1be1d678aSKris Buschelman 22499ec78SHong Zhang /* 32499ec78SHong Zhang Defines matrix-matrix product routines for pairs of MPIAIJ matrices 42499ec78SHong Zhang C = A * B 52499ec78SHong Zhang */ 6c6db04a5SJed Brown #include <../src/mat/impls/aij/seq/aij.h> /*I "petscmat.h" I*/ 7c6db04a5SJed Brown #include <../src/mat/utils/freespace.h> 8c6db04a5SJed Brown #include <../src/mat/impls/aij/mpi/mpiaij.h> 9c6db04a5SJed Brown #include <petscbt.h> 10c6db04a5SJed Brown #include <../src/mat/impls/dense/mpi/mpidense.h> 11af0996ceSBarry Smith #include <petsc/private/vecimpl.h> 1297929ea7SJunchao Zhang #include <petsc/private/sfimpl.h> 131634b032SHong Zhang 145e5acdf2Sstefano_zampini #if defined(PETSC_HAVE_HYPRE) 154222ddf1SHong Zhang PETSC_INTERN PetscErrorCode MatMatMultSymbolic_AIJ_AIJ_wHYPRE(Mat,Mat,PetscReal,Mat); 165e5acdf2Sstefano_zampini #endif 175e5acdf2Sstefano_zampini 184222ddf1SHong Zhang PETSC_INTERN PetscErrorCode MatProductSymbolic_AB_MPIAIJ_MPIAIJ(Mat C) 192499ec78SHong Zhang { 202499ec78SHong Zhang PetscErrorCode ierr; 214222ddf1SHong Zhang Mat_Product *product = C->product; 224222ddf1SHong Zhang Mat A=product->A,B=product->B; 234222ddf1SHong Zhang MatProductAlgorithm alg=product->alg; 244222ddf1SHong Zhang PetscReal fill=product->fill; 255e68f438SHong Zhang PetscBool flg; 262499ec78SHong Zhang 272499ec78SHong Zhang PetscFunctionBegin; 284222ddf1SHong Zhang /* scalable */ 294222ddf1SHong Zhang ierr = PetscStrcmp(alg,"scalable",&flg);CHKERRQ(ierr); 304222ddf1SHong Zhang if (flg) { 31b2405163SHong Zhang ierr = MatMatMultSymbolic_MPIAIJ_MPIAIJ(A,B,fill,C);CHKERRQ(ierr); 326718818eSStefano Zampini PetscFunctionReturn(0); 330fc8cf34SHong Zhang } 347d0a89b7SHong Zhang 354222ddf1SHong Zhang /* nonscalable */ 364222ddf1SHong Zhang ierr = PetscStrcmp(alg,"nonscalable",&flg);CHKERRQ(ierr); 374222ddf1SHong Zhang if (flg) { 384222ddf1SHong Zhang ierr = MatMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(A,B,fill,C);CHKERRQ(ierr); 396718818eSStefano Zampini PetscFunctionReturn(0); 404222ddf1SHong Zhang } 414222ddf1SHong Zhang 424222ddf1SHong Zhang /* seqmpi */ 434222ddf1SHong Zhang ierr = PetscStrcmp(alg,"seqmpi",&flg);CHKERRQ(ierr); 444222ddf1SHong Zhang if (flg) { 454222ddf1SHong Zhang ierr = MatMatMultSymbolic_MPIAIJ_MPIAIJ_seqMPI(A,B,fill,C);CHKERRQ(ierr); 466718818eSStefano Zampini PetscFunctionReturn(0); 474222ddf1SHong Zhang } 484222ddf1SHong Zhang 494e84afc0SStefano Zampini /* backend general code */ 504e84afc0SStefano Zampini ierr = PetscStrcmp(alg,"backend",&flg);CHKERRQ(ierr); 514e84afc0SStefano Zampini if (flg) { 524e84afc0SStefano Zampini ierr = MatProductSymbolic_MPIAIJBACKEND(C);CHKERRQ(ierr); 534e84afc0SStefano Zampini PetscFunctionReturn(0); 544e84afc0SStefano Zampini } 554e84afc0SStefano Zampini 564222ddf1SHong Zhang #if defined(PETSC_HAVE_HYPRE) 574222ddf1SHong Zhang ierr = PetscStrcmp(alg,"hypre",&flg);CHKERRQ(ierr); 584222ddf1SHong Zhang if (flg) { 594222ddf1SHong Zhang ierr = MatMatMultSymbolic_AIJ_AIJ_wHYPRE(A,B,fill,C);CHKERRQ(ierr); 604222ddf1SHong Zhang PetscFunctionReturn(0); 614222ddf1SHong Zhang } 624222ddf1SHong Zhang #endif 634222ddf1SHong Zhang SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_SUP,"Mat Product Algorithm is not supported"); 642499ec78SHong Zhang } 652499ec78SHong Zhang 666718818eSStefano Zampini PetscErrorCode MatDestroy_MPIAIJ_MatMatMult(void *data) 67598bc09dSHong Zhang { 68598bc09dSHong Zhang PetscErrorCode ierr; 696718818eSStefano Zampini Mat_APMPI *ptap = (Mat_APMPI*)data; 70598bc09dSHong Zhang 71598bc09dSHong Zhang PetscFunctionBegin; 72b7f45c76SHong Zhang ierr = PetscFree2(ptap->startsj_s,ptap->startsj_r);CHKERRQ(ierr); 73598bc09dSHong Zhang ierr = PetscFree(ptap->bufa);CHKERRQ(ierr); 74a1a4e84aSHong Zhang ierr = MatDestroy(&ptap->P_loc);CHKERRQ(ierr); 75a1a4e84aSHong Zhang ierr = MatDestroy(&ptap->P_oth);CHKERRQ(ierr); 76ab1b013aSHong Zhang ierr = MatDestroy(&ptap->Pt);CHKERRQ(ierr); 77a1a4e84aSHong Zhang ierr = PetscFree(ptap->api);CHKERRQ(ierr); 78a1a4e84aSHong Zhang ierr = PetscFree(ptap->apj);CHKERRQ(ierr); 79598bc09dSHong Zhang ierr = PetscFree(ptap->apa);CHKERRQ(ierr); 80598bc09dSHong Zhang ierr = PetscFree(ptap);CHKERRQ(ierr); 81598bc09dSHong Zhang PetscFunctionReturn(0); 82598bc09dSHong Zhang } 83598bc09dSHong Zhang 84f8efd71cSHong Zhang PetscErrorCode MatMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable(Mat A,Mat P,Mat C) 85598bc09dSHong Zhang { 86598bc09dSHong Zhang PetscErrorCode ierr; 874ae0847bSHong Zhang Mat_MPIAIJ *a =(Mat_MPIAIJ*)A->data,*c=(Mat_MPIAIJ*)C->data; 88598bc09dSHong Zhang Mat_SeqAIJ *ad =(Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data; 89598bc09dSHong Zhang Mat_SeqAIJ *cd =(Mat_SeqAIJ*)(c->A)->data,*co=(Mat_SeqAIJ*)(c->B)->data; 90c12557a1SHong Zhang PetscScalar *cda=cd->a,*coa=co->a; 91598bc09dSHong Zhang Mat_SeqAIJ *p_loc,*p_oth; 929ce11a7cSHong Zhang PetscScalar *apa,*ca; 93c12557a1SHong Zhang PetscInt cm =C->rmap->n; 946718818eSStefano Zampini Mat_APMPI *ptap; 95c12557a1SHong Zhang PetscInt *api,*apj,*apJ,i,k; 9629825010SHong Zhang PetscInt cstart=C->cmap->rstart; 97598bc09dSHong Zhang PetscInt cdnz,conz,k0,k1; 98ce496241SStefano Zampini const PetscScalar *dummy; 999467f45fSHong Zhang MPI_Comm comm; 1009467f45fSHong Zhang PetscMPIInt size; 101598bc09dSHong Zhang 102598bc09dSHong Zhang PetscFunctionBegin; 1036718818eSStefano Zampini MatCheckProduct(C,3); 1046718818eSStefano Zampini ptap = (Mat_APMPI*)C->product->data; 1056718818eSStefano Zampini if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 1069467f45fSHong Zhang ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 107ffc4695bSBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRMPI(ierr); 1089467f45fSHong Zhang 1096718818eSStefano Zampini if (!ptap->P_oth && size>1) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"AP cannot be reused. Do not call MatProductClear()"); 11080da8df7SHong Zhang 111*65e4b4d4SStefano Zampini /* flag CPU mask for C */ 112*65e4b4d4SStefano Zampini #if defined(PETSC_HAVE_DEVICE) 113*65e4b4d4SStefano Zampini if (C->offloadmask != PETSC_OFFLOAD_UNALLOCATED) C->offloadmask = PETSC_OFFLOAD_CPU; 114*65e4b4d4SStefano Zampini if (c->A->offloadmask != PETSC_OFFLOAD_UNALLOCATED) c->A->offloadmask = PETSC_OFFLOAD_CPU; 115*65e4b4d4SStefano Zampini if (c->B->offloadmask != PETSC_OFFLOAD_UNALLOCATED) c->B->offloadmask = PETSC_OFFLOAD_CPU; 116*65e4b4d4SStefano Zampini #endif 117*65e4b4d4SStefano Zampini 118a1a4e84aSHong Zhang /* 1) get P_oth = ptap->P_oth and P_loc = ptap->P_loc */ 119598bc09dSHong Zhang /*-----------------------------------------------------*/ 120a1a4e84aSHong Zhang /* update numerical values of P_oth and P_loc */ 121b7f45c76SHong Zhang ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_REUSE_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 122a1a4e84aSHong Zhang ierr = MatMPIAIJGetLocalMat(P,MAT_REUSE_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 123598bc09dSHong Zhang 124598bc09dSHong Zhang /* 2) compute numeric C_loc = A_loc*P = Ad*P_loc + Ao*P_oth */ 125598bc09dSHong Zhang /*----------------------------------------------------------*/ 126598bc09dSHong Zhang /* get data from symbolic products */ 127a1a4e84aSHong Zhang p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 128c12557a1SHong Zhang p_oth = NULL; 1299467f45fSHong Zhang if (size >1) { 1309467f45fSHong Zhang p_oth = (Mat_SeqAIJ*)(ptap->P_oth)->data; 1319467f45fSHong Zhang } 132598bc09dSHong Zhang 133598bc09dSHong Zhang /* get apa for storing dense row A[i,:]*P */ 134598bc09dSHong Zhang apa = ptap->apa; 135598bc09dSHong Zhang 13629825010SHong Zhang api = ptap->api; 13729825010SHong Zhang apj = ptap->apj; 138ce496241SStefano Zampini /* trigger copy to CPU */ 139ce496241SStefano Zampini ierr = MatSeqAIJGetArrayRead(a->A,&dummy);CHKERRQ(ierr); 140ce496241SStefano Zampini ierr = MatSeqAIJRestoreArrayRead(a->A,&dummy);CHKERRQ(ierr); 141ce496241SStefano Zampini ierr = MatSeqAIJGetArrayRead(a->B,&dummy);CHKERRQ(ierr); 142ce496241SStefano Zampini ierr = MatSeqAIJRestoreArrayRead(a->B,&dummy);CHKERRQ(ierr); 143598bc09dSHong Zhang for (i=0; i<cm; i++) { 144c12557a1SHong Zhang /* compute apa = A[i,:]*P */ 145e497d3c8SHong Zhang AProw_nonscalable(i,ad,ao,p_loc,p_oth,apa); 146598bc09dSHong Zhang 147598bc09dSHong Zhang /* set values in C */ 148598bc09dSHong Zhang apJ = apj + api[i]; 149598bc09dSHong Zhang cdnz = cd->i[i+1] - cd->i[i]; 150598bc09dSHong Zhang conz = co->i[i+1] - co->i[i]; 151598bc09dSHong Zhang 152910cf402Sprj- /* 1st off-diagonal part of C */ 153598bc09dSHong Zhang ca = coa + co->i[i]; 154598bc09dSHong Zhang k = 0; 155598bc09dSHong Zhang for (k0=0; k0<conz; k0++) { 156598bc09dSHong Zhang if (apJ[k] >= cstart) break; 157598bc09dSHong Zhang ca[k0] = apa[apJ[k]]; 1585cab4f04SHong Zhang apa[apJ[k++]] = 0.0; 159598bc09dSHong Zhang } 160598bc09dSHong Zhang 161598bc09dSHong Zhang /* diagonal part of C */ 162598bc09dSHong Zhang ca = cda + cd->i[i]; 163598bc09dSHong Zhang for (k1=0; k1<cdnz; k1++) { 164598bc09dSHong Zhang ca[k1] = apa[apJ[k]]; 1655cab4f04SHong Zhang apa[apJ[k++]] = 0.0; 166598bc09dSHong Zhang } 167598bc09dSHong Zhang 168910cf402Sprj- /* 2nd off-diagonal part of C */ 169598bc09dSHong Zhang ca = coa + co->i[i]; 170598bc09dSHong Zhang for (; k0<conz; k0++) { 171598bc09dSHong Zhang ca[k0] = apa[apJ[k]]; 1725cab4f04SHong Zhang apa[apJ[k++]] = 0.0; 173598bc09dSHong Zhang } 174598bc09dSHong Zhang } 175598bc09dSHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 176598bc09dSHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 177598bc09dSHong Zhang PetscFunctionReturn(0); 178598bc09dSHong Zhang } 179598bc09dSHong Zhang 1804222ddf1SHong Zhang PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(Mat A,Mat P,PetscReal fill,Mat C) 181598bc09dSHong Zhang { 182598bc09dSHong Zhang PetscErrorCode ierr; 183ce94432eSBarry Smith MPI_Comm comm; 1849467f45fSHong Zhang PetscMPIInt size; 1853cdca5ebSHong Zhang Mat_APMPI *ptap; 1860298fd71SBarry Smith PetscFreeSpaceList free_space=NULL,current_space=NULL; 1876718818eSStefano Zampini Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 188bfcd1a73SHong Zhang Mat_SeqAIJ *ad=(Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data,*p_loc,*p_oth; 1897dbaa2c6Sandi selinger PetscInt *pi_loc,*pj_loc,*pi_oth,*pj_oth,*dnz,*onz; 1904ae0847bSHong Zhang PetscInt *adi=ad->i,*adj=ad->j,*aoi=ao->i,*aoj=ao->j,rstart=A->rmap->rstart; 191d14fa243SHong Zhang PetscInt *lnk,i,pnz,row,*api,*apj,*Jptr,apnz,nspacedouble=0,j,nzi; 1925cab4f04SHong Zhang PetscInt am=A->rmap->n,pN=P->cmap->N,pn=P->cmap->n,pm=P->rmap->n; 193598bc09dSHong Zhang PetscBT lnkbt; 194bfcd1a73SHong Zhang PetscReal afill; 195b92f168fSBarry Smith MatType mtype; 196598bc09dSHong Zhang 197598bc09dSHong Zhang PetscFunctionBegin; 1986718818eSStefano Zampini MatCheckProduct(C,4); 1996718818eSStefano Zampini if (C->product->data) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Extra product struct not empty"); 200ce94432eSBarry Smith ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 201ffc4695bSBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRMPI(ierr); 2029467f45fSHong Zhang 2033cdca5ebSHong Zhang /* create struct Mat_APMPI and attached it to C later */ 204b00a9115SJed Brown ierr = PetscNew(&ptap);CHKERRQ(ierr); 205598bc09dSHong Zhang 206598bc09dSHong Zhang /* get P_oth by taking rows of P (= non-zero cols of local A) from other processors */ 207b7f45c76SHong Zhang ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_INITIAL_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 20819f0e57aSHong Zhang 209598bc09dSHong Zhang /* get P_loc by taking all local rows of P */ 210a1a4e84aSHong Zhang ierr = MatMPIAIJGetLocalMat(P,MAT_INITIAL_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 211598bc09dSHong Zhang 212a1a4e84aSHong Zhang p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 213598bc09dSHong Zhang pi_loc = p_loc->i; pj_loc = p_loc->j; 2149467f45fSHong Zhang if (size > 1) { 2159467f45fSHong Zhang p_oth = (Mat_SeqAIJ*)(ptap->P_oth)->data; 216598bc09dSHong Zhang pi_oth = p_oth->i; pj_oth = p_oth->j; 21720e3dc75SHong Zhang } else { 21820e3dc75SHong Zhang p_oth = NULL; 21920e3dc75SHong Zhang pi_oth = NULL; pj_oth = NULL; 2209467f45fSHong Zhang } 221598bc09dSHong Zhang 222598bc09dSHong Zhang /* first, compute symbolic AP = A_loc*P = A_diag*P_loc + A_off*P_oth */ 223598bc09dSHong Zhang /*-------------------------------------------------------------------*/ 224854ce69bSBarry Smith ierr = PetscMalloc1(am+2,&api);CHKERRQ(ierr); 225a1a4e84aSHong Zhang ptap->api = api; 226598bc09dSHong Zhang api[0] = 0; 227598bc09dSHong Zhang 2285cab4f04SHong Zhang /* create and initialize a linked list */ 2295cab4f04SHong Zhang ierr = PetscLLCondensedCreate(pN,pN,&lnk,&lnkbt);CHKERRQ(ierr); 230598bc09dSHong Zhang 231bfcd1a73SHong Zhang /* Initial FreeSpace size is fill*(nnz(A)+nnz(P)) */ 232f91af8c7SBarry Smith ierr = PetscFreeSpaceGet(PetscRealIntMultTruncate(fill,PetscIntSumTruncate(adi[am],PetscIntSumTruncate(aoi[am],pi_loc[pm]))),&free_space);CHKERRQ(ierr); 233598bc09dSHong Zhang current_space = free_space; 234598bc09dSHong Zhang 235598bc09dSHong Zhang ierr = MatPreallocateInitialize(comm,am,pn,dnz,onz);CHKERRQ(ierr); 236598bc09dSHong Zhang for (i=0; i<am; i++) { 237598bc09dSHong Zhang /* diagonal portion of A */ 238598bc09dSHong Zhang nzi = adi[i+1] - adi[i]; 239598bc09dSHong Zhang for (j=0; j<nzi; j++) { 240598bc09dSHong Zhang row = *adj++; 241598bc09dSHong Zhang pnz = pi_loc[row+1] - pi_loc[row]; 242598bc09dSHong Zhang Jptr = pj_loc + pi_loc[row]; 243598bc09dSHong Zhang /* add non-zero cols of P into the sorted linked list lnk */ 2441fbbb359SHong Zhang ierr = PetscLLCondensedAddSorted(pnz,Jptr,lnk,lnkbt);CHKERRQ(ierr); 245598bc09dSHong Zhang } 246598bc09dSHong Zhang /* off-diagonal portion of A */ 247598bc09dSHong Zhang nzi = aoi[i+1] - aoi[i]; 248598bc09dSHong Zhang for (j=0; j<nzi; j++) { 249598bc09dSHong Zhang row = *aoj++; 250598bc09dSHong Zhang pnz = pi_oth[row+1] - pi_oth[row]; 251598bc09dSHong Zhang Jptr = pj_oth + pi_oth[row]; 2521fbbb359SHong Zhang ierr = PetscLLCondensedAddSorted(pnz,Jptr,lnk,lnkbt);CHKERRQ(ierr); 253598bc09dSHong Zhang } 2548c78258cSHong Zhang /* add possible missing diagonal entry */ 2558c78258cSHong Zhang if (C->force_diagonals) { 2568c78258cSHong Zhang j = i + rstart; /* column index */ 2578c78258cSHong Zhang ierr = PetscLLCondensedAddSorted(1,&j,lnk,lnkbt);CHKERRQ(ierr); 2588c78258cSHong Zhang } 259598bc09dSHong Zhang 260d14fa243SHong Zhang apnz = lnk[0]; 261598bc09dSHong Zhang api[i+1] = api[i] + apnz; 262598bc09dSHong Zhang 263598bc09dSHong Zhang /* if free space is not available, double the total space in the list */ 264598bc09dSHong Zhang if (current_space->local_remaining<apnz) { 265f91af8c7SBarry Smith ierr = PetscFreeSpaceGet(PetscIntSumTruncate(apnz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 266598bc09dSHong Zhang nspacedouble++; 267598bc09dSHong Zhang } 268598bc09dSHong Zhang 269598bc09dSHong Zhang /* Copy data into free space, then initialize lnk */ 2701fbbb359SHong Zhang ierr = PetscLLCondensedClean(pN,apnz,current_space->array,lnk,lnkbt);CHKERRQ(ierr); 271598bc09dSHong Zhang ierr = MatPreallocateSet(i+rstart,apnz,current_space->array,dnz,onz);CHKERRQ(ierr); 2722205254eSKarl Rupp 273598bc09dSHong Zhang current_space->array += apnz; 274598bc09dSHong Zhang current_space->local_used += apnz; 275598bc09dSHong Zhang current_space->local_remaining -= apnz; 276598bc09dSHong Zhang } 277598bc09dSHong Zhang 278598bc09dSHong Zhang /* Allocate space for apj, initialize apj, and */ 279598bc09dSHong Zhang /* destroy list of free space and other temporary array(s) */ 280854ce69bSBarry Smith ierr = PetscMalloc1(api[am]+1,&ptap->apj);CHKERRQ(ierr); 281a1a4e84aSHong Zhang apj = ptap->apj; 282a1a4e84aSHong Zhang ierr = PetscFreeSpaceContiguous(&free_space,ptap->apj);CHKERRQ(ierr); 283598bc09dSHong Zhang ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 284598bc09dSHong Zhang 285f84c536bSHong Zhang /* malloc apa to store dense row A[i,:]*P */ 286071fcb05SBarry Smith ierr = PetscCalloc1(pN,&ptap->apa);CHKERRQ(ierr); 287f84c536bSHong Zhang 2884222ddf1SHong Zhang /* set and assemble symbolic parallel matrix C */ 2894222ddf1SHong Zhang /*---------------------------------------------*/ 2904222ddf1SHong Zhang ierr = MatSetSizes(C,am,pn,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 2914222ddf1SHong Zhang ierr = MatSetBlockSizesFromMats(C,A,P);CHKERRQ(ierr); 292a2f3521dSMark F. Adams 293b92f168fSBarry Smith ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 2944222ddf1SHong Zhang ierr = MatSetType(C,mtype);CHKERRQ(ierr); 2954222ddf1SHong Zhang ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 2960926fe31SStefano Zampini ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 29717f75172Sandi selinger 2984222ddf1SHong Zhang ierr = MatSetValues_MPIAIJ_CopyFromCSRFormat_Symbolic(C, apj, api);CHKERRQ(ierr); 2994222ddf1SHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3004222ddf1SHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3010926fe31SStefano Zampini ierr = MatSetOption(C,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr); 302598bc09dSHong Zhang 3034222ddf1SHong Zhang C->ops->matmultnumeric = MatMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable; 3044222ddf1SHong Zhang C->ops->productnumeric = MatProductNumeric_AB; 305598bc09dSHong Zhang 3064222ddf1SHong Zhang /* attach the supporting struct to C for reuse */ 3076718818eSStefano Zampini C->product->data = ptap; 3086718818eSStefano Zampini C->product->destroy = MatDestroy_MPIAIJ_MatMatMult; 309598bc09dSHong Zhang 310bfcd1a73SHong Zhang /* set MatInfo */ 311118727c9SMark F. Adams afill = (PetscReal)api[am]/(adi[am]+aoi[am]+pi_loc[pm]+1) + 1.e-5; 312bfcd1a73SHong Zhang if (afill < 1.0) afill = 1.0; 3134222ddf1SHong Zhang C->info.mallocs = nspacedouble; 3144222ddf1SHong Zhang C->info.fill_ratio_given = fill; 3154222ddf1SHong Zhang C->info.fill_ratio_needed = afill; 316bfcd1a73SHong Zhang 317bfcd1a73SHong Zhang #if defined(PETSC_USE_INFO) 318bfcd1a73SHong Zhang if (api[am]) { 3194222ddf1SHong Zhang ierr = PetscInfo3(C,"Reallocs %D; Fill ratio: given %g needed %g.