Rename some object in parallel sources.

AMDiS/CMakeLists.txt

@@ -224,7 +224,7 @@ if(ENABLE_PARALLEL_DOMAIN)
 	SET(PARALLEL_DOMAIN_AMDIS_SRC
                	${SOURCE_DIR}/parallel/DofComm.cc
 		${SOURCE_DIR}/parallel/CheckerPartitioner.cc
-		${SOURCE_DIR}/parallel/ElementObjectData.cc
+		${SOURCE_DIR}/parallel/ElementObjectDatabase.cc
 		${SOURCE_DIR}/parallel/MeshDistributor.cc 
 		${SOURCE_DIR}/parallel/MeshManipulation.cc
 		${SOURCE_DIR}/parallel/MeshPartitioner.cc

AMDiS/src/parallel/ElementObjectData.cc → AMDiS/src/parallel/ElementObjectDatabase.cc

@@ -10,14 +10,14 @@
 // See also license.opensource.txt in the distribution.
 
 
-#include "ElementObjectData.h"
 #include "VertexVector.h"
+#include "parallel/ElementObjectDatabase.h"
 
 namespace AMDiS {
 
-  void ElementObjects::addElement(ElInfo *elInfo)
+  void ElementObjectDatabase::addElement(ElInfo *elInfo)
   {
-    FUNCNAME("ElementObjects::addElement()");
+    FUNCNAME("ElementObjectDatabase::addElement()");
 
     TEST_EXIT_DBG(mesh)("Mesh not set!\n");
 
@@ -128,9 +128,9 @@ namespace AMDiS {
   }
 
 
-  void ElementObjects::createPeriodicData(const FiniteElemSpace *feSpace)
+  void ElementObjectDatabase::createPeriodicData(const FiniteElemSpace *feSpace)
   {
-    FUNCNAME("ElementObjects::createPeriodicData()");
+    FUNCNAME("ElementObjectDatabase::createPeriodicData()");
 
     TEST_EXIT_DBG(mesh)("Mesh not set!\n");
 
@@ -317,9 +317,9 @@ namespace AMDiS {
   }
 
 
-  BoundaryType ElementObjects::getNewBoundaryType(DOFAdmin *admin)
+  BoundaryType ElementObjectDatabase::getNewBoundaryType(DOFAdmin *admin)
   {
-    FUNCNAME("ElementObjects::getNewBoundaryType()");
+    FUNCNAME("ElementObjectDatabase::getNewBoundaryType()");
 
     BoundaryType newPeriodicBoundaryType = 0;
     for (map<BoundaryType, VertexVector*>::iterator it = mesh->getPeriodicAssociations().begin();
@@ -336,11 +336,12 @@ namespace AMDiS {
   }
 
 
-  BoundaryType ElementObjects::provideConnectedPeriodicBoundary(DOFAdmin *admin,
-								BoundaryType b0, 
-								BoundaryType b1)
+  BoundaryType 
+  ElementObjectDatabase::provideConnectedPeriodicBoundary(DOFAdmin *admin,
+							  BoundaryType b0, 
+							  BoundaryType b1)
   {
-    FUNCNAME("ElementObjects::provideConnectedPeriodicBoundary()");
+    FUNCNAME("ElementObjectDatabase::provideConnectedPeriodicBoundary()");
 
     std::pair<BoundaryType, BoundaryType> bConn = 
       (b0 <= b1 ? make_pair(b0, b1) : make_pair(b1, b0));
@@ -371,9 +372,9 @@ namespace AMDiS {
   }
 
 
-  void ElementObjects::createRankData(map<int, int>& macroElementRankMap) 
+  void ElementObjectDatabase::createRankData(map<int, int>& macroElementRankMap) 
   {
-    FUNCNAME("ElementObjects::createRankData()");
+    FUNCNAME("ElementObjectDatabase::createRankData()");
 
     vertexOwner.clear();
     vertexInRank.clear();
@@ -424,11 +425,11 @@ namespace AMDiS {
   }
 
