code form, provided
 * that the following conditions are met:
 *
 * 1. Redistributions of source code must retain the above copyright
 *    notice, this list of conditions and the following disclaimer.
 *
 * 2. Redistributions in binary form must reproduce the above copyright
 *    notice, this list of conditions and the following disclaimer in the
 *    documentation and/or other materials provided with the
 *    distribution.
 *
 * This software is provided "AS IS," without a warranty of any
 * kind. All express or implied conditions, representations and
 * warranties, including any implied warranty of merchantability,
 * fitness for a particular purpose or non-infringement, are hereby
 * excluded.  The University of Notre Dame and its licensors shall not
 * be liable for any damages suffered by licensee as a result of
 * using, modifying or distributing the software or its
 * derivatives. In no event will the University of Notre Dame or its
 * licensors be liable for any lost revenue, profit or data, or for
 * direct, indirect, special, consequential, incidental or punitive
 * damages, however caused and regardless of the theory of liability,
 * arising out of the use of or inability to use software, even if the
 * University of Notre Dame has been advised of the possibility of
 * such damages.
 *
 * SUPPORT OPEN SCIENCE!  If you use OpenMD or its source code in your
 * research, please cite the appropriate papers when you publish your
 * work.  Good starting points are:
 *                                                                      
 * [1]  Meineke, et al., J. Comp. Chem. 26, 252-271 (2005).             
 * [2]  Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006).          
 * [3]  Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008).          
 * [4] Kuang & Gezelter,  J. Chem. Phys. 133, 164101 (2010).
 * [4] , Stocker & Gezelter, J. Chem. Theory Comput. 7, 834 (2011). *
 *
 *  ConvexHull.cpp
 *
 *  Purpose: To calculate convexhull, hull volume libqhull.
 *
 *  Created by Charles F. Vardeman II on 11 Dec 2006.
 *  @author  Charles F. Vardeman II
 *  @version $Id$
 *
 */

/* Standard includes independent of library */

#include <iostream>
#include <fstream>
#include <list>
#include <algorithm>
#include <iterator>
#include "math/ConvexHull.hpp"
#include "utils/simError.h"

#ifdef IS_MPI
#include <mpi.h>
#endif

using namespace OpenMD;

#ifdef HAVE_QHULL
extern "C"
{
#include <qhull/libqhull.h>
#include <qhull/mem.h>
#include <qhull/qset.h>
#include <qhull/geom.h>
#include <qhull/merge.h>
#include <qhull/poly.h>
#include <qhull/io.h>
#include <qhull/stat.h>
}

ConvexHull::ConvexHull() : Hull(), dim_(3), options_("qhull Qt Pp") {
}

void ConvexHull::computeHull(std::vector<StuntDouble*> bodydoubles) { 
 
  int numpoints = bodydoubles.size();

  Triangles_.clear();
  
  vertexT *vertex, **vertexp;
  facetT *facet;
  setT *vertices;
  int curlong, totlong;
  pointT *intPoint;
  
  std::vector<double> ptArray(numpoints*dim_);

  // Copy the positon vector into a points vector for qhull.
  std::vector<StuntDouble*>::iterator SD;
  int i = 0;
  for (SD =bodydoubles.begin(); SD != bodydoubles.end(); ++SD){
    Vector3d pos = (*SD)->getPos();      
    ptArray[dim_ * i] = pos.x();
    ptArray[dim_ * i + 1] = pos.y();
    ptArray[dim_ * i + 2] = pos.z();
    i++;
  }
  
  /* Clean up memory from previous convex hull calculations */
  boolT ismalloc = False;
  
  /* compute the hull for our local points (or all the points for single
     processor versions) */
  if (qh_new_qhull(dim_, numpoints, &ptArray[0], ismalloc,
                   const_cast<char *>(options_.c_str()), NULL, stderr)) {
    
    sprintf(painCave.errMsg, "ConvexHull: Qhull failed to compute convex hull");
    painCave.isFatal = 1;
    simError();
    