\n",nspacedouble,(double)fill,(double)afill);CHKERRQ(ierr); 3204222ddf1SHong Zhang ierr = PetscInfo1(C,"Use MatMatMult(A,B,MatReuse,%g,&C) for best performance.;\n",(double)afill);CHKERRQ(ierr); 321bfcd1a73SHong Zhang } else { 3224222ddf1SHong Zhang ierr = PetscInfo(C,"Empty matrix product\n");CHKERRQ(ierr); 323bfcd1a73SHong Zhang } 324bfcd1a73SHong Zhang #endif 325598bc09dSHong Zhang PetscFunctionReturn(0); 326598bc09dSHong Zhang } 327598bc09dSHong Zhang 3284222ddf1SHong Zhang /* ------------------------------------------------------- */ 3296718818eSStefano Zampini static PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIDense(Mat,Mat,PetscReal,Mat); 3306718818eSStefano Zampini static PetscErrorCode MatMatMultNumeric_MPIAIJ_MPIDense(Mat,Mat,Mat); 3316718818eSStefano Zampini 3324222ddf1SHong Zhang static PetscErrorCode MatProductSetFromOptions_MPIAIJ_MPIDense_AB(Mat C) 3339123193aSHong Zhang { 3344222ddf1SHong Zhang Mat_Product *product = C->product; 3354222ddf1SHong Zhang Mat A = product->A,B=product->B; 3369123193aSHong Zhang 3379123193aSHong Zhang PetscFunctionBegin; 3384222ddf1SHong Zhang if (A->cmap->rstart != B->rmap->rstart || A->cmap->rend != B->rmap->rend) 3394222ddf1SHong Zhang SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",A->cmap->rstart,A->cmap->rend,B->rmap->rstart,B->rmap->rend); 3404222ddf1SHong Zhang 3414222ddf1SHong Zhang C->ops->matmultsymbolic = MatMatMultSymbolic_MPIAIJ_MPIDense; 3424222ddf1SHong Zhang C->ops->productsymbolic = MatProductSymbolic_AB; 3439123193aSHong Zhang PetscFunctionReturn(0); 3449123193aSHong Zhang } 3454222ddf1SHong Zhang /* -------------------------------------------------------------------- */ 3464222ddf1SHong Zhang static PetscErrorCode MatProductSetFromOptions_MPIAIJ_MPIDense_AtB(Mat C) 3474222ddf1SHong Zhang { 3484222ddf1SHong Zhang Mat_Product *product = C->product; 3494222ddf1SHong Zhang Mat A = product->A,B=product->B; 3504222ddf1SHong Zhang 3514222ddf1SHong Zhang PetscFunctionBegin; 3524222ddf1SHong Zhang if (A->rmap->rstart != B->rmap->rstart || A->rmap->rend != B->rmap->rend) 3534222ddf1SHong Zhang SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",A->rmap->rstart,A->rmap->rend,B->rmap->rstart,B->rmap->rend); 3544222ddf1SHong Zhang 3554222ddf1SHong Zhang C->ops->transposematmultsymbolic = MatTransposeMatMultSymbolic_MPIAIJ_MPIDense; 3564222ddf1SHong Zhang C->ops->productsymbolic = MatProductSymbolic_AtB; 3574222ddf1SHong Zhang PetscFunctionReturn(0); 3584222ddf1SHong Zhang } 3594222ddf1SHong Zhang 3604222ddf1SHong Zhang /* --------------------------------------------------------------------- */ 3614222ddf1SHong Zhang PETSC_INTERN PetscErrorCode MatProductSetFromOptions_MPIAIJ_MPIDense(Mat C) 3624222ddf1SHong Zhang { 3634222ddf1SHong Zhang PetscErrorCode ierr; 3644222ddf1SHong Zhang Mat_Product *product = C->product; 3654222ddf1SHong Zhang 3664222ddf1SHong Zhang PetscFunctionBegin; 3674222ddf1SHong Zhang switch (product->type) { 3684222ddf1SHong Zhang case MATPRODUCT_AB: 3694222ddf1SHong Zhang ierr = MatProductSetFromOptions_MPIAIJ_MPIDense_AB(C);CHKERRQ(ierr); 3704222ddf1SHong Zhang break; 3714222ddf1SHong Zhang case MATPRODUCT_AtB: 3724222ddf1SHong Zhang ierr = MatProductSetFromOptions_MPIAIJ_MPIDense_AtB(C);CHKERRQ(ierr); 3734222ddf1SHong Zhang break; 3744222ddf1SHong Zhang default: 3756718818eSStefano Zampini break; 3764222ddf1SHong Zhang } 3774222ddf1SHong Zhang PetscFunctionReturn(0); 3784222ddf1SHong Zhang } 3794222ddf1SHong Zhang /* ------------------------------------------------------- */ 3809123193aSHong Zhang 3814324174eSBarry Smith typedef struct { 3825ea7661aSPierre Jolivet Mat workB,workB1; 3834324174eSBarry Smith MPI_Request *rwaits,*swaits; 38487753ddeSHong Zhang PetscInt nsends,nrecvs; 38587753ddeSHong Zhang MPI_Datatype *stype,*rtype; 3866718818eSStefano Zampini PetscInt blda; 3874324174eSBarry Smith } MPIAIJ_MPIDense; 3884324174eSBarry Smith 38996b95a6bSBarry Smith PetscErrorCode MatMPIAIJ_MPIDenseDestroy(void *ctx) 3904324174eSBarry Smith { 3914324174eSBarry Smith MPIAIJ_MPIDense *contents = (MPIAIJ_MPIDense*)ctx; 3924324174eSBarry Smith PetscErrorCode ierr; 39387753ddeSHong Zhang PetscInt i; 3944324174eSBarry Smith 3954324174eSBarry Smith PetscFunctionBegin; 3966bf464f9SBarry Smith ierr = MatDestroy(&contents->workB);CHKERRQ(ierr); 39787753ddeSHong Zhang ierr = MatDestroy(&contents->workB1);CHKERRQ(ierr); 39887753ddeSHong Zhang for (i=0; i<contents->nsends; i++) { 399ffc4695bSBarry Smith ierr = MPI_Type_free(&contents->stype[i]);CHKERRMPI(ierr); 40087753ddeSHong Zhang } 40187753ddeSHong Zhang for (i=0; i<contents->nrecvs; i++) { 402ffc4695bSBarry Smith ierr = MPI_Type_free(&contents->rtype[i]);CHKERRMPI(ierr); 40387753ddeSHong Zhang } 40487753ddeSHong Zhang ierr = PetscFree4(contents->stype,contents->rtype,contents->rwaits,contents->swaits);CHKERRQ(ierr); 4054324174eSBarry Smith ierr = PetscFree(contents);CHKERRQ(ierr); 4064324174eSBarry Smith PetscFunctionReturn(0); 4074324174eSBarry Smith } 4084324174eSBarry Smith 4096718818eSStefano Zampini static PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIDense(Mat A,Mat B,PetscReal fill,Mat C) 4109123193aSHong Zhang { 4119123193aSHong Zhang PetscErrorCode ierr; 412f32d5d43SBarry Smith Mat_MPIAIJ *aij=(Mat_MPIAIJ*)A->data; 413825bfe5fSPierre Jolivet PetscInt nz=aij->B->cmap->n,nsends,nrecvs,i,nrows_to,j,blda,clda,m,M,n,N; 4144324174eSBarry Smith MPIAIJ_MPIDense *contents; 4154324174eSBarry Smith VecScatter ctx=aij->Mvctx; 4165ea7661aSPierre Jolivet PetscInt Am=A->rmap->n,Bm=B->rmap->n,BN=B->cmap->N,Bbn,Bbn1,bs,nrows_from,numBb; 41787753ddeSHong Zhang MPI_Comm comm; 41887753ddeSHong Zhang MPI_Datatype type1,*stype,*rtype; 41987753ddeSHong Zhang const PetscInt *sindices,*sstarts,*rstarts; 42087753ddeSHong Zhang PetscMPIInt *disp; 4216718818eSStefano Zampini PetscBool cisdense; 4229123193aSHong Zhang 4239123193aSHong Zhang PetscFunctionBegin; 4246718818eSStefano Zampini MatCheckProduct(C,4); 4256718818eSStefano Zampini if (C->product->data) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_PLIB,"Product data not empty"); 42687753ddeSHong Zhang ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 4275ea7661aSPierre Jolivet ierr = PetscObjectBaseTypeCompare((PetscObject)C,MATMPIDENSE,&cisdense);CHKERRQ(ierr); 4286718818eSStefano Zampini if (!cisdense) { 4296718818eSStefano Zampini ierr = MatSetType(C,((PetscObject)B)->type_name);CHKERRQ(ierr); 4306718818eSStefano Zampini } 431825bfe5fSPierre Jolivet ierr = MatGetLocalSize(C,&m,&n);CHKERRQ(ierr); 432825bfe5fSPierre Jolivet ierr = MatGetSize(C,&M,&N);CHKERRQ(ierr); 433825bfe5fSPierre Jolivet if (m == PETSC_DECIDE || n == PETSC_DECIDE || M == PETSC_DECIDE || N == PETSC_DECIDE) { 4344222ddf1SHong Zhang ierr = MatSetSizes(C,Am,B->cmap->n,A->rmap->N,BN);CHKERRQ(ierr); 435825bfe5fSPierre Jolivet } 4364222ddf1SHong Zhang ierr = MatSetBlockSizesFromMats(C,A,B);CHKERRQ(ierr); 4376718818eSStefano Zampini ierr = MatSetUp(C);CHKERRQ(ierr); 4386718818eSStefano Zampini ierr = MatDenseGetLDA(B,&blda);CHKERRQ(ierr); 4396718818eSStefano Zampini ierr = MatDenseGetLDA(C,&clda);CHKERRQ(ierr); 440b00a9115SJed Brown ierr = PetscNew(&contents);CHKERRQ(ierr); 4414324174eSBarry Smith 44287753ddeSHong Zhang ierr = VecScatterGetRemote_Private(ctx,PETSC_TRUE/*send*/,&nsends,&sstarts,&sindices,NULL,NULL);CHKERRQ(ierr); 44387753ddeSHong Zhang ierr = VecScatterGetRemoteOrdered_Private(ctx,PETSC_FALSE/*recv*/,&nrecvs,&rstarts,NULL,NULL,NULL);CHKERRQ(ierr); 44487753ddeSHong Zhang 44587753ddeSHong Zhang /* Create column block of B and C for memory scalability when BN is too large */ 44687753ddeSHong Zhang /* Estimate Bbn, column size of Bb */ 44787753ddeSHong Zhang if (nz) { 44887753ddeSHong Zhang Bbn1 = 2*Am*BN/nz; 449da7cbbe7SHong Zhang if (!Bbn1) Bbn1 = 1; 45087753ddeSHong Zhang } else Bbn1 = BN; 45187753ddeSHong Zhang 45287753ddeSHong Zhang bs = PetscAbs(B->cmap->bs); 45387753ddeSHong Zhang Bbn1 = Bbn1/bs *bs; /* Bbn1 is a multiple of bs */ 45487753ddeSHong Zhang if (Bbn1 > BN) Bbn1 = BN; 455ffc4695bSBarry Smith ierr = MPI_Allreduce(&Bbn1,&Bbn,1,MPIU_INT,MPI_MAX,comm);CHKERRMPI(ierr); 45687753ddeSHong Zhang 45787753ddeSHong Zhang /* Enable runtime option for Bbn */ 4584222ddf1SHong Zhang ierr = PetscOptionsBegin(comm,((PetscObject)C)->prefix,"MatMatMult","Mat");CHKERRQ(ierr); 45987753ddeSHong Zhang ierr = PetscOptionsInt("-matmatmult_Bbn","Number of columns in Bb","MatMatMult",Bbn,&Bbn,NULL);CHKERRQ(ierr); 46087753ddeSHong Zhang ierr = PetscOptionsEnd();CHKERRQ(ierr); 4616718818eSStefano Zampini Bbn = PetscMin(Bbn,BN); 46287753ddeSHong Zhang 4636718818eSStefano Zampini if (Bbn > 0 && Bbn < BN) { 4645ea7661aSPierre Jolivet numBb = BN/Bbn; 4655ea7661aSPierre Jolivet Bbn1 = BN - numBb*Bbn; 4665ea7661aSPierre Jolivet } else numBb = 0; 46787753ddeSHong Zhang 4685ea7661aSPierre Jolivet if (numBb) { 4695ea7661aSPierre Jolivet ierr = PetscInfo3(C,"use Bb, BN=%D, Bbn=%D; numBb=%D\n",BN,Bbn,numBb);CHKERRQ(ierr); 4705ea7661aSPierre Jolivet if (Bbn1) { /* Create workB1 for the remaining columns */ 4714222ddf1SHong Zhang ierr = PetscInfo2(C,"use Bb1, BN=%D, Bbn1=%D\n",BN,Bbn1);CHKERRQ(ierr); 47287753ddeSHong Zhang /* Create work matrix used to store off processor rows of B needed for local product */ 47387753ddeSHong Zhang ierr = MatCreateSeqDense(PETSC_COMM_SELF,nz,Bbn1,NULL,&contents->workB1);CHKERRQ(ierr); 4745ea7661aSPierre Jolivet } else contents->workB1 = NULL; 47587753ddeSHong Zhang } 47687753ddeSHong Zhang 47787753ddeSHong Zhang /* Create work matrix used to store off processor rows of B needed for local product */ 47887753ddeSHong Zhang ierr = MatCreateSeqDense(PETSC_COMM_SELF,nz,Bbn,NULL,&contents->workB);CHKERRQ(ierr); 47987753ddeSHong Zhang 48087753ddeSHong Zhang /* Use MPI derived data type to reduce memory required by the send/recv buffers */ 48187753ddeSHong Zhang ierr = PetscMalloc4(nsends,&stype,nrecvs,&rtype,nrecvs,&contents->rwaits,nsends,&contents->swaits);CHKERRQ(ierr); 48287753ddeSHong Zhang contents->stype = stype; 48387753ddeSHong Zhang contents->nsends = nsends; 48487753ddeSHong Zhang 48587753ddeSHong Zhang contents->rtype = rtype; 48687753ddeSHong Zhang contents->nrecvs = nrecvs; 4876718818eSStefano Zampini contents->blda = blda; 48887753ddeSHong Zhang 48987753ddeSHong Zhang ierr = PetscMalloc1(Bm+1,&disp);CHKERRQ(ierr); 49087753ddeSHong Zhang for (i=0; i<nsends; i++) { 49187753ddeSHong Zhang nrows_to = sstarts[i+1]-sstarts[i]; 49287753ddeSHong Zhang for (j=0; j<nrows_to; j++){ 49387753ddeSHong Zhang disp[j] = sindices[sstarts[i]+j]; /* rowB to be sent */ 49487753ddeSHong Zhang } 495ffc4695bSBarry Smith ierr = MPI_Type_create_indexed_block(nrows_to,1,(const PetscMPIInt *)disp,MPIU_SCALAR,&type1);CHKERRMPI(ierr); 496905b3b74SHong Zhang 497ffc4695bSBarry Smith ierr = MPI_Type_create_resized(type1,0,blda*sizeof(PetscScalar),&stype[i]);CHKERRMPI(ierr); 498ffc4695bSBarry Smith ierr = MPI_Type_commit(&stype[i]);CHKERRMPI(ierr); 499ffc4695bSBarry Smith ierr = MPI_Type_free(&type1);CHKERRMPI(ierr); 50087753ddeSHong Zhang } 50187753ddeSHong Zhang 50287753ddeSHong Zhang for (i=0; i<nrecvs; i++) { 50387753ddeSHong Zhang /* received values from a process form a (nrows_from x Bbn) row block in workB (column-wise) */ 50487753ddeSHong Zhang nrows_from = rstarts[i+1]-rstarts[i]; 50587753ddeSHong Zhang disp[0] = 0; 506ffc4695bSBarry Smith ierr = MPI_Type_create_indexed_block(1, nrows_from, (const PetscMPIInt *)disp, MPIU_SCALAR, &type1);CHKERRMPI(ierr); 507ffc4695bSBarry Smith ierr = MPI_Type_create_resized(type1, 0, nz*sizeof(PetscScalar), &rtype[i]);CHKERRMPI(ierr); 508ffc4695bSBarry Smith ierr = MPI_Type_commit(&rtype[i]);CHKERRMPI(ierr); 509ffc4695bSBarry Smith ierr = MPI_Type_free(&type1);CHKERRMPI(ierr); 51087753ddeSHong Zhang } 51187753ddeSHong Zhang 51287753ddeSHong Zhang ierr = PetscFree(disp);CHKERRQ(ierr); 51387753ddeSHong Zhang ierr = VecScatterRestoreRemote_Private(ctx,PETSC_TRUE/*send*/,&nsends,&sstarts,&sindices,NULL,NULL);CHKERRQ(ierr); 51487753ddeSHong Zhang ierr = VecScatterRestoreRemoteOrdered_Private(ctx,PETSC_FALSE/*recv*/,&nrecvs,&rstarts,NULL,NULL,NULL);CHKERRQ(ierr); 515910cf402Sprj- ierr = MatSetOption(C,MAT_NO_OFF_PROC_ENTRIES,PETSC_TRUE);CHKERRQ(ierr); 5164222ddf1SHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 5174222ddf1SHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 5180926fe31SStefano Zampini ierr = MatSetOption(C,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr); 5196718818eSStefano Zampini 5206718818eSStefano Zampini C->product->data = contents; 5216718818eSStefano Zampini C->product->destroy = MatMPIAIJ_MPIDenseDestroy; 5224222ddf1SHong Zhang C->ops->matmultnumeric = MatMatMultNumeric_MPIAIJ_MPIDense; 5239123193aSHong Zhang PetscFunctionReturn(0); 5249123193aSHong Zhang } 5259123193aSHong Zhang 52693aa15f2SStefano Zampini PETSC_INTERN PetscErrorCode MatMatMultNumericAdd_SeqAIJ_SeqDense(Mat,Mat,Mat,const PetscBool); 527f32d5d43SBarry Smith /* 5282636ff26SBarry Smith Performs an efficient scatter on the rows of B needed by this process; this is 5292636ff26SBarry Smith a modification of the VecScatterBegin_() routines. 53087753ddeSHong Zhang 53187753ddeSHong Zhang Input: Bbidx = 0: B = Bb 53287753ddeSHong Zhang = 1: B = Bb1, see MatMatMultSymbolic_MPIAIJ_MPIDense() 533f32d5d43SBarry Smith */ 53487753ddeSHong Zhang PetscErrorCode MatMPIDenseScatter(Mat A,Mat B,PetscInt Bbidx,Mat C,Mat *outworkB) 535f32d5d43SBarry Smith { 536f32d5d43SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)A->data; 537f32d5d43SBarry Smith PetscErrorCode ierr; 5381683a169SBarry Smith const PetscScalar *b; 53987753ddeSHong Zhang PetscScalar *rvalues; 540f32d5d43SBarry Smith VecScatter ctx = aij->Mvctx; 54187753ddeSHong Zhang const PetscInt *sindices,*sstarts,*rstarts; 5423515ee7fSJunchao Zhang const PetscMPIInt *sprocs,*rprocs; 5436718818eSStefano Zampini PetscInt i,nsends,nrecvs; 544f32d5d43SBarry Smith MPI_Request *swaits,*rwaits; 545ce94432eSBarry Smith MPI_Comm comm; 5466718818eSStefano Zampini PetscMPIInt tag=((PetscObject)ctx)->tag,ncols=B->cmap->N,nrows=aij->B->cmap->n,nsends_mpi,nrecvs_mpi; 5474324174eSBarry Smith MPIAIJ_MPIDense *contents; 5484324174eSBarry Smith Mat workB; 54987753ddeSHong Zhang MPI_Datatype *stype,*rtype; 5506718818eSStefano Zampini PetscInt blda; 551f32d5d43SBarry Smith 552f32d5d43SBarry Smith PetscFunctionBegin; 5536718818eSStefano Zampini MatCheckProduct(C,4); 5546718818eSStefano Zampini if (!C->product->data) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_PLIB,"Product data empty"); 5556718818eSStefano Zampini contents = (MPIAIJ_MPIDense*)C->product->data; 5563515ee7fSJunchao Zhang ierr = VecScatterGetRemote_Private(ctx,PETSC_TRUE/*send*/,&nsends,&sstarts,&sindices,&sprocs,NULL/*bs*/);CHKERRQ(ierr); 55787753ddeSHong Zhang ierr = VecScatterGetRemoteOrdered_Private(ctx,PETSC_FALSE/*recv*/,&nrecvs,&rstarts,NULL,&rprocs,NULL/*bs*/);CHKERRQ(ierr); 5583515ee7fSJunchao Zhang ierr = PetscMPIIntCast(nsends,&nsends_mpi);CHKERRQ(ierr); 5593515ee7fSJunchao Zhang ierr = PetscMPIIntCast(nrecvs,&nrecvs_mpi);CHKERRQ(ierr); 56087753ddeSHong Zhang if (Bbidx == 0) { 56187753ddeSHong Zhang workB = *outworkB = contents->workB; 56287753ddeSHong Zhang } else { 56387753ddeSHong Zhang workB = *outworkB = contents->workB1; 56487753ddeSHong Zhang } 5656718818eSStefano Zampini if (nrows != workB->rmap->n) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Number of rows of workB %D not equal to columns of aij->B %D",workB->cmap->n,nrows); 5663515ee7fSJunchao Zhang swaits = contents->swaits; 5673515ee7fSJunchao Zhang rwaits = contents->rwaits; 568f32d5d43SBarry Smith 5691683a169SBarry Smith ierr = MatDenseGetArrayRead(B,&b);CHKERRQ(ierr); 5706718818eSStefano Zampini ierr = MatDenseGetLDA(B,&blda);CHKERRQ(ierr); 5716718818eSStefano Zampini if (blda != contents->blda) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Cannot reuse an input matrix with lda %D != %D",blda,contents->blda); 57287753ddeSHong Zhang ierr = MatDenseGetArray(workB,&rvalues);CHKERRQ(ierr); 573f32d5d43SBarry Smith 57487753ddeSHong Zhang /* Post recv, use MPI derived data type to save memory */ 5756718818eSStefano Zampini ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 57687753ddeSHong Zhang rtype = contents->rtype; 5773515ee7fSJunchao Zhang for (i=0; i<nrecvs; i++) { 578ffc4695bSBarry Smith ierr = MPI_Irecv(rvalues+(rstarts[i]-rstarts[0]),ncols,rtype[i],rprocs[i],tag,comm,rwaits+i);CHKERRMPI(ierr); 579f32d5d43SBarry Smith } 580f32d5d43SBarry Smith 58187753ddeSHong Zhang stype = contents->stype; 5823515ee7fSJunchao Zhang for (i=0; i<nsends; i++) { 583ffc4695bSBarry Smith ierr = MPI_Isend(b,ncols,stype[i],sprocs[i],tag,comm,swaits+i);CHKERRMPI(ierr); 584f32d5d43SBarry Smith } 5852636ff26SBarry Smith 586ffc4695bSBarry Smith if (nrecvs) {ierr = MPI_Waitall(nrecvs_mpi,rwaits,MPI_STATUSES_IGNORE);CHKERRMPI(ierr);} 587ffc4695bSBarry Smith if (nsends) {ierr = MPI_Waitall(nsends_mpi,swaits,MPI_STATUSES_IGNORE);CHKERRMPI(ierr);} 588f32d5d43SBarry Smith 58987753ddeSHong Zhang ierr = VecScatterRestoreRemote_Private(ctx,PETSC_TRUE/*send*/,&nsends,&sstarts,&sindices,&sprocs,NULL);CHKERRQ(ierr); 59087753ddeSHong Zhang ierr = VecScatterRestoreRemoteOrdered_Private(ctx,PETSC_FALSE/*recv*/,&nrecvs,&rstarts,NULL,&rprocs,NULL);CHKERRQ(ierr); 5911683a169SBarry Smith ierr = MatDenseRestoreArrayRead(B,&b);CHKERRQ(ierr); 59287753ddeSHong Zhang ierr = MatDenseRestoreArray(workB,&rvalues);CHKERRQ(ierr); 59387753ddeSHong Zhang PetscFunctionReturn(0); 59487753ddeSHong Zhang } 595f32d5d43SBarry Smith 5966718818eSStefano Zampini static PetscErrorCode MatMatMultNumeric_MPIAIJ_MPIDense(Mat A,Mat B,Mat C) 5979123193aSHong Zhang { 5989123193aSHong Zhang PetscErrorCode ierr; 599f32d5d43SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)A->data; 600f32d5d43SBarry Smith Mat_MPIDense *bdense = (Mat_MPIDense*)B->data; 601f32d5d43SBarry Smith Mat_MPIDense *cdense = (Mat_MPIDense*)C->data; 602f32d5d43SBarry Smith Mat workB; 60387753ddeSHong Zhang MPIAIJ_MPIDense *contents; 6049123193aSHong Zhang 6059123193aSHong Zhang PetscFunctionBegin; 6066718818eSStefano Zampini MatCheckProduct(C,3); 6076718818eSStefano Zampini if (!C->product->data) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_PLIB,"Product data empty"); 6086718818eSStefano Zampini contents = (MPIAIJ_MPIDense*)C->product->data; 609f32d5d43SBarry Smith /* diagonal block of A times all local rows of B */ 6105ea7661aSPierre Jolivet /* TODO: this calls a symbolic multiplication every time, which