 
-  void ElementObjects::createReverseModeData(const FiniteElemSpace* feSpace,
-					     map<int, Element*> &elIndexMap,
-					     map<int, int> &elIndexTypeMap)
+  void ElementObjectDatabase::createReverseModeData(const FiniteElemSpace* feSpace,
+						    map<int, Element*> &elIndexMap,
+						    map<int, int> &elIndexTypeMap)
   {
-    FUNCNAME("ElementObjects::createReverseModeData()");
+    FUNCNAME("ElementObjectDatabase::createReverseModeData()");
 
     // === In 2D, all reverse modes are always true! ===
 
@@ -537,9 +538,9 @@ namespace AMDiS {
   }
 
 
-  void ElementObjects::serialize(ostream &out)
+  void ElementObjectDatabase::serialize(ostream &out)
   {
-    FUNCNAME("ElementObjects::serialize()");
+    FUNCNAME("ElementObjectDatabase::serialize()");
 
     int nSize = vertexElements.size();
     SerUtil::serialize(out, nSize);
@@ -664,9 +665,9 @@ namespace AMDiS {
   }
 
 
-  void ElementObjects::deserialize(istream &in)
+  void ElementObjectDatabase::deserialize(istream &in)
   {
-    FUNCNAME("ElementObjects::deserialize()");
+    FUNCNAME("ElementObjectDatabase::deserialize()");
 
     int nSize;
     SerUtil::deserialize(in, nSize);
@@ -821,7 +822,8 @@ namespace AMDiS {
   }
 
 
-  void ElementObjects::serialize(ostream &out, vector<ElementObjectData>& elVec)
+  void ElementObjectDatabase::serialize(ostream &out, 
+					vector<ElementObjectData>& elVec)
   {
     int nSize = elVec.size();
     SerUtil::serialize(out, nSize);
@@ -830,7 +832,8 @@ namespace AMDiS {
   }
 
 
-  void ElementObjects::deserialize(istream &in, vector<ElementObjectData>& elVec)
+  void ElementObjectDatabase::deserialize(istream &in, 
+					  vector<ElementObjectData>& elVec)
   {
     int nSize;
     SerUtil::deserialize(in, nSize);
@@ -840,7 +843,8 @@ namespace AMDiS {
   }
 
   
-  void ElementObjects::serialize(ostream &out, map<int, ElementObjectData>& data)
+  void ElementObjectDatabase::serialize(ostream &out, 
+					map<int, ElementObjectData>& data)
   {
     int nSize = data.size();
     SerUtil::serialize(out, nSize);
@@ -852,7 +856,8 @@ namespace AMDiS {
   }
 
   
-  void ElementObjects::deserialize(istream &in, map<int, ElementObjectData>& data)
+  void ElementObjectDatabase::deserialize(istream &in, 
+					  map<int, ElementObjectData>& data)
   {
     int nSize;
     SerUtil::deserialize(in, nSize);

AMDiS/src/parallel/ElementObjectData.h → AMDiS/src/parallel/ElementObjectDatabase.h

@@ -18,10 +18,10 @@
 
 
 
-/** \file ElementObjectData.h */
+/** \file ElementObjectDatabase.h */
 
-#ifndef AMDIS_ELEMENTOBJECTDATA_H
-#define AMDIS_ELEMENTOBJECTDATA_H
+#ifndef AMDIS_ELEMENT_OBJECT_DATABASE_H
+#define AMDIS_ELEMENT_OBJECT_DATABASE_H
 
 #include <map>
 #include <vector>
@@ -99,9 +99,9 @@ namespace AMDiS {
    * boundaries on object level. This is required, because two elements may share
    * a common vertex without beging neighbours in the definition of AMDiS.
    */
-  class ElementObjects {
+  class ElementObjectDatabase {
   public:
-    ElementObjects()
+    ElementObjectDatabase()
       : mesh(NULL),
 	iterGeoPos(CENTER)
     {}

AMDiS/src/parallel/MeshDistributor.cc

@@ -156,7 +156,7 @@ namespace AMDiS {
 	}
     } while (doNext);
 
-    elObjects.setMesh(feSpaces[0]->getMesh());
+    elObjDb.setMesh(feSpaces[0]->getMesh());
 
