public static object GetObject(Hdf5Identifier _fileId, AbstractHdf5Object _parent, string _objectName)
{
Hdf5Path combinedPath = _parent.Path.Append(_objectName);
object output = null;
if (combinedPath != null)
{
string fullPath = combinedPath.FullPath;
H5O.info_t gInfo = new H5O.info_t();
H5O.get_info_by_name(_fileId.Value, fullPath, ref gInfo);
var id = H5O.open(_fileId.Value, fullPath).ToId();
if (id.Value > 0)
{
if (gInfo.type == H5O.type_t.DATASET)
{
output = DatasetHelper.LoadDataset(_fileId, id, fullPath);
}
if (gInfo.type == H5O.type_t.GROUP)
{
Hdf5Group group = new Hdf5Group(_fileId, id, fullPath);
group.FileId = _fileId;
group.LoadChildObjects();
output = group;
}
H5O.close(id.Value);
}
}
return(output);
}
public static Hdf5Dataset CreateDatasetAddToDatasets(
ReadonlyNamedItemList <Hdf5Dataset> _datasets,
Hdf5Identifier _fileId,
Hdf5Path _parentPath,
string _name,
Hdf5DataTypes _datatype,
int _numberOfDimensions,
List <Hdf5DimensionProperty> _properties,
Hdf5CompressionProperty _compressionProperty = null)
{
Hdf5Dataset dataset = CreateDataset(
_fileId,
_parentPath,
_name,
_datatype,
_numberOfDimensions,
_properties,
_compressionProperty);
if (dataset != null)
{
_datasets.Add(dataset);
}
return(dataset);
}
public static Hdf5Dataset CreateDataset(
Hdf5Identifier _fileId,
Hdf5Path _parentPath,
string _name,
Hdf5DataTypes _datatype,
int _numberOfDimensions,
List <Hdf5DimensionProperty> _properties)
{
Hdf5Path path = _parentPath.Append(_name);
UInt64[] dimensionSize = new UInt64[_numberOfDimensions];
UInt64[] maxSize = null; // new UInt64[_numberOfDimensions];
int i = 0;
foreach (var property in _properties)
{
dimensionSize[i] = property.CurrentSize;
//if (property.MaximumSize == UInt64.MaxValue)
//{
// maxSize[i] = H5S.UNLIMITED;
//}
//else
//{
// maxSize[i] = property.MaximumSize;
//}
i++;
}
Hdf5Identifier dataspaceId = H5S.create_simple(_numberOfDimensions, dimensionSize, maxSize).ToId();
//TODO handle string datasets
Hdf5Identifier typeId = H5T.copy(TypeHelper.GetNativeType(_datatype).Value).ToId();
var status = H5T.set_order(typeId.Value, H5T.order_t.LE);
Hdf5Identifier datasetId = H5D.create(_fileId.Value, path.FullPath, typeId.Value, dataspaceId.Value).ToId();
Hdf5Dataset dataset = null;
if (datasetId.Value > 0)
{
dataset = new Hdf5Dataset(_fileId, datasetId, path.FullPath)
{
DataType = TypeHelper.GetDataTypeFromDataset(datasetId),
Dataspace = DataspaceHelper.GetDataspace(datasetId)
};
H5D.close(datasetId.Value);
}
H5T.close(typeId.Value);
FileHelper.FlushToFile(_fileId);
return(dataset);
}
public static Hdf5Group CreateGroupAddToList(
ReadonlyNamedItemList <Hdf5Group> _groups,
Hdf5Identifier _fileId,
Hdf5Path _parentPath,
string _name)
{
Hdf5Group group = CreateGroup(_fileId, _parentPath, _name);
if (group != null)
{
_groups.Add(group);
}
return(group);
}
public static Hdf5Group CreateGroup(Hdf5Identifier _fileId, Hdf5Path _parentPath, string _name)
{
Hdf5Path path = _parentPath.Append(_name);
var id = H5G.create(_fileId.Value, path.FullPath);
if (id > 0)
{
Hdf5Group group = new Hdf5Group(_fileId, id.ToId(), path.FullPath);