could be avoided */ 6116718818eSStefano Zampini ierr = MatMatMult(aij->A,bdense->A,MAT_REUSE_MATRIX,PETSC_DEFAULT,&cdense->A);CHKERRQ(ierr); 6125ea7661aSPierre Jolivet if (contents->workB->cmap->n == B->cmap->N) { 61387753ddeSHong Zhang /* get off processor parts of B needed to complete C=A*B */ 61487753ddeSHong Zhang ierr = MatMPIDenseScatter(A,B,0,C,&workB);CHKERRQ(ierr); 615f32d5d43SBarry Smith 616f32d5d43SBarry Smith /* off-diagonal block of A times nonlocal rows of B */ 61793aa15f2SStefano Zampini ierr = MatMatMultNumericAdd_SeqAIJ_SeqDense(aij->B,workB,cdense->A,PETSC_TRUE);CHKERRQ(ierr); 61887753ddeSHong Zhang } else { 6195ea7661aSPierre Jolivet Mat Bb,Cb; 6205ea7661aSPierre Jolivet PetscInt BN=B->cmap->N,n=contents->workB->cmap->n,i; 621da7cbbe7SHong Zhang if (n <= 0) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Column block size %D must be positive",n); 62287753ddeSHong Zhang 6235ea7661aSPierre Jolivet for (i=0; i<BN; i+=n) { 6245ea7661aSPierre Jolivet ierr = MatDenseGetSubMatrix(B,i,PetscMin(i+n,BN),&Bb);CHKERRQ(ierr); 6255ea7661aSPierre Jolivet ierr = MatDenseGetSubMatrix(C,i,PetscMin(i+n,BN),&Cb);CHKERRQ(ierr); 62687753ddeSHong Zhang 6275ea7661aSPierre Jolivet /* get off processor parts of B needed to complete C=A*B */ 6285ea7661aSPierre Jolivet ierr = MatMPIDenseScatter(A,Bb,i+n>BN,C,&workB);CHKERRQ(ierr); 6295ea7661aSPierre Jolivet 6305ea7661aSPierre Jolivet /* off-diagonal block of A times nonlocal rows of B */ 6315ea7661aSPierre Jolivet cdense = (Mat_MPIDense*)Cb->data; 63293aa15f2SStefano Zampini ierr = MatMatMultNumericAdd_SeqAIJ_SeqDense(aij->B,workB,cdense->A,PETSC_TRUE);CHKERRQ(ierr); 6335ea7661aSPierre Jolivet 6345ea7661aSPierre Jolivet ierr = MatDenseRestoreSubMatrix(B,&Bb);CHKERRQ(ierr); 6355ea7661aSPierre Jolivet ierr = MatDenseRestoreSubMatrix(C,&Cb);CHKERRQ(ierr); 63687753ddeSHong Zhang } 63787753ddeSHong Zhang } 6389123193aSHong Zhang PetscFunctionReturn(0); 6399123193aSHong Zhang } 640cf1a0672SHong Zhang 641f8efd71cSHong Zhang PetscErrorCode MatMatMultNumeric_MPIAIJ_MPIAIJ(Mat A,Mat P,Mat C) 6421634b032SHong Zhang { 6431634b032SHong Zhang PetscErrorCode ierr; 644cf1a0672SHong Zhang Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data,*c=(Mat_MPIAIJ*)C->data; 645cf1a0672SHong Zhang Mat_SeqAIJ *ad = (Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data; 646cf1a0672SHong Zhang Mat_SeqAIJ *cd = (Mat_SeqAIJ*)(c->A)->data,*co=(Mat_SeqAIJ*)(c->B)->data; 647cf1a0672SHong Zhang PetscInt *adi = ad->i,*adj,*aoi=ao->i,*aoj; 648cf1a0672SHong Zhang PetscScalar *ada,*aoa,*cda=cd->a,*coa=co->a; 649cf1a0672SHong Zhang Mat_SeqAIJ *p_loc,*p_oth; 650cf1a0672SHong Zhang PetscInt *pi_loc,*pj_loc,*pi_oth,*pj_oth,*pj; 65129825010SHong Zhang PetscScalar *pa_loc,*pa_oth,*pa,valtmp,*ca; 65229825010SHong Zhang PetscInt cm = C->rmap->n,anz,pnz; 6536718818eSStefano Zampini Mat_APMPI *ptap; 65480da8df7SHong Zhang PetscScalar *apa_sparse; 655ce496241SStefano Zampini const PetscScalar *dummy; 656cf1a0672SHong Zhang PetscInt *api,*apj,*apJ,i,j,k,row; 65729825010SHong Zhang PetscInt cstart = C->cmap->rstart; 65829825010SHong Zhang PetscInt cdnz,conz,k0,k1,nextp; 659a7c7454dSHong Zhang MPI_Comm comm; 660a7c7454dSHong Zhang PetscMPIInt size; 6611634b032SHong Zhang 6621634b032SHong Zhang PetscFunctionBegin; 6636718818eSStefano Zampini MatCheckProduct(C,3); 6646718818eSStefano Zampini ptap = (Mat_APMPI*)C->product->data; 6656718818eSStefano Zampini if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 66680da8df7SHong Zhang ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 667ffc4695bSBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRMPI(ierr); 6686718818eSStefano Zampini if (!ptap->P_oth && size>1) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"AP cannot be reused. Do not call MatProductClear()"); 669a7c7454dSHong Zhang 670*65e4b4d4SStefano Zampini /* flag CPU mask for C */ 671*65e4b4d4SStefano Zampini #if defined(PETSC_HAVE_DEVICE) 672*65e4b4d4SStefano Zampini if (C->offloadmask != PETSC_OFFLOAD_UNALLOCATED) C->offloadmask = PETSC_OFFLOAD_CPU; 673*65e4b4d4SStefano Zampini if (c->A->offloadmask != PETSC_OFFLOAD_UNALLOCATED) c->A->offloadmask = PETSC_OFFLOAD_CPU; 674*65e4b4d4SStefano Zampini if (c->B->offloadmask != PETSC_OFFLOAD_UNALLOCATED) c->B->offloadmask = PETSC_OFFLOAD_CPU; 675*65e4b4d4SStefano Zampini #endif 67680da8df7SHong Zhang apa_sparse = ptap->apa; 67780da8df7SHong Zhang 678cf1a0672SHong Zhang /* 1) get P_oth = ptap->P_oth and P_loc = ptap->P_loc */ 679cf1a0672SHong Zhang /*-----------------------------------------------------*/ 680cf1a0672SHong Zhang /* update numerical values of P_oth and P_loc */ 681b7f45c76SHong Zhang ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_REUSE_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 682cf1a0672SHong Zhang ierr = MatMPIAIJGetLocalMat(P,MAT_REUSE_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 683cf1a0672SHong Zhang 684cf1a0672SHong Zhang /* 2) compute numeric C_loc = A_loc*P = Ad*P_loc + Ao*P_oth */ 685cf1a0672SHong Zhang /*----------------------------------------------------------*/ 686cf1a0672SHong Zhang /* get data from symbolic products */ 687cf1a0672SHong Zhang p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 688cf1a0672SHong Zhang pi_loc = p_loc->i; pj_loc = p_loc->j; pa_loc = p_loc->a; 689a7c7454dSHong Zhang if (size >1) { 690a7c7454dSHong Zhang p_oth = (Mat_SeqAIJ*)(ptap->P_oth)->data; 691cf1a0672SHong Zhang pi_oth = p_oth->i; pj_oth = p_oth->j; pa_oth = p_oth->a; 69220e3dc75SHong Zhang } else { 69320e3dc75SHong Zhang p_oth = NULL; pi_oth = NULL; pj_oth = NULL; pa_oth = NULL; 694a7c7454dSHong Zhang } 695cf1a0672SHong Zhang 696ce496241SStefano Zampini /* trigger copy to CPU */ 697ce496241SStefano Zampini ierr = MatSeqAIJGetArrayRead(a->A,&dummy);CHKERRQ(ierr); 698ce496241SStefano Zampini ierr = MatSeqAIJRestoreArrayRead(a->A,&dummy);CHKERRQ(ierr); 699ce496241SStefano Zampini ierr = MatSeqAIJGetArrayRead(a->B,&dummy);CHKERRQ(ierr); 700ce496241SStefano Zampini ierr = MatSeqAIJRestoreArrayRead(a->B,&dummy);CHKERRQ(ierr); 70129825010SHong Zhang api = ptap->api; 70229825010SHong Zhang apj = ptap->apj; 703cf1a0672SHong Zhang for (i=0; i<cm; i++) { 70429825010SHong Zhang apJ = apj + api[i]; 70529825010SHong Zhang 706cf1a0672SHong Zhang /* diagonal portion of A */ 707cf1a0672SHong Zhang anz = adi[i+1] - adi[i]; 708cf1a0672SHong Zhang adj = ad->j + adi[i]; 709cf1a0672SHong Zhang ada = ad->a + adi[i]; 710cf1a0672SHong Zhang for (j=0; j<anz; j++) { 711cf1a0672SHong Zhang row = adj[j]; 712cf1a0672SHong Zhang pnz = pi_loc[row+1] - pi_loc[row]; 713cf1a0672SHong Zhang pj = pj_loc + pi_loc[row]; 714cf1a0672SHong Zhang pa = pa_loc + pi_loc[row]; 71529825010SHong Zhang /* perform sparse axpy */ 716cf1a0672SHong Zhang valtmp = ada[j]; 71729825010SHong Zhang nextp = 0; 71829825010SHong Zhang for (k=0; nextp<pnz; k++) { 71929825010SHong Zhang if (apJ[k] == pj[nextp]) { /* column of AP == column of P */ 72029825010SHong Zhang apa_sparse[k] += valtmp*pa[nextp++]; 72129825010SHong Zhang } 7221634b032SHong Zhang } 723cf1a0672SHong Zhang ierr = PetscLogFlops(2.0*pnz);CHKERRQ(ierr); 724cf1a0672SHong Zhang } 7251634b032SHong Zhang 726cf1a0672SHong Zhang /* off-diagonal portion of A */ 727cf1a0672SHong Zhang anz = aoi[i+1] - aoi[i]; 728cf1a0672SHong Zhang aoj = ao->j + aoi[i]; 729cf1a0672SHong Zhang aoa = ao->a + aoi[i]; 730cf1a0672SHong Zhang for (j=0; j<anz; j++) { 731cf1a0672SHong Zhang row = aoj[j]; 732cf1a0672SHong Zhang pnz = pi_oth[row+1] - pi_oth[row]; 733cf1a0672SHong Zhang pj = pj_oth + pi_oth[row]; 734cf1a0672SHong Zhang pa = pa_oth + pi_oth[row]; 73529825010SHong Zhang /* perform sparse axpy */ 736cf1a0672SHong Zhang valtmp = aoa[j]; 73729825010SHong Zhang nextp = 0; 73829825010SHong Zhang for (k=0; nextp<pnz; k++) { 73929825010SHong Zhang if (apJ[k] == pj[nextp]) { /* column of AP == column of P */ 74029825010SHong Zhang apa_sparse[k] += valtmp*pa[nextp++]; 74129825010SHong Zhang } 742cf1a0672SHong Zhang } 743cf1a0672SHong Zhang ierr = PetscLogFlops(2.0*pnz);CHKERRQ(ierr); 744cf1a0672SHong Zhang } 7451634b032SHong Zhang 746cf1a0672SHong Zhang /* set values in C */ 747cf1a0672SHong Zhang cdnz = cd->i[i+1] - cd->i[i]; 748cf1a0672SHong Zhang conz = co->i[i+1] - co->i[i]; 7491634b032SHong Zhang 750910cf402Sprj- /* 1st off-diagonal part of C */ 751cf1a0672SHong Zhang ca = coa + co->i[i]; 752cf1a0672SHong Zhang k = 0; 753cf1a0672SHong Zhang for (k0=0; k0<conz; k0++) { 754cf1a0672SHong Zhang if (apJ[k] >= cstart) break; 75529825010SHong Zhang ca[k0] = apa_sparse[k]; 75629825010SHong Zhang apa_sparse[k] = 0.0; 757cf1a0672SHong Zhang k++; 758cf1a0672SHong Zhang } 7591634b032SHong Zhang 760cf1a0672SHong Zhang /* diagonal part of C */ 761cf1a0672SHong Zhang ca = cda + cd->i[i]; 762cf1a0672SHong Zhang for (k1=0; k1<cdnz; k1++) { 76329825010SHong Zhang ca[k1] = apa_sparse[k]; 76429825010SHong Zhang apa_sparse[k] = 0.0; 765cf1a0672SHong Zhang k++; 766cf1a0672SHong Zhang } 767cf1a0672SHong Zhang 768910cf402Sprj- /* 2nd off-diagonal part of C */ 769cf1a0672SHong Zhang ca = coa + co->i[i]; 770cf1a0672SHong Zhang for (; k0<conz; k0++) { 77129825010SHong Zhang ca[k0] = apa_sparse[k]; 77229825010SHong Zhang apa_sparse[k] = 0.0; 773cf1a0672SHong Zhang k++; 774cf1a0672SHong Zhang } 775cf1a0672SHong Zhang } 776cf1a0672SHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 777cf1a0672SHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 778cf1a0672SHong Zhang PetscFunctionReturn(0); 779cf1a0672SHong Zhang } 780cf1a0672SHong Zhang 7810fc8cf34SHong Zhang /* same as MatMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(), except using LLCondensed to avoid O(BN) memory requirement */ 7824222ddf1SHong Zhang PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIAIJ(Mat A,Mat P,PetscReal fill,Mat C) 783cf1a0672SHong Zhang { 784cf1a0672SHong Zhang PetscErrorCode ierr; 785ce94432eSBarry Smith MPI_Comm comm; 786a7c7454dSHong Zhang PetscMPIInt size; 7873cdca5ebSHong Zhang Mat_APMPI *ptap; 7880298fd71SBarry Smith PetscFreeSpaceList free_space = NULL,current_space=NULL; 7896718818eSStefano Zampini Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 790cf1a0672SHong Zhang Mat_SeqAIJ *ad = (Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data,*p_loc,*p_oth; 7917dbaa2c6Sandi selinger PetscInt *pi_loc,*pj_loc,*pi_oth,*pj_oth,*dnz,*onz; 792cf1a0672SHong Zhang PetscInt *adi=ad->i,*adj=ad->j,*aoi=ao->i,*aoj=ao->j,rstart=A->rmap->rstart; 7938c78258cSHong Zhang PetscInt i,pnz,row,*api,*apj,*Jptr,apnz,nspacedouble=0,j,nzi,*lnk,apnz_max=1; 794e5ab8c0aSKarl Rupp PetscInt am=A->rmap->n,pn=P->cmap->n,pm=P->rmap->n,lsize=pn+20; 795cf1a0672SHong Zhang PetscReal afill; 796b92f168fSBarry Smith MatType mtype; 797cf1a0672SHong Zhang 798cf1a0672SHong Zhang PetscFunctionBegin; 7996718818eSStefano Zampini MatCheckProduct(C,4); 8006718818eSStefano Zampini if (C->product->data) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Extra product struct not empty"); 801ce94432eSBarry Smith ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 802ffc4695bSBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRMPI(ierr); 803a7c7454dSHong Zhang 8043cdca5ebSHong Zhang /* create struct Mat_APMPI and attached it to C later */ 805b00a9115SJed Brown ierr = PetscNew(&ptap);CHKERRQ(ierr); 806cf1a0672SHong Zhang 807cf1a0672SHong Zhang /* get P_oth by taking rows of P (= non-zero cols of local A) from other processors */ 808b7f45c76SHong Zhang ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_INITIAL_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 80919f0e57aSHong Zhang 810cf1a0672SHong Zhang /* get P_loc by taking all local rows of P */ 811cf1a0672SHong Zhang ierr = MatMPIAIJGetLocalMat(P,MAT_INITIAL_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 812cf1a0672SHong Zhang 813cf1a0672SHong Zhang p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 814cf1a0672SHong Zhang pi_loc = p_loc->i; pj_loc = p_loc->j; 815a7c7454dSHong Zhang if (size > 1) { 816a7c7454dSHong Zhang p_oth = (Mat_SeqAIJ*)(ptap->P_oth)->data; 81720e3dc75SHong Zhang pi_oth = p_oth->i; pj_oth = p_oth->j; 818968382fdSHong Zhang } else { 81920e3dc75SHong Zhang p_oth = NULL; 82020e3dc75SHong Zhang pi_oth = NULL; pj_oth = NULL; 821a7c7454dSHong Zhang } 822cf1a0672SHong Zhang 823cf1a0672SHong Zhang /* first, compute symbolic AP = A_loc*P = A_diag*P_loc + A_off*P_oth */ 824cf1a0672SHong Zhang /*-------------------------------------------------------------------*/ 825854ce69bSBarry Smith ierr = PetscMalloc1(am+2,&api);CHKERRQ(ierr); 826cf1a0672SHong Zhang ptap->api = api; 827cf1a0672SHong Zhang api[0] = 0; 828cf1a0672SHong Zhang 8298a210135Sandi selinger ierr = PetscLLCondensedCreate_Scalable(lsize,&lnk);CHKERRQ(ierr); 830cf1a0672SHong Zhang 831cf1a0672SHong Zhang /* Initial FreeSpace size is fill*(nnz(A)+nnz(P)) */ 832f91af8c7SBarry Smith ierr = PetscFreeSpaceGet(PetscRealIntMultTruncate(fill,PetscIntSumTruncate(adi[am],PetscIntSumTruncate(aoi[am],pi_loc[pm]))),&free_space);CHKERRQ(ierr); 833cf1a0672SHong Zhang current_space = free_space; 834cf1a0672SHong Zhang ierr = MatPreallocateInitialize(comm,am,pn,dnz,onz);CHKERRQ(ierr); 835cf1a0672SHong Zhang for (i=0; i<am; i++) { 836cf1a0672SHong Zhang /* diagonal portion of A */ 837cf1a0672SHong Zhang nzi = adi[i+1] - adi[i]; 838cf1a0672SHong Zhang for (j=0; j<nzi; j++) { 839cf1a0672SHong Zhang row = *adj++; 840cf1a0672SHong Zhang pnz = pi_loc[row+1] - pi_loc[row]; 841cf1a0672SHong Zhang Jptr = pj_loc + pi_loc[row]; 8428a210135Sandi selinger /* Expand list if it is not long enough */ 8438328dd82Sandi selinger if (pnz+apnz_max > lsize) { 8448328dd82Sandi selinger lsize = pnz+apnz_max; 84526465080Sandi selinger ierr = PetscLLCondensedExpand_Scalable(lsize, &lnk);CHKERRQ(ierr); 8468a210135Sandi selinger } 847cf1a0672SHong Zhang /* add non-zero cols of P into the sorted linked list lnk */ 848f84c536bSHong Zhang ierr = PetscLLCondensedAddSorted_Scalable(pnz,Jptr,lnk);CHKERRQ(ierr); 8498a210135Sandi selinger apnz = *lnk; /* The first element in the list is the number of items in the list */ 8508a210135Sandi selinger api[i+1] = api[i] + apnz; 8518c78258cSHong Zhang if (apnz > apnz_max) apnz_max = apnz + 1; /* '1' for diagonal entry */ 852cf1a0672SHong Zhang } 853cf1a0672SHong Zhang /* off-diagonal portion of A */ 854cf1a0672SHong Zhang nzi = aoi[i+1] - aoi[i]; 855cf1a0672SHong Zhang for (j=0; j<nzi; j++) { 856cf1a0672SHong Zhang row = *aoj++; 857cf1a0672SHong Zhang pnz = pi_oth[row+1] - pi_oth[row]; 858cf1a0672SHong Zhang Jptr = pj_oth + pi_oth[row]; 8598a210135Sandi selinger /* Expand list if it is not long enough */ 8608328dd82Sandi selinger if (pnz+apnz_max > lsize) { 8618328dd82Sandi selinger lsize = pnz + apnz_max; 86226465080Sandi selinger ierr = PetscLLCondensedExpand_Scalable(lsize, &lnk);CHKERRQ(ierr); 8638a210135Sandi selinger } 8648a210135Sandi selinger /* add non-zero cols of P into the sorted linked list lnk */ 865f84c536bSHong Zhang ierr = PetscLLCondensedAddSorted_Scalable(pnz,Jptr,lnk);CHKERRQ(ierr); 8668a210135Sandi selinger apnz = *lnk; /* The first element in the list is the number of items in the list */ 8678a210135Sandi selinger api[i+1] = api[i] + apnz; 8688c78258cSHong Zhang if (apnz > apnz_max) apnz_max = apnz + 1; /* '1' for diagonal entry */ 869cf1a0672SHong Zhang } 8708c78258cSHong Zhang 8718c78258cSHong Zhang /* add missing diagonal entry */ 8728c78258cSHong Zhang if (C->force_diagonals) { 8738c78258cSHong Zhang j = i + rstart; /* column index */ 8748c78258cSHong Zhang ierr = PetscLLCondensedAddSorted_Scalable(1,&j,lnk);CHKERRQ(ierr); 8758c78258cSHong Zhang } 8768c78258cSHong Zhang 877f84c536bSHong Zhang apnz = *lnk; 878cf1a0672SHong Zhang api[i+1] = api[i] + apnz; 8798a210135Sandi selinger if (apnz > apnz_max) apnz_max = apnz; 880cf1a0672SHong Zhang 881cf1a0672SHong Zhang /* if free space is not available, double the total space in the list */ 882cf1a0672SHong Zhang if (current_space->local_remaining<apnz) { 883f91af8c7SBarry Smith ierr = PetscFreeSpaceGet(PetscIntSumTruncate(apnz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 884cf1a0672SHong Zhang nspacedouble++; 885cf1a0672SHong Zhang } 886cf1a0672SHong Zhang 887cf1a0672SHong Zhang /* Copy data into free space, then initialize lnk */ 888f84c536bSHong Zhang ierr = PetscLLCondensedClean_Scalable(apnz,current_space->array,lnk);CHKERRQ(ierr); 889cf1a0672SHong Zhang ierr = MatPreallocateSet(i+rstart,apnz,current_space->array,dnz,onz);CHKERRQ(ierr); 8902205254eSKarl Rupp 891cf1a0672SHong Zhang current_space->array += apnz; 892cf1a0672SHong Zhang current_space->local_used += apnz; 893cf1a0672SHong Zhang current_space->local_remaining -= apnz; 894cf1a0672SHong Zhang } 895cf1a0672SHong Zhang 896cf1a0672SHong Zhang /* Allocate space for apj, initialize apj, and */ 897cf1a0672SHong Zhang /* destroy list of free space and other temporary array(s) */ 898854ce69bSBarry Smith ierr = PetscMalloc1(api[am]+1,&ptap->apj);CHKERRQ(ierr); 899cf1a0672SHong Zhang apj = ptap->apj; 900cf1a0672SHong Zhang ierr = PetscFreeSpaceContiguous(&free_space,ptap->apj);CHKERRQ(ierr); 901f84c536bSHong Zhang ierr = PetscLLCondensedDestroy_Scalable(lnk);CHKERRQ(ierr); 902cf1a0672SHong Zhang 9034222ddf1SHong Zhang /* create and assemble symbolic parallel matrix C */ 904cf1a0672SHong Zhang /*----------------------------------------------------*/ 9054222ddf1SHong Zhang ierr = MatSetSizes(C,am,pn,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 9064222ddf1SHong Zhang ierr = MatSetBlockSizesFromMats(C,A,P);CHKERRQ(ierr); 907b92f168fSBarry Smith ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 9084222ddf1SHong Zhang ierr = MatSetType(C,mtype);CHKERRQ(ierr); 9094222ddf1SHong Zhang ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 9100926fe31SStefano Zampini ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 911cf1a0672SHong Zhang 9124222ddf1SHong Zhang /* malloc apa for assembly C */ 913071fcb05SBarry Smith ierr = PetscCalloc1(apnz_max,&ptap->apa);CHKERRQ(ierr); 91417f75172Sandi selinger 9154222ddf1SHong Zhang ierr = MatSetValues_MPIAIJ_CopyFromCSRFormat_Symbolic(C, apj, api);CHKERRQ(ierr); 9164222ddf1SHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 9174222ddf1SHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 9180926fe31SStefano Zampini ierr = MatSetOption(C,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr); 919cf1a0672SHong Zhang 9204222ddf1SHong Zhang C->ops->matmultnumeric = MatMatMultNumeric_MPIAIJ_MPIAIJ; 9214222ddf1SHong Zhang C->ops->productnumeric = MatProductNumeric_AB; 922cf1a0672SHong Zhang 9234222ddf1SHong Zhang /* attach the supporting struct to C for reuse */ 9246718818eSStefano Zampini C->product->data = ptap; 9256718818eSStefano Zampini C->product->destroy = MatDestroy_MPIAIJ_MatMatMult; 926cf1a0672SHong Zhang 927cf1a0672SHong Zhang /* set MatInfo */ 928118727c9SMark F. Adams afill = (PetscReal)api[am]/(adi[am]+aoi[am]+pi_loc[pm]+1) + 1.e-5; 929cf1a0672SHong Zhang if (afill < 1.0) afill = 1.0; 9304222ddf1SHong Zhang C->info.mallocs = nspacedouble; 9314222ddf1SHong Zhang C->info.fill_ratio_given = fill; 9324222ddf1SHong Zhang C->info.fill_ratio_needed = afill; 933cf1a0672SHong Zhang 934cf1a0672SHong Zhang #if defined(PETSC_USE_INFO) 935cf1a0672SHong Zhang if (api[am]) { 9364222ddf1SHong Zhang ierr = PetscInfo3(C,"Reallocs %D; Fill ratio: given %g needed %g.