public void H5Sselect_allTest4()
{
hid_t space = H5S.create(H5S.class_t.SCALAR);
Assert.IsTrue(space > 0);
Assert.IsTrue(H5S.select_all(space) >= 0);
Assert.IsTrue(H5S.get_select_npoints(space) == 1);
Assert.IsTrue(H5S.close(space) >= 0);
}
public void H5Sselect_noneTest3()
{
hid_t space = H5S.create(H5S.class_t.NULL);
Assert.IsTrue(space > 0);
Assert.IsTrue(H5S.select_none(space) >= 0);
Assert.IsTrue(H5S.get_select_npoints(space) == 0);
Assert.IsTrue(H5S.close(space) >= 0);
}
public void H5Sselect_allTest1()
{
hsize_t[] dims = { 1, 2, 3 };
hid_t space = H5S.create_simple(dims.Length, dims, null);
Assert.IsTrue(space > 0);
Assert.IsTrue(H5S.select_all(space) >= 0);
Assert.IsTrue(H5S.get_select_npoints(space) == 6);
Assert.IsTrue(H5S.close(space) >= 0);
}
public Array Get()
{
Array result = null;
WithDataSpace((h5Ref, dsRef) =>
{
var success = H5S.select_none(dsRef);
if (success < 0)
{
throw new H5SSException("Error with dataspace: select_none");
}
success = H5S.select_all(dsRef);
if (success < 0)
{
throw new H5SSException("Error with dataspace: select_all");
}
int selectElemNpoints = (int)H5S.get_select_npoints(dsRef);
var effectiveSize = ElementSize * selectElemNpoints;
if (DataType == HDF5DataType.String)
{
effectiveSize *= _stringLength;
}
IntPtr iPtr = Marshal.AllocHGlobal(effectiveSize); // TODO Deallocate
try
{
var dtype = H5D.get_type(h5Ref); // Return?
success = H5D.read(h5Ref, dtype, H5S.ALL, dsRef, H5P.DEFAULT, iPtr);
H5T.close(dtype);
if (success < 0)
{
throw new H5SSException("Error reading dataset");
}
var tmp = CreateClrArray(iPtr, selectElemNpoints);
var shape = Shape.Select(ul => (long)ul).ToArray();
if (ClrType == typeof(byte))
{
shape = shape.Concat(new[] { (long)_stringLength }).ToArray();
}
result = Array.CreateInstance(ClrType, shape);
Buffer.BlockCopy(tmp, 0, result, 0, effectiveSize);
}
finally
{
Marshal.FreeHGlobal(iPtr);
}
// Convert bytes to characters...
if (DataType == HDF5DataType.String)
{
byte[,] byteArray = (byte[, ])result;
result = Enumerable.Range(0, byteArray.GetLength(0)).Select(i =>
{
var slice = Enumerable.Range(0, byteArray.GetLength(1)).Select(j => byteArray[i, j]).ToArray();
//return System.Text.Encoding.Default.GetString(slice);
return(Encoding.ASCII.GetString(slice).TrimEnd((Char)0));
}).ToArray();
}
H5S.get_simple_extent_dims(dsRef, _shape, _maxDims); // WTF?
});
return(result);
}
public static T[] Read <T>(long dataPortId, DataContainerType dataContainerType, long dataspaceId = -1)
{
long dataspaceId_file = -1;
long dataspaceId_memory = -1;
long typeId = -1;
long elementCount;
int elementTypeSize;
int byteLength;
IntPtr bufferPtr;
Type elementType;
T[] returnValue;
elementTypeSize = 0;
byteLength = 0;
bufferPtr = IntPtr.Zero;
elementType = typeof(T);
returnValue = null;
try
{
if (dataspaceId > -1)
{
dataspaceId = H5S.copy(dataspaceId);
}
switch (dataContainerType)
{
case DataContainerType.Attribute:
if (dataspaceId == -1)
{
dataspaceId = H5A.get_space(dataPortId);
}
break;
case DataContainerType.Dataset:
if (dataspaceId == -1)
{
dataspaceId = H5D.get_space(dataPortId);
}
dataspaceId_file = dataspaceId;
break;
default:
throw new NotSupportedException();
}
if (elementType == typeof(string))
{
elementTypeSize = Marshal.SizeOf <IntPtr>();
}
else if (elementType == typeof(bool))
{
elementTypeSize = Marshal.SizeOf <byte>();
}
else
{
elementTypeSize = Marshal.SizeOf(elementType);
}
elementCount = H5S.get_select_npoints(dataspaceId);
byteLength = (int)elementCount * elementTypeSize;
bufferPtr = Marshal.AllocHGlobal(byteLength);
typeId = TypeConversionHelper.GetHdfTypeIdFromType(elementType);
switch (dataContainerType)
{
case DataContainerType.Attribute:
if (H5A.read(dataPortId, typeId, bufferPtr) < 0)
{
throw new Exception(ErrorMessage.IOHelper_CouldNotReadAttribute);
}
break;
case DataContainerType.Dataset:
dataspaceId_memory = H5S.create_simple(1, new ulong[] { (ulong)elementCount }, new ulong[] { (ulong)elementCount });
if (H5D.read(dataPortId, typeId, dataspaceId_memory, dataspaceId_file, H5P.DEFAULT, bufferPtr) < 0)
{
throw new Exception(ErrorMessage.IOHelper_CouldNotReadDataset);
}
break;
default:
throw new NotSupportedException();
}
if (elementType.IsPrimitive)
{
T[] genericSet;
GCHandle gcHandle;
byte[] byteSet;
genericSet = new T[(int)elementCount];
gcHandle = GCHandle.Alloc(genericSet, GCHandleType.Pinned);
byteSet = new byte[byteLength];
Marshal.Copy(bufferPtr, byteSet, 0, byteLength);
Marshal.Copy(byteSet, 0, gcHandle.AddrOfPinnedObject(), byteLength);
returnValue = genericSet;
gcHandle.Free();
}
else if (elementType == typeof(string))
{
IntPtr[] intPtrSet;
intPtrSet = new IntPtr[(int)elementCount];
Marshal.Copy(bufferPtr, intPtrSet, 0, (int)elementCount);
returnValue = intPtrSet.Select(x =>
{
string result = Marshal.PtrToStringAnsi(x);
H5.free_memory(x);
return(result);
}).Cast <T>().ToArray();
}
else if (elementType.IsValueType && !elementType.IsPrimitive && !elementType.IsEnum)
{
T[] structSet;
int offset;
structSet = new T[(int)elementCount];
offset = 0;
Enumerable.Range(0, (int)elementCount).ToList().ForEach(x =>
{
structSet[x] = Marshal.PtrToStructure <T>(IntPtr.Add(bufferPtr, offset));
offset += elementTypeSize;
});
returnValue = structSet;
}
else
{
throw new NotSupportedException();
}
}
finally
{
Marshal.FreeHGlobal(bufferPtr);
if (H5I.is_valid(typeId) > 0)
{
H5T.close(typeId);
}
if (H5I.is_valid(dataspaceId_memory) > 0)
{
H5S.close(dataspaceId_memory);
}
if (H5I.is_valid(dataspaceId) > 0)
{
H5S.close(dataspaceId);
}
}
return(returnValue);
}
public void H5Sget_select_npointsTest2()
{
Assert.IsFalse(
H5S.get_select_npoints(Utilities.RandomInvalidHandle()) >= 0);
}