  } //qh_new_qhull


#ifdef IS_MPI
  //If we are doing the mpi version, set up some vectors for data communication
  
  int nproc = MPI::COMM_WORLD.Get_size();
  int myrank = MPI::COMM_WORLD.Get_rank();
  int localHullSites = 0;

  std::vector<int> hullSitesOnProc(nproc, 0);
  std::vector<int> coordsOnProc(nproc, 0);
  std::vector<int> displacements(nproc, 0);
  std::vector<int> vectorDisplacements(nproc, 0);

  std::vector<double> coords;
  std::vector<double> vels;
  std::vector<int> indexMap;
  std::vector<double> masses;

  FORALLvertices{
    localHullSites++;
    
    int idx = qh_pointid(vertex->point);

    indexMap.push_back(idx);

    coords.push_back(ptArray[dim_  * idx]);
    coords.push_back(ptArray[dim_  * idx + 1]);
    coords.push_back(ptArray[dim_  * idx + 2]);

    StuntDouble* sd = bodydoubles[idx];

    Vector3d vel = sd->getVel();
    vels.push_back(vel.x());
    vels.push_back(vel.y());
    vels.push_back(vel.z());

    masses.push_back(sd->getMass());
  }

  MPI::COMM_WORLD.Allgather(&localHullSites, 1, MPI::INT, &hullSitesOnProc[0],
                            1, MPI::INT);

  int globalHullSites = 0;
  for (int iproc = 0; iproc < nproc; iproc++){
    globalHullSites += hullSitesOnProc[iproc];
    coordsOnProc[iproc] = dim_ * hullSitesOnProc[iproc];
  }

  displacements[0] = 0;
  vectorDisplacements[0] = 0;
  
  for (int iproc = 1; iproc < nproc; iproc++){
    displacements[iproc] = displacements[iproc-1] + hullSitesOnProc[iproc-1];
    vectorDisplacements[iproc] = vectorDisplacements[iproc-1] + coordsOnProc[iproc-1]; 
  }

  std::vector<double> globalCoords(dim_ * globalHullSites);
  std::vector<double> globalVels(dim_ * globalHullSites);
  std::vector<double> globalMasses(globalHullSites);

  int count = coordsOnProc[myrank];
  
  MPI::COMM_WORLD.Allgatherv(&coords[0], count, MPI::DOUBLE, &globalCoords[0],
                             &coordsOnProc[0], &vectorDisplacements[0], 
                             MPI::DOUBLE);

  MPI::COMM_WORLD.Allgatherv(&vels[0], count, MPI::DOUBLE, &globalVels[0], 
                             &coordsOnProc[0], &vectorDisplacements[0],
                             MPI::DOUBLE);

  MPI::COMM_WORLD.Allgatherv(&masses[0], localHullSites, MPI::DOUBLE,
                             &globalMasses[0], &hullSitesOnProc[0], 
                             &displacements[0], MPI::DOUBLE);

  // Free previous hull
  qh_freeqhull(!qh_ALL);
  qh_memfreeshort(&curlong, &totlong);
  if (curlong || totlong) {
    sprintf(painCave.errMsg, "ConvexHull: qhull internal warning:\n"
            "\tdid not free %d bytes of long memory (%d pieces)", 
            totlong, curlong);
    painCave.isFatal = 1;
    simError();
  }
  
  if (qh_new_qhull(dim_, globalHullSites, &globalCoords[0], ismalloc,
                   const_cast<char *>(options_.c_str()), NULL, stderr)){
    
    sprintf(painCave.errMsg, "ConvexHull: Qhull failed to compute global convex hull");
    painCave.isFatal = 1;
    simError();
    
  } //qh_new_qhull

#endif
  intPoint = qh interior_point;
  RealType calcvol = 0.0;
  FORALLfacets {  
    Triangle face;
    //Qhull sets the unit normal in facet->normal
    Vector3d V3dNormal(facet->normal[0], facet->normal[1], facet->normal[2]);
    face.setUnitNormal(V3dNormal);
    