\n",nspacedouble,(double)fill,(double)afill);CHKERRQ(ierr); 9374222ddf1SHong Zhang ierr = PetscInfo1(C,"Use MatMatMult(A,B,MatReuse,%g,&C) for best performance.;\n",(double)afill);CHKERRQ(ierr); 938cf1a0672SHong Zhang } else { 9394222ddf1SHong Zhang ierr = PetscInfo(C,"Empty matrix product\n");CHKERRQ(ierr); 940cf1a0672SHong Zhang } 941cf1a0672SHong Zhang #endif 9421634b032SHong Zhang PetscFunctionReturn(0); 9431634b032SHong Zhang } 944f96d37fcSHong Zhang 945a9d7e0ccSandi selinger /* This function is needed for the seqMPI matrix-matrix multiplication. */ 946a9d7e0ccSandi selinger /* Three input arrays are merged to one output array. The size of the */ 947a9d7e0ccSandi selinger /* output array is also output. Duplicate entries only show up once. */ 948a9d7e0ccSandi selinger static void Merge3SortedArrays(PetscInt size1, PetscInt *in1, 949a9d7e0ccSandi selinger PetscInt size2, PetscInt *in2, 950a9d7e0ccSandi selinger PetscInt size3, PetscInt *in3, 951a9d7e0ccSandi selinger PetscInt *size4, PetscInt *out) 952a9d7e0ccSandi selinger { 953a9d7e0ccSandi selinger int i = 0, j = 0, k = 0, l = 0; 954a9d7e0ccSandi selinger 955a9d7e0ccSandi selinger /* Traverse all three arrays */ 956a9d7e0ccSandi selinger while (i<size1 && j<size2 && k<size3) { 957a9d7e0ccSandi selinger if (in1[i] < in2[j] && in1[i] < in3[k]) { 958a9d7e0ccSandi selinger out[l++] = in1[i++]; 959a9d7e0ccSandi selinger } 960a9d7e0ccSandi selinger else if (in2[j] < in1[i] && in2[j] < in3[k]) { 961a9d7e0ccSandi selinger out[l++] = in2[j++]; 962a9d7e0ccSandi selinger } 963a9d7e0ccSandi selinger else if (in3[k] < in1[i] && in3[k] < in2[j]) { 964a9d7e0ccSandi selinger out[l++] = in3[k++]; 965a9d7e0ccSandi selinger } 966a9d7e0ccSandi selinger else if (in1[i] == in2[j] && in1[i] < in3[k]) { 967a9d7e0ccSandi selinger out[l++] = in1[i]; 968a9d7e0ccSandi selinger i++, j++; 969a9d7e0ccSandi selinger } 970a9d7e0ccSandi selinger else if (in1[i] == in3[k] && in1[i] < in2[j]) { 971a9d7e0ccSandi selinger out[l++] = in1[i]; 972a9d7e0ccSandi selinger i++, k++; 973a9d7e0ccSandi selinger } 974a9d7e0ccSandi selinger else if (in3[k] == in2[j] && in2[j] < in1[i]) { 975a9d7e0ccSandi selinger out[l++] = in2[j]; 976a9d7e0ccSandi selinger k++, j++; 977a9d7e0ccSandi selinger } 978a9d7e0ccSandi selinger else if (in1[i] == in2[j] && in1[i] == in3[k]) { 979a9d7e0ccSandi selinger out[l++] = in1[i]; 980a9d7e0ccSandi selinger i++, j++, k++; 981a9d7e0ccSandi selinger } 982a9d7e0ccSandi selinger } 983a9d7e0ccSandi selinger 984a9d7e0ccSandi selinger /* Traverse two remaining arrays */ 985a9d7e0ccSandi selinger while (i<size1 && j<size2) { 986a9d7e0ccSandi selinger if (in1[i] < in2[j]) { 987a9d7e0ccSandi selinger out[l++] = in1[i++]; 988a9d7e0ccSandi selinger } 989a9d7e0ccSandi selinger else if (in1[i] > in2[j]) { 990a9d7e0ccSandi selinger out[l++] = in2[j++]; 991a9d7e0ccSandi selinger } 992a9d7e0ccSandi selinger else { 993a9d7e0ccSandi selinger out[l++] = in1[i]; 994a9d7e0ccSandi selinger i++, j++; 995a9d7e0ccSandi selinger } 996a9d7e0ccSandi selinger } 997a9d7e0ccSandi selinger 998a9d7e0ccSandi selinger while (i<size1 && k<size3) { 999a9d7e0ccSandi selinger if (in1[i] < in3[k]) { 1000a9d7e0ccSandi selinger out[l++] = in1[i++]; 1001a9d7e0ccSandi selinger } 1002a9d7e0ccSandi selinger else if (in1[i] > in3[k]) { 1003a9d7e0ccSandi selinger out[l++] = in3[k++]; 1004a9d7e0ccSandi selinger } 1005a9d7e0ccSandi selinger else { 1006a9d7e0ccSandi selinger out[l++] = in1[i]; 1007a9d7e0ccSandi selinger i++, k++; 1008a9d7e0ccSandi selinger } 1009a9d7e0ccSandi selinger } 1010a9d7e0ccSandi selinger 1011a9d7e0ccSandi selinger while (k<size3 && j<size2) { 1012a9d7e0ccSandi selinger if (in3[k] < in2[j]) { 1013a9d7e0ccSandi selinger out[l++] = in3[k++]; 1014a9d7e0ccSandi selinger } 1015a9d7e0ccSandi selinger else if (in3[k] > in2[j]) { 1016a9d7e0ccSandi selinger out[l++] = in2[j++]; 1017a9d7e0ccSandi selinger } 1018a9d7e0ccSandi selinger else { 1019a9d7e0ccSandi selinger out[l++] = in3[k]; 1020a9d7e0ccSandi selinger k++, j++; 1021a9d7e0ccSandi selinger } 1022a9d7e0ccSandi selinger } 1023a9d7e0ccSandi selinger 1024a9d7e0ccSandi selinger /* Traverse one remaining array */ 1025a9d7e0ccSandi selinger while (i<size1) out[l++] = in1[i++]; 1026a9d7e0ccSandi selinger while (j<size2) out[l++] = in2[j++]; 1027a9d7e0ccSandi selinger while (k<size3) out[l++] = in3[k++]; 1028a9d7e0ccSandi selinger 1029a9d7e0ccSandi selinger *size4 = l; 1030a9d7e0ccSandi selinger } 1031a9d7e0ccSandi selinger 103273b67375Sandi selinger /* This matrix-matrix multiplication algorithm divides the multiplication into three multiplications and */ 103373b67375Sandi selinger /* adds up the products. Two of these three multiplications are performed with existing (sequential) */ 103473b67375Sandi selinger /* matrix-matrix multiplications. */ 10354222ddf1SHong Zhang PetscErrorCode MatMatMultSymbolic_MPIAIJ_MPIAIJ_seqMPI(Mat A, Mat P, PetscReal fill, Mat C) 1036a9d7e0ccSandi selinger { 1037a9d7e0ccSandi selinger PetscErrorCode ierr; 1038a9d7e0ccSandi selinger MPI_Comm comm; 1039a9d7e0ccSandi selinger PetscMPIInt size; 10403cdca5ebSHong Zhang Mat_APMPI *ptap; 1041a9d7e0ccSandi selinger PetscFreeSpaceList free_space_diag=NULL, current_space=NULL; 1042a9d7e0ccSandi selinger Mat_MPIAIJ *a =(Mat_MPIAIJ*)A->data; 1043a9d7e0ccSandi selinger Mat_SeqAIJ *ad =(Mat_SeqAIJ*)(a->A)->data,*ao=(Mat_SeqAIJ*)(a->B)->data,*p_loc; 1044a9d7e0ccSandi selinger Mat_MPIAIJ *p =(Mat_MPIAIJ*)P->data; 1045a9d7e0ccSandi selinger Mat_SeqAIJ *adpd_seq, *p_off, *aopoth_seq; 1046a9d7e0ccSandi selinger PetscInt adponz, adpdnz; 10477dbaa2c6Sandi selinger PetscInt *pi_loc,*dnz,*onz; 1048a9d7e0ccSandi selinger PetscInt *adi=ad->i,*adj=ad->j,*aoi=ao->i,rstart=A->rmap->rstart; 1049a9d7e0ccSandi selinger PetscInt *lnk,i, i1=0,pnz,row,*adpoi,*adpoj, *api, *adpoJ, *aopJ, *apJ,*Jptr, aopnz, nspacedouble=0,j,nzi, 1050a9d7e0ccSandi selinger *apj,apnz, *adpdi, *adpdj, *adpdJ, *poff_i, *poff_j, *j_temp, *aopothi, *aopothj; 1051a016958eSandi selinger PetscInt am=A->rmap->n,pN=P->cmap->N,pn=P->cmap->n,pm=P->rmap->n, p_colstart, p_colend; 1052a9d7e0ccSandi selinger PetscBT lnkbt; 1053a9d7e0ccSandi selinger PetscReal afill; 1054a9d7e0ccSandi selinger PetscMPIInt rank; 1055a9d7e0ccSandi selinger Mat adpd, aopoth; 1056b92f168fSBarry Smith MatType mtype; 1057e83e5f86SFande Kong const char *prefix; 1058a9d7e0ccSandi selinger 1059a9d7e0ccSandi selinger PetscFunctionBegin; 10606718818eSStefano Zampini MatCheckProduct(C,4); 10616718818eSStefano Zampini if (C->product->data) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Extra product struct not empty"); 1062a9d7e0ccSandi selinger ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 1063ffc4695bSBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRMPI(ierr); 1064ffc4695bSBarry Smith ierr = MPI_Comm_rank(comm, &rank);CHKERRMPI(ierr); 1065a016958eSandi selinger ierr = MatGetOwnershipRangeColumn(P, &p_colstart, &p_colend);CHKERRQ(ierr); 1066a9d7e0ccSandi selinger 10673cdca5ebSHong Zhang /* create struct Mat_APMPI and attached it to C later */ 1068a9d7e0ccSandi selinger ierr = PetscNew(&ptap);CHKERRQ(ierr); 1069a9d7e0ccSandi selinger 1070a9d7e0ccSandi selinger /* get P_oth by taking rows of P (= non-zero cols of local A) from other processors */ 1071a9d7e0ccSandi selinger ierr = MatGetBrowsOfAoCols_MPIAIJ(A,P,MAT_INITIAL_MATRIX,&ptap->startsj_s,&ptap->startsj_r,&ptap->bufa,&ptap->P_oth);CHKERRQ(ierr); 1072a9d7e0ccSandi selinger 1073a9d7e0ccSandi selinger /* get P_loc by taking all local rows of P */ 1074a9d7e0ccSandi selinger ierr = MatMPIAIJGetLocalMat(P,MAT_INITIAL_MATRIX,&ptap->P_loc);CHKERRQ(ierr); 1075a9d7e0ccSandi selinger 1076a9d7e0ccSandi selinger 1077a9d7e0ccSandi selinger p_loc = (Mat_SeqAIJ*)(ptap->P_loc)->data; 1078a9d7e0ccSandi selinger pi_loc = p_loc->i; 1079a9d7e0ccSandi selinger 1080a9d7e0ccSandi selinger /* Allocate memory for the i arrays of the matrices A*P, A_diag*P_off and A_offd * P */ 1081a9d7e0ccSandi selinger ierr = PetscMalloc1(am+2,&api);CHKERRQ(ierr); 1082a9d7e0ccSandi selinger ierr = PetscMalloc1(am+2,&adpoi);CHKERRQ(ierr); 1083a9d7e0ccSandi selinger 1084a9d7e0ccSandi selinger adpoi[0] = 0; 1085a9d7e0ccSandi selinger ptap->api = api; 1086a9d7e0ccSandi selinger api[0] = 0; 1087a9d7e0ccSandi selinger 1088a9d7e0ccSandi selinger /* create and initialize a linked list, will be used for both A_diag * P_loc_off and A_offd * P_oth */ 1089a9d7e0ccSandi selinger ierr = PetscLLCondensedCreate(pN,pN,&lnk,&lnkbt);CHKERRQ(ierr); 1090a9d7e0ccSandi selinger ierr = MatPreallocateInitialize(comm,am,pn,dnz,onz);CHKERRQ(ierr); 1091a9d7e0ccSandi selinger 1092a9d7e0ccSandi selinger /* Symbolic calc of A_loc_diag * P_loc_diag */ 1093e83e5f86SFande Kong ierr = MatGetOptionsPrefix(A,&prefix);CHKERRQ(ierr); 10944222ddf1SHong Zhang ierr = MatProductCreate(a->A,p->A,NULL,&adpd);CHKERRQ(ierr); 10954222ddf1SHong Zhang ierr = MatGetOptionsPrefix(A,&prefix);CHKERRQ(ierr); 10964222ddf1SHong Zhang ierr = MatSetOptionsPrefix(adpd,prefix);CHKERRQ(ierr); 10974222ddf1SHong Zhang ierr = MatAppendOptionsPrefix(adpd,"inner_diag_");CHKERRQ(ierr); 10984222ddf1SHong Zhang 10994222ddf1SHong Zhang ierr = MatProductSetType(adpd,MATPRODUCT_AB);CHKERRQ(ierr); 11004222ddf1SHong Zhang ierr = MatProductSetAlgorithm(adpd,"sorted");CHKERRQ(ierr); 11014222ddf1SHong Zhang ierr = MatProductSetFill(adpd,fill);CHKERRQ(ierr); 11024222ddf1SHong Zhang ierr = MatProductSetFromOptions(adpd);CHKERRQ(ierr); 11038c78258cSHong Zhang 11048c78258cSHong Zhang adpd->force_diagonals = C->force_diagonals; 11054222ddf1SHong Zhang ierr = MatProductSymbolic(adpd);CHKERRQ(ierr); 11064222ddf1SHong Zhang 1107a9d7e0ccSandi selinger adpd_seq = (Mat_SeqAIJ*)((adpd)->data); 1108a9d7e0ccSandi selinger adpdi = adpd_seq->i; adpdj = adpd_seq->j; 1109a9d7e0ccSandi selinger p_off = (Mat_SeqAIJ*)((p->B)->data); 1110a9d7e0ccSandi selinger poff_i = p_off->i; poff_j = p_off->j; 1111a9d7e0ccSandi selinger 111273b67375Sandi selinger /* j_temp stores indices of a result row before they are added to the linked list */ 1113a9d7e0ccSandi selinger ierr = PetscMalloc1(pN+2,&j_temp);CHKERRQ(ierr); 1114a9d7e0ccSandi selinger 1115a9d7e0ccSandi selinger 1116a9d7e0ccSandi selinger /* Symbolic calc of the A_diag * p_loc_off */ 1117a9d7e0ccSandi selinger /* Initial FreeSpace size is fill*(nnz(A)+nnz(P)) */ 1118a9d7e0ccSandi selinger ierr = PetscFreeSpaceGet(PetscRealIntMultTruncate(fill,PetscIntSumTruncate(adi[am],PetscIntSumTruncate(aoi[am],pi_loc[pm]))),&free_space_diag);CHKERRQ(ierr); 1119a9d7e0ccSandi selinger current_space = free_space_diag; 1120a9d7e0ccSandi selinger 1121a9d7e0ccSandi selinger for (i=0; i<am; i++) { 1122a9d7e0ccSandi selinger /* A_diag * P_loc_off */ 1123a9d7e0ccSandi selinger nzi = adi[i+1] - adi[i]; 1124a9d7e0ccSandi selinger for (j=0; j<nzi; j++) { 1125a9d7e0ccSandi selinger row = *adj++; 1126a9d7e0ccSandi selinger pnz = poff_i[row+1] - poff_i[row]; 1127a9d7e0ccSandi selinger Jptr = poff_j + poff_i[row]; 1128a9d7e0ccSandi selinger for (i1 = 0; i1 < pnz; i1++) { 1129a9d7e0ccSandi selinger j_temp[i1] = p->garray[Jptr[i1]]; 1130a9d7e0ccSandi selinger } 1131a9d7e0ccSandi selinger /* add non-zero cols of P into the sorted linked list lnk */ 1132a9d7e0ccSandi selinger ierr = PetscLLCondensedAddSorted(pnz,j_temp,lnk,lnkbt);CHKERRQ(ierr); 1133a9d7e0ccSandi selinger } 1134a9d7e0ccSandi selinger 1135a9d7e0ccSandi selinger adponz = lnk[0]; 1136a9d7e0ccSandi selinger adpoi[i+1] = adpoi[i] + adponz; 1137a9d7e0ccSandi selinger 1138a9d7e0ccSandi selinger /* if free space is not available, double the total space in the list */ 1139a9d7e0ccSandi selinger if (current_space->local_remaining<adponz) { 1140a9d7e0ccSandi selinger ierr = PetscFreeSpaceGet(PetscIntSumTruncate(adponz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 1141a9d7e0ccSandi selinger nspacedouble++; 1142a9d7e0ccSandi selinger } 1143a9d7e0ccSandi selinger 1144a9d7e0ccSandi selinger /* Copy data into free space, then initialize lnk */ 1145a9d7e0ccSandi selinger ierr = PetscLLCondensedClean(pN,adponz,current_space->array,lnk,lnkbt);CHKERRQ(ierr); 1146a9d7e0ccSandi selinger 1147a9d7e0ccSandi selinger current_space->array += adponz; 1148a9d7e0ccSandi selinger current_space->local_used += adponz; 1149a9d7e0ccSandi selinger current_space->local_remaining -= adponz; 1150a9d7e0ccSandi selinger } 1151a9d7e0ccSandi selinger 1152a9d7e0ccSandi selinger /* Symbolic calc of A_off * P_oth */ 1153e83e5f86SFande Kong ierr = MatSetOptionsPrefix(a->B,prefix);CHKERRQ(ierr); 1154e83e5f86SFande Kong ierr = MatAppendOptionsPrefix(a->B,"inner_offdiag_");CHKERRQ(ierr); 11554222ddf1SHong Zhang ierr = MatCreate(PETSC_COMM_SELF,&aopoth);CHKERRQ(ierr); 11564222ddf1SHong Zhang ierr = MatMatMultSymbolic_SeqAIJ_SeqAIJ(a->B, ptap->P_oth, fill, aopoth);CHKERRQ(ierr); 1157a9d7e0ccSandi selinger aopoth_seq = (Mat_SeqAIJ*)((aopoth)->data); 1158a9d7e0ccSandi selinger aopothi = aopoth_seq->i; aopothj = aopoth_seq->j; 1159a9d7e0ccSandi selinger 1160a9d7e0ccSandi selinger /* Allocate space for apj, adpj, aopj, ... */ 1161a9d7e0ccSandi selinger /* destroy lists of free space and other temporary array(s) */ 1162a9d7e0ccSandi selinger 1163a9d7e0ccSandi selinger ierr = PetscMalloc1(aopothi[am] + adpoi[am] + adpdi[am]+2, &ptap->apj);CHKERRQ(ierr); 1164a9d7e0ccSandi selinger ierr = PetscMalloc1(adpoi[am]+2, &adpoj);CHKERRQ(ierr); 1165a9d7e0ccSandi selinger 1166a9d7e0ccSandi selinger /* Copy from linked list to j-array */ 1167a9d7e0ccSandi selinger ierr = PetscFreeSpaceContiguous(&free_space_diag,adpoj);CHKERRQ(ierr); 1168a9d7e0ccSandi selinger ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 1169a9d7e0ccSandi selinger 1170a9d7e0ccSandi selinger adpoJ = adpoj; 1171a9d7e0ccSandi selinger adpdJ = adpdj; 1172a9d7e0ccSandi selinger aopJ = aopothj; 1173a9d7e0ccSandi selinger apj = ptap->apj; 1174a9d7e0ccSandi selinger apJ = apj; /* still empty */ 1175a9d7e0ccSandi selinger 1176a9d7e0ccSandi selinger /* Merge j-arrays of A_off * P, A_diag * P_loc_off, and */ 1177a9d7e0ccSandi selinger /* A_diag * P_loc_diag to get A*P */ 1178a9d7e0ccSandi selinger for (i = 0; i < am; i++) { 1179a9d7e0ccSandi selinger aopnz = aopothi[i+1] - aopothi[i]; 1180a9d7e0ccSandi selinger adponz = adpoi[i+1] - adpoi[i]; 1181a9d7e0ccSandi selinger adpdnz = adpdi[i+1] - adpdi[i]; 1182a9d7e0ccSandi selinger 1183a9d7e0ccSandi selinger /* Correct indices from A_diag*P_diag */ 1184a9d7e0ccSandi selinger for (i1 = 0; i1 < adpdnz; i1++) { 1185a016958eSandi selinger adpdJ[i1] += p_colstart; 1186a9d7e0ccSandi selinger } 1187a9d7e0ccSandi selinger /* Merge j-arrays of A_diag * P_loc_off and A_diag * P_loc_diag and A_off * P_oth */ 1188a9d7e0ccSandi selinger Merge3SortedArrays(adponz, adpoJ, adpdnz, adpdJ, aopnz, aopJ, &apnz, apJ); 1189a9d7e0ccSandi selinger ierr = MatPreallocateSet(i+rstart, apnz, apJ, dnz, onz);CHKERRQ(ierr); 1190a9d7e0ccSandi selinger 1191a9d7e0ccSandi selinger aopJ += aopnz; 1192a9d7e0ccSandi selinger adpoJ += adponz; 1193a9d7e0ccSandi selinger adpdJ += adpdnz; 1194a9d7e0ccSandi selinger apJ += apnz; 1195a9d7e0ccSandi selinger api[i+1] = api[i] + apnz; 1196a9d7e0ccSandi selinger } 1197a9d7e0ccSandi selinger 1198a9d7e0ccSandi selinger /* malloc apa to store dense row A[i,:]*P */ 1199071fcb05SBarry Smith ierr = PetscCalloc1(pN+2,&ptap->apa);CHKERRQ(ierr); 1200a9d7e0ccSandi selinger 12014222ddf1SHong Zhang /* create and assemble symbolic parallel matrix C */ 12024222ddf1SHong Zhang ierr = MatSetSizes(C,am,pn,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 12034222ddf1SHong Zhang ierr = MatSetBlockSizesFromMats(C,A,P);CHKERRQ(ierr); 1204b92f168fSBarry Smith ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 12054222ddf1SHong Zhang ierr = MatSetType(C,mtype);CHKERRQ(ierr); 12064222ddf1SHong Zhang ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 12070926fe31SStefano Zampini ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 120817f75172Sandi selinger 12094222ddf1SHong Zhang ierr = MatSetValues_MPIAIJ_CopyFromCSRFormat_Symbolic(C, apj, api);CHKERRQ(ierr); 12104222ddf1SHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 12114222ddf1SHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 12120926fe31SStefano Zampini ierr = MatSetOption(C,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr); 121317f75172Sandi selinger 12144222ddf1SHong Zhang C->ops->matmultnumeric = MatMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable; 12154222ddf1SHong Zhang C->ops->productnumeric = MatProductNumeric_AB; 1216a9d7e0ccSandi selinger 12174222ddf1SHong Zhang /* attach the supporting struct to C for reuse */ 12186718818eSStefano Zampini C->product->data = ptap; 12196718818eSStefano Zampini C->product->destroy = MatDestroy_MPIAIJ_MatMatMult; 1220a9d7e0ccSandi selinger 1221a9d7e0ccSandi selinger /* set MatInfo */ 122273b67375Sandi selinger afill = (PetscReal)api[am]/(adi[am]+aoi[am]+pi_loc[pm]+1) + 1.e-5; 122373b67375Sandi selinger if (afill < 1.0) afill = 1.0; 12244222ddf1SHong Zhang C->info.mallocs = nspacedouble; 12254222ddf1SHong Zhang C->info.fill_ratio_given = fill; 12264222ddf1SHong Zhang C->info.fill_ratio_needed = afill; 1227a9d7e0ccSandi selinger 1228a9d7e0ccSandi selinger #if defined(PETSC_USE_INFO) 1229a9d7e0ccSandi selinger if (api[am]) { 12304222ddf1SHong Zhang ierr = PetscInfo3(C,"Reallocs %D; Fill ratio: given %g needed %g.