/[escript]/trunk/finley/src/Mesh.h
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Annotation of /trunk/finley/src/Mesh.h

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Revision 751 - (hide annotations)
Mon Jun 26 01:46:34 2006 UTC (13 years, 1 month ago) by bcumming
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File size: 6485 byte(s)
Changes relating to the MPI version of escript
The standard OpenMP version of escript is unchanged

- updated data types (Finley_Mesh, Finley_NodeFile, etc) to store meshes
  over multiple MPI processes.
- added CommBuffer code in Paso for communication of Data associated
  with distributed meshes
- updates in Finley and Escript to support distributed data and operations
  on distributed data (such as interpolation).
- construction of RHS in MPI, so that simple explicit schemes (such as
  /docs/examples/wave.py without IO and the Locator) can run in MPI.
- updated mesh generation for first order line, rectangle and brick
  meshes and second order line meshes in MPI.        
- small changes to trunk/SConstruct and trunk/scons/ess_options.py to
  build the MPI version, these changes are turned off by default.

1 jgs 150 /*
2 elspeth 626 ************************************************************
3     * Copyright 2006 by ACcESS MNRF *
4     * *
5     * http://www.access.edu.au *
6     * Primary Business: Queensland, Australia *
7     * Licensed under the Open Software License version 3.0 *
8     * http://www.opensource.org/licenses/osl-3.0.php *
9     * *
10     ************************************************************
11 jgs 150 */
12     /* Version: $Id$ */
13 jgs 82
14 jgs 150
15 jgs 82 #ifndef INC_FINLEY_MESH
16     #define INC_FINLEY_MESH
17    
18     /**************************************************************/
19    
20     /* Finley: Mesh */
21    
22     /* A mesh is built from nodes and elements which are describing the
23     domain, the surface and point sources. (the latter are needed to
24     establish links with other codes, in particular to particle
25     codes). The nodes are stored a Finley_NodeFile and elements in a
26     Finley_ElementFile. A Finley_NodeFile and three Finley_ElementFile
27     containing the elements describing the domain, surface and point
28     sources respectively. Notice that the surface elements do not
29     necessaryly cover the entire surface of the domain. */
30    
31     /* The element type is fixed by the reference element, see
32     ReferenceElement.h. The numbering of the nodes starts with 0. */
33    
34     /* Important: it is assumed that every node is appearing in at least
35     one element or surface element and that any node used in an
36     element, surface element or as a point is specified in the
37     Finley_Node, see also Finley_resolveNodeIds. */
38    
39     /* In some cases it is useful to refer to a mesh entirly built from
40     order 1 (=linear) elements. The linear version of the mesh can be
41     accessed by referning to the first few nodes of each element
42     (thanks to the way the nodes are ordered). As the numbering of
43     these nodes is not continuous a relabeling vectors are introduced
44     in the Finley_NodeFile. This feature is not fully implemented
45     yet. */
46    
47     /* allnodes and elements are tagged. the tag allows to group nodes and
48     elements. A typical application is to mark surface elements on a
49     certain portion of the domain with the same tag. All these surface
50     elements can then assigned the same value eg. for the pressure. */
51    
52     /* Thespacial dimension is determined by the type of elements
53     used. The spacial dimension should be accessed by the function
54     Finley_Mesh_getDim. Notice that the element type also determines
55     the type of surface elements to be used. */
56    
57     /**************************************************************/
58    
59 jgs 150 #include "Finley.h"
60 jgs 82 #include "NodeFile.h"
61     #include "ElementFile.h"
62 robwdcock 682 #include "paso/SystemMatrixPattern.h"
63     #include "escript/DataC.h"
64 jgs 82
65 bcumming 730 #ifdef PASO_MPI
66     #include "paso/Paso_MPI.h"
67     #endif
68    
69 jgs 82 /**************************************************************/
