// Get reads data from the file.
func (f *File) Get(name string, something interface{}) error {
value := reflect.ValueOf(something)
if value.Kind() != reflect.Ptr {
return errors.New("expected a pointer")
}
value = reflect.Indirect(value)
cname := C.CString(name)
defer C.free(unsafe.Pointer(cname))
did := C.H5Dopen2(f.fid, cname, C.H5P_DEFAULT)
if did < 0 {
return errors.New("cannot find the dataset")
}
defer C.H5Dclose(did)
object := newObject()
defer object.free()
object.tid = C.H5Dget_type(did)
if object.tid < 0 {
return errors.New("cannot get the datatype of the dataset")
}
if err := initializeToGet(object, value); err != nil {
return err
}
if C.H5Dread(did, object.tid, C.H5S_ALL, C.H5S_ALL, C.H5P_DEFAULT, object.data) < 0 {
return errors.New("cannot read the dataset from the file")
}
if err := finalizeToGet(object, value); err != nil {
return err
}
one := C.hsize_t(1)
sid := C.H5Screate_simple(1, (*C.hsize_t)(unsafe.Pointer(&one)), nil)
if sid < 0 {
return errors.New("cannot create a data space")
}
defer C.H5Sclose(sid)
if C.H5Dvlen_reclaim(object.tid, sid, C.H5P_DEFAULT, object.data) < 0 {
return errors.New("cannot reclaim memory")
}
return nil
}
// ReadSubset reads a subset of raw data from a dataset into a buffer.
func (s *Dataset) ReadSubset(data interface{}, dtype *Datatype, memspace, filespace *Dataspace) error {
var addr uintptr
v := reflect.ValueOf(data)
switch v.Kind() {
case reflect.Array:
addr = v.UnsafeAddr()
case reflect.String:
str := (*reflect.StringHeader)(unsafe.Pointer(v.UnsafeAddr()))
addr = str.Data
case reflect.Ptr:
addr = v.Pointer()
default:
addr = v.UnsafeAddr()
}
var filespace_id, memspace_id C.hid_t = 0, 0
if memspace != nil {
memspace_id = memspace.id
}
if filespace != nil {
filespace_id = filespace.id
}
rc := C.H5Dread(s.id, dtype.id, memspace_id, filespace_id, 0, unsafe.Pointer(addr))
err := h5err(rc)
return err
}
// Reads raw data from a dataset into a buffer.
// herr_t H5Dread(hid_t dataset_id, hid_t mem_type_id, hid_t mem_space_id, hid_t file_space_id, hid_t xfer_plist_id, void * buf )
func (s *DataSet) Read(data interface{}, dtype *DataType) error {
var addr uintptr
v := reflect.ValueOf(data)
//fmt.Printf(":: read[%s]...\n", v.Kind())
switch v.Kind() {
case reflect.Array:
addr = v.UnsafeAddr()
case reflect.Slice:
addr = v.Pointer()
case reflect.String:
str := (*reflect.StringHeader)(unsafe.Pointer(v.UnsafeAddr()))
addr = str.Data
case reflect.Ptr:
addr = v.Pointer()
default:
addr = v.UnsafeAddr()
}
rc := C.H5Dread(s.id, dtype.id, 0, 0, 0, unsafe.Pointer(addr))
err := togo_err(rc)
return err
}
// Reads raw data from a dataset into a buffer.
// herr_t H5Dread(hid_t dataset_id, hid_t mem_type_id, hid_t mem_space_id, hid_t file_space_id, hid_t xfer_plist_id, void * buf )
func (s *Dataset) Read(data interface{}, dtype *Datatype) error {
var addr uintptr
var tmp_slice []byte
post_process := false
v := reflect.ValueOf(data)
//fmt.Printf(":: read[%s]...\n", v.Kind())
switch v.Kind() {
case reflect.Array:
addr = v.UnsafeAddr()
case reflect.Slice:
if v.Index(0).Kind() == reflect.String && C.H5Tis_variable_str(dtype.id) == 0 {
tmp_slice = make([]byte, v.Len()*int(dtype.Size()))
addr = reflect.ValueOf(tmp_slice).Pointer()
post_process = true
} else {
addr = v.Pointer()
}
case reflect.String:
str := (*reflect.StringHeader)(unsafe.Pointer(v.UnsafeAddr()))
addr = str.Data
case reflect.Ptr:
addr = v.Pointer()
default:
addr = v.UnsafeAddr()
}
rc := C.H5Dread(s.id, dtype.id, 0, 0, 0, unsafe.Pointer(addr))
err := h5err(rc)
if err == nil && post_process {
str_len := int(dtype.Size())
p := 0
for i := 0; i < v.Len(); i++ {
str := tmp_slice[p : p+str_len]
n := bytes.Index(str, []byte{0})
if n < 0 {
n = str_len
}
v.Index(i).SetString(string(str[:n]))
p += str_len
}
}
return err
}
// ReadSubset reads a subset of raw data from a dataset into a buffer.
func (s *Dataset) ReadSubset(data interface{}, memspace, filespace *Dataspace) error {
dtype, err := s.Datatype()
defer dtype.Close()
if err != nil {
return err
}
var addr unsafe.Pointer
v := reflect.Indirect(reflect.ValueOf(data))
switch v.Kind() {
case reflect.Array:
addr = unsafe.Pointer(v.UnsafeAddr())
case reflect.Slice:
slice := (*reflect.SliceHeader)(unsafe.Pointer(v.UnsafeAddr()))
addr = unsafe.Pointer(slice.Data)
case reflect.String:
str := (*reflect.StringHeader)(unsafe.Pointer(v.UnsafeAddr()))
addr = unsafe.Pointer(str.Data)
case reflect.Ptr:
addr = unsafe.Pointer(v.Pointer())
default:
addr = unsafe.Pointer(v.UnsafeAddr())
}
var filespace_id, memspace_id C.hid_t = 0, 0
if memspace != nil {
memspace_id = memspace.id
}
if filespace != nil {
filespace_id = filespace.id
}
rc := C.H5Dread(s.id, dtype.id, memspace_id, filespace_id, 0, addr)
err = h5err(rc)
return err
}