\n",nspacedouble,(double)fill,(double)afill);CHKERRQ(ierr); 12314222ddf1SHong Zhang ierr = PetscInfo1(C,"Use MatMatMult(A,B,MatReuse,%g,&C) for best performance.;\n",(double)afill);CHKERRQ(ierr); 1232a9d7e0ccSandi selinger } else { 12334222ddf1SHong Zhang ierr = PetscInfo(C,"Empty matrix product\n");CHKERRQ(ierr); 1234a9d7e0ccSandi selinger } 1235a9d7e0ccSandi selinger #endif 1236a9d7e0ccSandi selinger 123773b67375Sandi selinger ierr = MatDestroy(&aopoth);CHKERRQ(ierr); 123873b67375Sandi selinger ierr = MatDestroy(&adpd);CHKERRQ(ierr); 123973b67375Sandi selinger ierr = PetscFree(j_temp);CHKERRQ(ierr); 124073b67375Sandi selinger ierr = PetscFree(adpoj);CHKERRQ(ierr); 124173b67375Sandi selinger ierr = PetscFree(adpoi);CHKERRQ(ierr); 1242a9d7e0ccSandi selinger PetscFunctionReturn(0); 1243a9d7e0ccSandi selinger } 1244a9d7e0ccSandi selinger 1245f96d37fcSHong Zhang /*-------------------------------------------------------------------------*/ 1246c216dbf3SHong Zhang /* This routine only works when scall=MAT_REUSE_MATRIX! */ 1247c216dbf3SHong Zhang PetscErrorCode MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ_matmatmult(Mat P,Mat A,Mat C) 1248c216dbf3SHong Zhang { 1249c216dbf3SHong Zhang PetscErrorCode ierr; 12506718818eSStefano Zampini Mat_APMPI *ptap; 125160552ceaSHong Zhang Mat Pt; 1252c216dbf3SHong Zhang 1253c216dbf3SHong Zhang PetscFunctionBegin; 12546718818eSStefano Zampini MatCheckProduct(C,3); 12556718818eSStefano Zampini ptap = (Mat_APMPI*)C->product->data; 12566718818eSStefano Zampini if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 12576718818eSStefano Zampini if (!ptap->Pt) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtA cannot be reused. Do not call MatProductClear()"); 125860552ceaSHong Zhang 125960552ceaSHong Zhang Pt = ptap->Pt; 1260c216dbf3SHong Zhang ierr = MatTranspose(P,MAT_REUSE_MATRIX,&Pt);CHKERRQ(ierr); 12614222ddf1SHong Zhang ierr = MatMatMultNumeric_MPIAIJ_MPIAIJ(Pt,A,C);CHKERRQ(ierr); 1262f96d37fcSHong Zhang PetscFunctionReturn(0); 1263f96d37fcSHong Zhang } 1264f96d37fcSHong Zhang 1265c5af039cSHong Zhang /* This routine is modified from MatPtAPSymbolic_MPIAIJ_MPIAIJ() */ 12664222ddf1SHong Zhang PetscErrorCode MatTransposeMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(Mat P,Mat A,PetscReal fill,Mat C) 1267912837bbSHong Zhang { 1268912837bbSHong Zhang PetscErrorCode ierr; 12693cdca5ebSHong Zhang Mat_APMPI *ptap; 12706718818eSStefano Zampini Mat_MPIAIJ *p=(Mat_MPIAIJ*)P->data; 1271912837bbSHong Zhang MPI_Comm comm; 1272912837bbSHong Zhang PetscMPIInt size,rank; 1273912837bbSHong Zhang PetscFreeSpaceList free_space=NULL,current_space=NULL; 12744ede91e3SHong Zhang PetscInt pn=P->cmap->n,aN=A->cmap->N,an=A->cmap->n; 127569be949aSStefano Zampini PetscInt *lnk,i,k,nsend,rstart; 1276912837bbSHong Zhang PetscBT lnkbt; 1277ec4bef21SJose E. Roman PetscMPIInt tagi,tagj,*len_si,*len_s,*len_ri,nrecv; 1278ec4bef21SJose E. Roman PETSC_UNUSED PetscMPIInt icompleted=0; 12798c78258cSHong Zhang PetscInt **buf_rj,**buf_ri,**buf_ri_k,row,ncols,*cols; 12807f3e1f30SHong Zhang PetscInt len,proc,*dnz,*onz,*owners,nzi; 1281912837bbSHong Zhang PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextci; 1282912837bbSHong Zhang MPI_Request *swaits,*rwaits; 1283912837bbSHong Zhang MPI_Status *sstatus,rstatus; 1284912837bbSHong Zhang PetscLayout rowmap; 1285912837bbSHong Zhang PetscInt *owners_co,*coi,*coj; /* i and j array of (p->B)^T*A*P - used in the communication */ 1286912837bbSHong Zhang PetscMPIInt *len_r,*id_r; /* array of length of comm->size, store send/recv matrix values */ 12877f3e1f30SHong Zhang PetscInt *Jptr,*prmap=p->garray,con,j,Crmax; 12884ede91e3SHong Zhang Mat_SeqAIJ *a_loc,*c_loc,*c_oth; 1289912837bbSHong Zhang PetscTable ta; 1290b92f168fSBarry Smith MatType mtype; 1291e83e5f86SFande Kong const char *prefix; 1292912837bbSHong Zhang 1293912837bbSHong Zhang PetscFunctionBegin; 1294912837bbSHong Zhang ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 1295ffc4695bSBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRMPI(ierr); 1296ffc4695bSBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRMPI(ierr); 1297912837bbSHong Zhang 12984222ddf1SHong Zhang /* create symbolic parallel matrix C */ 1299b92f168fSBarry Smith ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 13004222ddf1SHong Zhang ierr = MatSetType(C,mtype);CHKERRQ(ierr); 1301912837bbSHong Zhang 13024222ddf1SHong Zhang C->ops->transposematmultnumeric = MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable; 1303912837bbSHong Zhang 13043cdca5ebSHong Zhang /* create struct Mat_APMPI and attached it to C later */ 1305912837bbSHong Zhang ierr = PetscNew(&ptap);CHKERRQ(ierr); 1306912837bbSHong Zhang ptap->reuse = MAT_INITIAL_MATRIX; 1307912837bbSHong Zhang 1308912837bbSHong Zhang /* (0) compute Rd = Pd^T, Ro = Po^T */ 1309912837bbSHong Zhang /* --------------------------------- */ 1310912837bbSHong Zhang ierr = MatTranspose_SeqAIJ(p->A,MAT_INITIAL_MATRIX,&ptap->Rd);CHKERRQ(ierr); 1311912837bbSHong Zhang ierr = MatTranspose_SeqAIJ(p->B,MAT_INITIAL_MATRIX,&ptap->Ro);CHKERRQ(ierr); 1312912837bbSHong Zhang 1313669e9c86SHong Zhang /* (1) compute symbolic A_loc */ 1314669e9c86SHong Zhang /* ---------------------------*/ 13154ede91e3SHong Zhang ierr = MatMPIAIJGetLocalMat(A,MAT_INITIAL_MATRIX,&ptap->A_loc);CHKERRQ(ierr); 1316912837bbSHong Zhang 13174ede91e3SHong Zhang /* (2-1) compute symbolic C_oth = Ro*A_loc */ 1318912837bbSHong Zhang /* ------------------------------------ */ 1319e83e5f86SFande Kong ierr = MatGetOptionsPrefix(A,&prefix);CHKERRQ(ierr); 1320e83e5f86SFande Kong ierr = MatSetOptionsPrefix(ptap->Ro,prefix);CHKERRQ(ierr); 1321e83e5f86SFande Kong ierr = MatAppendOptionsPrefix(ptap->Ro,"inner_offdiag_");CHKERRQ(ierr); 13224222ddf1SHong Zhang ierr = MatCreate(PETSC_COMM_SELF,&ptap->C_oth);CHKERRQ(ierr); 13234222ddf1SHong Zhang ierr = MatMatMultSymbolic_SeqAIJ_SeqAIJ(ptap->Ro,ptap->A_loc,fill,ptap->C_oth);CHKERRQ(ierr); 1324912837bbSHong Zhang 1325912837bbSHong Zhang /* (3) send coj of C_oth to other processors */ 1326912837bbSHong Zhang /* ------------------------------------------ */ 1327912837bbSHong Zhang /* determine row ownership */ 1328912837bbSHong Zhang ierr = PetscLayoutCreate(comm,&rowmap);CHKERRQ(ierr); 1329912837bbSHong Zhang rowmap->n = pn; 1330912837bbSHong Zhang rowmap->bs = 1; 1331912837bbSHong Zhang ierr = PetscLayoutSetUp(rowmap);CHKERRQ(ierr); 1332912837bbSHong Zhang owners = rowmap->range; 1333912837bbSHong Zhang 1334912837bbSHong Zhang /* determine the number of messages to send, their lengths */ 1335912837bbSHong Zhang ierr = PetscMalloc4(size,&len_s,size,&len_si,size,&sstatus,size+2,&owners_co);CHKERRQ(ierr); 1336580bdb30SBarry Smith ierr = PetscArrayzero(len_s,size);CHKERRQ(ierr); 1337580bdb30SBarry Smith ierr = PetscArrayzero(len_si,size);CHKERRQ(ierr); 1338912837bbSHong Zhang 1339912837bbSHong Zhang c_oth = (Mat_SeqAIJ*)ptap->C_oth->data; 1340912837bbSHong Zhang coi = c_oth->i; coj = c_oth->j; 1341912837bbSHong Zhang con = ptap->C_oth->rmap->n; 1342912837bbSHong Zhang proc = 0; 1343912837bbSHong Zhang for (i=0; i<con; i++) { 1344912837bbSHong Zhang while (prmap[i] >= owners[proc+1]) proc++; 13457f3e1f30SHong Zhang len_si[proc]++; /* num of rows in Co(=Pt*A) to be sent to [proc] */ 1346912837bbSHong Zhang len_s[proc] += coi[i+1] - coi[i]; /* num of nonzeros in Co to be sent to [proc] */ 1347912837bbSHong Zhang } 1348912837bbSHong Zhang 1349912837bbSHong Zhang len = 0; /* max length of buf_si[], see (4) */ 1350912837bbSHong Zhang owners_co[0] = 0; 1351912837bbSHong Zhang nsend = 0; 1352912837bbSHong Zhang for (proc=0; proc<size; proc++) { 1353912837bbSHong Zhang owners_co[proc+1] = owners_co[proc] + len_si[proc]; 1354912837bbSHong Zhang if (len_s[proc]) { 1355912837bbSHong Zhang nsend++; 1356912837bbSHong Zhang len_si[proc] = 2*(len_si[proc] + 1); /* length of buf_si to be sent to [proc] */ 1357912837bbSHong Zhang len += len_si[proc]; 1358912837bbSHong Zhang } 1359912837bbSHong Zhang } 1360912837bbSHong Zhang 1361912837bbSHong Zhang /* determine the number and length of messages to receive for coi and coj */ 1362912837bbSHong Zhang ierr = PetscGatherNumberOfMessages(comm,NULL,len_s,&nrecv);CHKERRQ(ierr); 1363912837bbSHong Zhang ierr = PetscGatherMessageLengths2(comm,nsend,nrecv,len_s,len_si,&id_r,&len_r,&len_ri);CHKERRQ(ierr); 1364912837bbSHong Zhang 1365912837bbSHong Zhang /* post the Irecv and Isend of coj */ 1366912837bbSHong Zhang ierr = PetscCommGetNewTag(comm,&tagj);CHKERRQ(ierr); 1367912837bbSHong Zhang ierr = PetscPostIrecvInt(comm,tagj,nrecv,id_r,len_r,&buf_rj,&rwaits);CHKERRQ(ierr); 1368912837bbSHong Zhang ierr = PetscMalloc1(nsend+1,&swaits);CHKERRQ(ierr); 1369912837bbSHong Zhang for (proc=0, k=0; proc<size; proc++) { 1370912837bbSHong Zhang if (!len_s[proc]) continue; 1371912837bbSHong Zhang i = owners_co[proc]; 1372ffc4695bSBarry Smith ierr = MPI_Isend(coj+coi[i],len_s[proc],MPIU_INT,proc,tagj,comm,swaits+k);CHKERRMPI(ierr); 1373912837bbSHong Zhang k++; 1374912837bbSHong Zhang } 1375912837bbSHong Zhang 13767f3e1f30SHong Zhang /* (2-2) compute symbolic C_loc = Rd*A_loc */ 1377912837bbSHong Zhang /* ---------------------------------------- */ 1378e83e5f86SFande Kong ierr = MatSetOptionsPrefix(ptap->Rd,prefix);CHKERRQ(ierr); 1379e83e5f86SFande Kong ierr = MatAppendOptionsPrefix(ptap->Rd,"inner_diag_");CHKERRQ(ierr); 13804222ddf1SHong Zhang ierr = MatCreate(PETSC_COMM_SELF,&ptap->C_loc);CHKERRQ(ierr); 13814222ddf1SHong Zhang ierr = MatMatMultSymbolic_SeqAIJ_SeqAIJ(ptap->Rd,ptap->A_loc,fill,ptap->C_loc);CHKERRQ(ierr); 1382912837bbSHong Zhang c_loc = (Mat_SeqAIJ*)ptap->C_loc->data; 1383912837bbSHong Zhang 1384912837bbSHong Zhang /* receives coj are complete */ 1385912837bbSHong Zhang for (i=0; i<nrecv; i++) { 1386ffc4695bSBarry Smith ierr = MPI_Waitany(nrecv,rwaits,&icompleted,&rstatus);CHKERRMPI(ierr); 1387912837bbSHong Zhang } 1388912837bbSHong Zhang ierr = PetscFree(rwaits);CHKERRQ(ierr); 1389ffc4695bSBarry Smith if (nsend) {ierr = MPI_Waitall(nsend,swaits,sstatus);CHKERRMPI(ierr);} 1390912837bbSHong Zhang 1391912837bbSHong Zhang /* add received column indices into ta to update Crmax */ 13924ede91e3SHong Zhang a_loc = (Mat_SeqAIJ*)(ptap->A_loc)->data; 1393669e9c86SHong Zhang 1394669e9c86SHong Zhang /* create and initialize a linked list */ 13954ede91e3SHong Zhang ierr = PetscTableCreate(an,aN,&ta);CHKERRQ(ierr); /* for compute Crmax */ 13964ede91e3SHong Zhang MatRowMergeMax_SeqAIJ(a_loc,ptap->A_loc->rmap->N,ta); 1397669e9c86SHong Zhang 1398912837bbSHong Zhang for (k=0; k<nrecv; k++) {/* k-th received message */ 1399912837bbSHong Zhang Jptr = buf_rj[k]; 1400912837bbSHong Zhang for (j=0; j<len_r[k]; j++) { 1401912837bbSHong Zhang ierr = PetscTableAdd(ta,*(Jptr+j)+1,1,INSERT_VALUES);CHKERRQ(ierr); 1402912837bbSHong Zhang } 1403912837bbSHong Zhang } 1404912837bbSHong Zhang ierr = PetscTableGetCount(ta,&Crmax);CHKERRQ(ierr); 1405912837bbSHong Zhang ierr = PetscTableDestroy(&ta);CHKERRQ(ierr); 1406912837bbSHong Zhang 1407912837bbSHong Zhang /* (4) send and recv coi */ 1408912837bbSHong Zhang /*-----------------------*/ 1409912837bbSHong Zhang ierr = PetscCommGetNewTag(comm,&tagi);CHKERRQ(ierr); 1410912837bbSHong Zhang ierr = PetscPostIrecvInt(comm,tagi,nrecv,id_r,len_ri,&buf_ri,&rwaits);CHKERRQ(ierr); 1411912837bbSHong Zhang ierr = PetscMalloc1(len+1,&buf_s);CHKERRQ(ierr); 1412912837bbSHong Zhang buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 1413912837bbSHong Zhang for (proc=0,k=0; proc<size; proc++) { 1414912837bbSHong Zhang if (!len_s[proc]) continue; 1415912837bbSHong Zhang /* form outgoing message for i-structure: 1416912837bbSHong Zhang buf_si[0]: nrows to be sent 1417912837bbSHong Zhang [1:nrows]: row index (global) 1418912837bbSHong Zhang [nrows+1:2*nrows+1]: i-structure index 1419912837bbSHong Zhang */ 1420912837bbSHong Zhang /*-------------------------------------------*/ 1421912837bbSHong Zhang nrows = len_si[proc]/2 - 1; /* num of rows in Co to be sent to [proc] */ 1422912837bbSHong Zhang buf_si_i = buf_si + nrows+1; 1423912837bbSHong Zhang buf_si[0] = nrows; 1424912837bbSHong Zhang buf_si_i[0] = 0; 1425912837bbSHong Zhang nrows = 0; 1426912837bbSHong Zhang for (i=owners_co[proc]; i<owners_co[proc+1]; i++) { 1427912837bbSHong Zhang nzi = coi[i+1] - coi[i]; 1428912837bbSHong Zhang buf_si_i[nrows+1] = buf_si_i[nrows] + nzi; /* i-structure */ 1429912837bbSHong Zhang buf_si[nrows+1] = prmap[i] -owners[proc]; /* local row index */ 1430912837bbSHong Zhang nrows++; 1431912837bbSHong Zhang } 1432ffc4695bSBarry Smith ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,swaits+k);CHKERRMPI(ierr); 1433912837bbSHong Zhang k++; 1434912837bbSHong Zhang buf_si += len_si[proc]; 1435912837bbSHong Zhang } 1436912837bbSHong Zhang for (i=0; i<nrecv; i++) { 1437ffc4695bSBarry Smith ierr = MPI_Waitany(nrecv,rwaits,&icompleted,&rstatus);CHKERRMPI(ierr); 1438912837bbSHong Zhang } 1439912837bbSHong Zhang ierr = PetscFree(rwaits);CHKERRQ(ierr); 1440ffc4695bSBarry Smith if (nsend) {ierr = MPI_Waitall(nsend,swaits,sstatus);CHKERRMPI(ierr);} 1441912837bbSHong Zhang 1442912837bbSHong Zhang ierr = PetscFree4(len_s,len_si,sstatus,owners_co);CHKERRQ(ierr); 1443912837bbSHong Zhang ierr = PetscFree(len_ri);CHKERRQ(ierr); 1444912837bbSHong Zhang ierr = PetscFree(swaits);CHKERRQ(ierr); 1445912837bbSHong Zhang ierr = PetscFree(buf_s);CHKERRQ(ierr); 1446912837bbSHong Zhang 14474222ddf1SHong Zhang /* (5) compute the local portion of C */ 1448912837bbSHong Zhang /* ------------------------------------------ */ 14494222ddf1SHong Zhang /* set initial free space to be Crmax, sufficient for holding nozeros in each row of C */ 1450912837bbSHong Zhang ierr = PetscFreeSpaceGet(Crmax,&free_space);CHKERRQ(ierr); 1451912837bbSHong Zhang current_space = free_space; 1452912837bbSHong Zhang 1453912837bbSHong Zhang ierr = PetscMalloc3(nrecv,&buf_ri_k,nrecv,&nextrow,nrecv,&nextci);CHKERRQ(ierr); 1454912837bbSHong Zhang for (k=0; k<nrecv; k++) { 1455912837bbSHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 1456912837bbSHong Zhang nrows = *buf_ri_k[k]; 1457912837bbSHong Zhang nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 1458912837bbSHong Zhang nextci[k] = buf_ri_k[k] + (nrows + 1); /* poins to the next i-structure of k-th recved i-structure */ 1459912837bbSHong Zhang } 1460912837bbSHong Zhang 14614ede91e3SHong Zhang ierr = MatPreallocateInitialize(comm,pn,an,dnz,onz);CHKERRQ(ierr); 14624ede91e3SHong Zhang ierr = PetscLLCondensedCreate(Crmax,aN,&lnk,&lnkbt);CHKERRQ(ierr); 14638c78258cSHong Zhang for (i=0; i<pn; i++) { /* for each local row of C */ 14644222ddf1SHong Zhang /* add C_loc into C */ 1465912837bbSHong Zhang nzi = c_loc->i[i+1] - c_loc->i[i]; 1466912837bbSHong Zhang Jptr = c_loc->j + c_loc->i[i]; 1467912837bbSHong Zhang ierr = PetscLLCondensedAddSorted(nzi,Jptr,lnk,lnkbt);CHKERRQ(ierr); 1468912837bbSHong Zhang 1469912837bbSHong Zhang /* add received col data into lnk */ 1470912837bbSHong Zhang for (k=0; k<nrecv; k++) { /* k-th received message */ 1471912837bbSHong Zhang if (i == *nextrow[k]) { /* i-th row */ 1472912837bbSHong Zhang nzi = *(nextci[k]+1) - *nextci[k]; 1473912837bbSHong Zhang Jptr = buf_rj[k] + *nextci[k]; 1474912837bbSHong Zhang ierr = PetscLLCondensedAddSorted(nzi,Jptr,lnk,lnkbt);CHKERRQ(ierr); 1475912837bbSHong Zhang nextrow[k]++; nextci[k]++; 1476912837bbSHong Zhang } 1477912837bbSHong Zhang } 14788c78258cSHong Zhang 14798c78258cSHong Zhang /* add missing diagonal entry */ 14808c78258cSHong Zhang if (C->force_diagonals) { 14818c78258cSHong Zhang k = i + owners[rank]; /* column index */ 14828c78258cSHong Zhang ierr = PetscLLCondensedAddSorted(1,&k,lnk,lnkbt);CHKERRQ(ierr); 14838c78258cSHong Zhang } 14848c78258cSHong Zhang 1485912837bbSHong Zhang nzi = lnk[0]; 1486912837bbSHong Zhang 1487912837bbSHong Zhang /* copy data into free space, then initialize lnk */ 14884ede91e3SHong Zhang ierr = PetscLLCondensedClean(aN,nzi,current_space->array,lnk,lnkbt);CHKERRQ(ierr); 1489912837bbSHong Zhang ierr = MatPreallocateSet(i+owners[rank],nzi,current_space->array,dnz,onz);CHKERRQ(ierr); 1490912837bbSHong Zhang } 1491912837bbSHong Zhang ierr = PetscFree3(buf_ri_k,nextrow,nextci);CHKERRQ(ierr); 1492912837bbSHong Zhang ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 1493912837bbSHong Zhang ierr = PetscFreeSpaceDestroy(free_space);CHKERRQ(ierr); 1494912837bbSHong Zhang 1495912837bbSHong Zhang /* local sizes and preallocation */ 14964222ddf1SHong Zhang ierr = MatSetSizes(C,pn,an,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 14974222ddf1SHong Zhang if (P->cmap->bs > 0) {ierr = PetscLayoutSetBlockSize(C->rmap,P->cmap->bs);CHKERRQ(ierr);} 14984222ddf1SHong Zhang if (A->cmap->bs > 0) {ierr = PetscLayoutSetBlockSize(C->cmap,A->cmap->bs);CHKERRQ(ierr);} 14994222ddf1SHong Zhang ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 1500912837bbSHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 1501912837bbSHong Zhang 150269be949aSStefano Zampini /* add C_loc and C_oth to C */ 150369be949aSStefano Zampini ierr = MatGetOwnershipRange(C,&rstart,NULL);CHKERRQ(ierr); 150469be949aSStefano Zampini for (i=0; i<pn; i++) { 15058c78258cSHong Zhang ncols = c_loc->i[i+1] - c_loc->i[i]; 15068c78258cSHong Zhang cols = c_loc->j + c_loc->i[i]; 15078c78258cSHong Zhang row = rstart + i; 150898ebff05SHong Zhang ierr = MatSetValues(C,1,(const PetscInt*)&row,ncols,(const PetscInt*)cols,NULL,INSERT_VALUES);CHKERRQ(ierr); 15098c78258cSHong Zhang 15108c78258cSHong Zhang if (C->force_diagonals) { 15118c78258cSHong Zhang ierr = MatSetValues(C,1,(const PetscInt*)&row,1,(const PetscInt*)&row,NULL,INSERT_VALUES);CHKERRQ(ierr); 15128c78258cSHong Zhang } 151369be949aSStefano Zampini } 151469be949aSStefano Zampini for (i=0; i<con; i++) { 15158c78258cSHong Zhang ncols = c_oth->i[i+1] - c_oth->i[i]; 15168c78258cSHong Zhang cols = c_oth->j + c_oth->i[i]; 15178c78258cSHong Zhang row = prmap[i]; 151898ebff05SHong Zhang ierr = MatSetValues(C,1,(const PetscInt*)&row,ncols,(const PetscInt*)cols,NULL,INSERT_VALUES);CHKERRQ(ierr); 151969be949aSStefano Zampini } 152069be949aSStefano Zampini ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 152169be949aSStefano Zampini ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 15220926fe31SStefano Zampini ierr = MatSetOption(C,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr); 152369be949aSStefano