1af0996ceSBarry Smith #include <petsc/private/sfimpl.h> /*I "petscsf.h" I*/ 2c4e6a40aSLawrence Mitchell #include <petsc/private/hashseti.h> 395fce210SBarry Smith #include <petscctable.h> 495fce210SBarry Smith 595fce210SBarry Smith #if defined(PETSC_USE_DEBUG) 695fce210SBarry Smith # define PetscSFCheckGraphSet(sf,arg) do { \ 795fce210SBarry Smith if (PetscUnlikely(!(sf)->graphset)) \ 8dd5b3ca6SJunchao Zhang SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Must call PetscSFSetGraph() or PetscSFSetGraphWithPattern() on argument %D \"%s\" before %s()",(arg),#sf,PETSC_FUNCTION_NAME); \ 995fce210SBarry Smith } while (0) 1095fce210SBarry Smith #else 1195fce210SBarry Smith # define PetscSFCheckGraphSet(sf,arg) do {} while (0) 1295fce210SBarry Smith #endif 1395fce210SBarry Smith 1495fce210SBarry Smith const char *const PetscSFDuplicateOptions[] = {"CONFONLY","RANKS","GRAPH","PetscSFDuplicateOption","PETSCSF_DUPLICATE_",0}; 1595fce210SBarry Smith 168af6ec1cSBarry Smith /*@ 1795fce210SBarry Smith PetscSFCreate - create a star forest communication context 1895fce210SBarry Smith 19d083f849SBarry Smith Collective 2095fce210SBarry Smith 2195fce210SBarry Smith Input Arguments: 2295fce210SBarry Smith . comm - communicator on which the star forest will operate 2395fce210SBarry Smith 2495fce210SBarry Smith Output Arguments: 2595fce210SBarry Smith . sf - new star forest context 2695fce210SBarry Smith 27dd5b3ca6SJunchao Zhang Options Database Keys: 28dd5b3ca6SJunchao Zhang + -sf_type basic -Use MPI persistent Isend/Irecv for communication (Default) 29dd5b3ca6SJunchao Zhang . -sf_type window -Use MPI-3 one-sided window for communication 30dd5b3ca6SJunchao Zhang - -sf_type neighbor -Use MPI-3 neighborhood collectives for communication 31dd5b3ca6SJunchao Zhang 3295fce210SBarry Smith Level: intermediate 3395fce210SBarry Smith 34dd5b3ca6SJunchao Zhang Notes: 35dd5b3ca6SJunchao Zhang When one knows the communication graph is one of the predefined graph, such as MPI_Alltoall, MPI_Allgatherv, 36dd5b3ca6SJunchao Zhang MPI_Gatherv, one can create a PetscSF and then set its graph with PetscSFSetGraphWithPattern(). These special 37dd5b3ca6SJunchao Zhang SFs are optimized and they have better performance than general SFs. 38dd5b3ca6SJunchao Zhang 39dd5b3ca6SJunchao Zhang .seealso: PetscSFSetGraph(), PetscSFSetGraphWithPattern(), PetscSFDestroy() 4095fce210SBarry Smith @*/ 4195fce210SBarry Smith PetscErrorCode PetscSFCreate(MPI_Comm comm,PetscSF *sf) 4295fce210SBarry Smith { 4395fce210SBarry Smith PetscErrorCode ierr; 4495fce210SBarry Smith PetscSF b; 4595fce210SBarry Smith 4695fce210SBarry Smith PetscFunctionBegin; 4795fce210SBarry Smith PetscValidPointer(sf,2); 48607a6623SBarry Smith ierr = PetscSFInitializePackage();CHKERRQ(ierr); 4995fce210SBarry Smith 5073107ff1SLisandro Dalcin ierr = PetscHeaderCreate(b,PETSCSF_CLASSID,"PetscSF","Star Forest","PetscSF",comm,PetscSFDestroy,PetscSFView);CHKERRQ(ierr); 5195fce210SBarry Smith 5295fce210SBarry Smith b->nroots = -1; 5395fce210SBarry Smith b->nleaves = -1; 5429046d53SLisandro Dalcin b->minleaf = PETSC_MAX_INT; 5529046d53SLisandro Dalcin b->maxleaf = PETSC_MIN_INT; 5695fce210SBarry Smith b->nranks = -1; 5795fce210SBarry Smith b->rankorder = PETSC_TRUE; 5895fce210SBarry Smith b->ingroup = MPI_GROUP_NULL; 5995fce210SBarry Smith b->outgroup = MPI_GROUP_NULL; 6095fce210SBarry Smith b->graphset = PETSC_FALSE; 6195fce210SBarry Smith 6295fce210SBarry Smith *sf = b; 6395fce210SBarry Smith PetscFunctionReturn(0); 6495fce210SBarry Smith } 6595fce210SBarry Smith 6629046d53SLisandro Dalcin /*@ 6795fce210SBarry Smith PetscSFReset - Reset a star forest so that different sizes or neighbors can be used 6895fce210SBarry Smith 6995fce210SBarry Smith Collective 7095fce210SBarry Smith 7195fce210SBarry Smith Input Arguments: 7295fce210SBarry Smith . sf - star forest 7395fce210SBarry Smith 7495fce210SBarry Smith Level: advanced 7595fce210SBarry Smith 7695fce210SBarry Smith .seealso: PetscSFCreate(), PetscSFSetGraph(), PetscSFDestroy() 7795fce210SBarry Smith @*/ 7895fce210SBarry Smith PetscErrorCode PetscSFReset(PetscSF sf) 7995fce210SBarry Smith { 8095fce210SBarry Smith PetscErrorCode ierr; 8195fce210SBarry Smith 8295fce210SBarry Smith PetscFunctionBegin; 8395fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 8479715d56SJed Brown if (sf->ops->Reset) {ierr = (*sf->ops->Reset)(sf);CHKERRQ(ierr);} 8529046d53SLisandro Dalcin sf->nroots = -1; 8629046d53SLisandro Dalcin sf->nleaves = -1; 8729046d53SLisandro Dalcin sf->minleaf = PETSC_MAX_INT; 8829046d53SLisandro Dalcin sf->maxleaf = PETSC_MIN_INT; 8995fce210SBarry Smith sf->mine = NULL; 9095fce210SBarry Smith sf->remote = NULL; 9129046d53SLisandro Dalcin sf->graphset = PETSC_FALSE; 9229046d53SLisandro Dalcin ierr = PetscFree(sf->mine_alloc);CHKERRQ(ierr); 9395fce210SBarry Smith ierr = PetscFree(sf->remote_alloc);CHKERRQ(ierr); 9421c688dcSJed Brown sf->nranks = -1; 9529046d53SLisandro Dalcin ierr = PetscFree4(sf->ranks,sf->roffset,sf->rmine,sf->rremote);CHKERRQ(ierr); 96eb02082bSJunchao Zhang #if defined(PETSC_HAVE_CUDA) 97cd620004SJunchao Zhang { 98cd620004SJunchao Zhang PetscInt i; 99cd620004SJunchao Zhang for (i=0; i<2; i++) {if (sf->rmine_d[i]) {cudaError_t err = cudaFree(sf->rmine_d[i]);CHKERRCUDA(err);sf->rmine_d[i]=NULL;}} 100cd620004SJunchao Zhang } 101eb02082bSJunchao Zhang #endif 10229046d53SLisandro Dalcin sf->degreeknown = PETSC_FALSE; 10395fce210SBarry Smith ierr = PetscFree(sf->degree);CHKERRQ(ierr); 10495fce210SBarry Smith if (sf->ingroup != MPI_GROUP_NULL) {ierr = MPI_Group_free(&sf->ingroup);CHKERRQ(ierr);} 10595fce210SBarry Smith if (sf->outgroup != MPI_GROUP_NULL) {ierr = MPI_Group_free(&sf->outgroup);CHKERRQ(ierr);} 10695fce210SBarry Smith ierr = PetscSFDestroy(&sf->multi);CHKERRQ(ierr); 107dd5b3ca6SJunchao Zhang ierr = PetscLayoutDestroy(&sf->map);CHKERRQ(ierr); 10895fce210SBarry Smith sf->setupcalled = PETSC_FALSE; 10995fce210SBarry Smith PetscFunctionReturn(0); 11095fce210SBarry Smith } 11195fce210SBarry Smith 11295fce210SBarry Smith /*@C 11329046d53SLisandro Dalcin PetscSFSetType - Set the PetscSF communication implementation 11495fce210SBarry Smith 11595fce210SBarry Smith Collective on PetscSF 11695fce210SBarry Smith 11795fce210SBarry Smith Input Parameters: 11895fce210SBarry Smith + sf - the PetscSF context 11995fce210SBarry Smith - type - a known method 12095fce210SBarry Smith 12195fce210SBarry Smith Options Database Key: 12295fce210SBarry Smith . -sf_type <type> - Sets the method; use -help for a list 12370616304SStefano Zampini of available methods (for instance, window, basic, neighbor) 12495fce210SBarry Smith 12595fce210SBarry Smith Notes: 12695fce210SBarry Smith See "include/petscsf.h" for available methods (for instance) 12795fce210SBarry Smith + PETSCSFWINDOW - MPI-2/3 one-sided 12895fce210SBarry Smith - PETSCSFBASIC - basic implementation using MPI-1 two-sided 12995fce210SBarry Smith 13095fce210SBarry Smith Level: intermediate 13195fce210SBarry Smith 13295fce210SBarry Smith .seealso: PetscSFType, PetscSFCreate() 13395fce210SBarry Smith @*/ 13495fce210SBarry Smith PetscErrorCode PetscSFSetType(PetscSF sf,PetscSFType type) 13595fce210SBarry Smith { 13695fce210SBarry Smith PetscErrorCode ierr,(*r)(PetscSF); 13795fce210SBarry Smith PetscBool match; 13895fce210SBarry Smith 13995fce210SBarry Smith PetscFunctionBegin; 14095fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 14195fce210SBarry Smith PetscValidCharPointer(type,2); 14295fce210SBarry Smith 14395fce210SBarry Smith ierr = PetscObjectTypeCompare((PetscObject)sf,type,&match);CHKERRQ(ierr); 14495fce210SBarry Smith if (match) PetscFunctionReturn(0); 14595fce210SBarry Smith 146adc40e5bSBarry Smith ierr = PetscFunctionListFind(PetscSFList,type,&r);CHKERRQ(ierr); 14795fce210SBarry Smith if (!r) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_UNKNOWN_TYPE,"Unable to find requested PetscSF type %s",type); 14829046d53SLisandro Dalcin /* Destroy the previous PetscSF implementation context */ 14929046d53SLisandro Dalcin if (sf->ops->Destroy) {ierr = (*(sf)->ops->Destroy)(sf);CHKERRQ(ierr);} 15095fce210SBarry Smith ierr = PetscMemzero(sf->ops,sizeof(*sf->ops));CHKERRQ(ierr); 15195fce210SBarry Smith ierr = PetscObjectChangeTypeName((PetscObject)sf,type);CHKERRQ(ierr); 15295fce210SBarry Smith ierr = (*r)(sf);CHKERRQ(ierr); 15395fce210SBarry Smith PetscFunctionReturn(0); 15495fce210SBarry Smith } 15595fce210SBarry Smith 15629046d53SLisandro Dalcin /*@C 15729046d53SLisandro Dalcin PetscSFGetType - Get the PetscSF communication implementation 15829046d53SLisandro Dalcin 15929046d53SLisandro Dalcin Not Collective 16029046d53SLisandro Dalcin 16129046d53SLisandro Dalcin Input Parameter: 16229046d53SLisandro Dalcin . sf - the PetscSF context 16329046d53SLisandro Dalcin 16429046d53SLisandro Dalcin Output Parameter: 16529046d53SLisandro Dalcin . type - the PetscSF type name 16629046d53SLisandro Dalcin 16729046d53SLisandro Dalcin Level: intermediate 16829046d53SLisandro Dalcin 16929046d53SLisandro Dalcin .seealso: PetscSFSetType(), PetscSFCreate() 17029046d53SLisandro Dalcin @*/ 17129046d53SLisandro Dalcin PetscErrorCode PetscSFGetType(PetscSF sf, PetscSFType *type) 17229046d53SLisandro Dalcin { 17329046d53SLisandro Dalcin PetscFunctionBegin; 17429046d53SLisandro Dalcin PetscValidHeaderSpecific(sf, PETSCSF_CLASSID,1); 17529046d53SLisandro Dalcin PetscValidPointer(type,2); 17629046d53SLisandro Dalcin *type = ((PetscObject)sf)->type_name; 17729046d53SLisandro Dalcin PetscFunctionReturn(0); 17829046d53SLisandro Dalcin } 17929046d53SLisandro Dalcin 180d36d33e4SMatthew G. Knepley /*@ 18195fce210SBarry Smith PetscSFDestroy - destroy star forest 18295fce210SBarry Smith 18395fce210SBarry Smith Collective 18495fce210SBarry Smith 18595fce210SBarry Smith Input Arguments: 18695fce210SBarry Smith . sf - address of star forest 18795fce210SBarry Smith 18895fce210SBarry Smith Level: intermediate 18995fce210SBarry Smith 19095fce210SBarry Smith .seealso: PetscSFCreate(), PetscSFReset() 19195fce210SBarry Smith @*/ 19295fce210SBarry Smith PetscErrorCode PetscSFDestroy(PetscSF *sf) 19395fce210SBarry Smith { 19495fce210SBarry Smith PetscErrorCode ierr; 19595fce210SBarry Smith 19695fce210SBarry Smith PetscFunctionBegin; 19795fce210SBarry Smith if (!*sf) PetscFunctionReturn(0); 19895fce210SBarry Smith PetscValidHeaderSpecific((*sf),PETSCSF_CLASSID,1); 19929046d53SLisandro Dalcin if (--((PetscObject)(*sf))->refct > 0) {*sf = NULL; PetscFunctionReturn(0);} 20095fce210SBarry Smith ierr = PetscSFReset(*sf);CHKERRQ(ierr); 20195fce210SBarry Smith if ((*sf)->ops->Destroy) {ierr = (*(*sf)->ops->Destroy)(*sf);CHKERRQ(ierr);} 20295fce210SBarry Smith ierr = PetscHeaderDestroy(sf);CHKERRQ(ierr); 20395fce210SBarry Smith PetscFunctionReturn(0); 20495fce210SBarry Smith } 20595fce210SBarry Smith 206c4e6a40aSLawrence Mitchell static PetscErrorCode PetscSFCheckGraphValid_Private(PetscSF sf) 207c4e6a40aSLawrence Mitchell { 208c4e6a40aSLawrence Mitchell #if defined(PETSC_USE_DEBUG) 209c4e6a40aSLawrence Mitchell PetscInt i, nleaves; 210c4e6a40aSLawrence Mitchell PetscMPIInt size; 211c4e6a40aSLawrence Mitchell const PetscInt *ilocal; 212c4e6a40aSLawrence Mitchell const PetscSFNode *iremote; 213c4e6a40aSLawrence Mitchell PetscErrorCode ierr; 214c4e6a40aSLawrence Mitchell 215c4e6a40aSLawrence Mitchell PetscFunctionBegin; 216c4e6a40aSLawrence Mitchell if (!sf->graphset) PetscFunctionReturn(0); 217c4e6a40aSLawrence Mitchell ierr = PetscSFGetGraph(sf,NULL,&nleaves,&ilocal,&iremote);CHKERRQ(ierr); 218c4e6a40aSLawrence Mitchell ierr = MPI_Comm_size(PetscObjectComm((PetscObject)sf),&size);CHKERRQ(ierr); 219c4e6a40aSLawrence Mitchell for (i = 0; i < nleaves; i++) { 220c4e6a40aSLawrence Mitchell const PetscInt rank = iremote[i].rank; 221c4e6a40aSLawrence Mitchell const PetscInt remote = iremote[i].index; 222c4e6a40aSLawrence Mitchell const PetscInt leaf = ilocal ? ilocal[i] : i; 223c4e6a40aSLawrence Mitchell if (rank < 0 || rank >= size) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Provided rank (%D) for remote %D is invalid, should be in [0, %d)",rank,i,size); 224c4e6a40aSLawrence Mitchell if (remote < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Provided index (%D) for remote %D is invalid, should be >= 0",remote,i); 225c4e6a40aSLawrence Mitchell if (leaf < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Provided location (%D) for leaf %D is invalid, should be >= 0",leaf,i); 226c4e6a40aSLawrence Mitchell } 227c4e6a40aSLawrence Mitchell PetscFunctionReturn(0); 228c4e6a40aSLawrence Mitchell #else 229c4e6a40aSLawrence Mitchell PetscFunctionBegin; 230c4e6a40aSLawrence Mitchell PetscFunctionReturn(0); 231c4e6a40aSLawrence Mitchell #endif 232c4e6a40aSLawrence Mitchell } 233c4e6a40aSLawrence Mitchell 23495fce210SBarry Smith /*@ 23595fce210SBarry Smith PetscSFSetUp - set up communication structures 23695fce210SBarry Smith 23795fce210SBarry Smith Collective 23895fce210SBarry Smith 23995fce210SBarry Smith Input Arguments: 24095fce210SBarry Smith . sf - star forest communication object 24195fce210SBarry Smith 24295fce210SBarry Smith Level: beginner 24395fce210SBarry Smith 24495fce210SBarry Smith .seealso: PetscSFSetFromOptions(), PetscSFSetType() 24595fce210SBarry Smith @*/ 24695fce210SBarry Smith PetscErrorCode PetscSFSetUp(PetscSF sf) 24795fce210SBarry Smith { 24895fce210SBarry Smith PetscErrorCode ierr; 24995fce210SBarry Smith 25095fce210SBarry Smith PetscFunctionBegin; 25129046d53SLisandro Dalcin PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 25229046d53SLisandro Dalcin PetscSFCheckGraphSet(sf,1); 25395fce210SBarry Smith if (sf->setupcalled) PetscFunctionReturn(0); 254c4e6a40aSLawrence Mitchell ierr = PetscSFCheckGraphValid_Private(sf);CHKERRQ(ierr); 25595fce210SBarry Smith if (!((PetscObject)sf)->type_name) {ierr = PetscSFSetType(sf,PETSCSFBASIC);CHKERRQ(ierr);} 25629046d53SLisandro Dalcin ierr = PetscLogEventBegin(PETSCSF_SetUp,sf,0,0,0);CHKERRQ(ierr); 25795fce210SBarry Smith if (sf->ops->SetUp) {ierr = (*sf->ops->SetUp)(sf);CHKERRQ(ierr);} 25829046d53SLisandro Dalcin ierr = PetscLogEventEnd(PETSCSF_SetUp,sf,0,0,0);CHKERRQ(ierr); 25995fce210SBarry Smith sf->setupcalled = PETSC_TRUE; 26095fce210SBarry Smith PetscFunctionReturn(0); 26195fce210SBarry Smith } 26295fce210SBarry Smith 2638af6ec1cSBarry Smith /*@ 26495fce210SBarry Smith PetscSFSetFromOptions - set PetscSF options using the options database 26595fce210SBarry Smith 26695fce210SBarry Smith Logically Collective 26795fce210SBarry Smith 26895fce210SBarry Smith Input Arguments: 26995fce210SBarry Smith . sf - star forest 27095fce210SBarry Smith 27195fce210SBarry Smith Options Database Keys: 27260263706SJed Brown + -sf_type - implementation type, see PetscSFSetType() 27351ccb202SJunchao Zhang . -sf_rank_order - sort composite points for gathers and scatters in rank order, gathers are non-deterministic otherwise 274cd620004SJunchao Zhang - -sf_use_default_stream - Assume callers of SF computed the input root/leafdata with the default cuda stream. SF will also 275cd620004SJunchao Zhang use the default stream to process data. Therefore, no stream synchronization is needed between SF and its caller. 