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/* $Id$ */ |
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/******************************************************* |
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* |
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* Copyright 2003-2007 by ACceSS MNRF |
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* Copyright 2007 by University of Queensland |
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* |
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* http://esscc.uq.edu.au |
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* Primary Business: Queensland, Australia |
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* Licensed under the Open Software License version 3.0 |
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* http://www.opensource.org/licenses/osl-3.0.php |
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* |
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*******************************************************/ |
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|
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/**************************************************************/ |
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|
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/* Finley: read mesh */ |
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|
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/**************************************************************/ |
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|
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#include "Mesh.h" |
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#include <stdio.h> |
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|
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|
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/**************************************************************/ |
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|
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/* reads a mesh from a Finley file of name fname */ |
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|
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#define MAX_numNodes_gmsh 10 |
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|
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Finley_Mesh* Finley_Mesh_readGmsh(char* fname ,index_t numDim, index_t order, index_t reduced_order, bool_t optimize) { |
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|
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double version = 1.0; |
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int format = 0, size = sizeof(double); |
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dim_t numNodes, totalNumElements=0, numTags=0, numNodesPerElement, numNodesPerElement2, element_dim; |
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index_t e, i0, j, gmsh_type, partition_id, itmp, elementary_id; |
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index_t numElements=0, numFaceElements=0, *id=NULL, *tag=NULL, *vertices=NULL; |
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Finley_Mesh *mesh_p=NULL; |
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char line[LenString_MAX+1]; |
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char error_msg[LenErrorMsg_MAX]; |
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double rtmp0, rtmp1; |
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double time0=Finley_timer(); |
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FILE * fileHandle_p = NULL; |
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ElementTypeId* element_type=NULL; |
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|
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Paso_MPIInfo *mpi_info = Paso_MPIInfo_alloc( MPI_COMM_WORLD ); |
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Finley_resetError(); |
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if (mpi_info->size>1) { |
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Finley_setError(IO_ERROR,"reading GMSH with MPI is not supported yet."); |
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Paso_MPIInfo_free( mpi_info ); |
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return NULL; |
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} else { |
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|
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/* allocate mesh */ |
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|
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mesh_p = Finley_Mesh_alloc(fname,numDim,order, reduced_order, mpi_info); |
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if (! Finley_noError()) return NULL; |
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|
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/* get file handle */ |
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fileHandle_p = fopen(fname, "r"); |
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if (fileHandle_p==NULL) { |
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sprintf(error_msg,"Opening Gmsh file %s for reading failed.",fname); |
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Finley_setError(IO_ERROR,error_msg); |
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Paso_MPIInfo_free( mpi_info ); |
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return NULL; |
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} |
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|
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/* start reading */ |
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while(1) { |
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if (! Finley_noError()) break; |
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/* find line staring with $ */ |
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do { |
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if( ! fgets(line, sizeof(line), fileHandle_p) ) break; |
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if(feof(fileHandle_p)) break; |
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} while(line[0] != '$'); |
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|
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if (feof(fileHandle_p)) break; |
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|
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|
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/* format */ |
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if (!strncmp(&line[1], "MeshFormat", 10)) { |
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fscanf(fileHandle_p, "%lf %d %d\n", &version, &format, &size); |
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} |
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/* nodes are read */ |
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if ( !strncmp(&line[1], "NOD", 3) || |
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!strncmp(&line[1], "NOE", 3) || |
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!strncmp(&line[1], "Nodes", 5) ) { |
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|
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fscanf(fileHandle_p, "%d", &numNodes); |