Zampini 1524912837bbSHong Zhang /* members in merge */ 1525912837bbSHong Zhang ierr = PetscFree(id_r);CHKERRQ(ierr); 1526912837bbSHong Zhang ierr = PetscFree(len_r);CHKERRQ(ierr); 1527912837bbSHong Zhang ierr = PetscFree(buf_ri[0]);CHKERRQ(ierr); 1528912837bbSHong Zhang ierr = PetscFree(buf_ri);CHKERRQ(ierr); 1529912837bbSHong Zhang ierr = PetscFree(buf_rj[0]);CHKERRQ(ierr); 1530912837bbSHong Zhang ierr = PetscFree(buf_rj);CHKERRQ(ierr); 1531912837bbSHong Zhang ierr = PetscLayoutDestroy(&rowmap);CHKERRQ(ierr); 1532912837bbSHong Zhang 15334222ddf1SHong Zhang /* attach the supporting struct to C for reuse */ 15346718818eSStefano Zampini C->product->data = ptap; 15356718818eSStefano Zampini C->product->destroy = MatDestroy_MPIAIJ_PtAP; 1536912837bbSHong Zhang PetscFunctionReturn(0); 1537912837bbSHong Zhang } 1538912837bbSHong Zhang 1539912837bbSHong Zhang PetscErrorCode MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ_nonscalable(Mat P,Mat A,Mat C) 1540912837bbSHong Zhang { 1541912837bbSHong Zhang PetscErrorCode ierr; 15426718818eSStefano Zampini Mat_MPIAIJ *p=(Mat_MPIAIJ*)P->data; 1543669e9c86SHong Zhang Mat_SeqAIJ *c_seq; 15446718818eSStefano Zampini Mat_APMPI *ptap; 1545669e9c86SHong Zhang Mat A_loc,C_loc,C_oth; 1546912837bbSHong Zhang PetscInt i,rstart,rend,cm,ncols,row; 1547912837bbSHong Zhang const PetscInt *cols; 1548912837bbSHong Zhang const PetscScalar *vals; 1549912837bbSHong Zhang 1550912837bbSHong Zhang PetscFunctionBegin; 15516718818eSStefano Zampini MatCheckProduct(C,3); 15526718818eSStefano Zampini ptap = (Mat_APMPI*)C->product->data; 15536718818eSStefano Zampini if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 15546718818eSStefano Zampini if (!ptap->A_loc) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtA cannot be reused. Do not call MatProductClear()"); 1555912837bbSHong Zhang ierr = MatZeroEntries(C);CHKERRQ(ierr); 1556912837bbSHong Zhang 1557912837bbSHong Zhang if (ptap->reuse == MAT_REUSE_MATRIX) { 1558669e9c86SHong Zhang /* These matrices are obtained in MatTransposeMatMultSymbolic() */ 1559669e9c86SHong Zhang /* 1) get R = Pd^T, Ro = Po^T */ 1560669e9c86SHong Zhang /*----------------------------*/ 1561912837bbSHong Zhang ierr = MatTranspose_SeqAIJ(p->A,MAT_REUSE_MATRIX,&ptap->Rd);CHKERRQ(ierr); 1562912837bbSHong Zhang ierr = MatTranspose_SeqAIJ(p->B,MAT_REUSE_MATRIX,&ptap->Ro);CHKERRQ(ierr); 1563669e9c86SHong Zhang 1564669e9c86SHong Zhang /* 2) compute numeric A_loc */ 1565669e9c86SHong Zhang /*--------------------------*/ 15664ede91e3SHong Zhang ierr = MatMPIAIJGetLocalMat(A,MAT_REUSE_MATRIX,&ptap->A_loc);CHKERRQ(ierr); 1567912837bbSHong Zhang } 1568912837bbSHong Zhang 1569669e9c86SHong Zhang /* 3) C_loc = Rd*A_loc, C_oth = Ro*A_loc */ 15704ede91e3SHong Zhang A_loc = ptap->A_loc; 1571669e9c86SHong Zhang ierr = ((ptap->C_loc)->ops->matmultnumeric)(ptap->Rd,A_loc,ptap->C_loc);CHKERRQ(ierr); 1572669e9c86SHong Zhang ierr = ((ptap->C_oth)->ops->matmultnumeric)(ptap->Ro,A_loc,ptap->C_oth);CHKERRQ(ierr); 1573912837bbSHong Zhang C_loc = ptap->C_loc; 1574912837bbSHong Zhang C_oth = ptap->C_oth; 1575912837bbSHong Zhang 157669be949aSStefano Zampini /* add C_loc and C_oth to C */ 1577912837bbSHong Zhang ierr = MatGetOwnershipRange(C,&rstart,&rend);CHKERRQ(ierr); 1578912837bbSHong Zhang 1579912837bbSHong Zhang /* C_loc -> C */ 1580912837bbSHong Zhang cm = C_loc->rmap->N; 1581912837bbSHong Zhang c_seq = (Mat_SeqAIJ*)C_loc->data; 1582912837bbSHong Zhang cols = c_seq->j; 1583912837bbSHong Zhang vals = c_seq->a; 1584912837bbSHong Zhang for (i=0; i<cm; i++) { 1585912837bbSHong Zhang ncols = c_seq->i[i+1] - c_seq->i[i]; 1586912837bbSHong Zhang row = rstart + i; 1587912837bbSHong Zhang ierr = MatSetValues(C,1,&row,ncols,cols,vals,ADD_VALUES);CHKERRQ(ierr); 1588912837bbSHong Zhang cols += ncols; vals += ncols; 1589912837bbSHong Zhang } 1590912837bbSHong Zhang 1591912837bbSHong Zhang /* Co -> C, off-processor part */ 1592912837bbSHong Zhang cm = C_oth->rmap->N; 1593912837bbSHong Zhang c_seq = (Mat_SeqAIJ*)C_oth->data; 1594912837bbSHong Zhang cols = c_seq->j; 1595912837bbSHong Zhang vals = c_seq->a; 1596912837bbSHong Zhang for (i=0; i<cm; i++) { 1597912837bbSHong Zhang ncols = c_seq->i[i+1] - c_seq->i[i]; 1598912837bbSHong Zhang row = p->garray[i]; 1599912837bbSHong Zhang ierr = MatSetValues(C,1,&row,ncols,cols,vals,ADD_VALUES);CHKERRQ(ierr); 1600912837bbSHong Zhang cols += ncols; vals += ncols; 1601912837bbSHong Zhang } 1602912837bbSHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1603912837bbSHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 16040926fe31SStefano Zampini ierr = MatSetOption(C,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr); 1605912837bbSHong Zhang 1606912837bbSHong Zhang ptap->reuse = MAT_REUSE_MATRIX; 1607912837bbSHong Zhang PetscFunctionReturn(0); 1608912837bbSHong Zhang } 1609912837bbSHong Zhang 16106da69ca6SHong Zhang PetscErrorCode MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ(Mat P,Mat A,Mat C) 1611d6ab1dc0SHong Zhang { 1612d6ab1dc0SHong Zhang PetscErrorCode ierr; 1613d6ab1dc0SHong Zhang Mat_Merge_SeqsToMPI *merge; 16146718818eSStefano Zampini Mat_MPIAIJ *p =(Mat_MPIAIJ*)P->data; 1615d6ab1dc0SHong Zhang Mat_SeqAIJ *pd=(Mat_SeqAIJ*)(p->A)->data,*po=(Mat_SeqAIJ*)(p->B)->data; 16163cdca5ebSHong Zhang Mat_APMPI *ptap; 1617e745005bSHong Zhang PetscInt *adj; 1618e745005bSHong Zhang PetscInt i,j,k,anz,pnz,row,*cj,nexta; 1619e745005bSHong Zhang MatScalar *ada,*ca,valtmp; 1620d6ab1dc0SHong Zhang PetscInt am=A->rmap->n,cm=C->rmap->n,pon=(p->B)->cmap->n; 1621ce94432eSBarry Smith MPI_Comm comm; 1622d6ab1dc0SHong Zhang PetscMPIInt size,rank,taga,*len_s; 1623d6ab1dc0SHong Zhang PetscInt *owners,proc,nrows,**buf_ri_k,**nextrow,**nextci; 1624d6ab1dc0SHong Zhang PetscInt **buf_ri,**buf_rj; 1625d6ab1dc0SHong Zhang PetscInt cnz=0,*bj_i,*bi,*bj,bnz,nextcj; /* bi,bj,ba: local array of C(mpi mat) */ 1626d6ab1dc0SHong Zhang MPI_Request *s_waits,*r_waits; 1627d6ab1dc0SHong Zhang MPI_Status *status; 1628d6ab1dc0SHong Zhang MatScalar **abuf_r,*ba_i,*pA,*coa,*ba; 1629ce496241SStefano Zampini const PetscScalar *dummy; 16304e201bd7SHong Zhang PetscInt *ai,*aj,*coi,*coj,*poJ,*pdJ; 1631d6ab1dc0SHong Zhang Mat A_loc; 1632d6ab1dc0SHong Zhang Mat_SeqAIJ *a_loc; 1633d6ab1dc0SHong Zhang 1634d6ab1dc0SHong Zhang PetscFunctionBegin; 16356718818eSStefano Zampini MatCheckProduct(C,3); 16366718818eSStefano Zampini ptap = (Mat_APMPI*)C->product->data; 16376718818eSStefano Zampini if (!ptap) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtAP cannot be computed. Missing data"); 16386718818eSStefano Zampini if (!ptap->A_loc) SETERRQ(PetscObjectComm((PetscObject)C),PETSC_ERR_ARG_WRONGSTATE,"PtA cannot be reused. Do not call MatProductClear()"); 1639ce94432eSBarry Smith ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 1640ffc4695bSBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRMPI(ierr); 1641ffc4695bSBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRMPI(ierr); 1642d6ab1dc0SHong Zhang 1643d6ab1dc0SHong Zhang merge = ptap->merge; 1644d6ab1dc0SHong Zhang 1645e745005bSHong Zhang /* 2) compute numeric C_seq = P_loc^T*A_loc */ 1646e745005bSHong Zhang /*------------------------------------------*/ 1647d6ab1dc0SHong Zhang /* get data from symbolic products */ 1648d6ab1dc0SHong Zhang coi = merge->coi; coj = merge->coj; 1649854ce69bSBarry Smith ierr = PetscCalloc1(coi[pon]+1,&coa);CHKERRQ(ierr); 1650d6ab1dc0SHong Zhang bi = merge->bi; bj = merge->bj; 1651d6ab1dc0SHong Zhang owners = merge->rowmap->range; 16521795a4d1SJed Brown ierr = PetscCalloc1(bi[cm]+1,&ba);CHKERRQ(ierr); 1653d6ab1dc0SHong Zhang 1654d6ab1dc0SHong Zhang /* get A_loc by taking all local rows of A */ 1655d6ab1dc0SHong Zhang A_loc = ptap->A_loc; 1656d6ab1dc0SHong Zhang ierr = MatMPIAIJGetLocalMat(A,MAT_REUSE_MATRIX,&A_loc);CHKERRQ(ierr); 1657d6ab1dc0SHong Zhang a_loc = (Mat_SeqAIJ*)(A_loc)->data; 1658d6ab1dc0SHong Zhang ai = a_loc->i; 1659d6ab1dc0SHong Zhang aj = a_loc->j; 1660d6ab1dc0SHong Zhang 1661ce496241SStefano Zampini /* trigger copy to CPU */ 1662ce496241SStefano Zampini ierr = MatSeqAIJGetArrayRead(p->A,&dummy);CHKERRQ(ierr); 1663ce496241SStefano Zampini ierr = MatSeqAIJRestoreArrayRead(p->A,&dummy);CHKERRQ(ierr); 1664ce496241SStefano Zampini ierr = MatSeqAIJGetArrayRead(p->B,&dummy);CHKERRQ(ierr); 1665ce496241SStefano Zampini ierr = MatSeqAIJRestoreArrayRead(p->B,&dummy);CHKERRQ(ierr); 1666d6ab1dc0SHong Zhang for (i=0; i<am; i++) { 1667d6ab1dc0SHong Zhang anz = ai[i+1] - ai[i]; 1668d6ab1dc0SHong Zhang adj = aj + ai[i]; 1669d6ab1dc0SHong Zhang ada = a_loc->a + ai[i]; 1670d6ab1dc0SHong Zhang 1671d6ab1dc0SHong Zhang /* 2-b) Compute Cseq = P_loc[i,:]^T*A[i,:] using outer product */ 1672e745005bSHong Zhang /*-------------------------------------------------------------*/ 1673d6ab1dc0SHong Zhang /* put the value into Co=(p->B)^T*A (off-diagonal part, send to others) */ 1674d6ab1dc0SHong Zhang pnz = po->i[i+1] - po->i[i]; 1675d6ab1dc0SHong Zhang poJ = po->j + po->i[i]; 1676d6ab1dc0SHong Zhang pA = po->a + po->i[i]; 1677d6ab1dc0SHong Zhang for (j=0; j<pnz; j++) { 1678d6ab1dc0SHong Zhang row = poJ[j]; 1679d6ab1dc0SHong Zhang cj = coj + coi[row]; 1680d6ab1dc0SHong Zhang ca = coa + coi[row]; 1681e745005bSHong Zhang /* perform sparse axpy */ 1682e745005bSHong Zhang nexta = 0; 1683d6ab1dc0SHong Zhang valtmp = pA[j]; 1684e745005bSHong Zhang for (k=0; nexta<anz; k++) { 1685e745005bSHong Zhang if (cj[k] == adj[nexta]) { 1686e745005bSHong Zhang ca[k] += valtmp*ada[nexta]; 1687e745005bSHong Zhang nexta++; 1688d6ab1dc0SHong Zhang } 1689e745005bSHong Zhang } 1690e745005bSHong Zhang ierr = PetscLogFlops(2.0*anz);CHKERRQ(ierr); 1691d6ab1dc0SHong Zhang } 1692d6ab1dc0SHong Zhang 1693d6ab1dc0SHong Zhang /* put the value into Cd (diagonal part) */ 1694d6ab1dc0SHong Zhang pnz = pd->i[i+1] - pd->i[i]; 1695d6ab1dc0SHong Zhang pdJ = pd->j + pd->i[i]; 1696d6ab1dc0SHong Zhang pA = pd->a + pd->i[i]; 1697d6ab1dc0SHong Zhang for (j=0; j<pnz; j++) { 1698d6ab1dc0SHong Zhang row = pdJ[j]; 1699d6ab1dc0SHong Zhang cj = bj + bi[row]; 1700d6ab1dc0SHong Zhang ca = ba + bi[row]; 1701e745005bSHong Zhang /* perform sparse axpy */ 1702e745005bSHong Zhang nexta = 0; 1703d6ab1dc0SHong Zhang valtmp = pA[j]; 1704e745005bSHong Zhang for (k=0; nexta<anz; k++) { 1705e745005bSHong Zhang if (cj[k] == adj[nexta]) { 1706e745005bSHong Zhang ca[k] += valtmp*ada[nexta]; 1707e745005bSHong Zhang nexta++; 1708d6ab1dc0SHong Zhang } 1709e745005bSHong Zhang } 1710e745005bSHong Zhang ierr = PetscLogFlops(2.0*anz);CHKERRQ(ierr); 1711d6ab1dc0SHong Zhang } 1712d6ab1dc0SHong Zhang } 1713d6ab1dc0SHong Zhang 1714d6ab1dc0SHong Zhang /* 3) send and recv matrix values coa */ 1715d6ab1dc0SHong Zhang /*------------------------------------*/ 1716d6ab1dc0SHong Zhang buf_ri = merge->buf_ri; 1717d6ab1dc0SHong Zhang buf_rj = merge->buf_rj; 1718d6ab1dc0SHong Zhang len_s = merge->len_s; 1719d6ab1dc0SHong Zhang ierr = PetscCommGetNewTag(comm,&taga);CHKERRQ(ierr); 1720d6ab1dc0SHong Zhang ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr); 1721d6ab1dc0SHong Zhang 1722dcca6d9dSJed Brown ierr = PetscMalloc2(merge->nsend+1,&s_waits,size,&status);CHKERRQ(ierr); 1723d6ab1dc0SHong Zhang for (proc=0,k=0; proc<size; proc++) { 1724d6ab1dc0SHong Zhang if (!len_s[proc]) continue; 1725d6ab1dc0SHong Zhang i = merge->owners_co[proc]; 1726ffc4695bSBarry Smith ierr = MPI_Isend(coa+coi[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRMPI(ierr); 1727d6ab1dc0SHong Zhang k++; 1728d6ab1dc0SHong Zhang } 1729ffc4695bSBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRMPI(ierr);} 1730ffc4695bSBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRMPI(ierr);} 1731d6ab1dc0SHong Zhang 1732d6ab1dc0SHong Zhang ierr = PetscFree2(s_waits,status);CHKERRQ(ierr); 1733d6ab1dc0SHong Zhang ierr = PetscFree(r_waits);CHKERRQ(ierr); 1734d6ab1dc0SHong Zhang ierr = PetscFree(coa);CHKERRQ(ierr); 1735d6ab1dc0SHong Zhang 1736d6ab1dc0SHong Zhang /* 4) insert local Cseq and received values into Cmpi */ 1737d6ab1dc0SHong Zhang /*----------------------------------------------------*/ 1738dcca6d9dSJed Brown ierr = PetscMalloc3(merge->nrecv,&buf_ri_k,merge->nrecv,&nextrow,merge->nrecv,&nextci);CHKERRQ(ierr); 1739d6ab1dc0SHong Zhang for (k=0; k<merge->nrecv; k++) { 1740e745005bSHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 1741d6ab1dc0SHong Zhang nrows = *(buf_ri_k[k]); 1742d6ab1dc0SHong Zhang nextrow[k] = buf_ri_k[k]+1; /* next row number of k-th recved i-structure */ 1743d6ab1dc0SHong Zhang nextci[k] = buf_ri_k[k] + (nrows + 1); /* poins to the next i-structure of k-th recved i-structure */ 1744d6ab1dc0SHong Zhang } 1745d6ab1dc0SHong Zhang 1746d6ab1dc0SHong Zhang for (i=0; i<cm; i++) { 1747d6ab1dc0SHong Zhang row = owners[rank] + i; /* global row index of C_seq */ 1748d6ab1dc0SHong Zhang bj_i = bj + bi[i]; /* col indices of the i-th row of C */ 1749d6ab1dc0SHong Zhang ba_i = ba + bi[i]; 1750d6ab1dc0SHong Zhang bnz = bi[i+1] - bi[i]; 1751d6ab1dc0SHong Zhang /* add received vals into ba */ 1752d6ab1dc0SHong Zhang for (k=0; k<merge->nrecv; k++) { /* k-th received message */ 1753d6ab1dc0SHong Zhang /* i-th row */ 1754d6ab1dc0SHong Zhang if (i == *nextrow[k]) { 1755d6ab1dc0SHong Zhang cnz = *(nextci[k]+1) - *nextci[k]; 1756d6ab1dc0SHong Zhang cj = buf_rj[k] + *(nextci[k]); 1757d6ab1dc0SHong Zhang ca = abuf_r[k] + *(nextci[k]); 1758d6ab1dc0SHong Zhang nextcj = 0; 1759d6ab1dc0SHong Zhang for (j=0; nextcj<cnz; j++) { 1760d6ab1dc0SHong Zhang if (bj_i[j] == cj[nextcj]) { /* bcol == ccol */ 1761d6ab1dc0SHong Zhang ba_i[j] += ca[nextcj++]; 1762d6ab1dc0SHong Zhang } 1763d6ab1dc0SHong Zhang } 1764d6ab1dc0SHong Zhang nextrow[k]++; nextci[k]++; 1765d6ab1dc0SHong Zhang ierr = PetscLogFlops(2.0*cnz);CHKERRQ(ierr); 1766d6ab1dc0SHong Zhang } 1767d6ab1dc0SHong Zhang } 1768d6ab1dc0SHong Zhang ierr = MatSetValues(C,1,&row,bnz,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr); 1769d6ab1dc0SHong Zhang } 1770d6ab1dc0SHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1771d6ab1dc0SHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1772d6ab1dc0SHong Zhang 1773d6ab1dc0SHong Zhang ierr = PetscFree(ba);CHKERRQ(ierr); 1774d6ab1dc0SHong Zhang ierr = PetscFree(abuf_r[0]);CHKERRQ(ierr); 1775d6ab1dc0SHong Zhang ierr = PetscFree(abuf_r);CHKERRQ(ierr); 1776d6ab1dc0SHong Zhang ierr = PetscFree3(buf_ri_k,nextrow,nextci);CHKERRQ(ierr); 1777d6ab1dc0SHong Zhang PetscFunctionReturn(0); 1778d6ab1dc0SHong Zhang } 1779d6ab1dc0SHong Zhang 17804222ddf1SHong Zhang PetscErrorCode MatTransposeMatMultSymbolic_MPIAIJ_MPIAIJ(Mat P,Mat A,PetscReal fill,Mat C) 1781d6ab1dc0SHong Zhang { 1782d6ab1dc0SHong Zhang PetscErrorCode ierr; 1783b419842dSStefano Zampini Mat A_loc; 17843cdca5ebSHong Zhang Mat_APMPI *ptap; 17850298fd71SBarry Smith PetscFreeSpaceList free_space=NULL,current_space=NULL; 17866718818eSStefano Zampini Mat_MPIAIJ *p=(Mat_MPIAIJ*)P->data,*a=(Mat_MPIAIJ*)A->data; 1787d6ab1dc0SHong Zhang PetscInt *pdti,*pdtj,*poti,*potj,*ptJ; 1788d6ab1dc0SHong Zhang PetscInt nnz; 1789d6ab1dc0SHong Zhang PetscInt *lnk,*owners_co,*coi,*coj,i,k,pnz,row; 1790d6ab1dc0SHong Zhang PetscInt am =A->rmap->n,pn=P->cmap->n; 1791ce94432eSBarry Smith MPI_Comm comm; 1792d6ab1dc0SHong Zhang PetscMPIInt size,rank,tagi,tagj,*len_si,*len_s,*len_ri; 1793d6ab1dc0SHong Zhang PetscInt **buf_rj,**buf_ri,**buf_ri_k; 1794d6ab1dc0SHong Zhang PetscInt len,proc,*dnz,*onz,*owners; 1795d6ab1dc0SHong Zhang PetscInt nzi,*bi,*bj; 1796d6ab1dc0SHong Zhang PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextci; 1797d6ab1dc0SHong Zhang MPI_Request *swaits,*rwaits; 1798d6ab1dc0SHong Zhang MPI_Status *sstatus,rstatus; 1799d6ab1dc0SHong Zhang Mat_Merge_SeqsToMPI *merge; 1800d6ab1dc0SHong Zhang PetscInt *ai,*aj,*Jptr,anz,*prmap=p->garray,pon,nspacedouble=0,j; 1801d6ab1dc0SHong Zhang PetscReal afill =1.0,afill_tmp; 18024b38b95cSHong Zhang PetscInt rstart = P->cmap->rstart,rmax,aN=A->cmap->N,Armax; 1803b419842dSStefano Zampini Mat_SeqAIJ *a_loc; 18040acc65b4SHong Zhang PetscTable ta; 1805b92f168fSBarry Smith MatType mtype; 1806d6ab1dc0SHong Zhang 1807d6ab1dc0SHong Zhang PetscFunctionBegin; 1808ce94432eSBarry Smith ierr = PetscObjectGetComm((PetscObject)A,&comm);CHKERRQ(ierr); 1809d6ab1dc0SHong Zhang /* check if matrix local sizes are compatible */ 18106c4ed002SBarry Smith if (A->rmap->rstart != P->rmap->rstart || A->rmap->rend != P->rmap->rend) SETERRQ4(comm,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, A (%D, %D) != P (%D,%D)",A->rmap->rstart,A->rmap->rend,P->rmap->rstart,P->rmap->rend); 1811d6ab1dc0SHong Zhang 1812ffc4695bSBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRMPI(ierr); 1813ffc4695bSBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRMPI(ierr); 1814d6ab1dc0SHong Zhang 18153cdca5ebSHong Zhang /* create struct Mat_APMPI and attached it to C later */ 1816b00a9115SJed Brown ierr = PetscNew(&ptap);CHKERRQ(ierr); 1817d6ab1dc0SHong Zhang 1818d6ab1dc0SHong Zhang /* get A_loc by taking all local rows of A */ 1819d6ab1dc0SHong Zhang ierr = MatMPIAIJGetLocalMat(A,MAT_INITIAL_MATRIX,&A_loc);CHKERRQ(ierr); 18202205254eSKarl Rupp 1821d6ab1dc0SHong Zhang ptap->A_loc = A_loc; 1822d6ab1dc0SHong Zhang a_loc = (Mat_SeqAIJ*)(A_loc)->data; 1823d6ab1dc0SHong Zhang ai = a_loc->i; 1824d6ab1dc0SHong Zhang aj = a_loc->j; 1825d6ab1dc0SHong Zhang 1826d6ab1dc0SHong Zhang /* determine symbolic Co=(p->B)^T*A - send to others */ 1827d6ab1dc0SHong Zhang /*----------------------------------------------------*/ 1828b419842dSStefano Zampini ierr = MatGetSymbolicTranspose_SeqAIJ(p->A,&pdti,&pdtj);CHKERRQ(ierr); 1829b419842dSStefano Zampini ierr = MatGetSymbolicTranspose_SeqAIJ(p->B,&poti,&potj);CHKERRQ(ierr); 1830d6ab1dc0SHong Zhang pon = (p->B)->cmap->n; /* total num of rows to be sent to other processors 1831d6ab1dc0SHong Zhang >= (num of nonzero rows of C_seq) - pn */ 1832854ce69bSBarry Smith ierr = PetscMalloc1(pon+1,&coi);CHKERRQ(ierr); 1833d6ab1dc0SHong Zhang coi[0] = 0; 1834d6ab1dc0SHong Zhang 1835d6ab1dc0SHong Zhang /* set initial free space to be fill*(nnz(p->B) + nnz(A)) */ 1836f91af8c7SBarry Smith nnz = PetscRealIntMultTruncate(fill,PetscIntSumTruncate(poti[pon],ai[am])); 1837a2ea699eSBarry Smith ierr = PetscFreeSpaceGet(nnz,&free_space);CHKERRQ(ierr); 1838d6ab1dc0SHong Zhang current_space = free_space; 183919f0e57aSHong Zhang 1840d6ab1dc0SHong Zhang /* create and initialize a linked list */ 