    RealType faceArea = qh_facetarea(facet);
    face.setArea(faceArea);
    
    vertices = qh_facet3vertex(facet);
      
    coordT *center = qh_getcenter(vertices);
    Vector3d V3dCentroid(center[0], center[1], center[2]);
    face.setCentroid(V3dCentroid);

    Vector3d faceVel = V3Zero;
    Vector3d p[3];
    RealType faceMass = 0.0;

    int ver = 0;

    FOREACHvertex_(vertices){
      int id = qh_pointid(vertex->point);
      p[ver][0] = vertex->point[0];
      p[ver][1] = vertex->point[1];
      p[ver][2] = vertex->point[2];
      Vector3d vel;
      RealType mass;

#ifdef IS_MPI
      vel = Vector3d(globalVels[dim_ * id],
                     globalVels[dim_ * id + 1], 
                     globalVels[dim_ * id + 2]);
      mass = globalMasses[id];

      // localID will be between 0 and hullSitesOnProc[myrank] if we
      // own this guy.

      int localID = id - displacements[myrank];


      if (localID >= 0 && localID < hullSitesOnProc[myrank]){
        face.addVertexSD(bodydoubles[indexMap[localID]]);
      }else{
        face.addVertexSD(NULL);
      }
#else
      vel = bodydoubles[id]->getVel();
      mass = bodydoubles[id]->getMass();
      face.addVertexSD(bodydoubles[id]);      
#endif  
      faceVel = faceVel + vel;
      faceMass = faceMass + mass;
      ver++;      
    } //Foreachvertex

    face.addVertices(p[0], p[1], p[2]);
    face.setFacetMass(faceMass);
    face.setFacetVelocity(faceVel / RealType(3.0));
    /*
    RealType comparea = face.computeArea();
    realT calcarea = qh_facetarea (facet);
    Vector3d V3dCompNorm = -face.computeUnitNormal();
    RealType thisOffset = ((0.0-p[0][0])*V3dCompNorm[0] + (0.0-p[0][1])*V3dCompNorm[1] + (0.0-p[0][2])*V3dCompNorm[2]);
    RealType dist = facet->offset + intPoint[0]*V3dNormal[0] + intPoint[1]*V3dNormal[1] + intPoint[2]*V3dNormal[2];
    std::cout << "facet offset and computed offset: " << facet->offset << "  " << thisOffset <<  std::endl;
    calcvol +=  -dist*comparea/qh hull_dim;
    */
    Triangles_.push_back(face);
    qh_settempfree(&vertices);      

  } //FORALLfacets
  
  qh_getarea(qh facet_list);
  volume_ = qh totvol;
  area_ = qh totarea;
  //  std::cout << "My volume is: " << calcvol << " qhull volume is:" << volume_ << std::endl; 
  qh_freeqhull(!qh_ALL);
  qh_memfreeshort(&curlong, &totlong);
  if (curlong || totlong) {
    sprintf(painCave.errMsg, "ConvexHull: qhull internal warning:\n"
            "\tdid not free %d bytes of long memory (%d pieces)", 
            totlong, curlong);
    painCave.isFatal = 1;
    simError();
  }
}

void ConvexHull::printHull(const std::string& geomFileName) {

#ifdef IS_MPI
  if (worldRank == 0)  {
#endif
  FILE *newGeomFile;
  
  //create new .md file based on old .md file
  newGeomFile = fopen(geomFileName.c_str(), "w");
  qh_findgood_all(qh facet_list);
  for (int i = 0; i < qh_PRINTEND; i++)
    qh_printfacets(newGeomFile, qh PRINTout[i], qh facet_list, NULL, !qh_ALL);
  