27695fce210SBarry Smith 27795fce210SBarry Smith Level: intermediate 27895fce210SBarry Smith @*/ 27995fce210SBarry Smith PetscErrorCode PetscSFSetFromOptions(PetscSF sf) 28095fce210SBarry Smith { 28195fce210SBarry Smith PetscSFType deft; 28295fce210SBarry Smith char type[256]; 28395fce210SBarry Smith PetscErrorCode ierr; 28495fce210SBarry Smith PetscBool flg; 28595fce210SBarry Smith 28695fce210SBarry Smith PetscFunctionBegin; 28795fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 28895fce210SBarry Smith ierr = PetscObjectOptionsBegin((PetscObject)sf);CHKERRQ(ierr); 28995fce210SBarry Smith deft = ((PetscObject)sf)->type_name ? ((PetscObject)sf)->type_name : PETSCSFBASIC; 29029046d53SLisandro Dalcin ierr = PetscOptionsFList("-sf_type","PetscSF implementation type","PetscSFSetType",PetscSFList,deft,type,sizeof(type),&flg);CHKERRQ(ierr); 29195fce210SBarry Smith ierr = PetscSFSetType(sf,flg ? type : deft);CHKERRQ(ierr); 29295fce210SBarry Smith ierr = PetscOptionsBool("-sf_rank_order","sort composite points for gathers and scatters in rank order, gathers are non-deterministic otherwise","PetscSFSetRankOrder",sf->rankorder,&sf->rankorder,NULL);CHKERRQ(ierr); 293cd620004SJunchao Zhang sf->use_default_stream = PETSC_FALSE; 294cd620004SJunchao Zhang ierr = PetscOptionsBool("-sf_use_default_stream","Assume SF's input and output root/leafdata is computed on the default stream","PetscSFSetFromOptions",sf->use_default_stream,&sf->use_default_stream,NULL);CHKERRQ(ierr); 295e55864a3SBarry Smith if (sf->ops->SetFromOptions) {ierr = (*sf->ops->SetFromOptions)(PetscOptionsObject,sf);CHKERRQ(ierr);} 29695fce210SBarry Smith ierr = PetscOptionsEnd();CHKERRQ(ierr); 29795fce210SBarry Smith PetscFunctionReturn(0); 29895fce210SBarry Smith } 29995fce210SBarry Smith 30029046d53SLisandro Dalcin /*@ 30195fce210SBarry Smith PetscSFSetRankOrder - sort multi-points for gathers and scatters by rank order 30295fce210SBarry Smith 30395fce210SBarry Smith Logically Collective 30495fce210SBarry Smith 30595fce210SBarry Smith Input Arguments: 30695fce210SBarry Smith + sf - star forest 30795fce210SBarry Smith - flg - PETSC_TRUE to sort, PETSC_FALSE to skip sorting (lower setup cost, but non-deterministic) 30895fce210SBarry Smith 30995fce210SBarry Smith Level: advanced 31095fce210SBarry Smith 31195fce210SBarry Smith .seealso: PetscSFGatherBegin(), PetscSFScatterBegin() 31295fce210SBarry Smith @*/ 31395fce210SBarry Smith PetscErrorCode PetscSFSetRankOrder(PetscSF sf,PetscBool flg) 31495fce210SBarry Smith { 31595fce210SBarry Smith PetscFunctionBegin; 31695fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 31795fce210SBarry Smith PetscValidLogicalCollectiveBool(sf,flg,2); 31895fce210SBarry Smith if (sf->multi) SETERRQ(PetscObjectComm((PetscObject)sf),PETSC_ERR_ARG_WRONGSTATE,"Rank ordering must be set before first call to PetscSFGatherBegin() or PetscSFScatterBegin()"); 31995fce210SBarry Smith sf->rankorder = flg; 32095fce210SBarry Smith PetscFunctionReturn(0); 32195fce210SBarry Smith } 32295fce210SBarry Smith 3238af6ec1cSBarry Smith /*@ 32495fce210SBarry Smith PetscSFSetGraph - Set a parallel star forest 32595fce210SBarry Smith 32695fce210SBarry Smith Collective 32795fce210SBarry Smith 32895fce210SBarry Smith Input Arguments: 32995fce210SBarry Smith + sf - star forest 33095fce210SBarry Smith . nroots - number of root vertices on the current process (these are possible targets for other process to attach leaves) 33195fce210SBarry Smith . nleaves - number of leaf vertices on the current process, each of these references a root on any process 332c4e6a40aSLawrence Mitchell . ilocal - locations of leaves in leafdata buffers, pass NULL for contiguous storage (locations must be >= 0, enforced 333c4e6a40aSLawrence Mitchell during setup in debug mode) 33495fce210SBarry Smith . localmode - copy mode for ilocal 335c4e6a40aSLawrence Mitchell . iremote - remote locations of root vertices for each leaf on the current process (locations must be >= 0, enforced 336c4e6a40aSLawrence Mitchell during setup in debug mode) 33795fce210SBarry Smith - remotemode - copy mode for iremote 33895fce210SBarry Smith 33995fce210SBarry Smith Level: intermediate 34095fce210SBarry Smith 34195452b02SPatrick Sanan Notes: 34295452b02SPatrick Sanan In Fortran you must use PETSC_COPY_VALUES for localmode and remotemode 34338ab3f8aSBarry Smith 3442ad1e87fSLisandro Dalcin Developers Note: Local indices which are the identity permutation in the range [0,nleaves) are discarded as they 3452ad1e87fSLisandro Dalcin encode contiguous storage. In such case, if localmode is PETSC_OWN_POINTER, the memory is deallocated as it is not 3462ad1e87fSLisandro Dalcin needed 3472ad1e87fSLisandro Dalcin 348c4e6a40aSLawrence Mitchell Developers Note: This object does not necessarily encode a true star forest in the graph theoretic sense, since leaf 349c4e6a40aSLawrence Mitchell indices are not required to be unique. Some functions, however, rely on unique leaf indices (checked in debug mode). 350c4e6a40aSLawrence Mitchell 35195fce210SBarry Smith .seealso: PetscSFCreate(), PetscSFView(), PetscSFGetGraph() 35295fce210SBarry Smith @*/ 35395fce210SBarry Smith PetscErrorCode PetscSFSetGraph(PetscSF sf,PetscInt nroots,PetscInt nleaves,const PetscInt *ilocal,PetscCopyMode localmode,const PetscSFNode *iremote,PetscCopyMode remotemode) 35495fce210SBarry Smith { 35595fce210SBarry Smith PetscErrorCode ierr; 35695fce210SBarry Smith 35795fce210SBarry Smith PetscFunctionBegin; 35895fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 35929046d53SLisandro Dalcin if (nleaves > 0 && ilocal) PetscValidIntPointer(ilocal,4); 36029046d53SLisandro Dalcin if (nleaves > 0) PetscValidPointer(iremote,6); 36129046d53SLisandro Dalcin if (nroots < 0) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"nroots %D, cannot be negative",nroots); 36295fce210SBarry Smith if (nleaves < 0) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"nleaves %D, cannot be negative",nleaves); 36329046d53SLisandro Dalcin 3642a67d2daSStefano Zampini if (sf->nroots >= 0) { /* Reset only if graph already set */ 36595fce210SBarry Smith ierr = PetscSFReset(sf);CHKERRQ(ierr); 3662a67d2daSStefano Zampini } 3672a67d2daSStefano Zampini 36829046d53SLisandro Dalcin ierr = PetscLogEventBegin(PETSCSF_SetGraph,sf,0,0,0);CHKERRQ(ierr); 36929046d53SLisandro Dalcin 37095fce210SBarry Smith sf->nroots = nroots; 37195fce210SBarry Smith sf->nleaves = nleaves; 37229046d53SLisandro Dalcin 37329046d53SLisandro Dalcin if (nleaves && ilocal) { 37421c688dcSJed Brown PetscInt i; 37529046d53SLisandro Dalcin PetscInt minleaf = PETSC_MAX_INT; 37629046d53SLisandro Dalcin PetscInt maxleaf = PETSC_MIN_INT; 3772ad1e87fSLisandro Dalcin int contiguous = 1; 37829046d53SLisandro Dalcin for (i=0; i<nleaves; i++) { 37929046d53SLisandro Dalcin minleaf = PetscMin(minleaf,ilocal[i]); 38029046d53SLisandro Dalcin maxleaf = PetscMax(maxleaf,ilocal[i]); 3812ad1e87fSLisandro Dalcin contiguous &= (ilocal[i] == i); 38229046d53SLisandro Dalcin } 38329046d53SLisandro Dalcin sf->minleaf = minleaf; 38429046d53SLisandro Dalcin sf->maxleaf = maxleaf; 3852ad1e87fSLisandro Dalcin if (contiguous) { 3862ad1e87fSLisandro Dalcin if (localmode == PETSC_OWN_POINTER) { 3872ad1e87fSLisandro Dalcin ierr = PetscFree(ilocal);CHKERRQ(ierr); 3882ad1e87fSLisandro Dalcin } 3892ad1e87fSLisandro Dalcin ilocal = NULL; 3902ad1e87fSLisandro Dalcin } 39129046d53SLisandro Dalcin } else { 39229046d53SLisandro Dalcin sf->minleaf = 0; 39329046d53SLisandro Dalcin sf->maxleaf = nleaves - 1; 39429046d53SLisandro Dalcin } 39529046d53SLisandro Dalcin 39629046d53SLisandro Dalcin if (ilocal) { 39795fce210SBarry Smith switch (localmode) { 39895fce210SBarry Smith case PETSC_COPY_VALUES: 399785e854fSJed Brown ierr = PetscMalloc1(nleaves,&sf->mine_alloc);CHKERRQ(ierr); 400580bdb30SBarry Smith ierr = PetscArraycpy(sf->mine_alloc,ilocal,nleaves);CHKERRQ(ierr); 40195fce210SBarry Smith sf->mine = sf->mine_alloc; 40295fce210SBarry Smith break; 40395fce210SBarry Smith case PETSC_OWN_POINTER: 40495fce210SBarry Smith sf->mine_alloc = (PetscInt*)ilocal; 40595fce210SBarry Smith sf->mine = sf->mine_alloc; 40695fce210SBarry Smith break; 40795fce210SBarry Smith case PETSC_USE_POINTER: 40829046d53SLisandro Dalcin sf->mine_alloc = NULL; 40995fce210SBarry Smith sf->mine = (PetscInt*)ilocal; 41095fce210SBarry Smith break; 41195fce210SBarry Smith default: SETERRQ(PetscObjectComm((PetscObject)sf),PETSC_ERR_ARG_OUTOFRANGE,"Unknown localmode"); 41295fce210SBarry Smith } 41395fce210SBarry Smith } 41429046d53SLisandro Dalcin 41595fce210SBarry Smith switch (remotemode) { 41695fce210SBarry Smith case PETSC_COPY_VALUES: 417785e854fSJed Brown ierr = PetscMalloc1(nleaves,&sf->remote_alloc);CHKERRQ(ierr); 418580bdb30SBarry Smith ierr = PetscArraycpy(sf->remote_alloc,iremote,nleaves);CHKERRQ(ierr); 41995fce210SBarry Smith sf->remote = sf->remote_alloc; 42095fce210SBarry Smith break; 42195fce210SBarry Smith case PETSC_OWN_POINTER: 42295fce210SBarry Smith sf->remote_alloc = (PetscSFNode*)iremote; 42395fce210SBarry Smith sf->remote = sf->remote_alloc; 42495fce210SBarry Smith break; 42595fce210SBarry Smith case PETSC_USE_POINTER: 42629046d53SLisandro Dalcin sf->remote_alloc = NULL; 42795fce210SBarry Smith sf->remote = (PetscSFNode*)iremote; 42895fce210SBarry Smith break; 42995fce210SBarry Smith default: SETERRQ(PetscObjectComm((PetscObject)sf),PETSC_ERR_ARG_OUTOFRANGE,"Unknown remotemode"); 43095fce210SBarry Smith } 43195fce210SBarry Smith 432563ffbabSMatthew G. Knepley ierr = PetscLogEventEnd(PETSCSF_SetGraph,sf,0,0,0);CHKERRQ(ierr); 43329046d53SLisandro Dalcin sf->graphset = PETSC_TRUE; 43495fce210SBarry Smith PetscFunctionReturn(0); 43595fce210SBarry Smith } 43695fce210SBarry Smith 43729046d53SLisandro Dalcin /*@ 438dd5b3ca6SJunchao Zhang PetscSFSetGraphWithPattern - Sets the graph of an SF with a specific pattern 439dd5b3ca6SJunchao Zhang 440dd5b3ca6SJunchao Zhang Collective 441dd5b3ca6SJunchao Zhang 442dd5b3ca6SJunchao Zhang Input Parameters: 443dd5b3ca6SJunchao Zhang + sf - The PetscSF 444dd5b3ca6SJunchao Zhang . map - Layout of roots over all processes (insignificant when pattern is PETSCSF_PATTERN_ALLTOALL) 445dd5b3ca6SJunchao Zhang - pattern - One of PETSCSF_PATTERN_ALLGATHER, PETSCSF_PATTERN_GATHER, PETSCSF_PATTERN_ALLTOALL 446dd5b3ca6SJunchao Zhang 447dd5b3ca6SJunchao Zhang Notes: 448dd5b3ca6SJunchao Zhang It is easier to explain PetscSFPattern using vectors. Suppose we have an MPI vector x and its layout is map. 449dd5b3ca6SJunchao Zhang n and N are local and global sizes of x respectively. 450dd5b3ca6SJunchao Zhang 451dd5b3ca6SJunchao Zhang With PETSCSF_PATTERN_ALLGATHER, the routine creates a graph that if one does Bcast on it, it will copy x to 452dd5b3ca6SJunchao Zhang sequential vectors y on all ranks. 453dd5b3ca6SJunchao Zhang 454dd5b3ca6SJunchao Zhang With PETSCSF_PATTERN_GATHER, the routine creates a graph that if one does Bcast on it, it will copy x to a 455dd5b3ca6SJunchao Zhang sequential vector y on rank 0. 456dd5b3ca6SJunchao Zhang 457dd5b3ca6SJunchao Zhang In above cases, entries of x are roots and entries of y are leaves. 458dd5b3ca6SJunchao Zhang 459dd5b3ca6SJunchao Zhang With PETSCSF_PATTERN_ALLTOALL, map is insignificant. Suppose NP is size of sf's communicator. The routine 460dd5b3ca6SJunchao Zhang creates a graph that every rank has NP leaves and NP roots. On rank i, its leaf j is connected to root i 461dd5b3ca6SJunchao Zhang of rank j. Here 0 <=i,j<NP. It is a kind of MPI_Alltoall with sendcount/recvcount being 1. Note that it does 462dd5b3ca6SJunchao Zhang not mean one can not send multiple items. One just needs to create a new MPI datatype for the mulptiple data 463dd5b3ca6SJunchao Zhang items with MPI_Type_contiguous() and use that as the <unit> argument in SF routines. 464dd5b3ca6SJunchao Zhang 465dd5b3ca6SJunchao Zhang In this case, roots and leaves are symmetric. 466dd5b3ca6SJunchao Zhang 467dd5b3ca6SJunchao Zhang Level: intermediate 468dd5b3ca6SJunchao Zhang @*/ 469dd5b3ca6SJunchao Zhang PetscErrorCode PetscSFSetGraphWithPattern(PetscSF sf,PetscLayout map,PetscSFPattern pattern) 470dd5b3ca6SJunchao Zhang { 471dd5b3ca6SJunchao Zhang MPI_Comm comm; 472dd5b3ca6SJunchao Zhang PetscInt n,N,res[2]; 473dd5b3ca6SJunchao Zhang PetscMPIInt rank,size; 474dd5b3ca6SJunchao Zhang PetscSFType type; 475dd5b3ca6SJunchao Zhang PetscErrorCode ierr; 476dd5b3ca6SJunchao Zhang 477dd5b3ca6SJunchao Zhang PetscFunctionBegin; 478dd5b3ca6SJunchao Zhang ierr = PetscObjectGetComm((PetscObject)sf, &comm);CHKERRQ(ierr); 479dd5b3ca6SJunchao Zhang if (pattern < PETSCSF_PATTERN_ALLGATHER || pattern > PETSCSF_PATTERN_ALLTOALL) SETERRQ1(comm,PETSC_ERR_ARG_OUTOFRANGE,"Unsupported PetscSFPattern %D\n",pattern); 480dd5b3ca6SJunchao Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 481dd5b3ca6SJunchao Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 482dd5b3ca6SJunchao Zhang 483dd5b3ca6SJunchao Zhang if (pattern == PETSCSF_PATTERN_ALLTOALL) { 484dd5b3ca6SJunchao Zhang type = PETSCSFALLTOALL; 485dd5b3ca6SJunchao Zhang ierr = PetscLayoutCreate(comm,&sf->map);CHKERRQ(ierr); 486dd5b3ca6SJunchao Zhang ierr = PetscLayoutSetLocalSize(sf->map,size);CHKERRQ(ierr); 487dd5b3ca6SJunchao Zhang ierr = PetscLayoutSetSize(sf->map,((PetscInt)size)*size);CHKERRQ(ierr); 488dd5b3ca6SJunchao Zhang ierr = PetscLayoutSetUp(sf->map);CHKERRQ(ierr); 489dd5b3ca6SJunchao Zhang } else { 490dd5b3ca6SJunchao Zhang ierr = PetscLayoutGetLocalSize(map,&n);CHKERRQ(ierr); 491dd5b3ca6SJunchao Zhang ierr = PetscLayoutGetSize(map,&N);CHKERRQ(ierr); 492dd5b3ca6SJunchao Zhang res[0] = n; 493dd5b3ca6SJunchao Zhang res[1] = -n; 494dd5b3ca6SJunchao Zhang /* Check if n are same over all ranks so that we can optimize it */ 495dd5b3ca6SJunchao Zhang ierr = MPIU_Allreduce(MPI_IN_PLACE,res,2,MPIU_INT,MPI_MAX,comm);CHKERRQ(ierr); 496dd5b3ca6SJunchao Zhang if (res[0] == -res[1]) { /* same n */ 497dd5b3ca6SJunchao Zhang type = (pattern == PETSCSF_PATTERN_ALLGATHER) ? PETSCSFALLGATHER : PETSCSFGATHER; 498dd5b3ca6SJunchao Zhang } else { 499dd5b3ca6SJunchao Zhang type = (pattern == PETSCSF_PATTERN_ALLGATHER) ? PETSCSFALLGATHERV : PETSCSFGATHERV; 500dd5b3ca6SJunchao Zhang } 501dd5b3ca6SJunchao Zhang ierr = PetscLayoutReference(map,&sf->map);CHKERRQ(ierr); 502dd5b3ca6SJunchao Zhang } 503dd5b3ca6SJunchao Zhang ierr = PetscSFSetType(sf,type);CHKERRQ(ierr); 504dd5b3ca6SJunchao Zhang 505dd5b3ca6SJunchao Zhang sf->pattern = pattern; 506dd5b3ca6SJunchao Zhang sf->mine = NULL; /* Contiguous */ 507dd5b3ca6SJunchao Zhang 508dd5b3ca6SJunchao Zhang /* Set nleaves, nroots here in case user calls PetscSFGetGraph, which is legal to call even before PetscSFSetUp is called. 509dd5b3ca6SJunchao Zhang Also set other easy stuff. 510dd5b3ca6SJunchao Zhang */ 511dd5b3ca6SJunchao Zhang if (pattern == PETSCSF_PATTERN_ALLGATHER) { 512dd5b3ca6SJunchao Zhang sf->nleaves = N; 513dd5b3ca6SJunchao Zhang sf->nroots = n; 514dd5b3ca6SJunchao Zhang sf->nranks = size; 515dd5b3ca6SJunchao Zhang sf->minleaf = 0; 516dd5b3ca6SJunchao Zhang sf->maxleaf = N - 1; 517dd5b3ca6SJunchao Zhang } else if (pattern == PETSCSF_PATTERN_GATHER) { 518dd5b3ca6SJunchao Zhang sf->nleaves = rank ? 0 : N; 519dd5b3ca6SJunchao Zhang sf->nroots = n; 520dd5b3ca6SJunchao Zhang sf->nranks = rank ? 