184133ba5e2fSHong Zhang ierr = PetscTableCreate(A->cmap->n + a->B->cmap->N,aN,&ta);CHKERRQ(ierr); 18424b38b95cSHong Zhang MatRowMergeMax_SeqAIJ(a_loc,am,ta); 18430acc65b4SHong Zhang ierr = PetscTableGetCount(ta,&Armax);CHKERRQ(ierr); 184433ba5e2fSHong Zhang 18450acc65b4SHong Zhang ierr = PetscLLCondensedCreate_Scalable(Armax,&lnk);CHKERRQ(ierr); 1846d6ab1dc0SHong Zhang 1847d6ab1dc0SHong Zhang for (i=0; i<pon; i++) { 1848d6ab1dc0SHong Zhang pnz = poti[i+1] - poti[i]; 1849d6ab1dc0SHong Zhang ptJ = potj + poti[i]; 1850d6ab1dc0SHong Zhang for (j=0; j<pnz; j++) { 1851d6ab1dc0SHong Zhang row = ptJ[j]; /* row of A_loc == col of Pot */ 1852d6ab1dc0SHong Zhang anz = ai[row+1] - ai[row]; 1853d6ab1dc0SHong Zhang Jptr = aj + ai[row]; 1854d6ab1dc0SHong Zhang /* add non-zero cols of AP into the sorted linked list lnk */ 1855d6ab1dc0SHong Zhang ierr = PetscLLCondensedAddSorted_Scalable(anz,Jptr,lnk);CHKERRQ(ierr); 1856d6ab1dc0SHong Zhang } 1857d6ab1dc0SHong Zhang nnz = lnk[0]; 1858d6ab1dc0SHong Zhang 1859d6ab1dc0SHong Zhang /* If free space is not available, double the total space in the list */ 1860d6ab1dc0SHong Zhang if (current_space->local_remaining<nnz) { 1861f91af8c7SBarry Smith ierr = PetscFreeSpaceGet(PetscIntSumTruncate(nnz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 1862d6ab1dc0SHong Zhang nspacedouble++; 1863d6ab1dc0SHong Zhang } 1864d6ab1dc0SHong Zhang 1865d6ab1dc0SHong Zhang /* Copy data into free space, and zero out denserows */ 1866d6ab1dc0SHong Zhang ierr = PetscLLCondensedClean_Scalable(nnz,current_space->array,lnk);CHKERRQ(ierr); 18672205254eSKarl Rupp 1868d6ab1dc0SHong Zhang current_space->array += nnz; 1869d6ab1dc0SHong Zhang current_space->local_used += nnz; 1870d6ab1dc0SHong Zhang current_space->local_remaining -= nnz; 18712205254eSKarl Rupp 1872d6ab1dc0SHong Zhang coi[i+1] = coi[i] + nnz; 1873d6ab1dc0SHong Zhang } 1874d6ab1dc0SHong Zhang 1875854ce69bSBarry Smith ierr = PetscMalloc1(coi[pon]+1,&coj);CHKERRQ(ierr); 1876d6ab1dc0SHong Zhang ierr = PetscFreeSpaceContiguous(&free_space,coj);CHKERRQ(ierr); 18770acc65b4SHong Zhang ierr = PetscLLCondensedDestroy_Scalable(lnk);CHKERRQ(ierr); /* must destroy to get a new one for C */ 18782205254eSKarl Rupp 1879118727c9SMark F. Adams afill_tmp = (PetscReal)coi[pon]/(poti[pon] + ai[am]+1); 1880d6ab1dc0SHong Zhang if (afill_tmp > afill) afill = afill_tmp; 1881d6ab1dc0SHong Zhang 1882d6ab1dc0SHong Zhang /* send j-array (coj) of Co to other processors */ 1883d6ab1dc0SHong Zhang /*----------------------------------------------*/ 1884d6ab1dc0SHong Zhang /* determine row ownership */ 1885b00a9115SJed Brown ierr = PetscNew(&merge);CHKERRQ(ierr); 1886d6ab1dc0SHong Zhang ierr = PetscLayoutCreate(comm,&merge->rowmap);CHKERRQ(ierr); 18872205254eSKarl Rupp 1888d6ab1dc0SHong Zhang merge->rowmap->n = pn; 1889d6ab1dc0SHong Zhang merge->rowmap->bs = 1; 18902205254eSKarl Rupp 1891d6ab1dc0SHong Zhang ierr = PetscLayoutSetUp(merge->rowmap);CHKERRQ(ierr); 1892d6ab1dc0SHong Zhang owners = merge->rowmap->range; 1893d6ab1dc0SHong Zhang 1894d6ab1dc0SHong Zhang /* determine the number of messages to send, their lengths */ 18951795a4d1SJed Brown ierr = PetscCalloc1(size,&len_si);CHKERRQ(ierr); 1896580bdb30SBarry Smith ierr = PetscCalloc1(size,&merge->len_s);CHKERRQ(ierr); 18972205254eSKarl Rupp 1898d6ab1dc0SHong Zhang len_s = merge->len_s; 1899d6ab1dc0SHong Zhang merge->nsend = 0; 1900d6ab1dc0SHong Zhang 1901854ce69bSBarry Smith ierr = PetscMalloc1(size+2,&owners_co);CHKERRQ(ierr); 1902d6ab1dc0SHong Zhang 1903d6ab1dc0SHong Zhang proc = 0; 1904d6ab1dc0SHong Zhang for (i=0; i<pon; i++) { 1905d6ab1dc0SHong Zhang while (prmap[i] >= owners[proc+1]) proc++; 1906d6ab1dc0SHong Zhang len_si[proc]++; /* num of rows in Co to be sent to [proc] */ 1907d6ab1dc0SHong Zhang len_s[proc] += coi[i+1] - coi[i]; 1908d6ab1dc0SHong Zhang } 1909d6ab1dc0SHong Zhang 1910d6ab1dc0SHong Zhang len = 0; /* max length of buf_si[] */ 1911d6ab1dc0SHong Zhang owners_co[0] = 0; 1912d6ab1dc0SHong Zhang for (proc=0; proc<size; proc++) { 1913d6ab1dc0SHong Zhang owners_co[proc+1] = owners_co[proc] + len_si[proc]; 1914d6ab1dc0SHong Zhang if (len_si[proc]) { 1915d6ab1dc0SHong Zhang merge->nsend++; 1916d6ab1dc0SHong Zhang len_si[proc] = 2*(len_si[proc] + 1); 1917d6ab1dc0SHong Zhang len += len_si[proc]; 1918d6ab1dc0SHong Zhang } 1919d6ab1dc0SHong Zhang } 1920d6ab1dc0SHong Zhang 1921d6ab1dc0SHong Zhang /* determine the number and length of messages to receive for coi and coj */ 19220298fd71SBarry Smith ierr = PetscGatherNumberOfMessages(comm,NULL,len_s,&merge->nrecv);CHKERRQ(ierr); 1923d6ab1dc0SHong Zhang ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr); 1924d6ab1dc0SHong Zhang 1925d6ab1dc0SHong Zhang /* post the Irecv and Isend of coj */ 1926d6ab1dc0SHong Zhang ierr = PetscCommGetNewTag(comm,&tagj);CHKERRQ(ierr); 1927d6ab1dc0SHong Zhang ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rwaits);CHKERRQ(ierr); 1928854ce69bSBarry Smith ierr = PetscMalloc1(merge->nsend+1,&swaits);CHKERRQ(ierr); 1929d6ab1dc0SHong Zhang for (proc=0, k=0; proc<size; proc++) { 1930d6ab1dc0SHong Zhang if (!len_s[proc]) continue; 1931d6ab1dc0SHong Zhang i = owners_co[proc]; 1932ffc4695bSBarry Smith ierr = MPI_Isend(coj+coi[i],len_s[proc],MPIU_INT,proc,tagj,comm,swaits+k);CHKERRMPI(ierr); 1933d6ab1dc0SHong Zhang k++; 1934d6ab1dc0SHong Zhang } 1935d6ab1dc0SHong Zhang 1936d6ab1dc0SHong Zhang /* receives and sends of coj are complete */ 1937785e854fSJed Brown ierr = PetscMalloc1(size,&sstatus);CHKERRQ(ierr); 1938d6ab1dc0SHong Zhang for (i=0; i<merge->nrecv; i++) { 1939ec4bef21SJose E. Roman PETSC_UNUSED PetscMPIInt icompleted; 1940ffc4695bSBarry Smith ierr = MPI_Waitany(merge->nrecv,rwaits,&icompleted,&rstatus);CHKERRMPI(ierr); 1941d6ab1dc0SHong Zhang } 1942d6ab1dc0SHong Zhang ierr = PetscFree(rwaits);CHKERRQ(ierr); 1943ffc4695bSBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,swaits,sstatus);CHKERRMPI(ierr);} 1944d6ab1dc0SHong Zhang 19450acc65b4SHong Zhang /* add received column indices into table to update Armax */ 1946c4762a1bSJed Brown /* Armax can be as large as aN if a P[row,:] is dense, see src/ksp/ksp/tutorials/ex56.c! */ 19470acc65b4SHong Zhang for (k=0; k<merge->nrecv; k++) {/* k-th received message */ 19480acc65b4SHong Zhang Jptr = buf_rj[k]; 19490acc65b4SHong Zhang for (j=0; j<merge->len_r[k]; j++) { 19500acc65b4SHong Zhang ierr = PetscTableAdd(ta,*(Jptr+j)+1,1,INSERT_VALUES);CHKERRQ(ierr); 19510acc65b4SHong Zhang } 19520acc65b4SHong Zhang } 19530acc65b4SHong Zhang ierr = PetscTableGetCount(ta,&Armax);CHKERRQ(ierr); 195433ba5e2fSHong Zhang /* printf("Armax %d, an %d + Bn %d = %d, aN %d\n",Armax,A->cmap->n,a->B->cmap->N,A->cmap->n+a->B->cmap->N,aN); */ 19550acc65b4SHong Zhang 1956d6ab1dc0SHong Zhang /* send and recv coi */ 1957d6ab1dc0SHong Zhang /*-------------------*/ 1958d6ab1dc0SHong Zhang ierr = PetscCommGetNewTag(comm,&tagi);CHKERRQ(ierr); 1959d6ab1dc0SHong Zhang ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&rwaits);CHKERRQ(ierr); 1960854ce69bSBarry Smith ierr = PetscMalloc1(len+1,&buf_s);CHKERRQ(ierr); 1961d6ab1dc0SHong Zhang buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 1962d6ab1dc0SHong Zhang for (proc=0,k=0; proc<size; proc++) { 1963d6ab1dc0SHong Zhang if (!len_s[proc]) continue; 1964d6ab1dc0SHong Zhang /* form outgoing message for i-structure: 1965d6ab1dc0SHong Zhang buf_si[0]: nrows to be sent 1966d6ab1dc0SHong Zhang [1:nrows]: row index (global) 1967d6ab1dc0SHong Zhang [nrows+1:2*nrows+1]: i-structure index 1968d6ab1dc0SHong Zhang */ 1969d6ab1dc0SHong Zhang /*-------------------------------------------*/ 1970d6ab1dc0SHong Zhang nrows = len_si[proc]/2 - 1; 1971d6ab1dc0SHong Zhang buf_si_i = buf_si + nrows+1; 1972d6ab1dc0SHong Zhang buf_si[0] = nrows; 1973d6ab1dc0SHong Zhang buf_si_i[0] = 0; 1974d6ab1dc0SHong Zhang nrows = 0; 1975d6ab1dc0SHong Zhang for (i=owners_co[proc]; i<owners_co[proc+1]; i++) { 1976d6ab1dc0SHong Zhang nzi = coi[i+1] - coi[i]; 1977d6ab1dc0SHong Zhang buf_si_i[nrows+1] = buf_si_i[nrows] + nzi; /* i-structure */ 1978d6ab1dc0SHong Zhang buf_si[nrows+1] = prmap[i] -owners[proc]; /* local row index */ 1979d6ab1dc0SHong Zhang nrows++; 1980d6ab1dc0SHong Zhang } 1981ffc4695bSBarry Smith ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,swaits+k);CHKERRMPI(ierr); 1982d6ab1dc0SHong Zhang k++; 1983d6ab1dc0SHong Zhang buf_si += len_si[proc]; 1984d6ab1dc0SHong Zhang } 1985d6ab1dc0SHong Zhang i = merge->nrecv; 1986d6ab1dc0SHong Zhang while (i--) { 1987ec4bef21SJose E. Roman PETSC_UNUSED PetscMPIInt icompleted; 1988ffc4695bSBarry Smith ierr = MPI_Waitany(merge->nrecv,rwaits,&icompleted,&rstatus);CHKERRMPI(ierr); 1989d6ab1dc0SHong Zhang } 1990d6ab1dc0SHong Zhang ierr = PetscFree(rwaits);CHKERRQ(ierr); 1991ffc4695bSBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,swaits,sstatus);CHKERRMPI(ierr);} 1992d6ab1dc0SHong Zhang ierr = PetscFree(len_si);CHKERRQ(ierr); 1993d6ab1dc0SHong Zhang ierr = PetscFree(len_ri);CHKERRQ(ierr); 1994d6ab1dc0SHong Zhang ierr = PetscFree(swaits);CHKERRQ(ierr); 1995d6ab1dc0SHong Zhang ierr = PetscFree(sstatus);CHKERRQ(ierr); 1996d6ab1dc0SHong Zhang ierr = PetscFree(buf_s);CHKERRQ(ierr); 1997d6ab1dc0SHong Zhang 1998d6ab1dc0SHong Zhang /* compute the local portion of C (mpi mat) */ 1999d6ab1dc0SHong Zhang /*------------------------------------------*/ 2000d6ab1dc0SHong Zhang /* allocate bi array and free space for accumulating nonzero column info */ 2001854ce69bSBarry Smith ierr = PetscMalloc1(pn+1,&bi);CHKERRQ(ierr); 2002d6ab1dc0SHong Zhang bi[0] = 0; 2003d6ab1dc0SHong Zhang 2004d6ab1dc0SHong Zhang /* set initial free space to be fill*(nnz(P) + nnz(AP)) */ 2005f91af8c7SBarry Smith nnz = PetscRealIntMultTruncate(fill,PetscIntSumTruncate(pdti[pn],PetscIntSumTruncate(poti[pon],ai[am]))); 2006a2ea699eSBarry Smith ierr = PetscFreeSpaceGet(nnz,&free_space);CHKERRQ(ierr); 2007d6ab1dc0SHong Zhang current_space = free_space; 2008d6ab1dc0SHong Zhang 2009dcca6d9dSJed Brown ierr = PetscMalloc3(merge->nrecv,&buf_ri_k,merge->nrecv,&nextrow,merge->nrecv,&nextci);CHKERRQ(ierr); 2010d6ab1dc0SHong Zhang for (k=0; k<merge->nrecv; k++) { 2011d6ab1dc0SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 2012d6ab1dc0SHong Zhang nrows = *buf_ri_k[k]; 2013d6ab1dc0SHong Zhang nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 20142d4ee042Sprj- nextci[k] = buf_ri_k[k] + (nrows + 1); /* points to the next i-structure of k-th received i-structure */ 2015d6ab1dc0SHong Zhang } 2016d6ab1dc0SHong Zhang 20170acc65b4SHong Zhang ierr = PetscLLCondensedCreate_Scalable(Armax,&lnk);CHKERRQ(ierr); 2018d6ab1dc0SHong Zhang ierr = MatPreallocateInitialize(comm,pn,A->cmap->n,dnz,onz);CHKERRQ(ierr); 2019d6ab1dc0SHong Zhang rmax = 0; 2020d6ab1dc0SHong Zhang for (i=0; i<pn; i++) { 2021d6ab1dc0SHong Zhang /* add pdt[i,:]*AP into lnk */ 2022d6ab1dc0SHong Zhang pnz = pdti[i+1] - pdti[i]; 2023d6ab1dc0SHong Zhang ptJ = pdtj + pdti[i]; 2024d6ab1dc0SHong Zhang for (j=0; j<pnz; j++) { 2025d6ab1dc0SHong Zhang row = ptJ[j]; /* row of AP == col of Pt */ 2026d6ab1dc0SHong Zhang anz = ai[row+1] - ai[row]; 2027d6ab1dc0SHong Zhang Jptr = aj + ai[row]; 2028d6ab1dc0SHong Zhang /* add non-zero cols of AP into the sorted linked list lnk */ 2029d6ab1dc0SHong Zhang ierr = PetscLLCondensedAddSorted_Scalable(anz,Jptr,lnk);CHKERRQ(ierr); 2030d6ab1dc0SHong Zhang } 2031d6ab1dc0SHong Zhang 2032d6ab1dc0SHong Zhang /* add received col data into lnk */ 2033d6ab1dc0SHong Zhang for (k=0; k<merge->nrecv; k++) { /* k-th received message */ 2034d6ab1dc0SHong Zhang if (i == *nextrow[k]) { /* i-th row */ 2035d6ab1dc0SHong Zhang nzi = *(nextci[k]+1) - *nextci[k]; 2036d6ab1dc0SHong Zhang Jptr = buf_rj[k] + *nextci[k]; 2037d6ab1dc0SHong Zhang ierr = PetscLLCondensedAddSorted_Scalable(nzi,Jptr,lnk);CHKERRQ(ierr); 2038d6ab1dc0SHong Zhang nextrow[k]++; nextci[k]++; 2039d6ab1dc0SHong Zhang } 2040d6ab1dc0SHong Zhang } 20418c78258cSHong Zhang 20428c78258cSHong Zhang /* add missing diagonal entry */ 20438c78258cSHong Zhang if (C->force_diagonals) { 20448c78258cSHong Zhang k = i + owners[rank]; /* column index */ 20458c78258cSHong Zhang ierr = PetscLLCondensedAddSorted_Scalable(1,&k,lnk);CHKERRQ(ierr); 20468c78258cSHong Zhang } 20478c78258cSHong Zhang 2048d6ab1dc0SHong Zhang nnz = lnk[0]; 2049d6ab1dc0SHong Zhang 2050d6ab1dc0SHong Zhang /* if free space is not available, make more free space */ 2051d6ab1dc0SHong Zhang if (current_space->local_remaining<nnz) { 2052f91af8c7SBarry Smith ierr = PetscFreeSpaceGet(PetscIntSumTruncate(nnz,current_space->total_array_size),¤t_space);CHKERRQ(ierr); 2053d6ab1dc0SHong Zhang nspacedouble++; 2054d6ab1dc0SHong Zhang } 2055d6ab1dc0SHong Zhang /* copy data into free space, then initialize lnk */ 2056d6ab1dc0SHong Zhang ierr = PetscLLCondensedClean_Scalable(nnz,current_space->array,lnk);CHKERRQ(ierr); 2057d6ab1dc0SHong Zhang ierr = MatPreallocateSet(i+owners[rank],nnz,current_space->array,dnz,onz);CHKERRQ(ierr); 20582205254eSKarl Rupp 2059d6ab1dc0SHong Zhang current_space->array += nnz; 2060d6ab1dc0SHong Zhang current_space->local_used += nnz; 2061d6ab1dc0SHong Zhang current_space->local_remaining -= nnz; 20622205254eSKarl Rupp 2063d6ab1dc0SHong Zhang bi[i+1] = bi[i] + nnz; 2064d6ab1dc0SHong Zhang if (nnz > rmax) rmax = nnz; 2065d6ab1dc0SHong Zhang } 2066f671be37SHong Zhang ierr = PetscFree3(buf_ri_k,nextrow,nextci);CHKERRQ(ierr); 2067d6ab1dc0SHong Zhang 2068854ce69bSBarry Smith ierr = PetscMalloc1(bi[pn]+1,&bj);CHKERRQ(ierr); 2069d6ab1dc0SHong Zhang ierr = PetscFreeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 2070118727c9SMark F. Adams afill_tmp = (PetscReal)bi[pn]/(pdti[pn] + poti[pon] + ai[am]+1); 2071d6ab1dc0SHong Zhang if (afill_tmp > afill) afill = afill_tmp; 2072d6ab1dc0SHong Zhang ierr = PetscLLCondensedDestroy_Scalable(lnk);CHKERRQ(ierr); 20730acc65b4SHong Zhang ierr = PetscTableDestroy(&ta);CHKERRQ(ierr); 2074b419842dSStefano Zampini ierr = MatRestoreSymbolicTranspose_SeqAIJ(p->A,&pdti,&pdtj);CHKERRQ(ierr); 2075b419842dSStefano Zampini ierr = MatRestoreSymbolicTranspose_SeqAIJ(p->B,&poti,&potj);CHKERRQ(ierr); 2076d6ab1dc0SHong Zhang 20774222ddf1SHong Zhang /* create symbolic parallel matrix C - why cannot be assembled in Numeric part */ 20784222ddf1SHong Zhang /*-------------------------------------------------------------------------------*/ 20794222ddf1SHong Zhang ierr = MatSetSizes(C,pn,A->cmap->n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 20804222ddf1SHong Zhang ierr = MatSetBlockSizes(C,PetscAbs(P->cmap->bs),PetscAbs(A->cmap->bs));CHKERRQ(ierr); 2081b92f168fSBarry Smith ierr = MatGetType(A,&mtype);CHKERRQ(ierr); 20824222ddf1SHong Zhang ierr = MatSetType(C,mtype);CHKERRQ(ierr); 20834222ddf1SHong Zhang ierr = MatMPIAIJSetPreallocation(C,0,dnz,0,onz);CHKERRQ(ierr); 2084d6ab1dc0SHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 20854222ddf1SHong Zhang ierr = MatSetBlockSize(C,1);CHKERRQ(ierr); 208669be949aSStefano Zampini ierr = MatSetOption(C,MAT_NO_OFF_PROC_ENTRIES,PETSC_TRUE);CHKERRQ(ierr); 2087d6ab1dc0SHong Zhang for (i=0; i<pn; i++) { 2088d6ab1dc0SHong Zhang row = i + rstart; 2089d6ab1dc0SHong Zhang nnz = bi[i+1] - bi[i]; 2090d6ab1dc0SHong Zhang Jptr = bj + bi[i]; 20914222ddf1SHong Zhang ierr = MatSetValues(C,1,&row,nnz,Jptr,NULL,INSERT_VALUES);CHKERRQ(ierr); 2092d6ab1dc0SHong Zhang } 20934222ddf1SHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 20944222ddf1SHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 20950926fe31SStefano Zampini ierr = MatSetOption(C,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr); 2096d6ab1dc0SHong Zhang merge->bi = bi; 2097d6ab1dc0SHong Zhang merge->bj = bj; 2098d6ab1dc0SHong Zhang merge->coi = coi; 2099d6ab1dc0SHong Zhang merge->coj = coj; 2100d6ab1dc0SHong Zhang merge->buf_ri = buf_ri; 2101d6ab1dc0SHong Zhang merge->buf_rj = buf_rj; 2102d6ab1dc0SHong Zhang merge->owners_co = owners_co; 2103d6ab1dc0SHong Zhang 21044222ddf1SHong Zhang /* attach the supporting struct to C for reuse */ 21056718818eSStefano Zampini C->product->data = ptap; 21066718818eSStefano Zampini C->product->destroy = MatDestroy_MPIAIJ_PtAP; 2107d6ab1dc0SHong Zhang ptap->merge = merge; 2108a560ef98SHong Zhang 21094222ddf1SHong Zhang C->ops->mattransposemultnumeric = MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ; 2110f96d37fcSHong Zhang 2111f96d37fcSHong Zhang #if defined(PETSC_USE_INFO) 2112f96d37fcSHong Zhang if (bi[pn] != 0) { 21134222ddf1SHong Zhang ierr = PetscInfo3(C,"Reallocs %D; Fill ratio: given %g needed %g.\n",nspacedouble,(double)fill,(double)afill);CHKERRQ(ierr); 21144222ddf1SHong Zhang ierr = PetscInfo1(C,"Use MatTransposeMatMult(A,B,MatReuse,%g,&C) for best performance.