  fclose(newGeomFile);
#ifdef IS_MPI
  }
#endif
}
#endif //QHULL
Revision:	1668
Committed:	Fri Jan 6 19:03:05 2012 UTC (13 years, 9 months ago) by gezelter
File size:	10345 byte(s)
Log Message:	Some fixes for CMake and single precision builds
#	User	Rev	Content
1	gezelter	1411	/* Copyright (c) 2010 The University of Notre Dame. All Rights Reserved.
2	chuckv	1097	*
3			* The University of Notre Dame grants you ("Licensee") a
4			* non-exclusive, royalty free, license to use, modify and
5			* redistribute this software in source and binary code form, provided
6			* that the following conditions are met:
7			*
8	gezelter	1390	* 1. Redistributions of source code must retain the above copyright
9	chuckv	1097	* notice, this list of conditions and the following disclaimer.
10			*
11	gezelter	1390	* 2. Redistributions in binary form must reproduce the above copyright
12	chuckv	1097	* notice, this list of conditions and the following disclaimer in the
13			* documentation and/or other materials provided with the
14			* distribution.
15			*
16			* This software is provided "AS IS," without a warranty of any
17			* kind. All express or implied conditions, representations and
18			* warranties, including any implied warranty of merchantability,
19			* fitness for a particular purpose or non-infringement, are hereby
20			* excluded. The University of Notre Dame and its licensors shall not
21			* be liable for any damages suffered by licensee as a result of
22			* using, modifying or distributing the software or its
23			* derivatives. In no event will the University of Notre Dame or its
24			* licensors be liable for any lost revenue, profit or data, or for
25			* direct, indirect, special, consequential, incidental or punitive
26			* damages, however caused and regardless of the theory of liability,
27			* arising out of the use of or inability to use software, even if the
28			* University of Notre Dame has been advised of the possibility of
29			* such damages.
30			*
31	gezelter	1390	* SUPPORT OPEN SCIENCE! If you use OpenMD or its source code in your
32			* research, please cite the appropriate papers when you publish your
33			* work. Good starting points are:
34			*
35			* [1] Meineke, et al., J. Comp. Chem. 26, 252-271 (2005).
36			* [2] Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006).
37			* [3] Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008).
38	gezelter	1665	* [4] Kuang & Gezelter, J. Chem. Phys. 133, 164101 (2010).
39			* [4] , Stocker & Gezelter, J. Chem. Theory Comput. 7, 834 (2011). *
40	chuckv	1097	*
41			* ConvexHull.cpp
42			*
43	chuckv	1137	* Purpose: To calculate convexhull, hull volume libqhull.
44	chuckv	1097	*
45			* Created by Charles F. Vardeman II on 11 Dec 2006.
46			* @author Charles F. Vardeman II
47	gezelter	1442	* @version $Id$
48	chuckv	1097	*
49			*/
50
51	chuckv	1242	/* Standard includes independent of library */
52	chuckv	1374
53	chuckv	1097	#include <iostream>
54			#include <fstream>
55	chuckv	1188	#include <list>
56			#include <algorithm>
57			#include <iterator>
58	chuckv	1141	#include "math/ConvexHull.hpp"
59	chuckv	1188	#include "utils/simError.h"
60	chuckv	1293
61			#ifdef IS_MPI
