Actual source code: partchaco.c
1: #include <petsc/private/partitionerimpl.h>
3: PetscBool ChacoPartitionerCite = PETSC_FALSE;
4: const char ChacoPartitionerCitation[] = "@inproceedings{Chaco95,\n"
5: " author = {Bruce Hendrickson and Robert Leland},\n"
6: " title = {A multilevel algorithm for partitioning graphs},\n"
7: " booktitle = {Supercomputing '95: Proceedings of the 1995 ACM/IEEE Conference on Supercomputing (CDROM)},"
8: " isbn = {0-89791-816-9},\n"
9: " pages = {28},\n"
10: " doi = {https://doi.acm.org/10.1145/224170.224228},\n"
11: " publisher = {ACM Press},\n"
12: " address = {New York},\n"
13: " year = {1995}\n"
14: "}\n";
16: typedef struct {
17: PetscInt dummy;
18: } PetscPartitioner_Chaco;
20: static PetscErrorCode PetscPartitionerDestroy_Chaco(PetscPartitioner part)
21: {
22: PetscPartitioner_Chaco *p = (PetscPartitioner_Chaco *)part->data;
24: PetscFunctionBegin;
25: PetscCall(PetscFree(p));
26: PetscFunctionReturn(PETSC_SUCCESS);
27: }
29: #if defined(PETSC_HAVE_CHACO)
30: #if defined(PETSC_HAVE_UNISTD_H)
31: #include <unistd.h>
32: #endif
33: #if defined(PETSC_HAVE_CHACO_INT_ASSIGNMENT)
34: #include <chaco.h>
35: #else
36: /* Older versions of Chaco do not have an include file */
37: PETSC_EXTERN int interface(int nvtxs, int *start, int *adjacency, int *vwgts, float *ewgts, float *x, float *y, float *z, char *outassignname, char *outfilename, short *assignment, int architecture, int ndims_tot, int mesh_dims[3], double *goal, int global_method, int local_method, int rqi_flag, int vmax, int ndims, double eigtol, long seed);
38: #endif
39: extern int FREE_GRAPH;
40: #endif
42: static PetscErrorCode PetscPartitionerPartition_Chaco(PetscPartitioner part, PetscInt nparts, PetscInt numVertices, PetscInt start[], PetscInt adjacency[], PetscSection vertSection, PetscSection edgeSection, PetscSection targetSection, PetscSection partSection, IS *partition)
43: {
44: #if defined(PETSC_HAVE_CHACO)
45: enum {
46: DEFAULT_METHOD = 1,
47: INERTIAL_METHOD = 3
48: };
49: MPI_Comm comm;
50: int nvtxs = numVertices; /* number of vertices in full graph */
51: int *vwgts = NULL; /* weights for all vertices */
52: float *ewgts = NULL; /* weights for all edges */
53: float *x = NULL, *y = NULL, *z = NULL; /* coordinates for inertial method */
54: char *outassignname = NULL; /* name of assignment output file */
55: char *outfilename = NULL; /* output file name */
56: int architecture = 1; /* 0 => hypercube, d => d-dimensional mesh */
57: int ndims_tot = 0; /* total number of cube dimensions to divide */
58: int mesh_dims[3]; /* dimensions of mesh of processors */
59: double *goal = NULL; /* desired set sizes for each set */
60: int global_method = 1; /* global partitioning algorithm */
61: int local_method = 1; /* local partitioning algorithm */
62: int rqi_flag = 0; /* should I use RQI/Symmlq eigensolver? */
63: int vmax = 200; /* how many vertices to coarsen down to? */
64: int ndims = 1; /* number of eigenvectors (2^d sets) */
65: double eigtol = 0.001; /* tolerance on eigenvectors */
66: long seed = 123636512; /* for random graph mutations */
67: #if defined(PETSC_HAVE_CHACO_INT_ASSIGNMENT)
68: int *assignment; /* Output partition */
69: #else
70: short int *assignment; /* Output partition */
71: #endif
72: int fd_stdout, fd_pipe[2];
73: PetscInt *points;
74: int i, v, p;
75: int err;
77: PetscFunctionBegin;
78: PetscCall(PetscObjectGetComm((PetscObject)part, &comm));
79: if (PetscDefined(USE_DEBUG)) {
80: int ival, isum;
81: PetscBool distributed;
83: ival = (numVertices > 0);
84: PetscCallMPI(MPIU_Allreduce(&ival, &isum, 1, MPI_INT, MPI_SUM, comm));
85: distributed = (isum > 1) ? PETSC_TRUE : PETSC_FALSE;
86: PetscCheck(!distributed, comm, PETSC_ERR_SUP, "Chaco cannot partition a distributed graph");
87: }
88: if (!numVertices) { /* distributed case, return if not holding the graph */
89: PetscCall(ISCreateGeneral(comm, 0, NULL, PETSC_OWN_POINTER, partition));