\n",(double)afill);CHKERRQ(ierr); 2115f96d37fcSHong Zhang } else { 21164222ddf1SHong Zhang ierr = PetscInfo(C,"Empty matrix product\n");CHKERRQ(ierr); 2117f96d37fcSHong Zhang } 2118f96d37fcSHong Zhang #endif 2119f96d37fcSHong Zhang PetscFunctionReturn(0); 2120f96d37fcSHong Zhang } 21214222ddf1SHong Zhang 21224222ddf1SHong Zhang /* ---------------------------------------------------------------- */ 21234222ddf1SHong Zhang static PetscErrorCode MatProductSymbolic_AtB_MPIAIJ_MPIAIJ(Mat C) 21244222ddf1SHong Zhang { 21254222ddf1SHong Zhang PetscErrorCode ierr; 21264222ddf1SHong Zhang Mat_Product *product = C->product; 21274222ddf1SHong Zhang Mat A=product->A,B=product->B; 21284222ddf1SHong Zhang PetscReal fill=product->fill; 21294222ddf1SHong Zhang PetscBool flg; 21304222ddf1SHong Zhang 21314222ddf1SHong Zhang PetscFunctionBegin; 21324222ddf1SHong Zhang /* scalable */ 21334222ddf1SHong Zhang ierr = PetscStrcmp(product->alg,"scalable",&flg);CHKERRQ(ierr); 21344222ddf1SHong Zhang if (flg) { 21354222ddf1SHong Zhang ierr = MatTransposeMatMultSymbolic_MPIAIJ_MPIAIJ(A,B,fill,C);CHKERRQ(ierr); 21364222ddf1SHong Zhang goto next; 21374222ddf1SHong Zhang } 21384222ddf1SHong Zhang 21394222ddf1SHong Zhang /* nonscalable */ 21404222ddf1SHong Zhang ierr = PetscStrcmp(product->alg,"nonscalable",&flg);CHKERRQ(ierr); 21414222ddf1SHong Zhang if (flg) { 21424222ddf1SHong Zhang ierr = MatTransposeMatMultSymbolic_MPIAIJ_MPIAIJ_nonscalable(A,B,fill,C);CHKERRQ(ierr); 21434222ddf1SHong Zhang goto next; 21444222ddf1SHong Zhang } 21454222ddf1SHong Zhang 21464222ddf1SHong Zhang /* matmatmult */ 21474222ddf1SHong Zhang ierr = PetscStrcmp(product->alg,"at*b",&flg);CHKERRQ(ierr); 21484222ddf1SHong Zhang if (flg) { 21494222ddf1SHong Zhang Mat At; 21504222ddf1SHong Zhang Mat_APMPI *ptap; 21514222ddf1SHong Zhang 21526718818eSStefano Zampini ierr = MatTranspose(A,MAT_INITIAL_MATRIX,&At);CHKERRQ(ierr); 21534222ddf1SHong Zhang ierr = MatMatMultSymbolic_MPIAIJ_MPIAIJ(At,B,fill,C);CHKERRQ(ierr); 21546718818eSStefano Zampini ptap = (Mat_APMPI*)C->product->data; 21554222ddf1SHong Zhang if (ptap) { 21564222ddf1SHong Zhang ptap->Pt = At; 21576718818eSStefano Zampini C->product->destroy = MatDestroy_MPIAIJ_PtAP; 21584222ddf1SHong Zhang } 21594222ddf1SHong Zhang C->ops->transposematmultnumeric = MatTransposeMatMultNumeric_MPIAIJ_MPIAIJ_matmatmult; 21604222ddf1SHong Zhang goto next; 21614222ddf1SHong Zhang } 21624222ddf1SHong Zhang 21634e84afc0SStefano Zampini /* backend general code */ 21644e84afc0SStefano Zampini ierr = PetscStrcmp(product->alg,"backend",&flg);CHKERRQ(ierr); 21654e84afc0SStefano Zampini if (flg) { 21664e84afc0SStefano Zampini ierr = MatProductSymbolic_MPIAIJBACKEND(C);CHKERRQ(ierr); 21674e84afc0SStefano Zampini PetscFunctionReturn(0); 21684e84afc0SStefano Zampini } 21694e84afc0SStefano Zampini 21704222ddf1SHong Zhang SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"MatProduct type is not supported"); 21714222ddf1SHong Zhang 21724222ddf1SHong Zhang next: 21734222ddf1SHong Zhang C->ops->productnumeric = MatProductNumeric_AtB; 21744222ddf1SHong Zhang PetscFunctionReturn(0); 21754222ddf1SHong Zhang } 21764222ddf1SHong Zhang 21774222ddf1SHong Zhang /* ---------------------------------------------------------------- */ 21784222ddf1SHong Zhang /* Set options for MatMatMultxxx_MPIAIJ_MPIAIJ */ 21794222ddf1SHong Zhang static PetscErrorCode MatProductSetFromOptions_MPIAIJ_AB(Mat C) 21804222ddf1SHong Zhang { 21814222ddf1SHong Zhang PetscErrorCode ierr; 21824222ddf1SHong Zhang Mat_Product *product = C->product; 21834222ddf1SHong Zhang Mat A=product->A,B=product->B; 21844222ddf1SHong Zhang #if defined(PETSC_HAVE_HYPRE) 21854e84afc0SStefano Zampini const char *algTypes[5] = {"scalable","nonscalable","seqmpi","backend","hypre"}; 21864e84afc0SStefano Zampini PetscInt nalg = 5; 21874222ddf1SHong Zhang #else 21884e84afc0SStefano Zampini const char *algTypes[4] = {"scalable","nonscalable","seqmpi","backend",}; 21894e84afc0SStefano Zampini PetscInt nalg = 4; 21904222ddf1SHong Zhang #endif 21914222ddf1SHong Zhang PetscInt alg = 1; /* set nonscalable algorithm as default */ 21924222ddf1SHong Zhang PetscBool flg; 21934222ddf1SHong Zhang MPI_Comm comm; 21944222ddf1SHong Zhang 21954222ddf1SHong Zhang PetscFunctionBegin; 21964222ddf1SHong Zhang /* Check matrix local sizes */ 21974222ddf1SHong Zhang ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 21984222ddf1SHong Zhang if (A->cmap->rstart != B->rmap->rstart || A->cmap->rend != B->rmap->rend) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",A->cmap->rstart,A->cmap->rend,B->rmap->rstart,B->rmap->rend); 21994222ddf1SHong Zhang 22004222ddf1SHong Zhang /* Set "nonscalable" as default algorithm */ 22014222ddf1SHong Zhang ierr = PetscStrcmp(C->product->alg,"default",&flg);CHKERRQ(ierr); 22024222ddf1SHong Zhang if (flg) { 22034222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 22044222ddf1SHong Zhang 22054222ddf1SHong Zhang /* Set "scalable" as default if BN and local nonzeros of A and B are large */ 22064222ddf1SHong Zhang if (B->cmap->N > 100000) { /* may switch to scalable algorithm as default */ 22074222ddf1SHong Zhang MatInfo Ainfo,Binfo; 22084222ddf1SHong Zhang PetscInt nz_local; 22094222ddf1SHong Zhang PetscBool alg_scalable_loc=PETSC_FALSE,alg_scalable; 22104222ddf1SHong Zhang 22114222ddf1SHong Zhang ierr = MatGetInfo(A,MAT_LOCAL,&Ainfo);CHKERRQ(ierr); 22124222ddf1SHong Zhang ierr = MatGetInfo(B,MAT_LOCAL,&Binfo);CHKERRQ(ierr); 22134222ddf1SHong Zhang nz_local = (PetscInt)(Ainfo.nz_allocated + Binfo.nz_allocated); 22144222ddf1SHong Zhang 22154222ddf1SHong Zhang if (B->cmap->N > product->fill*nz_local) alg_scalable_loc = PETSC_TRUE; 22164222ddf1SHong Zhang ierr = MPIU_Allreduce(&alg_scalable_loc,&alg_scalable,1,MPIU_BOOL,MPI_LOR,comm);CHKERRQ(ierr); 22174222ddf1SHong Zhang 22184222ddf1SHong Zhang if (alg_scalable) { 22194222ddf1SHong Zhang alg = 0; /* scalable algorithm would 50% slower than nonscalable algorithm */ 22204222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 22214222ddf1SHong Zhang ierr = PetscInfo2(B,"Use scalable algorithm, BN %D, fill*nz_allocated %g\n",B->cmap->N,product->fill*nz_local);CHKERRQ(ierr); 22224222ddf1SHong Zhang } 22234222ddf1SHong Zhang } 22244222ddf1SHong Zhang } 22254222ddf1SHong Zhang 22264222ddf1SHong Zhang /* Get runtime option */ 22274222ddf1SHong Zhang if (product->api_user) { 22284222ddf1SHong Zhang ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatMatMult","Mat");CHKERRQ(ierr); 22294222ddf1SHong Zhang ierr = PetscOptionsEList("-matmatmult_via","Algorithmic approach","MatMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 22304222ddf1SHong Zhang ierr = PetscOptionsEnd();CHKERRQ(ierr); 22314222ddf1SHong Zhang } else { 22324222ddf1SHong Zhang ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatProduct_AB","Mat");CHKERRQ(ierr); 22334222ddf1SHong Zhang ierr = PetscOptionsEList("-matproduct_ab_via","Algorithmic approach","MatMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 22344222ddf1SHong Zhang ierr = PetscOptionsEnd();CHKERRQ(ierr); 22354222ddf1SHong Zhang } 22364222ddf1SHong Zhang if (flg) { 22374222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 22384222ddf1SHong Zhang } 22394222ddf1SHong Zhang 22404222ddf1SHong Zhang C->ops->productsymbolic = MatProductSymbolic_AB_MPIAIJ_MPIAIJ; 22414222ddf1SHong Zhang PetscFunctionReturn(0); 22424222ddf1SHong Zhang } 22434222ddf1SHong Zhang 22444222ddf1SHong Zhang /* Set options for MatTransposeMatMultXXX_MPIAIJ_MPIAIJ */ 22454222ddf1SHong Zhang static PetscErrorCode MatProductSetFromOptions_MPIAIJ_AtB(Mat C) 22464222ddf1SHong Zhang { 22474222ddf1SHong Zhang PetscErrorCode ierr; 22484222ddf1SHong Zhang Mat_Product *product = C->product; 22494222ddf1SHong Zhang Mat A=product->A,B=product->B; 22504e84afc0SStefano Zampini const char *algTypes[4] = {"scalable","nonscalable","at*b","backend"}; 22514e84afc0SStefano Zampini PetscInt nalg = 4; 22524222ddf1SHong Zhang PetscInt alg = 1; /* set default algorithm */ 22534222ddf1SHong Zhang PetscBool flg; 22544222ddf1SHong Zhang MPI_Comm comm; 22554222ddf1SHong Zhang 22564222ddf1SHong Zhang PetscFunctionBegin; 22574222ddf1SHong Zhang /* Check matrix local sizes */ 22584222ddf1SHong Zhang ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 22594222ddf1SHong Zhang if (A->rmap->rstart != B->rmap->rstart || A->rmap->rend != B->rmap->rend) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, A (%D, %D) != B (%D,%D)",A->rmap->rstart,A->rmap->rend,B->rmap->rstart,B->rmap->rend); 22604222ddf1SHong Zhang 22614222ddf1SHong Zhang /* Set default algorithm */ 22624222ddf1SHong Zhang ierr = PetscStrcmp(C->product->alg,"default",&flg);CHKERRQ(ierr); 22634222ddf1SHong Zhang if (flg) { 22644222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 22654222ddf1SHong Zhang } 22664222ddf1SHong Zhang 22674222ddf1SHong Zhang /* Set "scalable" as default if BN and local nonzeros of A and B are large */ 22684222ddf1SHong Zhang if (alg && B->cmap->N > 100000) { /* may switch to scalable algorithm as default */ 22694222ddf1SHong Zhang MatInfo Ainfo,Binfo; 22704222ddf1SHong Zhang PetscInt nz_local; 22714222ddf1SHong Zhang PetscBool alg_scalable_loc=PETSC_FALSE,alg_scalable; 22724222ddf1SHong Zhang 22734222ddf1SHong Zhang ierr = MatGetInfo(A,MAT_LOCAL,&Ainfo);CHKERRQ(ierr); 22744222ddf1SHong Zhang ierr = MatGetInfo(B,MAT_LOCAL,&Binfo);CHKERRQ(ierr); 22754222ddf1SHong Zhang nz_local = (PetscInt)(Ainfo.nz_allocated + Binfo.nz_allocated); 22764222ddf1SHong Zhang 22774222ddf1SHong Zhang if (B->cmap->N > product->fill*nz_local) alg_scalable_loc = PETSC_TRUE; 22784222ddf1SHong Zhang ierr = MPIU_Allreduce(&alg_scalable_loc,&alg_scalable,1,MPIU_BOOL,MPI_LOR,comm);CHKERRQ(ierr); 22794222ddf1SHong Zhang 22804222ddf1SHong Zhang if (alg_scalable) { 22814222ddf1SHong Zhang alg = 0; /* scalable algorithm would 50% slower than nonscalable algorithm */ 22824222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 22834222ddf1SHong Zhang ierr = PetscInfo2(B,"Use scalable algorithm, BN %D, fill*nz_allocated %g\n",B->cmap->N,product->fill*nz_local);CHKERRQ(ierr); 22844222ddf1SHong Zhang } 22854222ddf1SHong Zhang } 22864222ddf1SHong Zhang 22874222ddf1SHong Zhang /* Get runtime option */ 22884222ddf1SHong Zhang if (product->api_user) { 22894222ddf1SHong Zhang ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatTransposeMatMult","Mat");CHKERRQ(ierr); 22904222ddf1SHong Zhang ierr = PetscOptionsEList("-mattransposematmult_via","Algorithmic approach","MatTransposeMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 22914222ddf1SHong Zhang ierr = PetscOptionsEnd();CHKERRQ(ierr); 22924222ddf1SHong Zhang } else { 22934222ddf1SHong Zhang ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatProduct_AtB","Mat");CHKERRQ(ierr); 22944222ddf1SHong Zhang ierr = PetscOptionsEList("-matproduct_atb_via","Algorithmic approach","MatTransposeMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 22954222ddf1SHong Zhang ierr = PetscOptionsEnd();CHKERRQ(ierr); 22964222ddf1SHong Zhang } 22974222ddf1SHong Zhang if (flg) { 22984222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 22994222ddf1SHong Zhang } 23004222ddf1SHong Zhang 23014222ddf1SHong Zhang C->ops->productsymbolic = MatProductSymbolic_AtB_MPIAIJ_MPIAIJ; 23024222ddf1SHong Zhang PetscFunctionReturn(0); 23034222ddf1SHong Zhang } 23044222ddf1SHong Zhang 23054222ddf1SHong Zhang static PetscErrorCode MatProductSetFromOptions_MPIAIJ_PtAP(Mat C) 23064222ddf1SHong Zhang { 23074222ddf1SHong Zhang PetscErrorCode ierr; 23084222ddf1SHong Zhang Mat_Product *product = C->product; 23094222ddf1SHong Zhang Mat A=product->A,P=product->B; 23104222ddf1SHong Zhang MPI_Comm comm; 23114222ddf1SHong Zhang PetscBool flg; 23124222ddf1SHong Zhang PetscInt alg=1; /* set default algorithm */ 23134222ddf1SHong Zhang #if !defined(PETSC_HAVE_HYPRE) 23144e84afc0SStefano Zampini const char *algTypes[5] = {"scalable","nonscalable","allatonce","allatonce_merged","backend"}; 23154222ddf1SHong Zhang PetscInt nalg=5; 23164e84afc0SStefano Zampini #else 23174e84afc0SStefano Zampini const char *algTypes[6] = {"scalable","nonscalable","allatonce","allatonce_merged","backend","hypre"}; 23184e84afc0SStefano Zampini PetscInt nalg=6; 23194222ddf1SHong Zhang #endif 23204222ddf1SHong Zhang PetscInt pN=P->cmap->N; 23214222ddf1SHong Zhang 23224222ddf1SHong Zhang PetscFunctionBegin; 23234222ddf1SHong Zhang /* Check matrix local sizes */ 23244222ddf1SHong Zhang ierr = PetscObjectGetComm((PetscObject)C,&comm);CHKERRQ(ierr); 23254222ddf1SHong Zhang if (A->rmap->rstart != P->rmap->rstart || A->rmap->rend != P->rmap->rend) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, Arow (%D, %D) != Prow (%D,%D)",A->rmap->rstart,A->rmap->rend,P->rmap->rstart,P->rmap->rend); 23264222ddf1SHong Zhang if (A->cmap->rstart != P->rmap->rstart || A->cmap->rend != P->rmap->rend) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, Acol (%D, %D) != Prow (%D,%D)",A->cmap->rstart,A->cmap->rend,P->rmap->rstart,P->rmap->rend); 23274222ddf1SHong Zhang 23284222ddf1SHong Zhang /* Set "nonscalable" as default algorithm */ 23294222ddf1SHong Zhang ierr = PetscStrcmp(C->product->alg,"default",&flg);CHKERRQ(ierr); 23304222ddf1SHong Zhang if (flg) { 23314222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 23324222ddf1SHong Zhang 23334222ddf1SHong Zhang /* Set "scalable" as default if BN and local nonzeros of A and B are large */ 23344222ddf1SHong Zhang if (pN > 100000) { 23354222ddf1SHong Zhang MatInfo Ainfo,Pinfo; 23364222ddf1SHong Zhang PetscInt nz_local; 23374222ddf1SHong Zhang PetscBool alg_scalable_loc=PETSC_FALSE,alg_scalable; 23384222ddf1SHong Zhang 23394222ddf1SHong Zhang ierr = MatGetInfo(A,MAT_LOCAL,&Ainfo);CHKERRQ(ierr); 23404222ddf1SHong Zhang ierr = MatGetInfo(P,MAT_LOCAL,&Pinfo);CHKERRQ(ierr); 23414222ddf1SHong Zhang nz_local = (PetscInt)(Ainfo.nz_allocated + Pinfo.nz_allocated); 23424222ddf1SHong Zhang 23434222ddf1SHong Zhang if (pN > product->fill*nz_local) alg_scalable_loc = PETSC_TRUE; 23444222ddf1SHong Zhang ierr = MPIU_Allreduce(&alg_scalable_loc,&alg_scalable,1,MPIU_BOOL,MPI_LOR,comm);CHKERRQ(ierr); 23454222ddf1SHong Zhang 23464222ddf1SHong Zhang if (alg_scalable) { 23474222ddf1SHong Zhang alg = 0; /* scalable algorithm would 50% slower than nonscalable algorithm */ 23484222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 23494222ddf1SHong Zhang } 23504222ddf1SHong Zhang } 23514222ddf1SHong Zhang } 23524222ddf1SHong Zhang 23534222ddf1SHong Zhang /* Get runtime option */ 23544222ddf1SHong Zhang if (product->api_user) { 23554222ddf1SHong Zhang ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatPtAP","Mat");CHKERRQ(ierr); 23564222ddf1SHong Zhang ierr = PetscOptionsEList("-matptap_via","Algorithmic approach","MatPtAP",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 23574222ddf1SHong Zhang ierr = PetscOptionsEnd();CHKERRQ(ierr); 23584222ddf1SHong Zhang } else { 23594222ddf1SHong Zhang ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatProduct_PtAP","Mat");CHKERRQ(ierr); 23604222ddf1SHong Zhang ierr = PetscOptionsEList("-matproduct_ptap_via","Algorithmic approach","MatPtAP",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 23614222ddf1SHong Zhang ierr = PetscOptionsEnd();CHKERRQ(ierr); 23624222ddf1SHong Zhang } 23634222ddf1SHong Zhang if (flg) { 23644222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 23654222ddf1SHong Zhang } 23664222ddf1SHong Zhang 23674222ddf1SHong Zhang C->ops->productsymbolic = MatProductSymbolic_PtAP_MPIAIJ_MPIAIJ; 23684222ddf1SHong Zhang PetscFunctionReturn(0); 23694222ddf1SHong Zhang } 23704222ddf1SHong Zhang 23714222ddf1SHong Zhang static PetscErrorCode MatProductSetFromOptions_MPIAIJ_RARt(Mat C) 23724222ddf1SHong Zhang { 23734222ddf1SHong Zhang Mat_Product *product = C->product; 23744222ddf1SHong Zhang Mat A = product->A,R=product->B; 23754222ddf1SHong Zhang 23764222ddf1SHong Zhang PetscFunctionBegin; 23774222ddf1SHong Zhang /* Check matrix local sizes */ 23784222ddf1SHong Zhang if (A->cmap->n != R->cmap->n || A->rmap->n != R->cmap->n) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, A local (%D, %D), R local (%D,%D)",A->rmap->n,A->rmap->n,R->rmap->n,R->cmap->n); 23794222ddf1SHong Zhang 23804222ddf1SHong Zhang C->ops->productsymbolic = MatProductSymbolic_RARt_MPIAIJ_MPIAIJ; 23814222ddf1SHong Zhang PetscFunctionReturn(0); 23824222ddf1SHong Zhang } 23834222ddf1SHong Zhang 23844222ddf1SHong Zhang /* 23854222ddf1SHong Zhang Set options for ABC = A*B*C = A*(B*C); ABC's algorithm must be chosen from AB's algorithm 23864222ddf1SHong Zhang */ 23874222ddf1SHong Zhang static PetscErrorCode MatProductSetFromOptions_MPIAIJ_ABC(Mat C) 23884222ddf1SHong Zhang { 23894222ddf1SHong Zhang PetscErrorCode ierr; 23904222ddf1SHong Zhang Mat_Product *product = C->product; 23914222ddf1SHong Zhang PetscBool flg = PETSC_FALSE; 23924222ddf1SHong Zhang PetscInt alg = 1; /* default algorithm */ 23934222ddf1SHong Zhang const char *algTypes[3] = {"scalable","nonscalable","seqmpi"}; 23944222ddf1SHong Zhang PetscInt nalg = 3; 23954222ddf1SHong Zhang 23964222ddf1SHong Zhang PetscFunctionBegin; 23974222ddf1SHong Zhang /* Set default algorithm */ 23984222ddf1SHong Zhang ierr = PetscStrcmp(C->product->alg,"default",&flg);CHKERRQ(ierr); 23994222ddf1SHong Zhang if (flg) { 24004222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 24014222ddf1SHong Zhang } 24024222ddf1SHong Zhang 24034222ddf1SHong Zhang /* Get runtime option */ 24044222ddf1SHong Zhang if (product->api_user) { 24054222ddf1SHong Zhang ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatMatMatMult","Mat");CHKERRQ(ierr); 24064222ddf1SHong Zhang ierr = PetscOptionsEList("-matmatmatmult_via","Algorithmic approach","MatMatMatMult",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 24074222ddf1SHong Zhang ierr = PetscOptionsEnd();CHKERRQ(ierr); 24084222ddf1SHong Zhang } else { 24094222ddf1SHong Zhang ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)C),((PetscObject)C)->prefix,"MatProduct_ABC","Mat");CHKERRQ(ierr); 24104222ddf1SHong Zhang ierr = PetscOptionsEList("-matproduct_abc_via","Algorithmic approach","MatProduct_ABC",algTypes,nalg,algTypes[alg],&alg,&flg);CHKERRQ(ierr); 24114222ddf1SHong Zhang ierr = PetscOptionsEnd();CHKERRQ(ierr); 24124222ddf1SHong Zhang } 24134222ddf1SHong Zhang if (flg) { 24144222ddf1SHong Zhang ierr = MatProductSetAlgorithm(C,(MatProductAlgorithm)algTypes[alg]);CHKERRQ(ierr); 24154222ddf1SHong Zhang } 24164222ddf1SHong Zhang 24174222ddf1SHong Zhang C->ops->matmatmultsymbolic = MatMatMatMultSymbolic_MPIAIJ_MPIAIJ_MPIAIJ; 24184222ddf1SHong Zhang C->ops->productsymbolic = MatProductSymbolic_ABC; 24194222ddf1SHong Zhang PetscFunctionReturn(0); 24204222ddf1SHong Zhang } 24214222ddf1SHong Zhang 24224222ddf1SHong Zhang PETSC_INTERN PetscErrorCode MatProductSetFromOptions_MPIAIJ(Mat C) 24234222ddf1SHong Zhang { 24244222ddf1SHong Zhang PetscErrorCode ierr; 24254222ddf1SHong Zhang Mat_Product *product = C->product; 24264222ddf1SHong Zhang 24274222ddf1SHong Zhang PetscFunctionBegin; 24284222ddf1SHong Zhang switch (product->type) { 24294222ddf1SHong Zhang case MATPRODUCT_AB: 24304222ddf1SHong Zhang ierr = MatProductSetFromOptions_MPIAIJ_AB(C);CHKERRQ(ierr); 24314222ddf1SHong Zhang break; 24324222ddf1SHong Zhang case MATPRODUCT_AtB: 24334222ddf1SHong Zhang ierr = MatProductSetFromOptions_MPIAIJ_AtB(C);CHKERRQ(ierr); 24344222ddf1SHong Zhang break; 24354222ddf1SHong Zhang case MATPRODUCT_PtAP: 24364222ddf1SHong Zhang ierr = MatProductSetFromOptions_MPIAIJ_PtAP(C);CHKERRQ(ierr); 24374222ddf1SHong Zhang break; 24384222ddf1SHong Zhang case MATPRODUCT_RARt: 24394222ddf1SHong Zhang ierr = MatProductSetFromOptions_MPIAIJ_RARt(C);CHKERRQ(ierr); 24404222ddf1SHong Zhang break; 24414222ddf1SHong Zhang case MATPRODUCT_ABC: 24424222ddf1SHong Zhang ierr = MatProductSetFromOptions_MPIAIJ_ABC(C);CHKERRQ(ierr); 24434222ddf1SHong Zhang break; 24446718818eSStefano Zampini default: 24456718818eSStefano Zampini break; 24464222ddf1SHong Zhang } 24474222ddf1SHong Zhang PetscFunctionReturn(0); 24484222ddf1SHong Zhang } 2449