H5G.close(id);
FileHelper.FlushToFile(_fileId);
return(group);
}
return(null);
}
public void AppendToRoot()
{
try
{
Hdf5Path path = new Hdf5Path("/");
var newpath = path.Append("addthis");
Assert.AreEqual(newpath.FullPath, "addthis");
}
catch (Exception ex)
{
Assert.IsInstanceOf <ArgumentNullException>(ex);
}
}
public void AppendToSlash()
{
try
{
Hdf5Path path = new Hdf5Path("thepath/");
var newpath = path.Append("isclear");
Assert.AreEqual(newpath.FullPath, "thepath/isclear");
}
catch (Exception ex)
{
Assert.IsInstanceOf <ArgumentNullException>(ex);
}
}
public void AppendNull()
{
try
{
Hdf5Path path = new Hdf5Path("thepath");
path.Append(null);
Assert.Fail("Should have caused an exception");
}
catch (Exception ex)
{
Assert.IsInstanceOf <ArgumentNullException>(ex);
}
}
public static Hdf5Path Append(this Hdf5Path _path, string _childName)
{
if (_childName == null)
{
throw new ArgumentNullException("_childName");
}
if (_path != null &&
_path.FullPath != "/")
{
string fullPath = _path.FullPath;
if (fullPath.EndsWith("/"))
{
return(new Hdf5Path(fullPath + _childName));
}
return(new Hdf5Path(fullPath + "/" + _childName));
}
return(new Hdf5Path(_childName));
}
public static Hdf5Dataset CreateDataset(
Hdf5Identifier _fileId,
Hdf5Path _parentPath,
string _name,
Hdf5DataTypes _datatype,
int _numberOfDimensions,
List <Hdf5DimensionProperty> _properties,
Hdf5CompressionProperty _compressionProperty = null)
{
Hdf5Path path = _parentPath.Append(_name);
UInt64[] dimensionSize = new UInt64[_numberOfDimensions];
UInt64[] maxSize = null; // new UInt64[_numberOfDimensions];
if (_numberOfDimensions != _properties.Count ||
(_compressionProperty != null && _numberOfDimensions != _compressionProperty.ChunkDimensions.Length))
{
throw new Hdf5ArrayDimensionsMismatchException();
}
int i = 0;
foreach (var property in _properties)
{
dimensionSize[i] = property.CurrentSize;
if (_compressionProperty != null && _compressionProperty.ChunkDimensions[i] > property.CurrentSize)
{
throw new Hdf5ArraySizeMismatchException();
}
i++;
}
Hdf5Identifier dataspaceId = H5S.create_simple(_numberOfDimensions, dimensionSize, maxSize).ToId();
//TODO handle string datasets
Hdf5Identifier typeId = H5T.copy(TypeHelper.GetNativeType(_datatype).Value).ToId();
var status = H5T.set_order(typeId.Value, H5T.order_t.LE);
var plist_id = _compressionProperty != null?H5P.create(H5P.DATASET_CREATE) : 0;
if (plist_id != 0)
{
H5P.set_chunk(plist_id, _compressionProperty.ChunkDimensions.Length, _compressionProperty.ChunkDimensions);
H5P.set_deflate(plist_id, _compressionProperty.CompressionLevel);
}
Hdf5Identifier datasetId = H5D.create(_fileId.Value, path.FullPath, typeId.Value, dataspaceId.Value, dcpl_id: plist_id).ToId();
Hdf5Dataset dataset = null;
if (datasetId.Value > 0)
{
dataset = new Hdf5Dataset(_fileId, datasetId, path.FullPath)
{
DataType = TypeHelper.GetDataTypeFromDataset(datasetId),
Dataspace = DataspaceHelper.GetDataspace(datasetId)
};
H5D.close(datasetId.Value);
}
H5T.close(typeId.Value);
if (plist_id != 0)
{
H5P.close(plist_id);
}
FileHelper.FlushToFile(_fileId);
return(dataset);
}