90: PetscFunctionReturn(PETSC_SUCCESS);
91: }
92: FREE_GRAPH = 0; /* Do not let Chaco free my memory */
93: for (i = 0; i < start[numVertices]; ++i) ++adjacency[i];
95: /* code would use manager.createCellCoordinates(nvtxs, &x, &y, &z); */
96: PetscCheck(global_method != INERTIAL_METHOD, PETSC_COMM_SELF, PETSC_ERR_SUP, "Inertial partitioning not yet supported");
98: mesh_dims[0] = nparts;
99: mesh_dims[1] = 1;
100: mesh_dims[2] = 1;
101: PetscCall(PetscMalloc1(nvtxs, &assignment));
102: /* Chaco outputs to stdout. We redirect this to a buffer. */
103: /* TODO: check error codes for UNIX calls */
104: #if defined(PETSC_HAVE_UNISTD_H)
105: {
106: int piperet;
107: piperet = pipe(fd_pipe);
108: PetscCheck(!piperet, PETSC_COMM_SELF, PETSC_ERR_SYS, "Could not create pipe");
109: fd_stdout = dup(1);
110: close(1);
111: dup2(fd_pipe[1], 1);
112: }
113: #endif
114: if (part->usevwgt) PetscCall(PetscInfo(part, "PETSCPARTITIONERCHACO ignores vertex weights\n"));
115: if (part->useewgt) PetscCall(PetscInfo(part, "PETSCPARTITIONERCHACO ignores edge weights\n"));
116: err = interface(nvtxs, (int *)start, (int *)adjacency, vwgts, ewgts, x, y, z, outassignname, outfilename, assignment, architecture, ndims_tot, mesh_dims, goal, global_method, local_method, rqi_flag, vmax, ndims, eigtol, seed);
117: #if defined(PETSC_HAVE_UNISTD_H)
118: {
119: char msgLog[10000];
120: int count;
122: PetscCall(PetscFFlush(stdout));
123: count = (int)read(fd_pipe[0], msgLog, (10000 - 1) * sizeof(char));
124: if (count < 0) count = 0;
125: msgLog[count] = 0;
126: close(1);
127: dup2(fd_stdout, 1);
128: close(fd_stdout);
129: close(fd_pipe[0]);
130: close(fd_pipe[1]);
131: PetscCheck(!err, PETSC_COMM_SELF, PETSC_ERR_LIB, "Error in Chaco library: %s", msgLog);
132: }
133: #else
134: PetscCheck(!err, PETSC_COMM_SELF, PETSC_ERR_LIB, "Error in Chaco library: %s", "error in stdout");
135: #endif
136: /* Convert to PetscSection+IS */
137: for (v = 0; v < nvtxs; ++v) PetscCall(PetscSectionAddDof(partSection, assignment[v], 1));
138: PetscCall(PetscMalloc1(nvtxs, &points));
139: for (p = 0, i = 0; p < nparts; ++p) {
140: for (v = 0; v < nvtxs; ++v) {
141: if (assignment[v] == p) points[i++] = v;
142: }
143: }
144: PetscCheck(i == nvtxs, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Number of points %" PetscInt_FMT " should be %" PetscInt_FMT, i, nvtxs);
145: PetscCall(ISCreateGeneral(comm, nvtxs, points, PETSC_OWN_POINTER, partition));
146: /* code would use manager.destroyCellCoordinates(nvtxs, &x, &y, &z); */
147: PetscCheck(global_method != INERTIAL_METHOD, PETSC_COMM_SELF, PETSC_ERR_SUP, "Inertial partitioning not yet supported");
148: PetscCall(PetscFree(assignment));
149: for (i = 0; i < start[numVertices]; ++i) --adjacency[i];
150: PetscFunctionReturn(PETSC_SUCCESS);
151: #else
152: SETERRQ(PetscObjectComm((PetscObject)part), PETSC_ERR_SUP, "Mesh partitioning needs external package support.\nPlease reconfigure with --download-chaco.");
153: #endif
154: }
156: static PetscErrorCode PetscPartitionerInitialize_Chaco(PetscPartitioner part)
157: {
158: PetscFunctionBegin;
159: part->noGraph = PETSC_FALSE;
160: part->ops->destroy = PetscPartitionerDestroy_Chaco;
161: part->ops->partition = PetscPartitionerPartition_Chaco;
162: PetscFunctionReturn(PETSC_SUCCESS);
163: }
165: /*MC
166: PETSCPARTITIONERCHACO = "chaco" - A PetscPartitioner object using the Chaco library
168: Level: intermediate
170: .seealso: `PetscPartitionerType`, `PetscPartitionerCreate()`, `PetscPartitionerSetType()`
171: M*/
173: PETSC_EXTERN PetscErrorCode PetscPartitionerCreate_Chaco(PetscPartitioner part)
174: {
175: PetscPartitioner_Chaco *p;
177: PetscFunctionBegin;
179: PetscCall(PetscNew(&p));
180: part->data = p;
182: PetscCall(PetscPartitionerInitialize_Chaco(part));
183: PetscCall(PetscCitationsRegister(ChacoPartitionerCitation, &ChacoPartitionerCite));
184: PetscFunctionReturn(PETSC_SUCCESS);
185: }