0 : size; 521dd5b3ca6SJunchao Zhang sf->minleaf = 0; 522dd5b3ca6SJunchao Zhang sf->maxleaf = rank ? -1 : N - 1; 523dd5b3ca6SJunchao Zhang } else if (pattern == PETSCSF_PATTERN_ALLTOALL) { 524dd5b3ca6SJunchao Zhang sf->nleaves = size; 525dd5b3ca6SJunchao Zhang sf->nroots = size; 526dd5b3ca6SJunchao Zhang sf->nranks = size; 527dd5b3ca6SJunchao Zhang sf->minleaf = 0; 528dd5b3ca6SJunchao Zhang sf->maxleaf = size - 1; 529dd5b3ca6SJunchao Zhang } 530dd5b3ca6SJunchao Zhang sf->ndranks = 0; /* We do not need to separate out distinguished ranks for patterned graphs to improve communication performance */ 531dd5b3ca6SJunchao Zhang sf->graphset = PETSC_TRUE; 532dd5b3ca6SJunchao Zhang PetscFunctionReturn(0); 533dd5b3ca6SJunchao Zhang } 534dd5b3ca6SJunchao Zhang 535dd5b3ca6SJunchao Zhang /*@ 53695fce210SBarry Smith PetscSFCreateInverseSF - given a PetscSF in which all vertices have degree 1, creates the inverse map 53795fce210SBarry Smith 53895fce210SBarry Smith Collective 53995fce210SBarry Smith 54095fce210SBarry Smith Input Arguments: 541dd5b3ca6SJunchao Zhang 54295fce210SBarry Smith . sf - star forest to invert 54395fce210SBarry Smith 54495fce210SBarry Smith Output Arguments: 54595fce210SBarry Smith . isf - inverse of sf 54695fce210SBarry Smith Level: advanced 54795fce210SBarry Smith 54895fce210SBarry Smith Notes: 54995fce210SBarry Smith All roots must have degree 1. 55095fce210SBarry Smith 55195fce210SBarry Smith The local space may be a permutation, but cannot be sparse. 55295fce210SBarry Smith 55395fce210SBarry Smith .seealso: PetscSFSetGraph() 55495fce210SBarry Smith @*/ 55595fce210SBarry Smith PetscErrorCode PetscSFCreateInverseSF(PetscSF sf,PetscSF *isf) 55695fce210SBarry Smith { 55795fce210SBarry Smith PetscErrorCode ierr; 55895fce210SBarry Smith PetscMPIInt rank; 55995fce210SBarry Smith PetscInt i,nroots,nleaves,maxlocal,count,*newilocal; 56095fce210SBarry Smith const PetscInt *ilocal; 56195fce210SBarry Smith PetscSFNode *roots,*leaves; 56295fce210SBarry Smith 56395fce210SBarry Smith PetscFunctionBegin; 56429046d53SLisandro Dalcin PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 56529046d53SLisandro Dalcin PetscSFCheckGraphSet(sf,1); 56629046d53SLisandro Dalcin PetscValidPointer(isf,2); 56729046d53SLisandro Dalcin 56895fce210SBarry Smith ierr = PetscSFGetGraph(sf,&nroots,&nleaves,&ilocal,NULL);CHKERRQ(ierr); 56929046d53SLisandro Dalcin maxlocal = sf->maxleaf+1; /* TODO: We should use PetscSFGetLeafRange() */ 57029046d53SLisandro Dalcin 57129046d53SLisandro Dalcin ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)sf),&rank);CHKERRQ(ierr); 572ae9aee6dSMatthew G. Knepley ierr = PetscMalloc2(nroots,&roots,maxlocal,&leaves);CHKERRQ(ierr); 573ae9aee6dSMatthew G. Knepley for (i=0; i<maxlocal; i++) { 57495fce210SBarry Smith leaves[i].rank = rank; 57595fce210SBarry Smith leaves[i].index = i; 57695fce210SBarry Smith } 57795fce210SBarry Smith for (i=0; i <nroots; i++) { 57895fce210SBarry Smith roots[i].rank = -1; 57995fce210SBarry Smith roots[i].index = -1; 58095fce210SBarry Smith } 5818bfbc91cSJed Brown ierr = PetscSFReduceBegin(sf,MPIU_2INT,leaves,roots,MPIU_REPLACE);CHKERRQ(ierr); 5828bfbc91cSJed Brown ierr = PetscSFReduceEnd(sf,MPIU_2INT,leaves,roots,MPIU_REPLACE);CHKERRQ(ierr); 58395fce210SBarry Smith 58495fce210SBarry Smith /* Check whether our leaves are sparse */ 58595fce210SBarry Smith for (i=0,count=0; i<nroots; i++) if (roots[i].rank >= 0) count++; 58695fce210SBarry Smith if (count == nroots) newilocal = NULL; 58795fce210SBarry Smith else { /* Index for sparse leaves and compact "roots" array (which is to become our leaves). */ 588785e854fSJed Brown ierr = PetscMalloc1(count,&newilocal);CHKERRQ(ierr); 58995fce210SBarry Smith for (i=0,count=0; i<nroots; i++) { 59095fce210SBarry Smith if (roots[i].rank >= 0) { 59195fce210SBarry Smith newilocal[count] = i; 59295fce210SBarry Smith roots[count].rank = roots[i].rank; 59395fce210SBarry Smith roots[count].index = roots[i].index; 59495fce210SBarry Smith count++; 59595fce210SBarry Smith } 59695fce210SBarry Smith } 59795fce210SBarry Smith } 59895fce210SBarry Smith 59995fce210SBarry Smith ierr = PetscSFDuplicate(sf,PETSCSF_DUPLICATE_CONFONLY,isf);CHKERRQ(ierr); 60095fce210SBarry Smith ierr = PetscSFSetGraph(*isf,maxlocal,count,newilocal,PETSC_OWN_POINTER,roots,PETSC_COPY_VALUES);CHKERRQ(ierr); 60195fce210SBarry Smith ierr = PetscFree2(roots,leaves);CHKERRQ(ierr); 60295fce210SBarry Smith PetscFunctionReturn(0); 60395fce210SBarry Smith } 60495fce210SBarry Smith 60595fce210SBarry Smith /*@ 60695fce210SBarry Smith PetscSFDuplicate - duplicate a PetscSF, optionally preserving rank connectivity and graph 60795fce210SBarry Smith 60895fce210SBarry Smith Collective 60995fce210SBarry Smith 61095fce210SBarry Smith Input Arguments: 61195fce210SBarry Smith + sf - communication object to duplicate 61295fce210SBarry Smith - opt - PETSCSF_DUPLICATE_CONFONLY, PETSCSF_DUPLICATE_RANKS, or PETSCSF_DUPLICATE_GRAPH (see PetscSFDuplicateOption) 61395fce210SBarry Smith 61495fce210SBarry Smith Output Arguments: 61595fce210SBarry Smith . newsf - new communication object 61695fce210SBarry Smith 61795fce210SBarry Smith Level: beginner 61895fce210SBarry Smith 61995fce210SBarry Smith .seealso: PetscSFCreate(), PetscSFSetType(), PetscSFSetGraph() 62095fce210SBarry Smith @*/ 62195fce210SBarry Smith PetscErrorCode PetscSFDuplicate(PetscSF sf,PetscSFDuplicateOption opt,PetscSF *newsf) 62295fce210SBarry Smith { 62329046d53SLisandro Dalcin PetscSFType type; 62495fce210SBarry Smith PetscErrorCode ierr; 62595fce210SBarry Smith 62695fce210SBarry Smith PetscFunctionBegin; 62729046d53SLisandro Dalcin PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 62829046d53SLisandro Dalcin PetscValidLogicalCollectiveEnum(sf,opt,2); 62929046d53SLisandro Dalcin PetscValidPointer(newsf,3); 63095fce210SBarry Smith ierr = PetscSFCreate(PetscObjectComm((PetscObject)sf),newsf);CHKERRQ(ierr); 63129046d53SLisandro Dalcin ierr = PetscSFGetType(sf,&type);CHKERRQ(ierr); 63229046d53SLisandro Dalcin if (type) {ierr = PetscSFSetType(*newsf,type);CHKERRQ(ierr);} 63395fce210SBarry Smith if (opt == PETSCSF_DUPLICATE_GRAPH) { 634dd5b3ca6SJunchao Zhang PetscSFCheckGraphSet(sf,1); 635dd5b3ca6SJunchao Zhang if (sf->pattern == PETSCSF_PATTERN_GENERAL) { 63695fce210SBarry Smith PetscInt nroots,nleaves; 63795fce210SBarry Smith const PetscInt *ilocal; 63895fce210SBarry Smith const PetscSFNode *iremote; 63995fce210SBarry Smith ierr = PetscSFGetGraph(sf,&nroots,&nleaves,&ilocal,&iremote);CHKERRQ(ierr); 64095fce210SBarry Smith ierr = PetscSFSetGraph(*newsf,nroots,nleaves,ilocal,PETSC_COPY_VALUES,iremote,PETSC_COPY_VALUES);CHKERRQ(ierr); 641dd5b3ca6SJunchao Zhang } else { 642dd5b3ca6SJunchao Zhang ierr = PetscSFSetGraphWithPattern(*newsf,sf->map,sf->pattern);CHKERRQ(ierr); 643dd5b3ca6SJunchao Zhang } 64495fce210SBarry Smith } 64529046d53SLisandro Dalcin if (sf->ops->Duplicate) {ierr = (*sf->ops->Duplicate)(sf,opt,*newsf);CHKERRQ(ierr);} 64695fce210SBarry Smith PetscFunctionReturn(0); 64795fce210SBarry Smith } 64895fce210SBarry Smith 64995fce210SBarry Smith /*@C 65095fce210SBarry Smith PetscSFGetGraph - Get the graph specifying a parallel star forest 65195fce210SBarry Smith 65295fce210SBarry Smith Not Collective 65395fce210SBarry Smith 65495fce210SBarry Smith Input Arguments: 65595fce210SBarry Smith . sf - star forest 65695fce210SBarry Smith 65795fce210SBarry Smith Output Arguments: 65895fce210SBarry Smith + nroots - number of root vertices on the current process (these are possible targets for other process to attach leaves) 65995fce210SBarry Smith . nleaves - number of leaf vertices on the current process, each of these references a root on any process 66095fce210SBarry Smith . ilocal - locations of leaves in leafdata buffers 66195fce210SBarry Smith - iremote - remote locations of root vertices for each leaf on the current process 66295fce210SBarry Smith 663373e0d91SLisandro Dalcin Notes: 664373e0d91SLisandro Dalcin We are not currently requiring that the graph is set, thus returning nroots=-1 if it has not been set yet 665373e0d91SLisandro Dalcin 666245d9833Sprj- When called from Fortran, the returned iremote array is a copy and must be deallocated after use. Consequently, if you 667ca797d7aSLawrence Mitchell want to update the graph, you must call PetscSFSetGraph after modifying the iremote array. 668ca797d7aSLawrence Mitchell 66995fce210SBarry Smith Level: intermediate 67095fce210SBarry Smith 67195fce210SBarry Smith .seealso: PetscSFCreate(), PetscSFView(), PetscSFSetGraph() 67295fce210SBarry Smith @*/ 67395fce210SBarry Smith PetscErrorCode PetscSFGetGraph(PetscSF sf,PetscInt *nroots,PetscInt *nleaves,const PetscInt **ilocal,const PetscSFNode **iremote) 67495fce210SBarry Smith { 675b8dee149SJunchao Zhang PetscErrorCode ierr; 67695fce210SBarry Smith 67795fce210SBarry Smith PetscFunctionBegin; 67895fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 679b8dee149SJunchao Zhang if (sf->ops->GetGraph) { 680b8dee149SJunchao Zhang ierr = (sf->ops->GetGraph)(sf,nroots,nleaves,ilocal,iremote);CHKERRQ(ierr); 681b8dee149SJunchao Zhang } else { 68295fce210SBarry Smith if (nroots) *nroots = sf->nroots; 68395fce210SBarry Smith if (nleaves) *nleaves = sf->nleaves; 68495fce210SBarry Smith if (ilocal) *ilocal = sf->mine; 68595fce210SBarry Smith if (iremote) *iremote = sf->remote; 686b8dee149SJunchao Zhang } 68795fce210SBarry Smith PetscFunctionReturn(0); 68895fce210SBarry Smith } 68995fce210SBarry Smith 69029046d53SLisandro Dalcin /*@ 69195fce210SBarry Smith PetscSFGetLeafRange - Get the active leaf ranges 69295fce210SBarry Smith 69395fce210SBarry Smith Not Collective 69495fce210SBarry Smith 69595fce210SBarry Smith Input Arguments: 69695fce210SBarry Smith . sf - star forest 69795fce210SBarry Smith 69895fce210SBarry Smith Output Arguments: 699dd5b3ca6SJunchao Zhang + minleaf - minimum active leaf on this process. Return 0 if there are no leaves. 700dd5b3ca6SJunchao Zhang - maxleaf - maximum active leaf on this process. Return -1 if there are no leaves. 70195fce210SBarry Smith 70295fce210SBarry Smith Level: developer 70395fce210SBarry Smith 70495fce210SBarry Smith .seealso: PetscSFCreate(), PetscSFView(), PetscSFSetGraph(), PetscSFGetGraph() 70595fce210SBarry Smith @*/ 70695fce210SBarry Smith PetscErrorCode PetscSFGetLeafRange(PetscSF sf,PetscInt *minleaf,PetscInt *maxleaf) 70795fce210SBarry Smith { 70895fce210SBarry Smith 70995fce210SBarry Smith PetscFunctionBegin; 71095fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 71129046d53SLisandro Dalcin PetscSFCheckGraphSet(sf,1); 71295fce210SBarry Smith if (minleaf) *minleaf = sf->minleaf; 71395fce210SBarry Smith if (maxleaf) *maxleaf = sf->maxleaf; 71495fce210SBarry Smith PetscFunctionReturn(0); 71595fce210SBarry Smith } 71695fce210SBarry Smith 71795fce210SBarry Smith /*@C 718fe2efc57SMark PetscSFViewFromOptions - View from Options 719fe2efc57SMark 720fe2efc57SMark Collective on PetscSF 721fe2efc57SMark 722fe2efc57SMark Input Parameters: 723fe2efc57SMark + A - the star forest 724736c3998SJose E. Roman . obj - Optional object 725736c3998SJose E. Roman - name - command line option 726fe2efc57SMark 727fe2efc57SMark Level: intermediate 728fe2efc57SMark .seealso: PetscSF, PetscSFView, PetscObjectViewFromOptions(), PetscSFCreate() 729fe2efc57SMark @*/ 730fe2efc57SMark PetscErrorCode PetscSFViewFromOptions(PetscSF A,PetscObject obj,const char name[]) 731fe2efc57SMark { 732fe2efc57SMark PetscErrorCode ierr; 733fe2efc57SMark 734fe2efc57SMark PetscFunctionBegin; 735fe2efc57SMark PetscValidHeaderSpecific(A,PETSCSF_CLASSID,1); 736fe2efc57SMark ierr = PetscObjectViewFromOptions((PetscObject)A,obj,name);CHKERRQ(ierr); 737fe2efc57SMark PetscFunctionReturn(0); 738fe2efc57SMark } 739fe2efc57SMark 740fe2efc57SMark /*@C 74195fce210SBarry Smith PetscSFView - view a star forest 74295fce210SBarry Smith 74395fce210SBarry Smith Collective 74495fce210SBarry Smith 74595fce210SBarry Smith Input Arguments: 74695fce210SBarry Smith + sf - star forest 74795fce210SBarry Smith - viewer - viewer to display graph, for example PETSC_VIEWER_STDOUT_WORLD 74895fce210SBarry Smith 74995fce210SBarry Smith Level: beginner 75095fce210SBarry Smith 75195fce210SBarry Smith .seealso: PetscSFCreate(), PetscSFSetGraph() 75295fce210SBarry Smith @*/ 75395fce210SBarry Smith PetscErrorCode PetscSFView(PetscSF sf,PetscViewer viewer) 75495fce210SBarry Smith { 75595fce210SBarry Smith PetscErrorCode ierr; 75695fce210SBarry Smith PetscBool iascii; 75795fce210SBarry Smith PetscViewerFormat format; 75895fce210SBarry Smith 75995fce210SBarry Smith PetscFunctionBegin; 76095fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 76195fce210SBarry Smith if (!viewer) {ierr = PetscViewerASCIIGetStdout(PetscObjectComm((PetscObject)sf),&viewer);CHKERRQ(ierr);} 76295fce210SBarry Smith PetscValidHeaderSpecific(viewer,PETSC_VIEWER_CLASSID,2); 76395fce210SBarry Smith PetscCheckSameComm(sf,1,viewer,2); 76480153354SVaclav Hapla if (sf->graphset) {ierr = PetscSFSetUp(sf);CHKERRQ(ierr);} 76595fce210SBarry Smith ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&iascii);CHKERRQ(ierr); 76695fce210SBarry Smith if (iascii) { 76795fce210SBarry Smith PetscMPIInt rank; 76881bfa7aaSJed Brown PetscInt ii,i,j; 76995fce210SBarry Smith 770dae58748SBarry Smith ierr = PetscObjectPrintClassNamePrefixType((PetscObject)sf,viewer);CHKERRQ(ierr); 77195fce210SBarry Smith ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 77295fce210SBarry Smith if (sf->ops->View) {ierr = (*sf->ops->View)(sf,viewer);CHKERRQ(ierr);} 773dd5b3ca6SJunchao Zhang if (sf->pattern == PETSCSF_PATTERN_GENERAL) { 77480153354SVaclav Hapla if (!sf->graphset) { 77580153354SVaclav Hapla ierr = PetscViewerASCIIPrintf(viewer,"PetscSFSetGraph() has not been called yet\n");CHKERRQ(ierr); 77680153354SVaclav Hapla ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 77780153354SVaclav Hapla PetscFunctionReturn(0); 77880153354SVaclav Hapla } 77995fce210SBarry Smith ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)sf),&rank);CHKERRQ(ierr); 7801575c14dSBarry Smith ierr = PetscViewerASCIIPushSynchronized(viewer);CHKERRQ(ierr); 78195fce210SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Number of roots=%D, leaves=%D, remote ranks=%D\n",rank,sf->nroots,sf->nleaves,sf->nranks);CHKERRQ(ierr); 78295fce210SBarry Smith for (i=0; i<sf->nleaves; i++) { 78395fce210SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] %D <- (%D,%D)\n",rank,sf->mine ? sf->mine[i] : i,sf->remote[i].rank,sf->remote[i].index);CHKERRQ(ierr); 78495fce210SBarry Smith } 78595fce210SBarry Smith ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 78695fce210SBarry Smith ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 78795fce210SBarry Smith if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 78881bfa7aaSJed Brown PetscMPIInt *tmpranks,*perm; 78981bfa7aaSJed Brown ierr = PetscMalloc2(sf->nranks,&tmpranks,sf->nranks,&perm);CHKERRQ(ierr); 790580bdb30SBarry Smith ierr = PetscArraycpy(tmpranks,sf->ranks,sf->nranks);CHKERRQ(ierr); 79181bfa7aaSJed Brown for (i=0; i<sf->nranks; i++) perm[i] = i; 79281bfa7aaSJed Brown ierr = PetscSortMPIIntWithArray(sf->nranks,tmpranks,perm);CHKERRQ(ierr); 79395fce210SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Roots referenced by my leaves, by rank\n",rank);CHKERRQ(ierr); 79481bfa7aaSJed Brown for (ii=0; ii<sf->nranks; ii++) { 79581bfa7aaSJed Brown i = perm[ii]; 7967904a332SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] %d: %D edges\n",rank,sf->ranks[i],sf->roffset[i+1]-sf->roffset[i]);CHKERRQ(ierr); 79795fce210SBarry Smith for (j=sf->roffset[i]; j<sf->roffset[i+1]; j++) { 79895fce210SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] %D <- %D\n",rank,sf->rmine[j],sf->rremote[j]);CHKERRQ(ierr); 79995fce210SBarry Smith } 80095fce210SBarry Smith } 80181bfa7aaSJed Brown ierr = PetscFree2(tmpranks,perm);CHKERRQ(ierr); 80295fce210SBarry Smith } 80395fce210SBarry Smith ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 8041575c14dSBarry Smith ierr = PetscViewerASCIIPopSynchronized(viewer);CHKERRQ(ierr); 805dd5b3ca6SJunchao Zhang } 80695fce210SBarry Smith ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 80795fce210SBarry Smith } 80895fce210SBarry Smith PetscFunctionReturn(0); 80995fce210SBarry Smith } 81095fce210SBarry Smith 81195fce210SBarry Smith /*@C 812dec1416fSJunchao Zhang PetscSFGetRootRanks - Get root ranks and number of vertices referenced by leaves on this process 81395fce210SBarry Smith 81495fce210SBarry Smith Not Collective 81595fce210SBarry Smith 81695fce210SBarry Smith Input Arguments: 81795fce210SBarry Smith . sf - star forest 81895fce210SBarry Smith 81995fce210SBarry Smith Output Arguments: 82095fce210SBarry Smith + nranks - number of ranks referenced by local part 82195fce210SBarry Smith . ranks - array of ranks 82295fce210SBarry Smith . roffset - offset in rmine/rremote for each rank (length nranks+1) 82395fce210SBarry Smith . rmine - concatenated array holding local indices referencing each remote rank 82495fce210SBarry Smith - rremote - concatenated array holding remote indices referenced for each remote rank 82595fce210SBarry Smith 82695fce210SBarry Smith Level: developer 82795fce210SBarry Smith 828dec1416fSJunchao Zhang .seealso: PetscSFGetLeafRanks() 82995fce210SBarry Smith @*/ 830dec1416fSJunchao Zhang PetscErrorCode PetscSFGetRootRanks(PetscSF sf,PetscInt *nranks,const PetscMPIInt **ranks,const PetscInt **roffset,const PetscInt **rmine,const PetscInt **rremote) 83195fce210SBarry Smith { 832dec1416fSJunchao Zhang PetscErrorCode ierr; 83395fce210SBarry Smith 83495fce210SBarry Smith PetscFunctionBegin; 83595fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 83629046d53SLisandro Dalcin if (!sf->setupcalled) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Must call PetscSFSetUp() before obtaining ranks"); 837dec1416fSJunchao Zhang if (sf->ops->GetRootRanks) { 838dec1416fSJunchao Zhang ierr = (sf->ops->GetRootRanks)(sf,nranks,ranks,roffset,rmine,rremote);CHKERRQ(ierr); 839dec1416fSJunchao Zhang } else { 840dec1416fSJunchao Zhang /* The generic implementation */ 84195fce210SBarry Smith if (nranks) *nranks = sf->nranks; 84295fce210SBarry Smith if (ranks) *ranks = sf->ranks; 84395fce210SBarry Smith if (roffset) *roffset = sf->roffset; 84495fce210SBarry Smith if (rmine) *rmine = sf->rmine; 84595fce210SBarry Smith if (rremote) *rremote = sf->rremote; 846dec1416fSJunchao Zhang } 84795fce210SBarry Smith PetscFunctionReturn(0); 84895fce210SBarry Smith } 84995fce210SBarry Smith 8508750ddebSJunchao Zhang /*@C 8518750ddebSJunchao Zhang PetscSFGetLeafRanks - Get leaf ranks referencing roots on this process 8528750ddebSJunchao Zhang 8538750ddebSJunchao Zhang Not Collective 8548750ddebSJunchao Zhang 8558750ddebSJunchao Zhang Input Arguments: 8568750ddebSJunchao Zhang . sf - star forest 8578750ddebSJunchao Zhang 8588750ddebSJunchao Zhang Output Arguments: 8598750ddebSJunchao Zhang + niranks - number of leaf ranks referencing roots on this process 8608750ddebSJunchao Zhang . iranks - array of ranks 8618750ddebSJunchao Zhang . ioffset - offset in irootloc for each rank (length niranks+1) 8628750ddebSJunchao Zhang - irootloc - concatenated array holding local indices of roots referenced by each leaf rank 8638750ddebSJunchao Zhang 8648750ddebSJunchao Zhang Level: developer 8658750ddebSJunchao Zhang 866dec1416fSJunchao Zhang .seealso: PetscSFGetRootRanks() 8678750ddebSJunchao Zhang @*/ 8688750ddebSJunchao Zhang PetscErrorCode PetscSFGetLeafRanks(PetscSF sf,PetscInt *niranks,const PetscMPIInt **iranks,const PetscInt **ioffset,const PetscInt **irootloc) 8698750ddebSJunchao Zhang { 8708750ddebSJunchao Zhang PetscErrorCode ierr; 8718750ddebSJunchao Zhang 8728750ddebSJunchao Zhang PetscFunctionBegin; 8738750ddebSJunchao Zhang PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 8748750ddebSJunchao Zhang if (!sf->setupcalled) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Must call PetscSFSetUp() before obtaining ranks"); 8758750ddebSJunchao Zhang if (sf->ops->GetLeafRanks) { 8768750ddebSJunchao Zhang ierr = (sf->ops->GetLeafRanks)(sf,niranks,iranks,ioffset,irootloc);CHKERRQ(ierr); 8778750ddebSJunchao Zhang } else { 8788750ddebSJunchao Zhang PetscSFType type; 8798750ddebSJunchao Zhang ierr = PetscSFGetType(sf,&type);CHKERRQ(ierr); 8808750ddebSJunchao Zhang SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"PetscSFGetLeafRanks() is not supported on this StarForest type: %s", type); 8818750ddebSJunchao Zhang } 8828750ddebSJunchao Zhang PetscFunctionReturn(0); 8838750ddebSJunchao Zhang } 8848750ddebSJunchao Zhang 885b5a8e515SJed Brown static PetscBool InList(PetscMPIInt needle,PetscMPIInt n,const PetscMPIInt *list) { 886b5a8e515SJed Brown PetscInt i; 887b5a8e515SJed Brown for (i=0; i<n; i++) { 888b5a8e515SJed Brown if (needle == list[i]) return PETSC_TRUE; 889b5a8e515SJed Brown } 890b5a8e515SJed Brown return PETSC_FALSE; 891b5a8e515SJed Brown } 892b5a8e515SJed Brown 89395fce210SBarry Smith /*@C 89421c688dcSJed Brown PetscSFSetUpRanks - Set up data structures associated with ranks; this is for internal use by PetscSF implementations. 89521c688dcSJed Brown 89621c688dcSJed Brown Collective 89721c688dcSJed Brown 89821c688dcSJed Brown Input Arguments: 899b5a8e515SJed Brown + sf - PetscSF to set up; PetscSFSetGraph() must have been called 900b5a8e515SJed Brown - dgroup - MPI_Group of ranks to be distinguished (e.g., for self or shared memory exchange) 90121c688dcSJed Brown 90221c688dcSJed Brown Level: developer 90321c688dcSJed Brown 904dec1416fSJunchao Zhang .seealso: PetscSFGetRootRanks() 90521c688dcSJed Brown @*/ 906b5a8e515SJed Brown PetscErrorCode PetscSFSetUpRanks(PetscSF sf,MPI_Group dgroup) 90721c688dcSJed Brown { 90821c688dcSJed Brown PetscErrorCode ierr; 90921c688dcSJed Brown PetscTable table; 91021c688dcSJed Brown PetscTablePosition pos; 911b5a8e515SJed Brown PetscMPIInt size,groupsize,*groupranks; 912247e8311SStefano Zampini PetscInt *rcount,*ranks; 913247e8311SStefano Zampini PetscInt i, irank = -1,orank = -1; 91421c688dcSJed Brown 91521c688dcSJed Brown PetscFunctionBegin; 91621c688dcSJed Brown PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 91729046d53SLisandro Dalcin PetscSFCheckGraphSet(sf,1); 91821c688dcSJed Brown ierr = MPI_Comm_size(PetscObjectComm((PetscObject)sf),&size);CHKERRQ(ierr); 91921c688dcSJed Brown ierr = PetscTableCreate(10,size,&table);CHKERRQ(ierr); 92021c688dcSJed Brown for (i=0; i<sf->nleaves; i++) { 92121c688dcSJed Brown /* Log 1-based rank */ 92221c688dcSJed Brown ierr = PetscTableAdd(table,sf->remote[i].rank+1,1,ADD_VALUES);CHKERRQ(ierr); 92321c688dcSJed Brown } 92421c688dcSJed Brown ierr = PetscTableGetCount(table,&sf->nranks);CHKERRQ(ierr); 92521c688dcSJed Brown ierr = PetscMalloc4(sf->nranks,&sf->ranks,sf->nranks+1,&sf->roffset,sf->nleaves,&sf->rmine,sf->nleaves,&sf->rremote);CHKERRQ(ierr); 92621c688dcSJed Brown ierr = PetscMalloc2(sf->nranks,&rcount,sf->nranks,&ranks);CHKERRQ(ierr); 92721c688dcSJed Brown ierr = PetscTableGetHeadPosition(table,&pos);CHKERRQ(ierr); 92821c688dcSJed Brown for (i=0; i<sf->nranks; i++) { 92921c688dcSJed Brown ierr = PetscTableGetNext(table,&pos,&ranks[i],&rcount[i]);CHKERRQ(ierr); 93021c688dcSJed Brown ranks[i]--; /* Convert back to 0-based */ 93121c688dcSJed Brown } 93221c688dcSJed Brown ierr = PetscTableDestroy(&table);CHKERRQ(ierr); 933b5a8e515SJed Brown 934b5a8e515SJed Brown /* We expect that dgroup is reliably "small" while nranks could be large */ 935b5a8e515SJed Brown { 9367fb8a5e4SKarl Rupp MPI_Group group = MPI_GROUP_NULL; 937b5a8e515SJed Brown PetscMPIInt *dgroupranks; 938b5a8e515SJed Brown ierr = MPI_Comm_group(PetscObjectComm((PetscObject)sf),&group);CHKERRQ(ierr); 939b5a8e515SJed Brown ierr = MPI_Group_size(dgroup,&groupsize);CHKERRQ(ierr); 940b5a8e515SJed Brown ierr = PetscMalloc1(groupsize,&dgroupranks);CHKERRQ(ierr); 941b5a8e515SJed Brown ierr = PetscMalloc1(groupsize,&groupranks);CHKERRQ(ierr); 942b5a8e515SJed Brown for (i=0; i<groupsize; i++) dgroupranks[i] = i; 943f3fc9a17SJed Brown if (groupsize) {ierr = MPI_Group_translate_ranks(dgroup,groupsize,dgroupranks,group,groupranks);CHKERRQ(ierr);} 944b5a8e515SJed Brown ierr = MPI_Group_free(&group);CHKERRQ(ierr); 945b5a8e515SJed Brown ierr = PetscFree(dgroupranks);CHKERRQ(ierr); 946b5a8e515SJed Brown } 947b5a8e515SJed Brown 948b5a8e515SJed Brown /* Partition ranks[] into distinguished (first sf->ndranks) followed by non-distinguished */ 949b5a8e515SJed Brown for (sf->ndranks=0,i=sf->nranks; sf->ndranks<i; ) { 950b5a8e515SJed Brown for (i--; sf->ndranks<i; i--) { /* Scan i backward looking for distinguished rank */ 951b5a8e515SJed Brown if (InList(ranks[i],groupsize,groupranks)) break; 952b5a8e515SJed Brown } 953b5a8e515SJed Brown for ( ; sf->ndranks<=i; sf->ndranks++) { /* Scan sf->ndranks forward looking for non-distinguished rank */ 954b5a8e515SJed Brown if (!InList(ranks[sf->ndranks],groupsize,groupranks)) break; 955b5a8e515SJed Brown } 956b5a8e515SJed Brown if (sf->ndranks < i) { /* Swap ranks[sf->ndranks] with ranks[i] */ 957b5a8e515SJed Brown PetscInt tmprank,tmpcount; 958247e8311SStefano Zampini 959b5a8e515SJed Brown tmprank = ranks[i]; 960b5a8e515SJed Brown tmpcount = rcount[i]; 961b5a8e515SJed Brown ranks[i] = ranks[sf->ndranks]; 962b5a8e515SJed Brown rcount[i] = rcount[sf->ndranks]; 963b5a8e515SJed Brown ranks[sf->ndranks] = tmprank; 964b5a8e515SJed Brown rcount[sf->ndranks] = tmpcount; 965b5a8e515SJed Brown sf->ndranks++; 966b5a8e515SJed Brown } 967b5a8e515SJed Brown } 968b5a8e515SJed Brown ierr = PetscFree(groupranks);CHKERRQ(ierr); 969b5a8e515SJed Brown ierr = PetscSortIntWithArray(sf->ndranks,ranks,rcount);CHKERRQ(ierr); 970b5a8e515SJed Brown ierr = PetscSortIntWithArray(sf->nranks-sf->ndranks,ranks+sf->ndranks,rcount+sf->ndranks);CHKERRQ(ierr); 97121c688dcSJed Brown sf->roffset[0] = 0; 97221c688dcSJed Brown for (i=0; i<sf->nranks; i++) { 97321c688dcSJed Brown ierr = PetscMPIIntCast(ranks[i],sf->ranks+i);CHKERRQ(ierr); 97421c688dcSJed Brown sf->roffset[i+1] = sf->roffset[i] + rcount[i]; 97521c688dcSJed Brown rcount[i] = 0; 97621c688dcSJed Brown } 977247e8311SStefano Zampini for (i=0, irank = -1, orank = -1; i<sf->nleaves; i++) { 978247e8311SStefano Zampini /* short circuit */ 979247e8311SStefano Zampini if (orank != sf->remote[i].rank) { 98021c688dcSJed Brown /* Search for index of iremote[i].rank in sf->ranks */ 981b5a8e515SJed Brown ierr = PetscFindMPIInt(sf->remote[i].rank,sf->ndranks,sf->ranks,&irank);CHKERRQ(ierr); 982b5a8e515SJed Brown if (irank < 0) { 983b5a8e515SJed Brown ierr = PetscFindMPIInt(sf->remote[i].rank,sf->nranks-sf->ndranks,sf->ranks+sf->ndranks,&irank);CHKERRQ(ierr); 984b5a8e515SJed Brown if (irank >= 0) irank += sf->ndranks; 98521c688dcSJed Brown } 986247e8311SStefano Zampini orank = sf->remote[i].rank; 987247e8311SStefano Zampini } 988b5a8e515SJed Brown if (irank < 0) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Could not find rank %D in array",sf->remote[i].rank); 98921c688dcSJed Brown sf->rmine[sf->roffset[irank] + rcount[irank]] = sf->mine ? sf->mine[i] : i; 99021c688dcSJed Brown sf->rremote[sf->roffset[irank] + rcount[irank]] = sf->remote[i].index; 99121c688dcSJed Brown rcount[irank]++; 99221c688dcSJed Brown } 99321c688dcSJed Brown ierr = PetscFree2(rcount,ranks);CHKERRQ(ierr); 99421c688dcSJed Brown PetscFunctionReturn(0); 99521c688dcSJed Brown } 99621c688dcSJed Brown 99721c688dcSJed Brown /*@C 99895fce210SBarry Smith PetscSFGetGroups - gets incoming and outgoing process groups 99995fce210SBarry Smith 100095fce210SBarry Smith Collective 100195fce210SBarry Smith 100295fce210SBarry Smith Input Argument: 100395fce210SBarry Smith . sf - star forest 100495fce210SBarry Smith 100595fce210SBarry Smith Output Arguments: 100695fce210SBarry Smith + incoming - group of origin processes for incoming edges (leaves that reference my roots) 100795fce210SBarry Smith - outgoing - group of destination processes for outgoing edges (roots that I reference) 100895fce210SBarry Smith 100995fce210SBarry Smith Level: developer 101095fce210SBarry Smith 101195fce210SBarry Smith .seealso: PetscSFGetWindow(), PetscSFRestoreWindow() 101295fce210SBarry Smith @*/ 101395fce210SBarry Smith PetscErrorCode PetscSFGetGroups(PetscSF sf,MPI_Group *incoming,MPI_Group *outgoing) 101495fce210SBarry Smith { 101595fce210SBarry Smith PetscErrorCode ierr; 10167fb8a5e4SKarl Rupp MPI_Group group = MPI_GROUP_NULL; 101795fce210SBarry Smith 101895fce210SBarry Smith PetscFunctionBegin; 101944ee17edSStefano Zampini if (sf->nranks < 0) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Must call PetscSFSetUpRanks() before obtaining groups"); 102095fce210SBarry Smith if (sf->ingroup == MPI_GROUP_NULL) { 102195fce210SBarry Smith PetscInt i; 102295fce210SBarry Smith const PetscInt *indegree; 102395fce210SBarry Smith PetscMPIInt rank,*outranks,*inranks; 102495fce210SBarry Smith PetscSFNode *remote; 102595fce210SBarry Smith PetscSF bgcount; 102695fce210SBarry Smith 102795fce210SBarry Smith /* Compute the number of incoming ranks */ 1028785e854fSJed Brown ierr = PetscMalloc1(sf->nranks,&remote);CHKERRQ(ierr); 102995fce210SBarry Smith for (i=0; i<sf->nranks; i++) { 103095fce210SBarry Smith remote[i].rank = sf->ranks[i]; 103195fce210SBarry Smith remote[i].index = 0; 103295fce210SBarry Smith } 103395fce210SBarry Smith ierr = PetscSFDuplicate(sf,PETSCSF_DUPLICATE_CONFONLY,&bgcount);CHKERRQ(ierr); 103495fce210SBarry Smith ierr = PetscSFSetGraph(bgcount,1,sf->nranks,NULL,PETSC_COPY_VALUES,remote,PETSC_OWN_POINTER);CHKERRQ(ierr); 103595fce210SBarry Smith ierr = PetscSFComputeDegreeBegin(bgcount,&indegree);CHKERRQ(ierr); 103695fce210SBarry Smith ierr = PetscSFComputeDegreeEnd(bgcount,&indegree);CHKERRQ(ierr); 103795fce210SBarry Smith /* Enumerate the incoming ranks */ 1038dcca6d9dSJed Brown ierr = PetscMalloc2(indegree[0],&inranks,sf->nranks,&outranks);CHKERRQ(ierr); 103995fce210SBarry Smith ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)sf),&rank);CHKERRQ(ierr); 104095fce210SBarry Smith for (i=0; i<sf->nranks; i++) outranks[i] = rank; 104195fce210SBarry Smith ierr = PetscSFGatherBegin(bgcount,MPI_INT,outranks,inranks);CHKERRQ(ierr); 104295fce210SBarry Smith ierr = PetscSFGatherEnd(bgcount,MPI_INT,outranks,inranks);CHKERRQ(ierr); 104395fce210SBarry Smith ierr = MPI_Comm_group(PetscObjectComm((PetscObject)sf),&group);CHKERRQ(ierr); 104495fce210SBarry Smith ierr = MPI_Group_incl(group,indegree[0],inranks,&sf->ingroup);CHKERRQ(ierr); 104595fce210SBarry Smith ierr = MPI_Group_free(&group);CHKERRQ(ierr); 104695fce210SBarry Smith ierr = PetscFree2(inranks,outranks);CHKERRQ(ierr); 104795fce210SBarry Smith ierr = PetscSFDestroy(&bgcount);CHKERRQ(ierr); 104895fce210SBarry Smith } 104995fce210SBarry Smith *incoming = sf->ingroup; 105095fce210SBarry Smith 105195fce210SBarry Smith if (sf->outgroup == MPI_GROUP_NULL) { 105295fce210SBarry Smith ierr = MPI_Comm_group(PetscObjectComm((PetscObject)sf),&group);CHKERRQ(ierr); 105395fce210SBarry Smith ierr = MPI_Group_incl(group,sf->nranks,sf->ranks,&sf->outgroup);CHKERRQ(ierr); 105495fce210SBarry Smith ierr = MPI_Group_free(&group);CHKERRQ(ierr); 105595fce210SBarry Smith } 105695fce210SBarry Smith *outgoing = sf->outgroup; 105795fce210SBarry Smith PetscFunctionReturn(0); 105895fce210SBarry Smith } 105995fce210SBarry Smith 106029046d53SLisandro Dalcin /*@ 106195fce210SBarry Smith PetscSFGetMultiSF - gets the inner SF implemeting gathers and scatters 106295fce210SBarry Smith 106395fce210SBarry Smith Collective 106495fce210SBarry Smith 106595fce210SBarry Smith Input Argument: 106695fce210SBarry Smith . sf - star forest that may contain roots with 0 or with more than 1 vertex 106795fce210SBarry Smith 106895fce210SBarry Smith Output Arguments: 106995fce210SBarry Smith . multi - star forest with split roots, such that each root has degree exactly 1 107095fce210SBarry Smith 107195fce210SBarry Smith Level: developer 107295fce210SBarry Smith 107395fce210SBarry Smith Notes: 107495fce210SBarry Smith 107595fce210SBarry Smith In most cases, users should use PetscSFGatherBegin() and PetscSFScatterBegin() instead of manipulating multi 107695fce210SBarry Smith directly. Since multi satisfies the stronger condition that each entry in the global space has exactly one incoming 107795fce210SBarry Smith edge, it is a candidate for future optimization that might involve its removal. 