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if (! Finley_noError()) break; |
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Finley_NodeFile_allocTable(mesh_p->Nodes, numNodes); |
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if (! Finley_noError()) break; |
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for (i0 = 0; i0 < numNodes; i0++) { |
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if (1 == numDim) { |
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fscanf(fileHandle_p, "%d %le %le %le\n", &mesh_p->Nodes->Id[i0], |
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&mesh_p->Nodes->Coordinates[INDEX2(0,i0,numDim)], |
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&rtmp0, |
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&rtmp1); |
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} else if (2 == numDim) { |
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fscanf(fileHandle_p, "%d %le %le %le\n", &mesh_p->Nodes->Id[i0], |
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&mesh_p->Nodes->Coordinates[INDEX2(0,i0,numDim)], |
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&mesh_p->Nodes->Coordinates[INDEX2(1,i0,numDim)], |
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&rtmp0); |
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} else if (3 == numDim) { |
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fscanf(fileHandle_p, "%d %le %le %le\n", &mesh_p->Nodes->Id[i0], |
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&mesh_p->Nodes->Coordinates[INDEX2(0,i0,numDim)], |
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&mesh_p->Nodes->Coordinates[INDEX2(1,i0,numDim)], |
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&mesh_p->Nodes->Coordinates[INDEX2(2,i0,numDim)]); |
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|
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|
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} |
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mesh_p->Nodes->globalDegreesOfFreedom[i0]=mesh_p->Nodes->Id[i0]; |
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mesh_p->Nodes->Tag[i0]=0; |
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} |
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} |
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/* elements */ |
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else if(!strncmp(&line[1], "ELM", 3) || |
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!strncmp(&line[1], "Elements", 8)) { |
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|
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ElementTypeId final_element_type = NoType; |
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ElementTypeId final_face_element_type = NoType; |
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numElements=0; |
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numFaceElements=0; |
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fscanf(fileHandle_p, "%d", &totalNumElements); |
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|
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id=TMPMEMALLOC(totalNumElements,index_t); |
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tag=TMPMEMALLOC(totalNumElements,index_t); |
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|
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|
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element_type=TMPMEMALLOC(totalNumElements,ElementTypeId); |
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vertices=TMPMEMALLOC(totalNumElements*MAX_numNodes_gmsh,index_t); |
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if (! (Finley_checkPtr(id) || Finley_checkPtr(tag) || Finley_checkPtr(element_type) || Finley_checkPtr(vertices) ) ) { |
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/* read all in */ |
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for(e = 0; e < totalNumElements; e++) { |
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fscanf(fileHandle_p, "%d %d", &id[e], &gmsh_type); |
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switch (gmsh_type) { |
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case 1: /* line order 1 */ |
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element_type[e]=Line2; |
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element_dim=1; |
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numNodesPerElement=2; |
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break; |
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case 2: /* traingle order 1 */ |
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element_type[e]=Tri3; |
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numNodesPerElement= 3; |
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element_dim=2; |
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break; |
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case 3: /* quadrilateral order 1 */ |
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element_type[e]=Rec4; |
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numNodesPerElement= 4; |
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element_dim=2; |
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break; |
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case 4: /* tetrahedron order 1 */ |
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element_type[e]=Tet4; |
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numNodesPerElement= 4; |
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element_dim=3; |
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break; |
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case 5: /* hexahedron order 1 */ |
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element_type[e]=Hex8; |
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numNodesPerElement= 8; |
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element_dim=3; |
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break; |
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case 8: /* line order 2 */ |
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element_type[e]=Line3; |
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numNodesPerElement= 3; |
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element_dim=1; |
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break; |
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case 9: /* traingle order 2 */ |
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element_type[e]=Tri6; |
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numNodesPerElement= 6; |
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element_dim=2; |
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break; |
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case 10: /* quadrilateral order 2 */ |
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element_type[e]=Rec9; |
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numNodesPerElement= 9; |
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element_dim=2; |
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break; |
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case 11: /* tetrahedron order 2 */ |
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element_type[e]=Tet10; |