     // If the problem has been already read from a file, we need only to set
     // isRankDofs to all matrices and rhs vector and to remove periodic 
@@ -559,7 +559,7 @@ namespace AMDiS {
     while (elInfo) {
       for (int i = 0; i < 4; i++) {
 	ElementObjectData elData(elInfo->getElement()->getIndex(), i);
-	allEdges.insert(elObjects.getEdgeLocalMap(elData));
+	allEdges.insert(elObjDb.getEdgeLocalMap(elData));
       }
 
       rankMacroEls.insert(elInfo->getElement()->getIndex());
@@ -572,7 +572,7 @@ namespace AMDiS {
     bool valid3dMesh = true;
 
     for (std::set<DofEdge>::iterator it = allEdges.begin(); it != allEdges.end(); ++it) {
-      vector<ElementObjectData>& edgeEls = elObjects.getElements(*it);
+      vector<ElementObjectData>& edgeEls = elObjDb.getElements(*it);
 
       TEST_EXIT_DBG(edgeEls.size() > 0)
 	("No edge %d/%d in elObjDB!\n", it->first, it->second);
@@ -1326,7 +1326,7 @@ namespace AMDiS {
 
     // === Remove double DOFs. ===
     MeshManipulation meshManipulation(mesh);
-    meshManipulation.deleteDoubleDofs(feSpaces, newMacroEl, elObjects);
+    meshManipulation.deleteDoubleDofs(feSpaces, newMacroEl, elObjDb);
 
     mesh->dofCompress();
     partitioner->createPartitionMap(partitionMap);
@@ -1415,7 +1415,7 @@ namespace AMDiS {
   {
     FUNCNAME("MeshDistributor::updateInteriorBoundaryInfo()");
 
-    elObjects.createRankData(partitionMap);
+    elObjDb.createRankData(partitionMap);
     createBoundaryData();
 
 #if (DEBUG != 0)
@@ -1443,22 +1443,22 @@ namespace AMDiS {
       macroElIndexMap.insert(make_pair(el->getIndex(), el));
       macroElIndexTypeMap.insert(make_pair(el->getIndex(), elInfo->getType()));
      
-      // Add all sub object of the element to the variable elObjects.
-      elObjects.addElement(elInfo);
+      // Add all sub object of the element to the variable elObjDb.
+      elObjDb.addElement(elInfo);
 
       elInfo = stack.traverseNext(elInfo);
     }
 
 
     // Create periodic data, if there are periodic boundary conditions.
-    elObjects.createPeriodicData(feSpaces[0]);
+    elObjDb.createPeriodicData(feSpaces[0]);
 
     // Create data about the reverse modes of neighbouring elements.
-    elObjects.createReverseModeData(feSpaces[0], macroElIndexMap, 
-				    macroElIndexTypeMap);
+    elObjDb.createReverseModeData(feSpaces[0], macroElIndexMap, 
+				  macroElIndexTypeMap);
 
     // Create mesh element data for this rank.
-    elObjects.createRankData(partitionMap);
+    elObjDb.createRankData(partitionMap);
   }
 
 
@@ -1478,12 +1478,12 @@ namespace AMDiS {
     for (int geoPos = 0; geoPos < mesh->getDim(); geoPos++) {
       GeoIndex geoIndex = INDEX_OF_DIM(geoPos, mesh->getDim());
 
-      while (elObjects.iterate(geoIndex)) {
-	map<int, ElementObjectData>& objData = elObjects.getIterateData();
+      while (elObjDb.iterate(geoIndex)) {
+	map<int, ElementObjectData>& objData = elObjDb.getIterateData();
 	if (!(objData.count(mpiRank) && objData.size() > 1))
 	  continue;
 
-	int owner = elObjects.getIterateOwner();
+	int owner = elObjDb.getIterateOwner();
 	ElementObjectData& rankBoundEl = objData[mpiRank];
 	