107895fce210SBarry Smith 1079673100f5SVaclav Hapla .seealso: PetscSFSetGraph(), PetscSFGatherBegin(), PetscSFScatterBegin(), PetscSFComputeMultiRootOriginalNumbering() 108095fce210SBarry Smith @*/ 108195fce210SBarry Smith PetscErrorCode PetscSFGetMultiSF(PetscSF sf,PetscSF *multi) 108295fce210SBarry Smith { 108395fce210SBarry Smith PetscErrorCode ierr; 108495fce210SBarry Smith 108595fce210SBarry Smith PetscFunctionBegin; 108695fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 108795fce210SBarry Smith PetscValidPointer(multi,2); 108895fce210SBarry Smith if (sf->nroots < 0) { /* Graph has not been set yet; why do we need this? */ 108995fce210SBarry Smith ierr = PetscSFDuplicate(sf,PETSCSF_DUPLICATE_RANKS,&sf->multi);CHKERRQ(ierr); 109095fce210SBarry Smith *multi = sf->multi; 109195fce210SBarry Smith PetscFunctionReturn(0); 109295fce210SBarry Smith } 109395fce210SBarry Smith if (!sf->multi) { 109495fce210SBarry Smith const PetscInt *indegree; 10959837ea96SMatthew G. Knepley PetscInt i,*inoffset,*outones,*outoffset,maxlocal; 109695fce210SBarry Smith PetscSFNode *remote; 109729046d53SLisandro Dalcin maxlocal = sf->maxleaf+1; /* TODO: We should use PetscSFGetLeafRange() */ 109895fce210SBarry Smith ierr = PetscSFComputeDegreeBegin(sf,&indegree);CHKERRQ(ierr); 109995fce210SBarry Smith ierr = PetscSFComputeDegreeEnd(sf,&indegree);CHKERRQ(ierr); 11009837ea96SMatthew G. Knepley ierr = PetscMalloc3(sf->nroots+1,&inoffset,maxlocal,&outones,maxlocal,&outoffset);CHKERRQ(ierr); 110195fce210SBarry Smith inoffset[0] = 0; 110295fce210SBarry Smith for (i=0; i<sf->nroots; i++) inoffset[i+1] = inoffset[i] + indegree[i]; 11039837ea96SMatthew G. Knepley for (i=0; i<maxlocal; i++) outones[i] = 1; 1104dbd2ff41SBarry Smith ierr = PetscSFFetchAndOpBegin(sf,MPIU_INT,inoffset,outones,outoffset,MPI_SUM);CHKERRQ(ierr); 1105dbd2ff41SBarry Smith ierr = PetscSFFetchAndOpEnd(sf,MPIU_INT,inoffset,outones,outoffset,MPI_SUM);CHKERRQ(ierr); 110695fce210SBarry Smith for (i=0; i<sf->nroots; i++) inoffset[i] -= indegree[i]; /* Undo the increment */ 110795fce210SBarry Smith #if defined(PETSC_USE_DEBUG) /* Check that the expected number of increments occurred */ 110895fce210SBarry Smith for (i=0; i<sf->nroots; i++) { 110995fce210SBarry Smith if (inoffset[i] + indegree[i] != inoffset[i+1]) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Incorrect result after PetscSFFetchAndOp"); 111095fce210SBarry Smith } 111195fce210SBarry Smith #endif 1112785e854fSJed Brown ierr = PetscMalloc1(sf->nleaves,&remote);CHKERRQ(ierr); 111395fce210SBarry Smith for (i=0; i<sf->nleaves; i++) { 111495fce210SBarry Smith remote[i].rank = sf->remote[i].rank; 111538e7336fSToby Isaac remote[i].index = outoffset[sf->mine ? sf->mine[i] : i]; 111695fce210SBarry Smith } 111795fce210SBarry Smith ierr = PetscSFDuplicate(sf,PETSCSF_DUPLICATE_RANKS,&sf->multi);CHKERRQ(ierr); 111801365b40SToby Isaac ierr = PetscSFSetGraph(sf->multi,inoffset[sf->nroots],sf->nleaves,sf->mine,PETSC_COPY_VALUES,remote,PETSC_OWN_POINTER);CHKERRQ(ierr); 111995fce210SBarry Smith if (sf->rankorder) { /* Sort the ranks */ 112095fce210SBarry Smith PetscMPIInt rank; 112195fce210SBarry Smith PetscInt *inranks,*newoffset,*outranks,*newoutoffset,*tmpoffset,maxdegree; 112295fce210SBarry Smith PetscSFNode *newremote; 112395fce210SBarry Smith ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)sf),&rank);CHKERRQ(ierr); 112495fce210SBarry Smith for (i=0,maxdegree=0; i<sf->nroots; i++) maxdegree = PetscMax(maxdegree,indegree[i]); 11259837ea96SMatthew G. Knepley ierr = PetscMalloc5(sf->multi->nroots,&inranks,sf->multi->nroots,&newoffset,maxlocal,&outranks,maxlocal,&newoutoffset,maxdegree,&tmpoffset);CHKERRQ(ierr); 11269837ea96SMatthew G. Knepley for (i=0; i<maxlocal; i++) outranks[i] = rank; 11278bfbc91cSJed Brown ierr = PetscSFReduceBegin(sf->multi,MPIU_INT,outranks,inranks,MPIU_REPLACE);CHKERRQ(ierr); 11288bfbc91cSJed Brown ierr = PetscSFReduceEnd(sf->multi,MPIU_INT,outranks,inranks,MPIU_REPLACE);CHKERRQ(ierr); 112995fce210SBarry Smith /* Sort the incoming ranks at each vertex, build the inverse map */ 113095fce210SBarry Smith for (i=0; i<sf->nroots; i++) { 113195fce210SBarry Smith PetscInt j; 113295fce210SBarry Smith for (j=0; j<indegree[i]; j++) tmpoffset[j] = j; 113395fce210SBarry Smith ierr = PetscSortIntWithArray(indegree[i],inranks+inoffset[i],tmpoffset);CHKERRQ(ierr); 113495fce210SBarry Smith for (j=0; j<indegree[i]; j++) newoffset[inoffset[i] + tmpoffset[j]] = inoffset[i] + j; 113595fce210SBarry Smith } 113695fce210SBarry Smith ierr = PetscSFBcastBegin(sf->multi,MPIU_INT,newoffset,newoutoffset);CHKERRQ(ierr); 113795fce210SBarry Smith ierr = PetscSFBcastEnd(sf->multi,MPIU_INT,newoffset,newoutoffset);CHKERRQ(ierr); 1138785e854fSJed Brown ierr = PetscMalloc1(sf->nleaves,&newremote);CHKERRQ(ierr); 113995fce210SBarry Smith for (i=0; i<sf->nleaves; i++) { 114095fce210SBarry Smith newremote[i].rank = sf->remote[i].rank; 114101365b40SToby Isaac newremote[i].index = newoutoffset[sf->mine ? sf->mine[i] : i]; 114295fce210SBarry Smith } 114301365b40SToby Isaac ierr = PetscSFSetGraph(sf->multi,inoffset[sf->nroots],sf->nleaves,sf->mine,PETSC_COPY_VALUES,newremote,PETSC_OWN_POINTER);CHKERRQ(ierr); 114495fce210SBarry Smith ierr = PetscFree5(inranks,newoffset,outranks,newoutoffset,tmpoffset);CHKERRQ(ierr); 114595fce210SBarry Smith } 114695fce210SBarry Smith ierr = PetscFree3(inoffset,outones,outoffset);CHKERRQ(ierr); 114795fce210SBarry Smith } 114895fce210SBarry Smith *multi = sf->multi; 114995fce210SBarry Smith PetscFunctionReturn(0); 115095fce210SBarry Smith } 115195fce210SBarry Smith 115295fce210SBarry Smith /*@C 115395fce210SBarry Smith PetscSFCreateEmbeddedSF - removes edges from all but the selected roots, does not remap indices 115495fce210SBarry Smith 115595fce210SBarry Smith Collective 115695fce210SBarry Smith 115795fce210SBarry Smith Input Arguments: 115895fce210SBarry Smith + sf - original star forest 1159ba2a7774SJunchao Zhang . nselected - number of selected roots on this process 1160ba2a7774SJunchao Zhang - selected - indices of the selected roots on this process 116195fce210SBarry Smith 116295fce210SBarry Smith Output Arguments: 1163cd620004SJunchao Zhang . esf - new star forest 116495fce210SBarry Smith 116595fce210SBarry Smith Level: advanced 116695fce210SBarry Smith 116795fce210SBarry Smith Note: 116895fce210SBarry Smith To use the new PetscSF, it may be necessary to know the indices of the leaves that are still participating. This can 116995fce210SBarry Smith be done by calling PetscSFGetGraph(). 117095fce210SBarry Smith 117195fce210SBarry Smith .seealso: PetscSFSetGraph(), PetscSFGetGraph() 117295fce210SBarry Smith @*/ 1173cd620004SJunchao Zhang PetscErrorCode PetscSFCreateEmbeddedSF(PetscSF sf,PetscInt nselected,const PetscInt *selected,PetscSF *esf) 117495fce210SBarry Smith { 1175cd620004SJunchao Zhang PetscInt i,j,n,nroots,nleaves,esf_nleaves,*new_ilocal,minleaf,maxleaf,maxlocal; 1176cd620004SJunchao Zhang const PetscInt *ilocal; 1177cd620004SJunchao Zhang signed char *rootdata,*leafdata,*leafmem; 1178ba2a7774SJunchao Zhang const PetscSFNode *iremote; 1179f659e5c7SJunchao Zhang PetscSFNode *new_iremote; 1180f659e5c7SJunchao Zhang MPI_Comm comm; 11810511a646SMatthew G. Knepley PetscErrorCode ierr; 118295fce210SBarry Smith 118395fce210SBarry Smith PetscFunctionBegin; 118495fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 118529046d53SLisandro Dalcin PetscSFCheckGraphSet(sf,1); 1186ba2a7774SJunchao Zhang if (nselected) PetscValidPointer(selected,3); 1187cd620004SJunchao Zhang PetscValidPointer(esf,4); 11880511a646SMatthew G. Knepley 1189f659e5c7SJunchao Zhang ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 1190cd620004SJunchao Zhang 1191140a1472SStefano Zampini ierr = PetscLogEventBegin(PETSCSF_EmbedSF,sf,0,0,0);CHKERRQ(ierr); 1192f659e5c7SJunchao Zhang ierr = PetscObjectGetComm((PetscObject)sf,&comm);CHKERRQ(ierr); 1193cd620004SJunchao Zhang ierr = PetscSFGetGraph(sf,&nroots,&nleaves,&ilocal,&iremote);CHKERRQ(ierr); 1194cd620004SJunchao Zhang 1195cd620004SJunchao Zhang #if defined(PETSC_USE_DEBUG) 1196cd620004SJunchao Zhang /* Error out if selected[] has dups or out of range indices */ 1197cd620004SJunchao Zhang { 1198cd620004SJunchao Zhang PetscBool dups; 1199cd620004SJunchao Zhang ierr = PetscCheckDupsInt(nselected,selected,&dups);CHKERRQ(ierr); 1200cd620004SJunchao Zhang if (dups) SETERRQ(comm,PETSC_ERR_ARG_WRONG,"selected[] has dups"); 1201cd620004SJunchao Zhang for (i=0; i<nselected; i++) 1202cd620004SJunchao Zhang if (selected[i] < 0 || selected[i] >= nroots) SETERRQ2(comm,PETSC_ERR_ARG_OUTOFRANGE,"selected root indice %D is out of [0,%D)",selected[i],nroots); 1203cd620004SJunchao Zhang } 1204cd620004SJunchao Zhang #endif 1205f659e5c7SJunchao Zhang 1206f659e5c7SJunchao Zhang if (sf->ops->CreateEmbeddedSF) { 1207cd620004SJunchao Zhang ierr = (*sf->ops->CreateEmbeddedSF)(sf,nselected,selected,esf);CHKERRQ(ierr); 1208f659e5c7SJunchao Zhang } else { 1209cd620004SJunchao Zhang /* A generic version of creating embedded sf */ 1210cd620004SJunchao Zhang ierr = PetscSFGetLeafRange(sf,&minleaf,&maxleaf);CHKERRQ(ierr); 1211cd620004SJunchao Zhang maxlocal = maxleaf - minleaf + 1; 1212cd620004SJunchao Zhang ierr = PetscCalloc2(nroots,&rootdata,maxlocal,&leafmem);CHKERRQ(ierr); 1213cd620004SJunchao Zhang leafdata = leafmem - minleaf; 1214cd620004SJunchao Zhang /* Tag selected roots and bcast to leaves */ 1215cd620004SJunchao Zhang for (i=0; i<nselected; i++) rootdata[selected[i]] = 1; 1216cd620004SJunchao Zhang ierr = PetscSFBcastBegin(sf,MPI_SIGNED_CHAR,rootdata,leafdata);CHKERRQ(ierr); 1217cd620004SJunchao Zhang ierr = PetscSFBcastEnd(sf,MPI_SIGNED_CHAR,rootdata,leafdata);CHKERRQ(ierr); 1218ba2a7774SJunchao Zhang 1219cd620004SJunchao Zhang /* Build esf with leaves that are still connected */ 1220cd620004SJunchao Zhang esf_nleaves = 0; 1221cd620004SJunchao Zhang for (i=0; i<nleaves; i++) { 1222cd620004SJunchao Zhang j = ilocal ? ilocal[i] : i; 1223cd620004SJunchao Zhang /* esf_nleaves += leafdata[j] should work in theory, but failed with SFWindow bugs 1224cd620004SJunchao Zhang with PetscSFBcast. See https://gitlab.com/petsc/petsc/issues/555 1225cd620004SJunchao Zhang */ 1226cd620004SJunchao Zhang esf_nleaves += (leafdata[j] ? 1 : 0); 1227cd620004SJunchao Zhang } 1228cd620004SJunchao Zhang ierr = PetscMalloc1(esf_nleaves,&new_ilocal);CHKERRQ(ierr); 1229cd620004SJunchao Zhang ierr = PetscMalloc1(esf_nleaves,&new_iremote);CHKERRQ(ierr); 1230cd620004SJunchao Zhang for (i=n=0; i<nleaves; i++) { 1231cd620004SJunchao Zhang j = ilocal ? ilocal[i] : i; 1232cd620004SJunchao Zhang if (leafdata[j]) { 1233cd620004SJunchao Zhang new_ilocal[n] = j; 1234cd620004SJunchao Zhang new_iremote[n].rank = iremote[i].rank; 1235cd620004SJunchao Zhang new_iremote[n].index = iremote[i].index; 1236fc1ede2bSMatthew G. Knepley ++n; 123795fce210SBarry Smith } 123895fce210SBarry Smith } 1239cd620004SJunchao Zhang ierr = PetscSFCreate(comm,esf);CHKERRQ(ierr); 1240cd620004SJunchao Zhang ierr = PetscSFSetFromOptions(*esf);CHKERRQ(ierr); 1241cd620004SJunchao Zhang ierr = PetscSFSetGraph(*esf,nroots,esf_nleaves,new_ilocal,PETSC_OWN_POINTER,new_iremote,PETSC_OWN_POINTER);CHKERRQ(ierr); 1242cd620004SJunchao Zhang ierr = PetscFree2(rootdata,leafmem);CHKERRQ(ierr); 1243f659e5c7SJunchao Zhang } 1244140a1472SStefano Zampini ierr = PetscLogEventEnd(PETSCSF_EmbedSF,sf,0,0,0);CHKERRQ(ierr); 124595fce210SBarry Smith PetscFunctionReturn(0); 124695fce210SBarry Smith } 124795fce210SBarry Smith 12482f5fb4c2SMatthew G. Knepley /*@C 12492f5fb4c2SMatthew G. Knepley PetscSFCreateEmbeddedLeafSF - removes edges from all but the selected leaves, does not remap indices 12502f5fb4c2SMatthew G. Knepley 12512f5fb4c2SMatthew G. Knepley Collective 12522f5fb4c2SMatthew G. Knepley 12532f5fb4c2SMatthew G. Knepley Input Arguments: 12542f5fb4c2SMatthew G. Knepley + sf - original star forest 1255f659e5c7SJunchao Zhang . nselected - number of selected leaves on this process 1256f659e5c7SJunchao Zhang - selected - indices of the selected leaves on this process 12572f5fb4c2SMatthew G. Knepley 12582f5fb4c2SMatthew G. Knepley Output Arguments: 12592f5fb4c2SMatthew G. Knepley . newsf - new star forest 12602f5fb4c2SMatthew G. Knepley 12612f5fb4c2SMatthew G. Knepley Level: advanced 12622f5fb4c2SMatthew G. Knepley 12632f5fb4c2SMatthew G. Knepley .seealso: PetscSFCreateEmbeddedSF(), PetscSFSetGraph(), PetscSFGetGraph() 12642f5fb4c2SMatthew G. Knepley @*/ 1265f659e5c7SJunchao Zhang PetscErrorCode PetscSFCreateEmbeddedLeafSF(PetscSF sf,PetscInt nselected,const PetscInt *selected,PetscSF *newsf) 12662f5fb4c2SMatthew G. Knepley { 1267f659e5c7SJunchao Zhang const PetscSFNode *iremote; 1268f659e5c7SJunchao Zhang PetscSFNode *new_iremote; 1269f659e5c7SJunchao Zhang const PetscInt *ilocal; 1270f659e5c7SJunchao Zhang PetscInt i,nroots,*leaves,*new_ilocal; 1271f659e5c7SJunchao Zhang MPI_Comm comm; 12722f5fb4c2SMatthew G. Knepley PetscErrorCode ierr; 12732f5fb4c2SMatthew G. Knepley 12742f5fb4c2SMatthew G. Knepley PetscFunctionBegin; 12752f5fb4c2SMatthew G. Knepley PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 127629046d53SLisandro Dalcin PetscSFCheckGraphSet(sf,1); 1277f659e5c7SJunchao Zhang if (nselected) PetscValidPointer(selected,3); 12782f5fb4c2SMatthew G. Knepley PetscValidPointer(newsf,4); 12792f5fb4c2SMatthew G. Knepley 1280f659e5c7SJunchao Zhang /* Uniq selected[] and put results in leaves[] */ 1281f659e5c7SJunchao Zhang ierr = PetscObjectGetComm((PetscObject)sf,&comm);CHKERRQ(ierr); 1282f659e5c7SJunchao Zhang ierr = PetscMalloc1(nselected,&leaves);CHKERRQ(ierr); 1283dd5b3ca6SJunchao Zhang ierr = PetscArraycpy(leaves,selected,nselected);CHKERRQ(ierr); 1284f659e5c7SJunchao Zhang ierr = PetscSortedRemoveDupsInt(&nselected,leaves);CHKERRQ(ierr); 1285f659e5c7SJunchao Zhang if (nselected && (leaves[0] < 0 || leaves[nselected-1] >= sf->nleaves)) SETERRQ3(comm,PETSC_ERR_ARG_OUTOFRANGE,"Min/Max leaf indices %D/%D are not in [0,%D)",leaves[0],leaves[nselected-1],sf->nleaves); 1286f659e5c7SJunchao Zhang 1287f659e5c7SJunchao Zhang /* Optimize the routine only when sf is setup and hence we can reuse sf's communication pattern */ 1288f659e5c7SJunchao Zhang if (sf->setupcalled && sf->ops->CreateEmbeddedLeafSF) { 1289f659e5c7SJunchao Zhang ierr = (*sf->ops->CreateEmbeddedLeafSF)(sf,nselected,leaves,newsf);CHKERRQ(ierr); 1290f659e5c7SJunchao Zhang } else { 1291f659e5c7SJunchao Zhang ierr = PetscSFGetGraph(sf,&nroots,NULL,&ilocal,&iremote);CHKERRQ(ierr); 1292f659e5c7SJunchao Zhang ierr = PetscMalloc1(nselected,&new_ilocal);CHKERRQ(ierr); 1293f659e5c7SJunchao Zhang ierr = PetscMalloc1(nselected,&new_iremote);CHKERRQ(ierr); 1294f659e5c7SJunchao Zhang for (i=0; i<nselected; ++i) { 1295f659e5c7SJunchao Zhang const PetscInt l = leaves[i]; 1296f659e5c7SJunchao Zhang new_ilocal[i] = ilocal ? ilocal[l] : l; 1297f659e5c7SJunchao Zhang new_iremote[i].rank = iremote[l].rank; 1298f659e5c7SJunchao Zhang new_iremote[i].index = iremote[l].index; 12992f5fb4c2SMatthew G. Knepley } 13004cc19a0cSStefano Zampini ierr = PetscSFDuplicate(sf,PETSCSF_DUPLICATE_CONFONLY,newsf);CHKERRQ(ierr); 1301f659e5c7SJunchao Zhang ierr = PetscSFSetGraph(*newsf,nroots,nselected,new_ilocal,PETSC_OWN_POINTER,new_iremote,PETSC_OWN_POINTER);CHKERRQ(ierr); 1302f659e5c7SJunchao Zhang } 1303f659e5c7SJunchao Zhang ierr = PetscFree(leaves);CHKERRQ(ierr); 13042f5fb4c2SMatthew G. Knepley PetscFunctionReturn(0); 13052f5fb4c2SMatthew G. Knepley } 13062f5fb4c2SMatthew G. Knepley 130795fce210SBarry Smith /*@C 13083482bfa8SJunchao Zhang PetscSFBcastAndOpBegin - begin pointwise broadcast with root value being reduced to leaf value, to be concluded with call to PetscSFBcastAndOpEnd() 13093482bfa8SJunchao Zhang 13103482bfa8SJunchao Zhang Collective on PetscSF 13113482bfa8SJunchao Zhang 13123482bfa8SJunchao Zhang Input Arguments: 13133482bfa8SJunchao Zhang + sf - star forest on which to communicate 13143482bfa8SJunchao Zhang . unit - data type associated with each node 13153482bfa8SJunchao Zhang . rootdata - buffer to broadcast 13163482bfa8SJunchao Zhang - op - operation to use for reduction 13173482bfa8SJunchao Zhang 13183482bfa8SJunchao Zhang Output Arguments: 13193482bfa8SJunchao Zhang . leafdata - buffer to be reduced with values from each leaf's respective root 13203482bfa8SJunchao Zhang 13213482bfa8SJunchao Zhang Level: intermediate 13223482bfa8SJunchao Zhang 13233482bfa8SJunchao Zhang .seealso: PetscSFBcastAndOpEnd(), PetscSFBcastBegin(), PetscSFBcastEnd() 13243482bfa8SJunchao Zhang @*/ 13253482bfa8SJunchao Zhang PetscErrorCode PetscSFBcastAndOpBegin(PetscSF sf,MPI_Datatype unit,const void *rootdata,void *leafdata,MPI_Op op) 13263482bfa8SJunchao Zhang { 13273482bfa8SJunchao Zhang PetscErrorCode ierr; 1328eb02082bSJunchao Zhang PetscMemType rootmtype,leafmtype; 13293482bfa8SJunchao Zhang 13303482bfa8SJunchao Zhang PetscFunctionBegin; 13313482bfa8SJunchao Zhang PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 13323482bfa8SJunchao Zhang ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 13333482bfa8SJunchao Zhang ierr = PetscLogEventBegin(PETSCSF_BcastAndOpBegin,sf,0,0,0);CHKERRQ(ierr); 1334eb02082bSJunchao Zhang ierr = PetscGetMemType(rootdata,&rootmtype);CHKERRQ(ierr); 1335eb02082bSJunchao Zhang ierr = PetscGetMemType(leafdata,&leafmtype);CHKERRQ(ierr); 1336eb02082bSJunchao Zhang ierr = (*sf->ops->BcastAndOpBegin)(sf,unit,rootmtype,rootdata,leafmtype,leafdata,op);CHKERRQ(ierr); 13373482bfa8SJunchao Zhang ierr = PetscLogEventEnd(PETSCSF_BcastAndOpBegin,sf,0,0,0);CHKERRQ(ierr); 13383482bfa8SJunchao Zhang PetscFunctionReturn(0); 13393482bfa8SJunchao Zhang } 13403482bfa8SJunchao Zhang 13413482bfa8SJunchao Zhang /*@C 13423482bfa8SJunchao Zhang PetscSFBcastAndOpEnd - end a broadcast & reduce operation started with PetscSFBcastAndOpBegin() 13433482bfa8SJunchao Zhang 13443482bfa8SJunchao Zhang Collective 13453482bfa8SJunchao Zhang 13463482bfa8SJunchao Zhang Input Arguments: 13473482bfa8SJunchao Zhang + sf - star forest 13483482bfa8SJunchao Zhang . unit - data type 13493482bfa8SJunchao Zhang . rootdata - buffer to broadcast 13503482bfa8SJunchao Zhang - op - operation to use for reduction 13513482bfa8SJunchao Zhang 13523482bfa8SJunchao Zhang Output Arguments: 13533482bfa8SJunchao Zhang . leafdata - buffer to be reduced with values from each leaf's respective root 13543482bfa8SJunchao Zhang 13553482bfa8SJunchao Zhang Level: intermediate 13563482bfa8SJunchao Zhang 13573482bfa8SJunchao Zhang .seealso: PetscSFSetGraph(), PetscSFReduceEnd() 13583482bfa8SJunchao Zhang @*/ 13593482bfa8SJunchao Zhang PetscErrorCode PetscSFBcastAndOpEnd(PetscSF sf,MPI_Datatype unit,const void *rootdata,void *leafdata,MPI_Op op) 13603482bfa8SJunchao Zhang { 13613482bfa8SJunchao Zhang PetscErrorCode ierr; 13623482bfa8SJunchao Zhang 13633482bfa8SJunchao Zhang PetscFunctionBegin; 13643482bfa8SJunchao Zhang PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 13653482bfa8SJunchao Zhang ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 13663482bfa8SJunchao Zhang ierr = PetscLogEventBegin(PETSCSF_BcastAndOpEnd,sf,0,0,0);CHKERRQ(ierr); 1367*00816365SJunchao Zhang ierr = (*sf->ops->BcastAndOpEnd)(sf,unit,rootdata,leafdata,op);CHKERRQ(ierr); 13683482bfa8SJunchao Zhang ierr = PetscLogEventEnd(PETSCSF_BcastAndOpEnd,sf,0,0,0);CHKERRQ(ierr); 13693482bfa8SJunchao Zhang PetscFunctionReturn(0); 13703482bfa8SJunchao Zhang } 13713482bfa8SJunchao Zhang 13723482bfa8SJunchao Zhang /*@C 137395fce210SBarry Smith PetscSFReduceBegin - begin reduction of leafdata into rootdata, to be completed with call to PetscSFReduceEnd() 137495fce210SBarry Smith 137595fce210SBarry Smith Collective 137695fce210SBarry Smith 137795fce210SBarry Smith Input Arguments: 137895fce210SBarry Smith + sf - star forest 137995fce210SBarry Smith . unit - data type 138095fce210SBarry Smith . leafdata - values to reduce 138195fce210SBarry Smith - op - reduction operation 138295fce210SBarry Smith 138395fce210SBarry Smith Output Arguments: 138495fce210SBarry Smith . rootdata - result of reduction of values from all leaves of each root 138595fce210SBarry Smith 138695fce210SBarry Smith Level: intermediate 138795fce210SBarry Smith 138895fce210SBarry Smith .seealso: PetscSFBcastBegin() 138995fce210SBarry Smith @*/ 139095fce210SBarry Smith PetscErrorCode PetscSFReduceBegin(PetscSF sf,MPI_Datatype unit,const void *leafdata,void *rootdata,MPI_Op op) 139195fce210SBarry Smith { 139295fce210SBarry Smith PetscErrorCode ierr; 1393eb02082bSJunchao Zhang PetscMemType rootmtype,leafmtype; 139495fce210SBarry Smith 139595fce210SBarry Smith PetscFunctionBegin; 139695fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 139795fce210SBarry Smith ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 139829046d53SLisandro Dalcin ierr = PetscLogEventBegin(PETSCSF_ReduceBegin,sf,0,0,0);CHKERRQ(ierr); 1399eb02082bSJunchao Zhang ierr = PetscGetMemType(rootdata,&rootmtype);CHKERRQ(ierr); 1400eb02082bSJunchao Zhang ierr = PetscGetMemType(leafdata,&leafmtype);CHKERRQ(ierr); 1401eb02082bSJunchao Zhang ierr = (sf->ops->ReduceBegin)(sf,unit,leafmtype,leafdata,rootmtype,rootdata,op);CHKERRQ(ierr); 1402563ffbabSMatthew G. Knepley ierr = PetscLogEventEnd(PETSCSF_ReduceBegin,sf,0,0,0);CHKERRQ(ierr); 140395fce210SBarry Smith PetscFunctionReturn(0); 140495fce210SBarry Smith } 140595fce210SBarry Smith 140695fce210SBarry Smith /*@C 140795fce210SBarry Smith PetscSFReduceEnd - end a reduction operation started with PetscSFReduceBegin() 140895fce210SBarry Smith 140995fce210SBarry Smith Collective 141095fce210SBarry Smith 141195fce210SBarry Smith Input Arguments: 141295fce210SBarry Smith + sf - star forest 141395fce210SBarry Smith . unit - data type 141495fce210SBarry Smith . leafdata - values to reduce 141595fce210SBarry Smith - op - reduction operation 141695fce210SBarry Smith 141795fce210SBarry Smith Output Arguments: 141895fce210SBarry Smith . rootdata - result of reduction of values from all leaves of each root 141995fce210SBarry Smith 142095fce210SBarry Smith Level: intermediate 142195fce210SBarry Smith 142295fce210SBarry Smith .seealso: PetscSFSetGraph(), PetscSFBcastEnd() 142395fce210SBarry Smith @*/ 142495fce210SBarry Smith PetscErrorCode PetscSFReduceEnd(PetscSF sf,MPI_Datatype unit,const void *leafdata,void *rootdata,MPI_Op op) 142595fce210SBarry Smith { 142695fce210SBarry Smith PetscErrorCode ierr; 142795fce210SBarry Smith 142895fce210SBarry Smith PetscFunctionBegin; 142995fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 143095fce210SBarry Smith ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 143129046d53SLisandro Dalcin ierr = PetscLogEventBegin(PETSCSF_ReduceEnd,sf,0,0,0);CHKERRQ(ierr); 1432*00816365SJunchao Zhang ierr = (*sf->ops->ReduceEnd)(sf,unit,leafdata,rootdata,op);CHKERRQ(ierr); 1433563ffbabSMatthew G. Knepley ierr = PetscLogEventEnd(PETSCSF_ReduceEnd,sf,0,0,0);CHKERRQ(ierr); 143495fce210SBarry Smith PetscFunctionReturn(0); 143595fce210SBarry Smith } 143695fce210SBarry Smith 143795fce210SBarry Smith /*@C 1438a1729e3fSJunchao Zhang PetscSFFetchAndOpBegin - begin operation that fetches values from root and updates atomically by applying operation using my leaf value, to be completed with PetscSFFetchAndOpEnd() 1439a1729e3fSJunchao Zhang 1440a1729e3fSJunchao Zhang Collective 1441a1729e3fSJunchao Zhang 1442a1729e3fSJunchao Zhang Input Arguments: 1443a1729e3fSJunchao Zhang + sf - star forest 1444a1729e3fSJunchao Zhang . unit - data type 1445a1729e3fSJunchao Zhang . leafdata - leaf values to use in reduction 1446a1729e3fSJunchao Zhang - op - operation to use for reduction 1447a1729e3fSJunchao Zhang 1448a1729e3fSJunchao Zhang Output Arguments: 1449a1729e3fSJunchao Zhang + rootdata - root values to be updated, input state is seen by first process to perform an update 1450a1729e3fSJunchao Zhang - leafupdate - state at each leaf's respective root immediately prior to my atomic update 1451a1729e3fSJunchao Zhang 1452a1729e3fSJunchao Zhang Level: advanced 1453a1729e3fSJunchao Zhang 1454a1729e3fSJunchao Zhang Note: 1455a1729e3fSJunchao Zhang The update is only atomic at the granularity provided by the hardware. Different roots referenced by the same process 1456a1729e3fSJunchao Zhang might be updated in a different order. Furthermore, if a composite type is used for the unit datatype, atomicity is 1457a1729e3fSJunchao Zhang not guaranteed across the whole vertex. Therefore, this function is mostly only used with primitive types such as 1458a1729e3fSJunchao Zhang integers. 1459a1729e3fSJunchao Zhang 1460a1729e3fSJunchao Zhang .seealso: PetscSFComputeDegreeBegin(), PetscSFReduceBegin(), PetscSFSetGraph() 1461a1729e3fSJunchao Zhang @*/ 1462a1729e3fSJunchao Zhang PetscErrorCode PetscSFFetchAndOpBegin(PetscSF sf,MPI_Datatype unit,void *rootdata,const void *leafdata,void *leafupdate,MPI_Op op) 1463a1729e3fSJunchao Zhang { 1464a1729e3fSJunchao Zhang PetscErrorCode ierr; 1465eb02082bSJunchao Zhang PetscMemType rootmtype,leafmtype,leafupdatemtype; 1466a1729e3fSJunchao Zhang 1467a1729e3fSJunchao Zhang PetscFunctionBegin; 1468a1729e3fSJunchao Zhang PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 1469a1729e3fSJunchao Zhang ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 1470a1729e3fSJunchao Zhang ierr = PetscLogEventBegin(PETSCSF_FetchAndOpBegin,sf,0,0,0);CHKERRQ(ierr); 1471eb02082bSJunchao Zhang ierr = PetscGetMemType(rootdata,&rootmtype);CHKERRQ(ierr); 1472eb02082bSJunchao Zhang ierr = PetscGetMemType(leafdata,&leafmtype);CHKERRQ(ierr); 1473eb02082bSJunchao Zhang ierr = PetscGetMemType(leafupdate,&leafupdatemtype);CHKERRQ(ierr); 1474eb02082bSJunchao Zhang if (leafmtype != leafupdatemtype) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"No support for leafdata and leafupdate in different memory types"); 1475eb02082bSJunchao Zhang ierr = (*sf->ops->FetchAndOpBegin)(sf,unit,rootmtype,rootdata,leafmtype,leafdata,leafupdate,op);CHKERRQ(ierr); 1476a1729e3fSJunchao Zhang ierr = PetscLogEventEnd(PETSCSF_FetchAndOpBegin,sf,0,0,0);CHKERRQ(ierr); 1477a1729e3fSJunchao Zhang PetscFunctionReturn(0); 1478a1729e3fSJunchao Zhang } 1479a1729e3fSJunchao Zhang 1480a1729e3fSJunchao Zhang /*@C 1481a1729e3fSJunchao Zhang PetscSFFetchAndOpEnd - end operation started in matching call to PetscSFFetchAndOpBegin() to fetch values from roots and update atomically by applying operation using my leaf value 1482a1729e3fSJunchao Zhang 1483a1729e3fSJunchao Zhang Collective 1484a1729e3fSJunchao Zhang 1485a1729e3fSJunchao Zhang Input Arguments: 1486a1729e3fSJunchao Zhang + sf - star forest 1487a1729e3fSJunchao Zhang . unit - data type 1488a1729e3fSJunchao Zhang . leafdata - leaf values to use in reduction 1489a1729e3fSJunchao Zhang - op - operation to use for reduction 1490a1729e3fSJunchao Zhang 1491a1729e3fSJunchao Zhang Output Arguments: 1492a1729e3fSJunchao Zhang + rootdata - root values to be updated, input state is seen by first process to perform an update 1493a1729e3fSJunchao Zhang - leafupdate - state at each leaf's respective root immediately prior to my atomic update 1494a1729e3fSJunchao Zhang 1495a1729e3fSJunchao Zhang Level: advanced 1496a1729e3fSJunchao Zhang 1497a1729e3fSJunchao Zhang .seealso: PetscSFComputeDegreeEnd(), PetscSFReduceEnd(), PetscSFSetGraph() 1498a1729e3fSJunchao Zhang @*/ 1499a1729e3fSJunchao Zhang PetscErrorCode PetscSFFetchAndOpEnd(PetscSF sf,MPI_Datatype unit,void *rootdata,const void *leafdata,void *leafupdate,MPI_Op op) 1500a1729e3fSJunchao Zhang { 1501a1729e3fSJunchao Zhang PetscErrorCode ierr; 1502a1729e3fSJunchao Zhang 1503a1729e3fSJunchao Zhang PetscFunctionBegin; 1504a1729e3fSJunchao Zhang PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 1505a1729e3fSJunchao Zhang ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 1506a1729e3fSJunchao Zhang ierr = PetscLogEventBegin(PETSCSF_FetchAndOpEnd,sf,0,0,0);CHKERRQ(ierr); 1507*00816365SJunchao Zhang ierr = (*sf->ops->FetchAndOpEnd)(sf,unit,rootdata,leafdata,leafupdate,op);CHKERRQ(ierr); 1508a1729e3fSJunchao Zhang ierr = PetscLogEventEnd(PETSCSF_FetchAndOpEnd,sf,0,0,0);CHKERRQ(ierr); 1509a1729e3fSJunchao Zhang PetscFunctionReturn(0); 1510a1729e3fSJunchao Zhang } 1511a1729e3fSJunchao Zhang 1512a1729e3fSJunchao Zhang /*@C 151395fce210SBarry Smith PetscSFComputeDegreeBegin - begin computation of degree for each root vertex, to be completed with PetscSFComputeDegreeEnd() 151495fce210SBarry Smith 151595fce210SBarry Smith Collective 151695fce210SBarry Smith 151795fce210SBarry Smith Input Arguments: 151895fce210SBarry Smith . sf - star forest 151995fce210SBarry Smith 152095fce210SBarry Smith Output Arguments: 152195fce210SBarry Smith . degree - degree of each root vertex 152295fce210SBarry Smith 152395fce210SBarry Smith Level: advanced 152495fce210SBarry Smith 1525ffe67aa5SVáclav Hapla Notes: 1526ffe67aa5SVáclav Hapla The returned array is owned by PetscSF and automatically freed by PetscSFDestroy(). Hence no need to call PetscFree() on it. 1527ffe67aa5SVáclav Hapla 152895fce210SBarry Smith .seealso: PetscSFGatherBegin() 152995fce210SBarry Smith @*/ 153095fce210SBarry Smith PetscErrorCode PetscSFComputeDegreeBegin(PetscSF sf,const PetscInt **degree) 153195fce210SBarry Smith { 153295fce210SBarry Smith PetscErrorCode ierr; 153395fce210SBarry Smith 153495fce210SBarry Smith PetscFunctionBegin; 153595fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 153695fce210SBarry Smith PetscSFCheckGraphSet(sf,1); 153795fce210SBarry Smith PetscValidPointer(degree,2); 1538803bd9e8SMatthew G. Knepley if (!sf->degreeknown) { 15395b0d146aSStefano Zampini PetscInt i, nroots = sf->nroots, maxlocal; 1540803bd9e8SMatthew G. Knepley if (sf->degree) SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Calls to PetscSFComputeDegreeBegin() cannot be nested."); 15415b0d146aSStefano Zampini maxlocal = sf->maxleaf-sf->minleaf+1; 154229046d53SLisandro Dalcin ierr = PetscMalloc1(nroots,&sf->degree);CHKERRQ(ierr); 154329046d53SLisandro Dalcin ierr = PetscMalloc1(PetscMax(maxlocal,1),&sf->degreetmp);CHKERRQ(ierr); /* allocate at least one entry, see check in PetscSFComputeDegreeEnd() */ 154429046d53SLisandro Dalcin for (i=0; i<nroots; i++) sf->degree[i] = 0; 15459837ea96SMatthew G. Knepley for (i=0; i<maxlocal; i++) sf->degreetmp[i] = 1; 15465b0d146aSStefano Zampini ierr = PetscSFReduceBegin(sf,MPIU_INT,sf->degreetmp-sf->minleaf,sf->degree,MPI_SUM);CHKERRQ(ierr); 154795fce210SBarry Smith } 154895fce210SBarry Smith *degree = NULL; 154995fce210SBarry Smith PetscFunctionReturn(0); 155095fce210SBarry Smith } 155195fce210SBarry Smith 155295fce210SBarry Smith /*@C 155395fce210SBarry Smith PetscSFComputeDegreeEnd - complete computation of degree for each root vertex, started with PetscSFComputeDegreeBegin() 155495fce210SBarry Smith 155595fce210SBarry Smith Collective 155695fce210SBarry Smith 155795fce210SBarry Smith Input Arguments: 155895fce210SBarry Smith . sf - star forest 155995fce210SBarry Smith 156095fce210SBarry Smith Output Arguments: 156195fce210SBarry Smith . degree - degree of each root vertex 156295fce210SBarry Smith 156395fce210SBarry Smith Level: developer 156495fce210SBarry Smith 1565ffe67aa5SVáclav Hapla Notes: 1566ffe67aa5SVáclav Hapla The returned array is owned by PetscSF and automatically freed by PetscSFDestroy(). Hence no need to call PetscFree() on it. 1567ffe67aa5SVáclav Hapla 156895fce210SBarry Smith .seealso: 156995fce210SBarry Smith @*/ 157095fce210SBarry Smith PetscErrorCode PetscSFComputeDegreeEnd(PetscSF sf,const PetscInt **degree) 157195fce210SBarry Smith { 157295fce210SBarry Smith PetscErrorCode ierr; 157395fce210SBarry Smith 157495fce210SBarry Smith PetscFunctionBegin; 157595fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 157695fce210SBarry Smith PetscSFCheckGraphSet(sf,1); 157729046d53SLisandro Dalcin PetscValidPointer(degree,2); 157895fce210SBarry Smith if (!sf->degreeknown) { 157929046d53SLisandro Dalcin if (!sf->degreetmp) SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Must call PetscSFComputeDegreeBegin() before PetscSFComputeDegreeEnd()"); 15805b0d146aSStefano Zampini ierr = PetscSFReduceEnd(sf,MPIU_INT,sf->degreetmp-sf->minleaf,sf->degree,MPI_SUM);CHKERRQ(ierr); 158195fce210SBarry Smith ierr = PetscFree(sf->degreetmp);CHKERRQ(ierr); 158295fce210SBarry Smith sf->degreeknown = PETSC_TRUE; 158395fce210SBarry Smith } 158495fce210SBarry Smith *degree = sf->degree; 158595fce210SBarry Smith PetscFunctionReturn(0); 158695fce210SBarry Smith } 158795fce210SBarry Smith 1588673100f5SVaclav Hapla 1589673100f5SVaclav Hapla /*@C 159066dfcd1aSVaclav Hapla PetscSFComputeMultiRootOriginalNumbering - Returns original numbering of multi-roots (roots of multi-SF returned by PetscSFGetMultiSF()). 159166dfcd1aSVaclav Hapla Each multi-root is assigned index of the corresponding original root. 1592673100f5SVaclav Hapla 1593673100f5SVaclav Hapla Collective 1594673100f5SVaclav Hapla 1595673100f5SVaclav Hapla Input Arguments: 1596673100f5SVaclav Hapla + sf - star forest 1597673100f5SVaclav Hapla - degree - degree of each root vertex, computed with PetscSFComputeDegreeBegin()/PetscSFComputeDegreeEnd() 1598673100f5SVaclav Hapla 1599673100f5SVaclav Hapla Output Arguments: 160066dfcd1aSVaclav Hapla + nMultiRoots - (optional) number of multi-roots (roots of multi-SF) 160166dfcd1aSVaclav Hapla - multiRootsOrigNumbering - original indices of multi-roots; length of this array is nMultiRoots 1602673100f5SVaclav Hapla 1603673100f5SVaclav Hapla Level: developer 1604673100f5SVaclav Hapla 1605ffe67aa5SVáclav Hapla Notes: 1606ffe67aa5SVáclav Hapla The returned array multiRootsOrigNumbering is newly allocated and should be destroyed with PetscFree() when no longer needed. 1607ffe67aa5SVáclav Hapla 1608673100f5SVaclav Hapla .seealso: PetscSFComputeDegreeBegin(), PetscSFComputeDegreeEnd(), PetscSFGetMultiSF() 1609673100f5SVaclav Hapla @*/ 161066dfcd1aSVaclav Hapla PetscErrorCode PetscSFComputeMultiRootOriginalNumbering(PetscSF sf, const PetscInt degree[], PetscInt *nMultiRoots, PetscInt *multiRootsOrigNumbering[]) 1611673100f5SVaclav Hapla { 1612673100f5SVaclav Hapla PetscSF msf; 1613673100f5SVaclav Hapla PetscInt i, j, k, nroots, nmroots; 1614673100f5SVaclav Hapla PetscErrorCode ierr; 1615673100f5SVaclav Hapla 1616673100f5SVaclav Hapla PetscFunctionBegin; 1617673100f5SVaclav Hapla PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 1618673100f5SVaclav Hapla ierr = PetscSFGetGraph(sf, &nroots, NULL, NULL, NULL);CHKERRQ(ierr); 161929328920SVaclav Hapla if (nroots) PetscValidIntPointer(degree,2); 162066dfcd1aSVaclav Hapla if (nMultiRoots) PetscValidIntPointer(nMultiRoots,3); 162166dfcd1aSVaclav Hapla PetscValidPointer(multiRootsOrigNumbering,4); 1622673100f5SVaclav Hapla ierr = PetscSFGetMultiSF(sf,&msf);CHKERRQ(ierr); 1623673100f5SVaclav Hapla ierr = PetscSFGetGraph(msf, &nmroots, NULL, NULL, NULL);CHKERRQ(ierr); 162466dfcd1aSVaclav Hapla ierr = PetscMalloc1(nmroots, multiRootsOrigNumbering);CHKERRQ(ierr); 1625673100f5SVaclav Hapla for (i=0,j=0,k=0; i<nroots; i++) { 1626673100f5SVaclav Hapla if (!degree[i]) continue; 1627673100f5SVaclav Hapla for (j=0; j<degree[i]; j++,k++) { 162866dfcd1aSVaclav Hapla (*multiRootsOrigNumbering)[k] = i; 1629673100f5SVaclav Hapla } 1630673100f5SVaclav Hapla } 1631673100f5SVaclav Hapla #if defined(PETSC_USE_DEBUG) 1632673100f5SVaclav Hapla if (PetscUnlikely(k != nmroots)) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"sanity check fail"); 1633673100f5SVaclav Hapla #endif 163466dfcd1aSVaclav Hapla if (nMultiRoots) *nMultiRoots = nmroots; 1635673100f5SVaclav Hapla PetscFunctionReturn(0); 1636673100f5SVaclav Hapla } 1637673100f5SVaclav Hapla 163895fce210SBarry Smith /*@C 163995fce210SBarry Smith PetscSFGatherBegin - begin pointwise gather of all leaves into multi-roots, to be completed with PetscSFGatherEnd() 164095fce210SBarry Smith 164195fce210SBarry Smith Collective 164295fce210SBarry Smith 164395fce210SBarry Smith Input Arguments: 164495fce210SBarry Smith + sf - star forest 164595fce210SBarry Smith . unit - data type 164695fce210SBarry Smith - leafdata - leaf data to gather to roots 164795fce210SBarry Smith 164895fce210SBarry Smith Output Argument: 164995fce210SBarry Smith . multirootdata - root buffer to gather into, amount of space per root is equal to its degree 165095fce210SBarry Smith 165195fce210SBarry Smith Level: intermediate 165295fce210SBarry Smith 165395fce210SBarry Smith .seealso: PetscSFComputeDegreeBegin(), PetscSFScatterBegin() 165495fce210SBarry Smith @*/ 165595fce210SBarry Smith PetscErrorCode PetscSFGatherBegin(PetscSF sf,MPI_Datatype unit,const void *leafdata,void *multirootdata) 165695fce210SBarry Smith { 165795fce210SBarry Smith PetscErrorCode ierr; 165895fce210SBarry Smith PetscSF multi; 165995fce210SBarry Smith 166095fce210SBarry Smith PetscFunctionBegin; 166195fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 166229046d53SLisandro Dalcin ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 166395fce210SBarry Smith ierr = PetscSFGetMultiSF(sf,&multi);CHKERRQ(ierr); 16648bfbc91cSJed Brown ierr = PetscSFReduceBegin(multi,unit,leafdata,multirootdata,MPIU_REPLACE);CHKERRQ(ierr); 166595fce210SBarry Smith PetscFunctionReturn(0); 166695fce210SBarry Smith } 166795fce210SBarry Smith 166895fce210SBarry Smith /*@C 166995fce210SBarry Smith PetscSFGatherEnd - ends pointwise gather operation that was started with PetscSFGatherBegin() 167095fce210SBarry Smith 167195fce210SBarry Smith Collective 167295fce210SBarry Smith 167395fce210SBarry Smith Input Arguments: 167495fce210SBarry Smith + sf - star forest 167595fce210SBarry Smith . unit - data type 167695fce210SBarry Smith - leafdata - leaf data to gather to roots 167795fce210SBarry Smith 167895fce210SBarry Smith Output Argument: 167995fce210SBarry Smith . multirootdata - root buffer to gather into, amount of space per root is equal to its degree 168095fce210SBarry Smith 168195fce210SBarry Smith Level: intermediate 168295fce210SBarry Smith 168395fce210SBarry Smith .seealso: PetscSFComputeDegreeEnd(), PetscSFScatterEnd() 168495fce210SBarry Smith @*/ 168595fce210SBarry Smith PetscErrorCode PetscSFGatherEnd(PetscSF sf,MPI_Datatype unit,const void *leafdata,void *multirootdata) 168695fce210SBarry Smith { 168795fce210SBarry Smith PetscErrorCode ierr; 168895fce210SBarry Smith PetscSF multi; 168995fce210SBarry Smith 169095fce210SBarry Smith PetscFunctionBegin; 169195fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 169295fce210SBarry Smith ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 169395fce210SBarry Smith ierr = PetscSFGetMultiSF(sf,&multi);CHKERRQ(ierr); 16948bfbc91cSJed Brown ierr = PetscSFReduceEnd(multi,unit,leafdata,multirootdata,MPIU_REPLACE);CHKERRQ(ierr); 169595fce210SBarry Smith PetscFunctionReturn(0); 169695fce210SBarry Smith } 169795fce210SBarry Smith 169895fce210SBarry Smith /*@C 169995fce210SBarry Smith PetscSFScatterBegin - begin pointwise scatter operation from multi-roots to leaves, to be completed with PetscSFScatterEnd() 170095fce210SBarry Smith 170195fce210SBarry Smith Collective 170295fce210SBarry Smith 170395fce210SBarry Smith Input Arguments: 170495fce210SBarry Smith + sf - star forest 170595fce210SBarry Smith . unit - data type 170695fce210SBarry Smith - multirootdata - root buffer to send to each leaf, one unit of data per leaf 170795fce210SBarry Smith 170895fce210SBarry Smith Output Argument: 170995fce210SBarry Smith . leafdata - leaf data to be update with personal data from each respective root 171095fce210SBarry Smith 171195fce210SBarry Smith Level: intermediate 171295fce210SBarry Smith 171395fce210SBarry Smith .seealso: PetscSFComputeDegreeBegin(), PetscSFScatterBegin() 171495fce210SBarry Smith @*/ 171595fce210SBarry Smith PetscErrorCode PetscSFScatterBegin(PetscSF sf,MPI_Datatype unit,const void *multirootdata,void *leafdata) 171695fce210SBarry Smith { 171795fce210SBarry Smith PetscErrorCode ierr; 171895fce210SBarry Smith PetscSF multi; 171995fce210SBarry Smith 172095fce210SBarry Smith PetscFunctionBegin; 172195fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 172295fce210SBarry Smith ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 172395fce210SBarry Smith ierr = PetscSFGetMultiSF(sf,&multi);CHKERRQ(ierr); 172495fce210SBarry Smith ierr = PetscSFBcastBegin(multi,unit,multirootdata,leafdata);CHKERRQ(ierr); 172595fce210SBarry Smith PetscFunctionReturn(0); 172695fce210SBarry Smith } 172795fce210SBarry Smith 172895fce210SBarry Smith /*@C 172995fce210SBarry Smith PetscSFScatterEnd - ends pointwise scatter operation that was started with PetscSFScatterBegin() 173095fce210SBarry Smith 173195fce210SBarry Smith Collective 173295fce210SBarry Smith 173395fce210SBarry Smith Input Arguments: 173495fce210SBarry Smith + sf - star forest 173595fce210SBarry Smith . unit - data type 173695fce210SBarry Smith - multirootdata - root buffer to send to each leaf, one unit of data per leaf 173795fce210SBarry Smith 173895fce210SBarry Smith Output Argument: 173995fce210SBarry Smith . leafdata - leaf data to be update with personal data from each respective root 174095fce210SBarry Smith 174195fce210SBarry Smith Level: intermediate 174295fce210SBarry Smith 174395fce210SBarry Smith .seealso: PetscSFComputeDegreeEnd(), PetscSFScatterEnd() 174495fce210SBarry Smith @*/ 174595fce210SBarry Smith PetscErrorCode PetscSFScatterEnd(PetscSF sf,MPI_Datatype unit,const void *multirootdata,void *leafdata) 174695fce210SBarry Smith { 174795fce210SBarry Smith PetscErrorCode ierr; 174895fce210SBarry Smith PetscSF multi; 174995fce210SBarry Smith 175095fce210SBarry Smith PetscFunctionBegin; 175195fce210SBarry Smith PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 175295fce210SBarry Smith ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 175395fce210SBarry Smith ierr = PetscSFGetMultiSF(sf,&multi);CHKERRQ(ierr); 175495fce210SBarry Smith ierr = PetscSFBcastEnd(multi,unit,multirootdata,leafdata);CHKERRQ(ierr); 175595fce210SBarry Smith PetscFunctionReturn(0); 175695fce210SBarry Smith } 1757a7b3aa13SAta Mesgarnejad 1758a072220fSLawrence Mitchell static PetscErrorCode PetscSFCheckLeavesUnique_Private(PetscSF sf) 1759a072220fSLawrence Mitchell { 1760a072220fSLawrence Mitchell #if defined(PETSC_USE_DEBUG) 1761a072220fSLawrence Mitchell PetscInt i, n, nleaves; 1762a072220fSLawrence Mitchell const PetscInt *ilocal = NULL; 1763a072220fSLawrence Mitchell PetscHSetI seen; 1764a072220fSLawrence Mitchell PetscErrorCode ierr; 1765a072220fSLawrence Mitchell 1766a072220fSLawrence Mitchell PetscFunctionBegin; 1767a072220fSLawrence Mitchell ierr = PetscSFGetGraph(sf,NULL,&nleaves,&ilocal,NULL);CHKERRQ(ierr); 1768a072220fSLawrence Mitchell ierr = PetscHSetICreate(&seen);CHKERRQ(ierr); 1769a072220fSLawrence Mitchell for (i = 0; i < nleaves; i++) { 1770a072220fSLawrence Mitchell const PetscInt leaf = ilocal ? ilocal[i] : i; 1771a072220fSLawrence Mitchell ierr = PetscHSetIAdd(seen,leaf);CHKERRQ(ierr); 1772a072220fSLawrence Mitchell } 1773a072220fSLawrence Mitchell ierr = PetscHSetIGetSize(seen,&n);CHKERRQ(ierr); 1774a072220fSLawrence Mitchell if (n != nleaves) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Provided leaves have repeated values: all leaves must be unique"); 1775a072220fSLawrence Mitchell ierr = PetscHSetIDestroy(&seen);CHKERRQ(ierr); 1776a072220fSLawrence Mitchell PetscFunctionReturn(0); 1777a072220fSLawrence Mitchell #else 1778a072220fSLawrence Mitchell PetscFunctionBegin; 1779a072220fSLawrence Mitchell PetscFunctionReturn(0); 1780a072220fSLawrence Mitchell #endif 1781a072220fSLawrence Mitchell } 178254729392SStefano Zampini 1783a7b3aa13SAta Mesgarnejad /*@ 178404c0ada0SJunchao Zhang PetscSFCompose - Compose a new PetscSF by putting the second SF under the first one in a top (roots) down (leaves) view 1785a7b3aa13SAta Mesgarnejad 1786a7b3aa13SAta Mesgarnejad Input Parameters: 178754729392SStefano Zampini + sfA - The first PetscSF 178854729392SStefano Zampini - sfB - The second PetscSF 1789a7b3aa13SAta Mesgarnejad 1790a7b3aa13SAta Mesgarnejad Output Parameters: 179154729392SStefano Zampini . sfBA - The composite SF 1792a7b3aa13SAta Mesgarnejad 1793a7b3aa13SAta Mesgarnejad Level: developer 1794a7b3aa13SAta Mesgarnejad 1795a072220fSLawrence Mitchell Notes: 179654729392SStefano Zampini Currently, the two SFs must be defined on congruent communicators and they must be true star 179754729392SStefano Zampini forests, i.e. the same leaf is not connected with different roots. 179854729392SStefano Zampini 179954729392SStefano Zampini sfA's leaf space and sfB's root space might be partially overlapped. The composition builds 180054729392SStefano Zampini a graph with sfA's roots and sfB's leaves only when there is a path between them. Unconnected 180154729392SStefano Zampini nodes (roots or leaves) are not in sfBA. Doing a Bcast on the new SF is equivalent to doing a 180254729392SStefano Zampini Bcast on sfA, then a Bcast on sfB, on connected nodes. 