#include /*I "petscpartitioner.h" I*/ PetscBool ChacoPartitionerCite = PETSC_FALSE; const char ChacoPartitionerCitation[] = "@inproceedings{Chaco95,\n" " author = {Bruce Hendrickson and Robert Leland},\n" " title = {A multilevel algorithm for partitioning graphs},\n" " booktitle = {Supercomputing '95: Proceedings of the 1995 ACM/IEEE Conference on Supercomputing (CDROM)}," " isbn = {0-89791-816-9},\n" " pages = {28},\n" " doi = {https://doi.acm.org/10.1145/224170.224228},\n" " publisher = {ACM Press},\n" " address = {New York},\n" " year = {1995}\n" "}\n"; typedef struct { PetscInt unused; } PetscPartitioner_Chaco; static PetscErrorCode PetscPartitionerDestroy_Chaco(PetscPartitioner part) { PetscPartitioner_Chaco *p = (PetscPartitioner_Chaco *)part->data; PetscFunctionBegin; PetscCall(PetscFree(p)); PetscFunctionReturn(PETSC_SUCCESS); } #if defined(PETSC_HAVE_CHACO) #if defined(PETSC_HAVE_UNISTD_H) #include #endif #if defined(PETSC_HAVE_CHACO_INT_ASSIGNMENT) #include #else /* Older versions of Chaco do not have an include file */ 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); #endif extern int FREE_GRAPH; #endif static PetscErrorCode PetscPartitionerPartition_Chaco(PetscPartitioner part, PetscInt nparts, PetscInt numVertices, PetscInt start[], PetscInt adjacency[], PetscSection vertSection, PetscSection edgeSection, PetscSection targetSection, PetscSection partSection, IS *partition) { #if defined(PETSC_HAVE_CHACO) enum { DEFAULT_METHOD = 1, INERTIAL_METHOD = 3 }; MPI_Comm comm; int nvtxs = numVertices; /* number of vertices in full graph */ int *vwgts = NULL; /* weights for all vertices */ float *ewgts = NULL; /* weights for all edges */ float *x = NULL, *y = NULL, *z = NULL; /* coordinates for inertial method */ char *outassignname = NULL; /* name of assignment output file */ char *outfilename = NULL; /* output file name */ int architecture = 1; /* 0 => hypercube, d => d-dimensional mesh */ int ndims_tot = 0; /* total number of cube dimensions to divide */ int mesh_dims[3]; /* dimensions of mesh of processors */ double *goal = NULL; /* desired set sizes for each set */ int global_method = 1; /* global partitioning algorithm */ int local_method = 1; /* local partitioning algorithm */ int rqi_flag = 0; /* should I use RQI/Symmlq eigensolver? */ int vmax = 200; /* how many vertices to coarsen down to? */ int ndims = 1; /* number of eigenvectors (2^d sets) */ double eigtol = 0.001; /* tolerance on eigenvectors */ long seed = 123636512; /* for random graph mutations */ #if defined(PETSC_HAVE_CHACO_INT_ASSIGNMENT) int *assignment; /* Output partition */ #else short int *assignment; /* Output partition */ #endif int fd_stdout, fd_pipe[2]; PetscInt *points; int i, v, p; int err; PetscFunctionBegin; PetscCall(PetscObjectGetComm((PetscObject)part, &comm)); if (PetscDefined(USE_DEBUG)) { int ival, isum; PetscBool distributed; ival = (numVertices > 0); PetscCallMPI(MPIU_Allreduce(&ival, &isum, 1, MPI_INT, MPI_SUM, comm)); distributed = (isum > 1) ? PETSC_TRUE : PETSC_FALSE; PetscCheck(!distributed, comm, PETSC_ERR_SUP, "Chaco cannot partition a distributed graph"); } if (!numVertices) { /* distributed case, return if not holding the graph */ PetscCall(ISCreateGeneral(comm, 0, NULL, PETSC_OWN_POINTER, partition)); PetscFunctionReturn(PETSC_SUCCESS); } FREE_GRAPH = 0; /* Do