 	AtomicBoundary bound;	    	    
@@ -1521,10 +1521,10 @@ namespace AMDiS {
 	    b = bound;
 	    if (geoIndex == EDGE)
 	      b.neighObj.reverseMode = 
-		elObjects.getEdgeReverseMode(rankBoundEl, it2->second);
+		elObjDb.getEdgeReverseMode(rankBoundEl, it2->second);
 	    if (geoIndex == FACE)
 	      b.neighObj.reverseMode = 
-		elObjects.getFaceReverseMode(rankBoundEl, it2->second);
+		elObjDb.getFaceReverseMode(rankBoundEl, it2->second);
 	  }
 	  
 	} else {
@@ -1545,10 +1545,10 @@ namespace AMDiS {
 	  b = bound;	    
 	  if (geoIndex == EDGE)
 	    b.rankObj.reverseMode =
-	      elObjects.getEdgeReverseMode(rankBoundEl, ownerBoundEl);
+	      elObjDb.getEdgeReverseMode(rankBoundEl, ownerBoundEl);
 	  if (geoIndex == FACE)
 	    b.rankObj.reverseMode = 
-	      elObjects.getFaceReverseMode(rankBoundEl, ownerBoundEl);
+	      elObjDb.getFaceReverseMode(rankBoundEl, ownerBoundEl);
 	}
       }
     }
@@ -1556,16 +1556,16 @@ namespace AMDiS {
 
     // === Create periodic boundary data structure. ===
 
-    for (PerBoundMap<DegreeOfFreedom>::iterator it = elObjects.getPeriodicVertices().begin();
-	 it != elObjects.getPeriodicVertices().end(); ++it) {
-      if (elObjects.isInRank(it->first.first, mpiRank) == false)
+    for (PerBoundMap<DegreeOfFreedom>::iterator it = elObjDb.getPeriodicVertices().begin();
+	 it != elObjDb.getPeriodicVertices().end(); ++it) {
+      if (elObjDb.isInRank(it->first.first, mpiRank) == false)
 	continue;
 
       ElementObjectData& perDofEl0 = 
-	elObjects.getElementsInRank(it->first.first)[mpiRank];
+	elObjDb.getElementsInRank(it->first.first)[mpiRank];
 
-      for (map<int, ElementObjectData>::iterator elIt = elObjects.getElementsInRank(it->first.second).begin();
-	   elIt != elObjects.getElementsInRank(it->first.second).end(); ++elIt) {
+      for (map<int, ElementObjectData>::iterator elIt = elObjDb.getElementsInRank(it->first.second).begin();
+	   elIt != elObjDb.getElementsInRank(it->first.second).end(); ++elIt) {
 
 	int otherElementRank = elIt->first;
 	ElementObjectData& perDofEl1 = elIt->second;
@@ -1601,15 +1601,15 @@ namespace AMDiS {
     }
 
 
-    for (PerBoundMap<DofEdge>::iterator it = elObjects.getPeriodicEdges().begin();
-	 it != elObjects.getPeriodicEdges().end(); ++it) {
-      if (elObjects.isInRank(it->first.first, mpiRank) == false)
+    for (PerBoundMap<DofEdge>::iterator it = elObjDb.getPeriodicEdges().begin();
+	 it != elObjDb.getPeriodicEdges().end(); ++it) {
+      if (elObjDb.isInRank(it->first.first, mpiRank) == false)
 	continue;
 
-      ElementObjectData& perEdgeEl0 = elObjects.getElementsInRank(it->first.first)[mpiRank];
+      ElementObjectData& perEdgeEl0 = elObjDb.getElementsInRank(it->first.first)[mpiRank];
 
-      for (map<int, ElementObjectData>::iterator elIt = elObjects.getElementsInRank(it->first.second).begin();
- 	   elIt != elObjects.getElementsInRank(it->first.second).end(); ++elIt) {
+      for (map<int, ElementObjectData>::iterator elIt = elObjDb.getElementsInRank(it->first.second).begin();
+ 	   elIt != elObjDb.getElementsInRank(it->first.second).end(); ++elIt) {
       
 	int otherElementRank = elIt->first;
 	ElementObjectData& perEdgeEl1 = elIt->second;
@@ -1633,27 +1633,29 @@ namespace AMDiS {
 	b = bound;
      
 	if (mpiRank > otherElementRank)
-	  b.neighObj.reverseMode = elObjects.getEdgeReverseMode(perEdgeEl0, perEdgeEl1);
+	  b.neighObj.reverseMode = 
+	    elObjDb.getEdgeReverseMode(perEdgeEl0, perEdgeEl1);
 	else
-	  b.rankObj.reverseMode = elObjects.getEdgeReverseMode(perEdgeEl0, perEdgeEl1);
+	  b.rankObj.reverseMode = 
+	    elObjDb.getEdgeReverseMode(perEdgeEl0, perEdgeEl1);
       }
     }
 