1803a072220fSLawrence Mitchell 180404c0ada0SJunchao Zhang .seealso: PetscSF, PetscSFComposeInverse(), PetscSFGetGraph(), PetscSFSetGraph() 1805a7b3aa13SAta Mesgarnejad @*/ 1806a7b3aa13SAta Mesgarnejad PetscErrorCode PetscSFCompose(PetscSF sfA,PetscSF sfB,PetscSF *sfBA) 1807a7b3aa13SAta Mesgarnejad { 180804c0ada0SJunchao Zhang PetscErrorCode ierr; 1809a7b3aa13SAta Mesgarnejad const PetscSFNode *remotePointsA,*remotePointsB; 1810d41018fbSJunchao Zhang PetscSFNode *remotePointsBA=NULL,*reorderedRemotePointsA = NULL,*leafdataB; 181154729392SStefano Zampini const PetscInt *localPointsA,*localPointsB; 181254729392SStefano Zampini PetscInt *localPointsBA; 181354729392SStefano Zampini PetscInt i,numRootsA,numLeavesA,numRootsB,numLeavesB,minleaf,maxleaf,numLeavesBA; 181454729392SStefano Zampini PetscBool denseB; 1815a7b3aa13SAta Mesgarnejad 1816a7b3aa13SAta Mesgarnejad PetscFunctionBegin; 1817a7b3aa13SAta Mesgarnejad PetscValidHeaderSpecific(sfA,PETSCSF_CLASSID,1); 181829046d53SLisandro Dalcin PetscSFCheckGraphSet(sfA,1); 181929046d53SLisandro Dalcin PetscValidHeaderSpecific(sfB,PETSCSF_CLASSID,2); 182029046d53SLisandro Dalcin PetscSFCheckGraphSet(sfB,2); 182154729392SStefano Zampini PetscCheckSameComm(sfA,1,sfB,2); 182229046d53SLisandro Dalcin PetscValidPointer(sfBA,3); 182354729392SStefano Zampini ierr = PetscSFCheckLeavesUnique_Private(sfA);CHKERRQ(ierr); 182454729392SStefano Zampini ierr = PetscSFCheckLeavesUnique_Private(sfB);CHKERRQ(ierr); 182554729392SStefano Zampini 1826a7b3aa13SAta Mesgarnejad ierr = PetscSFGetGraph(sfA,&numRootsA,&numLeavesA,&localPointsA,&remotePointsA);CHKERRQ(ierr); 1827a7b3aa13SAta Mesgarnejad ierr = PetscSFGetGraph(sfB,&numRootsB,&numLeavesB,&localPointsB,&remotePointsB);CHKERRQ(ierr); 1828d41018fbSJunchao Zhang if (localPointsA) { 182954729392SStefano Zampini ierr = PetscMalloc1(numRootsB,&reorderedRemotePointsA);CHKERRQ(ierr); 183054729392SStefano Zampini for (i=0; i<numRootsB; i++) { 183154729392SStefano Zampini reorderedRemotePointsA[i].rank = -1; 183254729392SStefano Zampini reorderedRemotePointsA[i].index = -1; 183354729392SStefano Zampini } 183454729392SStefano Zampini for (i=0; i<numLeavesA; i++) { 183554729392SStefano Zampini if (localPointsA[i] >= numRootsB) continue; 183654729392SStefano Zampini reorderedRemotePointsA[localPointsA[i]] = remotePointsA[i]; 183754729392SStefano Zampini } 1838d41018fbSJunchao Zhang remotePointsA = reorderedRemotePointsA; 1839d41018fbSJunchao Zhang } 1840d41018fbSJunchao Zhang ierr = PetscSFGetLeafRange(sfB,&minleaf,&maxleaf);CHKERRQ(ierr); 1841d41018fbSJunchao Zhang ierr = PetscMalloc1(maxleaf-minleaf+1,&leafdataB);CHKERRQ(ierr); 1842d41018fbSJunchao Zhang ierr = PetscSFBcastBegin(sfB,MPIU_2INT,remotePointsA,leafdataB-minleaf);CHKERRQ(ierr); 1843d41018fbSJunchao Zhang ierr = PetscSFBcastEnd(sfB,MPIU_2INT,remotePointsA,leafdataB-minleaf);CHKERRQ(ierr); 1844d41018fbSJunchao Zhang ierr = PetscFree(reorderedRemotePointsA);CHKERRQ(ierr); 1845d41018fbSJunchao Zhang 184654729392SStefano Zampini denseB = (PetscBool)!localPointsB; 184754729392SStefano Zampini for (i=0,numLeavesBA=0; i<numLeavesB; i++) { 184854729392SStefano Zampini if (leafdataB[localPointsB ? localPointsB[i]-minleaf : i].rank == -1) denseB = PETSC_FALSE; 184954729392SStefano Zampini else numLeavesBA++; 185054729392SStefano Zampini } 185154729392SStefano Zampini if (denseB) { 1852d41018fbSJunchao Zhang localPointsBA = NULL; 1853d41018fbSJunchao Zhang remotePointsBA = leafdataB; 1854d41018fbSJunchao Zhang } else { 185554729392SStefano Zampini ierr = PetscMalloc1(numLeavesBA,&localPointsBA);CHKERRQ(ierr); 185654729392SStefano Zampini ierr = PetscMalloc1(numLeavesBA,&remotePointsBA);CHKERRQ(ierr); 185754729392SStefano Zampini for (i=0,numLeavesBA=0; i<numLeavesB; i++) { 185854729392SStefano Zampini const PetscInt l = localPointsB ? localPointsB[i] : i; 185954729392SStefano Zampini 186054729392SStefano Zampini if (leafdataB[l-minleaf].rank == -1) continue; 186154729392SStefano Zampini remotePointsBA[numLeavesBA] = leafdataB[l-minleaf]; 186254729392SStefano Zampini localPointsBA[numLeavesBA] = l; 186354729392SStefano Zampini numLeavesBA++; 186454729392SStefano Zampini } 1865d41018fbSJunchao Zhang ierr = PetscFree(leafdataB);CHKERRQ(ierr); 1866d41018fbSJunchao Zhang } 186754729392SStefano Zampini ierr = PetscSFCreate(PetscObjectComm((PetscObject)sfA),sfBA);CHKERRQ(ierr); 186854729392SStefano Zampini ierr = PetscSFSetGraph(*sfBA,numRootsA,numLeavesBA,localPointsBA,PETSC_OWN_POINTER,remotePointsBA,PETSC_OWN_POINTER);CHKERRQ(ierr); 1869a7b3aa13SAta Mesgarnejad PetscFunctionReturn(0); 1870a7b3aa13SAta Mesgarnejad } 18711c6ba672SJunchao Zhang 187204c0ada0SJunchao Zhang /*@ 187354729392SStefano Zampini PetscSFComposeInverse - Compose a new PetscSF by putting the inverse of the second SF under the first one 187404c0ada0SJunchao Zhang 187504c0ada0SJunchao Zhang Input Parameters: 187654729392SStefano Zampini + sfA - The first PetscSF 187754729392SStefano Zampini - sfB - The second PetscSF 187804c0ada0SJunchao Zhang 187904c0ada0SJunchao Zhang Output Parameters: 188054729392SStefano Zampini . sfBA - The composite SF. 188104c0ada0SJunchao Zhang 188204c0ada0SJunchao Zhang Level: developer 188304c0ada0SJunchao Zhang 188454729392SStefano Zampini Notes: 188554729392SStefano Zampini Currently, the two SFs must be defined on congruent communicators and they must be true star 188654729392SStefano Zampini forests, i.e. the same leaf is not connected with different roots. Even more, all roots of the 188754729392SStefano Zampini second SF must have a degree of 1, i.e., no roots have more than one leaf connected. 188854729392SStefano Zampini 188954729392SStefano Zampini sfA's leaf space and sfB's leaf space might be partially overlapped. The composition builds 189054729392SStefano Zampini a graph with sfA's roots and sfB's roots only when there is a path between them. Unconnected 189154729392SStefano Zampini roots are not in sfBA. Doing a Bcast on the new SF is equivalent to doing a Bcast on sfA, then 189254729392SStefano Zampini a Reduce on sfB, on connected roots. 189354729392SStefano Zampini 189454729392SStefano Zampini .seealso: PetscSF, PetscSFCompose(), PetscSFGetGraph(), PetscSFSetGraph(), PetscSFCreateInverseSF() 189504c0ada0SJunchao Zhang @*/ 189604c0ada0SJunchao Zhang PetscErrorCode PetscSFComposeInverse(PetscSF sfA,PetscSF sfB,PetscSF *sfBA) 189704c0ada0SJunchao Zhang { 189804c0ada0SJunchao Zhang PetscErrorCode ierr; 189904c0ada0SJunchao Zhang const PetscSFNode *remotePointsA,*remotePointsB; 190004c0ada0SJunchao Zhang PetscSFNode *remotePointsBA; 190104c0ada0SJunchao Zhang const PetscInt *localPointsA,*localPointsB; 190254729392SStefano Zampini PetscSFNode *reorderedRemotePointsA = NULL; 190354729392SStefano Zampini PetscInt i,numRootsA,numLeavesA,numLeavesBA,numRootsB,numLeavesB,minleaf,maxleaf,*localPointsBA; 19045b0d146aSStefano Zampini MPI_Op op; 19055b0d146aSStefano Zampini #if defined(PETSC_USE_64BIT_INDICES) 19065b0d146aSStefano Zampini PetscBool iswin; 19075b0d146aSStefano Zampini #endif 190804c0ada0SJunchao Zhang 190904c0ada0SJunchao Zhang PetscFunctionBegin; 191004c0ada0SJunchao Zhang PetscValidHeaderSpecific(sfA,PETSCSF_CLASSID,1); 191104c0ada0SJunchao Zhang PetscSFCheckGraphSet(sfA,1); 191204c0ada0SJunchao Zhang PetscValidHeaderSpecific(sfB,PETSCSF_CLASSID,2); 191304c0ada0SJunchao Zhang PetscSFCheckGraphSet(sfB,2); 191454729392SStefano Zampini PetscCheckSameComm(sfA,1,sfB,2); 191504c0ada0SJunchao Zhang PetscValidPointer(sfBA,3); 191654729392SStefano Zampini ierr = PetscSFCheckLeavesUnique_Private(sfA);CHKERRQ(ierr); 191754729392SStefano Zampini ierr = PetscSFCheckLeavesUnique_Private(sfB);CHKERRQ(ierr); 191854729392SStefano Zampini 191904c0ada0SJunchao Zhang ierr = PetscSFGetGraph(sfA, &numRootsA, &numLeavesA, &localPointsA, &remotePointsA);CHKERRQ(ierr); 192004c0ada0SJunchao Zhang ierr = PetscSFGetGraph(sfB, &numRootsB, &numLeavesB, &localPointsB, &remotePointsB);CHKERRQ(ierr); 19215b0d146aSStefano Zampini 19225b0d146aSStefano Zampini /* TODO: Check roots of sfB have degree of 1 */ 19235b0d146aSStefano Zampini /* Once we implement it, we can replace the MPI_MAXLOC 19245b0d146aSStefano Zampini with MPIU_REPLACE. In that case, MPI_MAXLOC and MPIU_REPLACE have the same effect. 19255b0d146aSStefano Zampini We use MPI_MAXLOC only to have a deterministic output from this routine if 19265b0d146aSStefano Zampini the root condition is not meet. 19275b0d146aSStefano Zampini */ 19285b0d146aSStefano Zampini op = MPI_MAXLOC; 19295b0d146aSStefano Zampini #if defined(PETSC_USE_64BIT_INDICES) 19305b0d146aSStefano Zampini /* we accept a non-deterministic output (if any) with PETSCSFWINDOW, since MPI_MAXLOC cannot operate on MPIU_2INT with MPI_Accumulate */ 19315b0d146aSStefano Zampini ierr = PetscObjectTypeCompare((PetscObject)sfB,PETSCSFWINDOW,&iswin);CHKERRQ(ierr); 19325b0d146aSStefano Zampini if (iswin) op = MPIU_REPLACE; 19335b0d146aSStefano Zampini #endif 19345b0d146aSStefano Zampini 193554729392SStefano Zampini ierr = PetscSFGetLeafRange(sfB, &minleaf, &maxleaf);CHKERRQ(ierr); 193654729392SStefano Zampini ierr = PetscMalloc1(maxleaf - minleaf + 1,&reorderedRemotePointsA);CHKERRQ(ierr); 193754729392SStefano Zampini for (i=0; i<maxleaf - minleaf + 1; i++) { 193854729392SStefano Zampini reorderedRemotePointsA[i].rank = -1; 193954729392SStefano Zampini reorderedRemotePointsA[i].index = -1; 194054729392SStefano Zampini } 194154729392SStefano Zampini if (localPointsA) { 194254729392SStefano Zampini for (i=0; i<numLeavesA; i++) { 194354729392SStefano Zampini if (localPointsA[i] > maxleaf || localPointsA[i] < minleaf) continue; 194454729392SStefano Zampini reorderedRemotePointsA[localPointsA[i] - minleaf] = remotePointsA[i]; 194554729392SStefano Zampini } 194654729392SStefano Zampini } else { 194754729392SStefano Zampini for (i=0; i<numLeavesA; i++) { 194854729392SStefano Zampini if (i > maxleaf || i < minleaf) continue; 194954729392SStefano Zampini reorderedRemotePointsA[i - minleaf] = remotePointsA[i]; 195054729392SStefano Zampini } 195154729392SStefano Zampini } 195254729392SStefano Zampini 195354729392SStefano Zampini ierr = PetscMalloc1(numRootsB,&localPointsBA);CHKERRQ(ierr); 195404c0ada0SJunchao Zhang ierr = PetscMalloc1(numRootsB,&remotePointsBA);CHKERRQ(ierr); 195554729392SStefano Zampini for (i=0; i<numRootsB; i++) { 195654729392SStefano Zampini remotePointsBA[i].rank = -1; 195754729392SStefano Zampini remotePointsBA[i].index = -1; 195854729392SStefano Zampini } 195954729392SStefano Zampini 19605b0d146aSStefano Zampini ierr = PetscSFReduceBegin(sfB,MPIU_2INT,reorderedRemotePointsA-minleaf,remotePointsBA,op);CHKERRQ(ierr); 19615b0d146aSStefano Zampini ierr = PetscSFReduceEnd(sfB,MPIU_2INT,reorderedRemotePointsA-minleaf,remotePointsBA,op);CHKERRQ(ierr); 196254729392SStefano Zampini ierr = PetscFree(reorderedRemotePointsA);CHKERRQ(ierr); 196354729392SStefano Zampini for (i=0,numLeavesBA=0; i<numRootsB; i++) { 196454729392SStefano Zampini if (remotePointsBA[i].rank == -1) continue; 196554729392SStefano Zampini remotePointsBA[numLeavesBA].rank = remotePointsBA[i].rank; 196654729392SStefano Zampini remotePointsBA[numLeavesBA].index = remotePointsBA[i].index; 196754729392SStefano Zampini localPointsBA[numLeavesBA] = i; 196854729392SStefano Zampini numLeavesBA++; 196954729392SStefano Zampini } 197054729392SStefano Zampini ierr = PetscSFCreate(PetscObjectComm((PetscObject)sfA),sfBA);CHKERRQ(ierr); 197154729392SStefano Zampini ierr = PetscSFSetGraph(*sfBA,numRootsA,numLeavesBA,localPointsBA,PETSC_OWN_POINTER,remotePointsBA,PETSC_OWN_POINTER);CHKERRQ(ierr); 197204c0ada0SJunchao Zhang PetscFunctionReturn(0); 197304c0ada0SJunchao Zhang } 197404c0ada0SJunchao Zhang 19751c6ba672SJunchao Zhang /* 19761c6ba672SJunchao Zhang PetscSFCreateLocalSF_Private - Creates a local PetscSF that only has intra-process edges of the global PetscSF 19771c6ba672SJunchao Zhang 19781c6ba672SJunchao Zhang Input Parameters: 19791c6ba672SJunchao Zhang . sf - The global PetscSF 19801c6ba672SJunchao Zhang 19811c6ba672SJunchao Zhang Output Parameters: 19821c6ba672SJunchao Zhang . out - The local PetscSF 19831c6ba672SJunchao Zhang */ 19841c6ba672SJunchao Zhang PetscErrorCode PetscSFCreateLocalSF_Private(PetscSF sf,PetscSF *out) 19851c6ba672SJunchao Zhang { 19861c6ba672SJunchao Zhang MPI_Comm comm; 19871c6ba672SJunchao Zhang PetscMPIInt myrank; 19881c6ba672SJunchao Zhang const PetscInt *ilocal; 19891c6ba672SJunchao Zhang const PetscSFNode *iremote; 19901c6ba672SJunchao Zhang PetscInt i,j,nroots,nleaves,lnleaves,*lilocal; 19911c6ba672SJunchao Zhang PetscSFNode *liremote; 19921c6ba672SJunchao Zhang PetscSF lsf; 19931c6ba672SJunchao Zhang PetscErrorCode ierr; 19941c6ba672SJunchao Zhang 19951c6ba672SJunchao Zhang PetscFunctionBegin; 19961c6ba672SJunchao Zhang PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 19971c6ba672SJunchao Zhang if (sf->ops->CreateLocalSF) { 19981c6ba672SJunchao Zhang ierr = (*sf->ops->CreateLocalSF)(sf,out);CHKERRQ(ierr); 19991c6ba672SJunchao Zhang } else { 20001c6ba672SJunchao Zhang /* Could use PetscSFCreateEmbeddedLeafSF, but since we know the comm is PETSC_COMM_SELF, we can make it fast */ 20011c6ba672SJunchao Zhang ierr = PetscObjectGetComm((PetscObject)sf,&comm);CHKERRQ(ierr); 20021c6ba672SJunchao Zhang ierr = MPI_Comm_rank(comm,&myrank);CHKERRQ(ierr); 20031c6ba672SJunchao Zhang 20041c6ba672SJunchao Zhang /* Find out local edges and build a local SF */ 20051c6ba672SJunchao Zhang ierr = PetscSFGetGraph(sf,&nroots,&nleaves,&ilocal,&iremote);CHKERRQ(ierr); 20061c6ba672SJunchao Zhang for (i=lnleaves=0; i<nleaves; i++) {if (iremote[i].rank == (PetscInt)myrank) lnleaves++;} 20071c6ba672SJunchao Zhang ierr = PetscMalloc1(lnleaves,&lilocal);CHKERRQ(ierr); 20081c6ba672SJunchao Zhang ierr = PetscMalloc1(lnleaves,&liremote);CHKERRQ(ierr); 20091c6ba672SJunchao Zhang 20101c6ba672SJunchao Zhang for (i=j=0; i<nleaves; i++) { 20111c6ba672SJunchao Zhang if (iremote[i].rank == (PetscInt)myrank) { 20121c6ba672SJunchao Zhang lilocal[j] = ilocal? ilocal[i] : i; /* ilocal=NULL for contiguous storage */ 20131c6ba672SJunchao Zhang liremote[j].rank = 0; /* rank in PETSC_COMM_SELF */ 20141c6ba672SJunchao Zhang liremote[j].index = iremote[i].index; 20151c6ba672SJunchao Zhang j++; 20161c6ba672SJunchao Zhang } 20171c6ba672SJunchao Zhang } 20181c6ba672SJunchao Zhang ierr = PetscSFCreate(PETSC_COMM_SELF,&lsf);CHKERRQ(ierr); 20191c6ba672SJunchao Zhang ierr = PetscSFSetGraph(lsf,nroots,lnleaves,lilocal,PETSC_OWN_POINTER,liremote,PETSC_OWN_POINTER);CHKERRQ(ierr); 20201c6ba672SJunchao Zhang ierr = PetscSFSetUp(lsf);CHKERRQ(ierr); 20211c6ba672SJunchao Zhang *out = lsf; 20221c6ba672SJunchao Zhang } 20231c6ba672SJunchao Zhang PetscFunctionReturn(0); 20241c6ba672SJunchao Zhang } 2025dd5b3ca6SJunchao Zhang 2026dd5b3ca6SJunchao Zhang /* Similar to PetscSFBcast, but only Bcast to leaves on rank 0 */ 2027dd5b3ca6SJunchao Zhang PetscErrorCode PetscSFBcastToZero_Private(PetscSF sf,MPI_Datatype unit,const void *rootdata,void *leafdata) 2028dd5b3ca6SJunchao Zhang { 2029dd5b3ca6SJunchao Zhang PetscErrorCode ierr; 2030eb02082bSJunchao Zhang PetscMemType rootmtype,leafmtype; 2031dd5b3ca6SJunchao Zhang 2032dd5b3ca6SJunchao Zhang PetscFunctionBegin; 2033dd5b3ca6SJunchao Zhang PetscValidHeaderSpecific(sf,PETSCSF_CLASSID,1); 2034dd5b3ca6SJunchao Zhang ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 2035dd5b3ca6SJunchao Zhang ierr = PetscLogEventBegin(PETSCSF_BcastAndOpBegin,sf,0,0,0);CHKERRQ(ierr); 2036eb02082bSJunchao Zhang ierr = PetscGetMemType(rootdata,&rootmtype);CHKERRQ(ierr); 2037eb02082bSJunchao Zhang ierr = PetscGetMemType(leafdata,&leafmtype);CHKERRQ(ierr); 2038dd5b3ca6SJunchao Zhang if (sf->ops->BcastToZero) { 2039eb02082bSJunchao Zhang ierr = (*sf->ops->BcastToZero)(sf,unit,rootmtype,rootdata,leafmtype,leafdata);CHKERRQ(ierr); 2040dd5b3ca6SJunchao Zhang } else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"PetscSFBcastToZero_Private is not supported on this SF type"); 2041dd5b3ca6SJunchao Zhang ierr = PetscLogEventEnd(PETSCSF_BcastAndOpBegin,sf,0,0,0);CHKERRQ(ierr); 2042dd5b3ca6SJunchao Zhang PetscFunctionReturn(0); 2043dd5b3ca6SJunchao Zhang } 2044dd5b3ca6SJunchao Zhang 2045