not let Chaco free my memory */ for (i = 0; i < start[numVertices]; ++i) ++adjacency[i]; /* code would use manager.createCellCoordinates(nvtxs, &x, &y, &z); */ PetscCheck(global_method != INERTIAL_METHOD, PETSC_COMM_SELF, PETSC_ERR_SUP, "Inertial partitioning not yet supported"); mesh_dims[0] = nparts; mesh_dims[1] = 1; mesh_dims[2] = 1; PetscCall(PetscMalloc1(nvtxs, &assignment)); /* Chaco outputs to stdout. We redirect this to a buffer. */ /* TODO: check error codes for UNIX calls */ #if defined(PETSC_HAVE_UNISTD_H) { int piperet; piperet = pipe(fd_pipe); PetscCheck(!piperet, PETSC_COMM_SELF, PETSC_ERR_SYS, "Could not create pipe"); fd_stdout = dup(1); close(1); dup2(fd_pipe[1], 1); } #endif if (part->usevwgt) PetscCall(PetscInfo(part, "PETSCPARTITIONERCHACO ignores vertex weights\n")); if (part->useewgt) PetscCall(PetscInfo(part, "PETSCPARTITIONERCHACO ignores edge weights\n")); 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); #if defined(PETSC_HAVE_UNISTD_H) { char msgLog[10000]; int count; PetscCall(PetscFFlush(stdout)); count = (int)read(fd_pipe[0], msgLog, (10000 - 1) * sizeof(char)); if (count < 0) count = 0; msgLog[count] = 0; close(1); dup2(fd_stdout, 1); close(fd_stdout); close(fd_pipe[0]); close(fd_pipe[1]); PetscCheck(!err, PETSC_COMM_SELF, PETSC_ERR_LIB, "Error in Chaco library: %s", msgLog); } #else PetscCheck(!err, PETSC_COMM_SELF, PETSC_ERR_LIB, "Error in Chaco library: %s", "error in stdout"); #endif /* Convert to PetscSection+IS */ for (v = 0; v < nvtxs; ++v) PetscCall(PetscSectionAddDof(partSection, assignment[v], 1)); PetscCall(PetscMalloc1(nvtxs, &points)); for (p = 0, i = 0; p < nparts; ++p) { for (v = 0; v < nvtxs; ++v) { if (assignment[v] == p) points[i++] = v; } } PetscCheck(i == nvtxs, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Number of points %" PetscInt_FMT " should be %" PetscInt_FMT, i, nvtxs); PetscCall(ISCreateGeneral(comm, nvtxs, points, PETSC_OWN_POINTER, partition)); /* code would use manager.destroyCellCoordinates(nvtxs, &x, &y, &z); */ PetscCheck(global_method != INERTIAL_METHOD, PETSC_COMM_SELF, PETSC_ERR_SUP, "Inertial partitioning not yet supported"); PetscCall(PetscFree(assignment)); for (i = 0; i < start[numVertices]; ++i) --adjacency[i]; PetscFunctionReturn(PETSC_SUCCESS); #else SETERRQ(PetscObjectComm((PetscObject)part), PETSC_ERR_SUP, "Mesh partitioning needs external package support.\nPlease reconfigure with --download-chaco."); #endif } static PetscErrorCode PetscPartitionerInitialize_Chaco(PetscPartitioner part) { PetscFunctionBegin; part->noGraph = PETSC_FALSE; part->ops->destroy = PetscPartitionerDestroy_Chaco; part->ops->partition = PetscPartitionerPartition_Chaco; PetscFunctionReturn(PETSC_SUCCESS); } /*MC PETSCPARTITIONERCHACO = "chaco" - A PetscPartitioner object using the Chaco library Level: intermediate .seealso: `PetscPartitionerType`, `PetscPartitionerCreate()`, `PetscPartitionerSetType()` M*/ PETSC_EXTERN PetscErrorCode PetscPartitionerCreate_Chaco(PetscPartitioner part) { PetscPartitioner_Chaco *p; PetscFunctionBegin; PetscValidHeaderSpecific(part, PETSCPARTITIONER_CLASSID, 1); PetscCall(PetscNew(&p)); part->data = p; PetscCall(PetscPartitionerInitialize_Chaco(part)); PetscCall(PetscCitationsRegister(ChacoPartitionerCitation, &ChacoPartitionerCite)); PetscFunctionReturn(PETSC_SUCCESS); }