70    
71     /* this struct holds a mesh: */
72    
73     struct Finley_Mesh {
74     char* Name; /* the name of the mesh */
75 jgs 123 index_t order; /* integration order */
76     dim_t reference_counter; /* counts the number of references to the mesh; */
77 jgs 82 Finley_NodeFile* Nodes; /* the table of the nodes */
78     Finley_ElementFile* Elements; /* the table of the elements */
79     Finley_ElementFile* FaceElements; /* the table of the face elements */
80     Finley_ElementFile* ContactElements; /* the table of the contact elements */
81     Finley_ElementFile* Points; /* the table of points (treated as elements of dimension 0) */
82 jgs 102
83     /* pointer to the sparse matrix pattern */
84    
85 jgs 150 Paso_SystemMatrixPattern *FullFullPattern;
86     Paso_SystemMatrixPattern *FullReducedPattern;
87     Paso_SystemMatrixPattern *ReducedFullPattern;
88     Paso_SystemMatrixPattern *ReducedReducedPattern;
89 bcumming 730 #ifdef PASO_MPI
90     Paso_MPIInfo *MPIInfo;
91     #endif
92 jgs 82 };
93    
94     typedef struct Finley_Mesh Finley_Mesh;
95    
96     /* these structures are used for matching surfaces elements: */
97    
98     struct Finley_Mesh_findMatchingFaces_center{
99 jgs 123 index_t refId;
100 jgs 82 double x[MAX_numDim];
101     };
102     typedef struct Finley_Mesh_findMatchingFaces_center Finley_Mesh_findMatchingFaces_center;
103    
104     /**************************************************************/
105    
106     /* interfaces: */
107 bcumming 730 #ifndef PASO_MPI
108     Finley_Mesh* Finley_Mesh_alloc(char* name,dim_t numDim, index_t order);
109     #else
110     Finley_Mesh* Finley_Mesh_alloc(char* name,dim_t numDim, index_t order, Paso_MPIInfo *mpi_info);
111 bcumming 751 void Finley_Mesh_markOrderedNodesLocation(index_t* mask,index_t offset,Finley_Mesh* in,bool_t useLinear);
112     void Finley_Mesh_markOrderedDegreesOfFreedomLocation(index_t* mask,index_t offset,Finley_Mesh* in,bool_t useLinear);
113 bcumming 730 #endif
114     /*Finley_Mesh* Finley_Mesh_alloc(char*,int,int);*/
115 jgs 102 Finley_Mesh* Finley_Mesh_reference(Finley_Mesh*);
116 jgs 82 void Finley_Mesh_dealloc(Finley_Mesh*);
117 jgs 123 dim_t Finley_Mesh_getDim(Finley_Mesh*);
118     dim_t Finley_Mesh_getNumNodes(Finley_Mesh*);
119     dim_t Finley_Mesh_getNumDegreesOfFreedom(Finley_Mesh*);
120     dim_t Finley_Mesh_getReducedNumDegreesOfFreedom(Finley_Mesh*);
121 jgs 150 Paso_SystemMatrixPattern* Finley_getPattern(Finley_Mesh *mesh,bool_t reduce_row_order, bool_t reduce_col_order);
122     Paso_SystemMatrixPattern* Finley_makePattern(Finley_Mesh *mesh,bool_t reduce_row_order, bool_t reduce_col_order);
123 jgs 82 void Finley_Mesh_write(Finley_Mesh*,char*);
124 jgs 123 Finley_Mesh* Finley_Mesh_read(char*,index_t);
125 gross 532 void Finley_Mesh_setCoordinates(Finley_Mesh*,escriptDataC*);
126 jgs 82
127     void Finley_Mesh_prepare(Finley_Mesh* in);
128     void Finley_Mesh_prepareNodes(Finley_Mesh* in);
129     void Finley_Mesh_improveColoring(Finley_Mesh* in);
130     void Finley_Mesh_optimizeElementDistribution(Finley_Mesh* in);
131     void Finley_Mesh_resolveNodeIds(Finley_Mesh*);
132 jgs 123 Finley_Mesh* Finley_Mesh_merge(dim_t, Finley_Mesh**);
133 jgs 82
134     void Finley_Mesh_relableElementNodes(int*,int,Finley_Mesh*);
135     void Finley_Mesh_markNodes(int*,int,Finley_Mesh*,int);
136    
137     void Finley_Mesh_glueFaces(Finley_Mesh* self,double safety_factor,double tolerance);
138     void Finley_Mesh_joinFaces(Finley_Mesh* self,double safety_factor,double tolerance);
139    
140     int Finley_Mesh_findMatchingFaces_compar(const void*,const void*);
141     void Finley_Mesh_findMatchingFaces(Finley_NodeFile*,Finley_ElementFile *,double,double, int*, int*,int*,int*);
142     void Finley_Mesh_print(Finley_Mesh *in);
143 jgs 153 void Finley_Mesh_saveDX(const char * filename_p, Finley_Mesh *mesh_p, const dim_t num_data,char* *names_p,escriptDataC* *data_pp);
144     void Finley_Mesh_saveVTK(const char * filename_p, Finley_Mesh *mesh_p, const dim_t num_data,char* *names_p,escriptDataC* *data_pp);
145 jgs 82
146 bcumming 730
147 jgs 82 #endif /* #ifndef INC_FINLEY_MESH */
148 jgs 123

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