62	chuckv	1374	#include <mpi.h>
63	chuckv	1293	#endif
64
65	gezelter	1390	using namespace OpenMD;
66	chuckv	1293
67	chuckv	1374	#ifdef HAVE_QHULL
68			extern "C"
69	chuckv	1242	{
70	gezelter	1618	#include <qhull/libqhull.h>
71	chuckv	1374	#include <qhull/mem.h>
72			#include <qhull/qset.h>
73			#include <qhull/geom.h>
74			#include <qhull/merge.h>
75			#include <qhull/poly.h>
76			#include <qhull/io.h>
77			#include <qhull/stat.h>
78	chuckv	1293	}
79
80	chuckv	1374	ConvexHull::ConvexHull() : Hull(), dim_(3), options_("qhull Qt Pp") {
81			}
82	chuckv	1293
83	chuckv	1374	void ConvexHull::computeHull(std::vector<StuntDouble*> bodydoubles) {
84	chuckv	1293
85	chuckv	1374	int numpoints = bodydoubles.size();
86	chuckv	1293
87	chuckv	1374	Triangles_.clear();
88	chuckv	1242
89	chuckv	1293	vertexT vertex, *vertexp;
90			facetT *facet;
91			setT *vertices;
92	chuckv	1374	int curlong, totlong;
93	chuckv	1404	pointT *intPoint;
94	chuckv	1242
95	gezelter	1378	std::vector<double> ptArray(numpoints*dim_);
96	chuckv	1293
97			// Copy the positon vector into a points vector for qhull.
98			std::vector<StuntDouble*>::iterator SD;
99			int i = 0;
100	chuckv	1374	for (SD =bodydoubles.begin(); SD != bodydoubles.end(); ++SD){
101			Vector3d pos = (*SD)->getPos();
102			ptArray[dim_ * i] = pos.x();
103			ptArray[dim_ * i + 1] = pos.y();
104			ptArray[dim_ * i + 2] = pos.z();
105			i++;
106			}
107	chuckv	1242
108	gezelter	1411	/* Clean up memory from previous convex hull calculations */
109	chuckv	1293	boolT ismalloc = False;
110	chuckv	1308
111	gezelter	1411	/* compute the hull for our local points (or all the points for single
112			processor versions) */
113	chuckv	1302	if (qh_new_qhull(dim_, numpoints, &ptArray[0], ismalloc,
114	chuckv	1374	const_cast<char *>(options_.c_str()), NULL, stderr)) {
115	gezelter	1411
116	chuckv	1374	sprintf(painCave.errMsg, "ConvexHull: Qhull failed to compute convex hull");
117			painCave.isFatal = 1;
118			simError();
119
120	chuckv	1293	} //qh_new_qhull
121
122
123			#ifdef IS_MPI
124	chuckv	1374	//If we are doing the mpi version, set up some vectors for data communication
125	chuckv	1242
126	chuckv	1374	int nproc = MPI::COMM_WORLD.Get_size();
127			int myrank = MPI::COMM_WORLD.Get_rank();
128			int localHullSites = 0;
129	chuckv	1293
130	gezelter	1384	std::vector<int> hullSitesOnProc(nproc, 0);
131			std::vector<int> coordsOnProc(nproc, 0);
132			std::vector<int> displacements(nproc, 0);
133			std::vector<int> vectorDisplacements(nproc, 0);
134
135	chuckv	1374	std::vector<double> coords;
136			std::vector<double> vels;
137	gezelter	1378	std::vector<int> indexMap;
138	chuckv	1374	std::vector<double> masses;
139
140			FORALLvertices{
141			localHullSites++;
142	chuckv	1242
143	chuckv	1374	int idx = qh_pointid(vertex->point);
144	gezelter	1378
145			indexMap.push_back(idx);
146
147	chuckv	1374	coords.push_back(ptArray[dim_ * idx]);
148			coords.push_back(ptArray[dim_ * idx + 1]);
149			coords.push_back(ptArray[dim_ * idx + 2]);
150	chuckv	1293
151	chuckv	1374	StuntDouble* sd = bodydoubles[idx];
152	chuckv	1188
153	chuckv	1374	Vector3d vel = sd->getVel();
154			vels.push_back(vel.x());
155			vels.push_back(vel.y());