 
-    for (PerBoundMap<DofFace>::iterator it = elObjects.getPeriodicFaces().begin();
-	 it != elObjects.getPeriodicFaces().end(); ++it) {
-      if (elObjects.isInRank(it->first.first, mpiRank) == false)
+    for (PerBoundMap<DofFace>::iterator it = elObjDb.getPeriodicFaces().begin();
+	 it != elObjDb.getPeriodicFaces().end(); ++it) {
+      if (elObjDb.isInRank(it->first.first, mpiRank) == false)
 	continue;
 
-      TEST_EXIT_DBG(elObjects.getElements(it->first.first).size() == 1)
+      TEST_EXIT_DBG(elObjDb.getElements(it->first.first).size() == 1)
  	("Should not happen!\n");
-      TEST_EXIT_DBG(elObjects.getElements(it->first.second).size() == 1)
+      TEST_EXIT_DBG(elObjDb.getElements(it->first.second).size() == 1)
  	("Should not happen!\n");
 
-      ElementObjectData& perFaceEl0 = elObjects.getElementsInRank(it->first.first)[mpiRank];
+      ElementObjectData& perFaceEl0 = elObjDb.getElementsInRank(it->first.first)[mpiRank];
 
-      for (map<int, ElementObjectData>::iterator elIt = elObjects.getElementsInRank(it->first.second).begin();
- 	   elIt != elObjects.getElementsInRank(it->first.second).end(); ++elIt) {
+      for (map<int, ElementObjectData>::iterator elIt = elObjDb.getElementsInRank(it->first.second).begin();
+ 	   elIt != elObjDb.getElementsInRank(it->first.second).end(); ++elIt) {
       
 	int otherElementRank = elIt->first;
 	ElementObjectData& perFaceEl1 = elIt->second;
@@ -1678,10 +1680,10 @@ namespace AMDiS {
      
 	if (mpiRank > otherElementRank)
 	  b.neighObj.reverseMode = 
-	    elObjects.getFaceReverseMode(perFaceEl0, perFaceEl1);
+	    elObjDb.getFaceReverseMode(perFaceEl0, perFaceEl1);
 	else
 	  b.rankObj.reverseMode = 
-	    elObjects.getFaceReverseMode(perFaceEl0, perFaceEl1);
+	    elObjDb.getFaceReverseMode(perFaceEl0, perFaceEl1);
       }
     }
     
@@ -2259,7 +2261,7 @@ namespace AMDiS {
     SerUtil::serialize(out, elemWeights);
     SerUtil::serialize(out, partitionMap);
 
-    elObjects.serialize(out);
+    elObjDb.serialize(out);
 
     rankIntBoundary.serialize(out);
     otherIntBoundary.serialize(out);
@@ -2329,7 +2331,7 @@ namespace AMDiS {
       }
     }
 
-    elObjects.deserialize(in);
+    elObjDb.deserialize(in);
    
     rankIntBoundary.deserialize(in, elIndexMap);
     otherIntBoundary.deserialize(in, elIndexMap);

AMDiS/src/parallel/MeshDistributor.h

@@ -26,7 +26,7 @@
 
 #include <mpi.h>
 #include "parallel/DofComm.h"
-#include "parallel/ElementObjectData.h"
+#include "parallel/ElementObjectDatabase.h"
 #include "parallel/ParallelTypes.h"
 #include "parallel/MeshPartitioner.h"
 #include "parallel/InteriorBoundary.h"
@@ -607,11 +607,9 @@ namespace AMDiS {
     /// Mesh of the problem.
     Mesh *mesh;
 
-    /** \brief
+    /// A refinement manager that should be used on the mesh. It is used to