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numNodesPerElement= 10; |
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element_dim=3; |
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break; |
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case 15 : /* point */ |
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element_type[e]=Point1; |
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numNodesPerElement= 1; |
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element_dim=0; |
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break; |
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default: |
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element_type[e]=NoType; |
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sprintf(error_msg,"Unexected gmsh element type %d in mesh file %s.",gmsh_type,fname); |
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Finley_setError(IO_ERROR,error_msg); |
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} |
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if (element_dim == numDim) { |
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if (final_element_type == NoType) { |
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final_element_type = element_type[e]; |
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} else if (final_element_type != element_type[e]) { |
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sprintf(error_msg,"Finley can handle a single type of internal elements only."); |
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Finley_setError(IO_ERROR,error_msg); |
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break; |
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} |
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numElements++; |
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} else if (element_dim == numDim-1) { |
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if (final_face_element_type == NoType) { |
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final_face_element_type = element_type[e]; |
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} else if (final_face_element_type != element_type[e]) { |
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sprintf(error_msg,"Finley can handle a single type of face elements only."); |
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Finley_setError(IO_ERROR,error_msg); |
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break; |
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} |
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numFaceElements++; |
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} |
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|
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if(version <= 1.0){ |
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fscanf(fileHandle_p, "%d %d %d", &tag[e], &elementary_id, &numNodesPerElement2); |
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partition_id = 1; |
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if (numNodesPerElement2 != numNodesPerElement) { |
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sprintf(error_msg,"Illegal number of nodes for element %d in mesh file %s.",id[e],fname); |
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Finley_setError(IO_ERROR,error_msg); |
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} |
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} else { |
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fscanf(fileHandle_p, "%d", &numTags); |
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elementary_id = tag[e] = partition_id = 1; |
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numNodesPerElement2=-1; |
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for(j = 0; j < numTags; j++){ |
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fscanf(fileHandle_p, "%d", &itmp); |
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if (j == 0) { |
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tag[e] = itmp; |
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} else if (j == 1) { |
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elementary_id = itmp; |
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} else if (j == 2) { |
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partition_id = itmp; |
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} |
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/* ignore any other tags */ |
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} |
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} |
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if (! Finley_noError()) break; |
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for(j = 0; j < numNodesPerElement; j++) fscanf(fileHandle_p, "%d", &vertices[INDEX2(j,e,MAX_numNodes_gmsh)]); |
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/* for tet10 the last two nodes need to be swapped */ |
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if (element_type[e]==Tet10) { |
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itmp=vertices[INDEX2(9,e,MAX_numNodes_gmsh)]; |
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vertices[INDEX2(9,e,MAX_numNodes_gmsh)]=vertices[INDEX2(8,e,MAX_numNodes_gmsh)]; |
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vertices[INDEX2(8,e,MAX_numNodes_gmsh)]=itmp; |
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} |
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} |
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/* all elements have been read, now we have to identify the elements for finley */ |
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if (Finley_noError()) { |
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/* first we have to identify the elements to define Elementis and FaceElements */ |
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if (final_element_type == NoType) { |
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if (numDim==1) { |
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final_element_type=Line2; |
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} else if (numDim==2) { |
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final_element_type=Tri3; |
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} else if (numDim==3) { |
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final_element_type=Tet4; |
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} |
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} |
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if (final_face_element_type == NoType) { |
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if (numDim==1) { |
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final_face_element_type=Point1; |
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} else if (numDim==2) { |
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final_face_element_type=Line2; |
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} else if (numDim==3) { |
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final_face_element_type=Tri3; |
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} |
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} |
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mesh_p->Elements=Finley_ElementFile_alloc(final_element_type,mesh_p->order, mesh_p->reduced_order, mpi_info); |