156			vels.push_back(vel.z());
157	chuckv	1188
158	chuckv	1374	masses.push_back(sd->getMass());
159			}
160	chuckv	1188
161	chuckv	1374	MPI::COMM_WORLD.Allgather(&localHullSites, 1, MPI::INT, &hullSitesOnProc[0],
162			1, MPI::INT);
163	chuckv	1307
164	chuckv	1374	int globalHullSites = 0;
165	gezelter	1376	for (int iproc = 0; iproc < nproc; iproc++){
166	chuckv	1374	globalHullSites += hullSitesOnProc[iproc];
167			coordsOnProc[iproc] = dim_ * hullSitesOnProc[iproc];
168	chuckv	1302	}
169	chuckv	1293
170	chuckv	1374	displacements[0] = 0;
171			vectorDisplacements[0] = 0;
172	chuckv	1316
173	gezelter	1376	for (int iproc = 1; iproc < nproc; iproc++){
174	chuckv	1374	displacements[iproc] = displacements[iproc-1] + hullSitesOnProc[iproc-1];
175			vectorDisplacements[iproc] = vectorDisplacements[iproc-1] + coordsOnProc[iproc-1];
176	chuckv	1293	}
177
178	gezelter	1377	std::vector<double> globalCoords(dim_ * globalHullSites);
179			std::vector<double> globalVels(dim_ * globalHullSites);
180	chuckv	1374	std::vector<double> globalMasses(globalHullSites);
181	gezelter	1377
182	chuckv	1374	int count = coordsOnProc[myrank];
183	chuckv	1365
184	gezelter	1377	MPI::COMM_WORLD.Allgatherv(&coords[0], count, MPI::DOUBLE, &globalCoords[0],
185			&coordsOnProc[0], &vectorDisplacements[0],
186	chuckv	1374	MPI::DOUBLE);
187	chuckv	1302
188	gezelter	1377	MPI::COMM_WORLD.Allgatherv(&vels[0], count, MPI::DOUBLE, &globalVels[0],
189			&coordsOnProc[0], &vectorDisplacements[0],
190	chuckv	1374	MPI::DOUBLE);
191	chuckv	1302
192	chuckv	1374	MPI::COMM_WORLD.Allgatherv(&masses[0], localHullSites, MPI::DOUBLE,
193	gezelter	1377	&globalMasses[0], &hullSitesOnProc[0],
194			&displacements[0], MPI::DOUBLE);
195	chuckv	1365
196	chuckv	1293	// Free previous hull
197	chuckv	1242	qh_freeqhull(!qh_ALL);
198			qh_memfreeshort(&curlong, &totlong);
199	gezelter	1411	if (curlong \|\| totlong) {
200			sprintf(painCave.errMsg, "ConvexHull: qhull internal warning:\n"
201			"\tdid not free %d bytes of long memory (%d pieces)",
202			totlong, curlong);
203			painCave.isFatal = 1;
204			simError();
205			}
206	chuckv	1374
207			if (qh_new_qhull(dim_, globalHullSites, &globalCoords[0], ismalloc,
208			const_cast<char *>(options_.c_str()), NULL, stderr)){
209
210			sprintf(painCave.errMsg, "ConvexHull: Qhull failed to compute global convex hull");
211			painCave.isFatal = 1;
212			simError();
213
214	chuckv	1293	} //qh_new_qhull
215
216			#endif
217	chuckv	1404	intPoint = qh interior_point;
218			RealType calcvol = 0.0;
219	chuckv	1374	FORALLfacets {
220			Triangle face;
221	chuckv	1404	//Qhull sets the unit normal in facet->normal
222	chuckv	1374	Vector3d V3dNormal(facet->normal[0], facet->normal[1], facet->normal[2]);
223	chuckv	1404	face.setUnitNormal(V3dNormal);
224	chuckv	1371
225	chuckv	1374	RealType faceArea = qh_facetarea(facet);
226			face.setArea(faceArea);
227
228			vertices = qh_facet3vertex(facet);
229	chuckv	1293
230	chuckv	1374	coordT *center = qh_getcenter(vertices);
231			Vector3d V3dCentroid(center[0], center[1], center[2]);
232			face.setCentroid(V3dCentroid);
233	chuckv	1304
234	chuckv	1374	Vector3d faceVel = V3Zero;
235			Vector3d p[3];
236			RealType faceMass = 0.0;
