1d70abbfaSBarry Smith 226bd1501SBarry Smith #if !defined(PETSCVIEWERHDF5_H) 326bd1501SBarry Smith #define PETSCVIEWERHDF5_H 4d70abbfaSBarry Smith 5d70abbfaSBarry Smith #include <petscviewer.h> 6d70abbfaSBarry Smith 72c1a2d08SJed Brown #if defined(PETSC_HAVE_HDF5) 8d70abbfaSBarry Smith #include <hdf5.h> 9ee8b9732SVaclav Hapla #if !defined(H5_VERSION_GE) 10ee8b9732SVaclav Hapla /* H5_VERSION_GE was introduced in HDF5 1.8.7, we support >= 1.8.0 */ 11ee8b9732SVaclav Hapla /* So beware this will automatically 0 for HDF5 1.8.0 - 1.8.6 */ 12ee8b9732SVaclav Hapla #define H5_VERSION_GE(a,b,c) 0 13ee8b9732SVaclav Hapla #endif 14ee8b9732SVaclav Hapla 15d70abbfaSBarry Smith PETSC_EXTERN PetscErrorCode PetscViewerHDF5GetFileId(PetscViewer,hid_t*); 16d70abbfaSBarry Smith PETSC_EXTERN PetscErrorCode PetscViewerHDF5OpenGroup(PetscViewer, hid_t *, hid_t *); 17d70abbfaSBarry Smith 18d70abbfaSBarry Smith /* On 32 bit systems HDF5 is limited by size of integer, because hsize_t is defined as size_t */ 1984ccb19eSJed Brown #define PETSC_HDF5_INT_MAX (~(hsize_t)0) 20d70abbfaSBarry Smith 2187de8cd9SSajid Ali /* As per https://portal.hdfgroup.org/display/HDF5/Chunking+in+HDF5, max. chunk size is 4GB */ 2287de8cd9SSajid Ali #define PETSC_HDF5_MAX_CHUNKSIZE 2147483647 2387de8cd9SSajid Ali 249fbee547SJacob Faibussowitsch static inline PetscErrorCode PetscViewerHDF5PathIsRelative(const char path[], PetscBool emptyIsRelative, PetscBool *has) 254302210dSVaclav Hapla { 264302210dSVaclav Hapla size_t len; 274302210dSVaclav Hapla 284302210dSVaclav Hapla PetscFunctionBegin; 294302210dSVaclav Hapla *has = emptyIsRelative; 30*5f80ce2aSJacob Faibussowitsch CHKERRQ(PetscStrlen(path,&len)); 31*5f80ce2aSJacob Faibussowitsch if (len) *has = (PetscBool) (path[0] != '/'); 324302210dSVaclav Hapla PetscFunctionReturn(0); 334302210dSVaclav Hapla } 344302210dSVaclav Hapla 359fbee547SJacob Faibussowitsch static inline PetscErrorCode PetscHDF5IntCast(PetscInt a,hsize_t *b) 36d70abbfaSBarry Smith { 37d70abbfaSBarry Smith PetscFunctionBegin; 382c71b3e2SJacob Faibussowitsch PetscCheck(a >= 0,PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Cannot convert negative size"); 3984ccb19eSJed Brown #if defined(PETSC_USE_64BIT_INDICES) && (H5_SIZEOF_HSIZE_T == 4) 402c71b3e2SJacob Faibussowitsch PetscCheck(a >= PETSC_HDF5_INT_MAX,PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Array too long for HDF5"); 41d70abbfaSBarry Smith #endif 42d70abbfaSBarry Smith *b = (hsize_t)(a); 43d70abbfaSBarry Smith PetscFunctionReturn(0); 44d70abbfaSBarry Smith } 4536bce6e8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscDataTypeToHDF5DataType(PetscDataType,hid_t*); 4636bce6e8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscHDF5DataTypeToPetscDataType(hid_t,PetscDataType*); 472c1a2d08SJed Brown 4889e0ef10SVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5HasDataset(PetscViewer,const char[],PetscBool*); 49ecce1506SVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5HasObject(PetscViewer,PetscObject,PetscBool*); 50d70ec8faSVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5ReadAttribute(PetscViewer,const char[],const char[],PetscDataType,const void*,void*); 5136bce6e8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscViewerHDF5WriteAttribute(PetscViewer,const char[],const char[],PetscDataType,const void*); 52e7bdbf8eSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscViewerHDF5HasAttribute(PetscViewer,const char[],const char[],PetscBool*); 53a2d6be1bSVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5ReadObjectAttribute(PetscViewer,PetscObject,const char[],PetscDataType,void*,void*); 54577e0e04SVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5WriteObjectAttribute(PetscViewer,PetscObject,const char[],PetscDataType,const void*); 55577e0e04SVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5HasObjectAttribute(PetscViewer,PetscObject,const char[],PetscBool*); 56d70abbfaSBarry Smith 57d70abbfaSBarry Smith PETSC_EXTERN PetscErrorCode PetscViewerHDF5Open(MPI_Comm,const char[],PetscFileMode,PetscViewer*); 58be7aa430SVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5PushGroup(PetscViewer,const char[]); 59d70abbfaSBarry Smith PETSC_EXTERN PetscErrorCode PetscViewerHDF5PopGroup(PetscViewer); 60be7aa430SVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5GetGroup(PetscViewer,const char*[]); 61535716cbSVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5HasGroup(PetscViewer,const char[],PetscBool*); 62d7dd068bSVaclav Hapla 6319a20e4cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscViewerHDF5SetDefaultTimestepping(PetscViewer,PetscBool); 6419a20e4cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscViewerHDF5GetDefaultTimestepping(PetscViewer,PetscBool*); 65d7dd068bSVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5PushTimestepping(PetscViewer); 66d7dd068bSVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5PopTimestepping(PetscViewer); 67d7dd068bSVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5IsTimestepping(PetscViewer,PetscBool*); 68d70abbfaSBarry Smith PETSC_EXTERN PetscErrorCode PetscViewerHDF5IncrementTimestep(PetscViewer); 69d70abbfaSBarry Smith PETSC_EXTERN PetscErrorCode PetscViewerHDF5SetTimestep(PetscViewer,PetscInt); 70d70abbfaSBarry Smith PETSC_EXTERN PetscErrorCode PetscViewerHDF5GetTimestep(PetscViewer,PetscInt*); 71d70abbfaSBarry Smith 7282ea9b62SBarry Smith PETSC_EXTERN PetscErrorCode PetscViewerHDF5SetBaseDimension2(PetscViewer,PetscBool); 7382ea9b62SBarry Smith PETSC_EXTERN PetscErrorCode PetscViewerHDF5GetBaseDimension2(PetscViewer,PetscBool*); 7482ea9b62SBarry Smith 759a0502c6SHåkon Strandenes PETSC_EXTERN PetscErrorCode PetscViewerHDF5SetSPOutput(PetscViewer,PetscBool); 769a0502c6SHåkon Strandenes PETSC_EXTERN PetscErrorCode PetscViewerHDF5GetSPOutput(PetscViewer,PetscBool*); 77ee8b9732SVaclav Hapla 78ee8b9732SVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5SetCollective(PetscViewer,PetscBool); 79ee8b9732SVaclav Hapla PETSC_EXTERN PetscErrorCode PetscViewerHDF5GetCollective(PetscViewer,PetscBool*); 807847244bSVaclav Hapla #endif /* defined(PETSC_HAVE_HDF5) */ 81d70abbfaSBarry Smith #endif 82