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mesh_p->FaceElements=Finley_ElementFile_alloc(final_face_element_type,mesh_p->order, mesh_p->reduced_order, mpi_info); |
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mesh_p->ContactElements=Finley_ElementFile_alloc(Point1_Contact,mesh_p->order, mesh_p->reduced_order, mpi_info); |
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mesh_p->Points=Finley_ElementFile_alloc(Point1,mesh_p->order, mesh_p->reduced_order, mpi_info); |
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if (Finley_noError()) { |
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Finley_ElementFile_allocTable(mesh_p->Elements, numElements); |
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Finley_ElementFile_allocTable(mesh_p->FaceElements, numFaceElements); |
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Finley_ElementFile_allocTable(mesh_p->ContactElements, 0); |
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Finley_ElementFile_allocTable(mesh_p->Points, 0); |
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if (Finley_noError()) { |
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mesh_p->Elements->minColor=0; |
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mesh_p->Elements->maxColor=numElements-1; |
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mesh_p->FaceElements->minColor=0; |
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mesh_p->FaceElements->maxColor=numFaceElements-1; |
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mesh_p->ContactElements->minColor=0; |
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mesh_p->ContactElements->maxColor=0; |
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mesh_p->Points->minColor=0; |
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mesh_p->Points->maxColor=0; |
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numElements=0; |
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numFaceElements=0; |
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for(e = 0; e < totalNumElements; e++) { |
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if (element_type[e] == final_element_type) { |
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mesh_p->Elements->Id[numElements]=id[e]; |
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mesh_p->Elements->Tag[numElements]=tag[e]; |
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mesh_p->Elements->Color[numElements]=numElements; |
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for (j = 0; j< mesh_p->Elements->ReferenceElement->Type->numNodes; ++j) { |
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mesh_p->Elements->Nodes[INDEX2(j, numElements, mesh_p->Elements->ReferenceElement->Type->numNodes)]=vertices[INDEX2(j,e,MAX_numNodes_gmsh)]; |
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} |
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numElements++; |
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} else if (element_type[e] == final_face_element_type) { |
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mesh_p->FaceElements->Id[numFaceElements]=id[e]; |
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mesh_p->FaceElements->Tag[numFaceElements]=tag[e]; |
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mesh_p->FaceElements->Color[numFaceElements]=numFaceElements; |
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for (j = 0; j< mesh_p->FaceElements->ReferenceElement->Type->numNodes; ++j) { |
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mesh_p->FaceElements->Nodes[INDEX2(j, numFaceElements, mesh_p->FaceElements->ReferenceElement->Type->numNodes)]=vertices[INDEX2(j,e,MAX_numNodes_gmsh)]; |
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} |
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numFaceElements++; |
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} |
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} |
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} |
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} |
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} |
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} |
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/* and clean up */ |
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TMPMEMFREE(id); |
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TMPMEMFREE(tag); |
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TMPMEMFREE(element_type); |
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TMPMEMFREE(vertices); |
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} |
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/* serach for end of data block */ |
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do { |
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if (!fgets(line, sizeof(line), fileHandle_p)) { |
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sprintf(error_msg,"Unexected end of file in %s",fname); |
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Finley_setError(IO_ERROR,error_msg); |
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} |
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if (feof(fileHandle_p)) { |
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sprintf(error_msg,"Unexected end of file in %s",fname); |
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Finley_setError(IO_ERROR,error_msg); |
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} |
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if (! Finley_noError()) break; |
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} while(line[0] != '$'); |
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} |
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|
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/* close file */ |
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fclose(fileHandle_p); |
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/* clean up */ |
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if (! Finley_noError()) { |
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Finley_Mesh_free(mesh_p); |
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return NULL; |
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} |
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/* resolve id's : */ |
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Finley_Mesh_resolveNodeIds(mesh_p); |
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/* rearrange elements: */ |
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Finley_Mesh_prepare(mesh_p, optimize); |
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/* that's it */ |
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#ifdef Finley_TRACE |
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printf("timing: reading mesh: %.4e sec\n",Finley_timer()-time0); |
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#endif |
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Paso_MPIInfo_free( mpi_info ); |
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return mesh_p; |
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} |
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} |
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