237	gezelter	1377
238	chuckv	1374	int ver = 0;
239	chuckv	1293
240	chuckv	1374	FOREACHvertex_(vertices){
241			int id = qh_pointid(vertex->point);
242			p[ver][0] = vertex->point[0];
243			p[ver][1] = vertex->point[1];
244			p[ver][2] = vertex->point[2];
245			Vector3d vel;
246			RealType mass;
247	chuckv	1293
248	chuckv	1302	#ifdef IS_MPI
249	chuckv	1374	vel = Vector3d(globalVels[dim_ * id],
250			globalVels[dim_ * id + 1],
251			globalVels[dim_ * id + 2]);
252			mass = globalMasses[id];
253
254	gezelter	1377	// localID will be between 0 and hullSitesOnProc[myrank] if we
255			// own this guy.
256
257	chuckv	1374	int localID = id - displacements[myrank];
258	gezelter	1377
259	chuckv	1410
260			if (localID >= 0 && localID < hullSitesOnProc[myrank]){
261	gezelter	1378	face.addVertexSD(bodydoubles[indexMap[localID]]);
262	chuckv	1410	}else{
263			face.addVertexSD(NULL);
264			}
265	chuckv	1307	#else
266	chuckv	1374	vel = bodydoubles[id]->getVel();
267			mass = bodydoubles[id]->getMass();
268			face.addVertexSD(bodydoubles[id]);
269	gezelter	1411	#endif
270	chuckv	1374	faceVel = faceVel + vel;
271			faceMass = faceMass + mass;
272			ver++;
273			} //Foreachvertex
274	chuckv	1302
275	chuckv	1374	face.addVertices(p[0], p[1], p[2]);
276			face.setFacetMass(faceMass);
277	gezelter	1668	face.setFacetVelocity(faceVel / RealType(3.0));
278	chuckv	1404	/*
279			RealType comparea = face.computeArea();
280			realT calcarea = qh_facetarea (facet);
281			Vector3d V3dCompNorm = -face.computeUnitNormal();
282			RealType thisOffset = ((0.0-p[0][0])V3dCompNorm[0] + (0.0-p[0][1])V3dCompNorm[1] + (0.0-p[0][2])*V3dCompNorm[2]);
283			RealType dist = facet->offset + intPoint[0]V3dNormal[0] + intPoint[1]V3dNormal[1] + intPoint[2]*V3dNormal[2];
284			std::cout << "facet offset and computed offset: " << facet->offset << " " << thisOffset << std::endl;
285			calcvol += -dist*comparea/qh hull_dim;
286			*/
287	chuckv	1374	Triangles_.push_back(face);
288			qh_settempfree(&vertices);
289
290			} //FORALLfacets
291
292			qh_getarea(qh facet_list);
293			volume_ = qh totvol;
294			area_ = qh totarea;
295	chuckv	1404	// std::cout << "My volume is: " << calcvol << " qhull volume is:" << volume_ << std::endl;
296	chuckv	1374	qh_freeqhull(!qh_ALL);
297			qh_memfreeshort(&curlong, &totlong);
298	gezelter	1411	if (curlong \|\| totlong) {
299			sprintf(painCave.errMsg, "ConvexHull: qhull internal warning:\n"
300			"\tdid not free %d bytes of long memory (%d pieces)",
301			totlong, curlong);
302			painCave.isFatal = 1;
303			simError();
304			}
305	chuckv	1097	}
306
307	chuckv	1374	void ConvexHull::printHull(const std::string& geomFileName) {
308	gezelter	1384
309			#ifdef IS_MPI
310			if (worldRank == 0) {
311			#endif
312	chuckv	1242	FILE *newGeomFile;
313
314			//create new .md file based on old .md file
315			newGeomFile = fopen(geomFileName.c_str(), "w");
316			qh_findgood_all(qh facet_list);
317			for (int i = 0; i < qh_PRINTEND; i++)
318			qh_printfacets(newGeomFile, qh PRINTout[i], qh facet_list, NULL, !qh_ALL);
319
320			fclose(newGeomFile);
321	gezelter	1384	#ifdef IS_MPI
322			}
323			#endif
324	chuckv	1097	}
325	chuckv	1242	#endif //QHULL