/// <summary>
/// Extracts the palette color LUT from DICOM dataset, valid for PALETTE COLOR <seealso cref="PhotometricInterpretation"/>
/// </summary>
/// <returns>Palette color LUT</returns>
/// <exception cref="DicomImagingException">Invalid photometric interpretation or plaette color lUT missing from database</exception>
private Color32[] GetPaletteColorLUT()
{
if (PhotometricInterpretation != PhotometricInterpretation.PaletteColor)
{
throw new DicomImagingException(
"Attempted to get Palette Color LUT from image with invalid photometric interpretation.");
}
if (!Dataset.Contains(DicomTag.RedPaletteColorLookupTableDescriptor))
{
throw new DicomImagingException("Palette Color LUT missing from dataset.");
}
int size = Dataset.Get <int>(DicomTag.RedPaletteColorLookupTableDescriptor, 0);
int first = Dataset.Get <int>(DicomTag.RedPaletteColorLookupTableDescriptor, 1);
int bits = Dataset.Get <int>(DicomTag.RedPaletteColorLookupTableDescriptor, 2);
var r = Dataset.Get <byte[]>(DicomTag.RedPaletteColorLookupTableData);
var g = Dataset.Get <byte[]>(DicomTag.GreenPaletteColorLookupTableData);
var b = Dataset.Get <byte[]>(DicomTag.BluePaletteColorLookupTableData);
// If the LUT size is 0, that means it's 65536 in size.
if (size == 0)
{
size = 65536;
}
var lut = new Color32[size];
if (r.Length == size)
{
// 8-bit LUT entries
for (int i = 0; i < size; i++)
{
lut[i] = new Color32(0xff, r[i], g[i], b[i]);
}
}
else
{
// 16-bit LUT entries... we only support 8-bit until someone can find a sample image with a 16-bit palette
// 8-bit entries with 16-bits allocated
int offset = 0;
// 16-bit entries with 8-bits stored
if (bits == 16)
{
offset = 1;
}
for (int i = 0; i < size; i++, offset += 2)
{
lut[i] = new Color32(0xff, r[offset], g[offset], b[offset]);
}
}
return(lut);
}
/// <summary>
/// Create image rendering pipeline according to the Dataset <see cref="PhotometricInterpretation"/>.
/// </summary>
private void CreatePipeline()
{
if (_pipeline != null)
{
return;
}
var pi = Dataset.Get <PhotometricInterpretation>(DicomTag.PhotometricInterpretation);
var samples = Dataset.Get <ushort>(DicomTag.SamplesPerPixel, 0, 0);
// temporary fix for JPEG compressed YBR images
if ((Dataset.InternalTransferSyntax == DicomTransferSyntax.JPEGProcess1 || Dataset.InternalTransferSyntax == DicomTransferSyntax.JPEGProcess2_4) && samples == 3)
{
pi = PhotometricInterpretation.Rgb;
}
// temporary fix for JPEG 2000 Lossy images
if (pi == PhotometricInterpretation.YbrIct || pi == PhotometricInterpretation.YbrRct)
{
pi = PhotometricInterpretation.Rgb;
}
if (pi == null)
{
// generally ACR-NEMA
if (samples == 0 || samples == 1)
{
if (Dataset.Contains(DicomTag.RedPaletteColorLookupTableData))
{
pi = PhotometricInterpretation.PaletteColor;
}
else
{
pi = PhotometricInterpretation.Monochrome2;
}
}
else
{
// assume, probably incorrectly, that the image is RGB
pi = PhotometricInterpretation.Rgb;
}
}
if (pi == PhotometricInterpretation.Monochrome1 || pi == PhotometricInterpretation.Monochrome2)
{
//Monochrom1 or Monochrome2 for grayscale image
if (_renderOptions == null)
{
_renderOptions = GrayscaleRenderOptions.FromDataset(Dataset);
}
_pipeline = new GenericGrayscalePipeline(_renderOptions);
}
else if (pi == PhotometricInterpretation.Rgb)
{
//RGB for color image
_pipeline = new RgbColorPipeline();
}
else if (pi == PhotometricInterpretation.PaletteColor)
{
//PALETTE COLOR for Palette image
_pipeline = new PaletteColorPipeline(PixelData);
}
else
{
throw new DicomImagingException("Unsupported pipeline photometric interpretation: {0}", pi.Value);
}
}
private IByteBuffer Load()
{
var tag = OverlayTag(DicomTag.OverlayData);
if (Dataset.Contains(tag))
{
var elem = Dataset.FirstOrDefault(x => x.Tag == tag) as DicomElement;
return(elem.Buffer);
}
else
{
// overlay embedded in high bits of pixel data
if (Dataset.InternalTransferSyntax.IsEncapsulated)
{
throw new DicomImagingException("Attempted to extract embedded overlay from compressed pixel data. Decompress pixel data before attempting this operation.");
}
var pixels = DicomPixelData.Create(Dataset);
// (1,1) indicates top left pixel of image
int ox = Math.Max(0, OriginX - 1);
int oy = Math.Max(0, OriginY - 1);
int ow = Rows - (pixels.Width - Rows - ox);
int oh = Columns - (pixels.Height - Columns - oy);
var frame = pixels.GetFrame(0);
var bits = new BitList();
bits.Capacity = Rows * Columns;
int mask = 1 << BitPosition;
if (pixels.BitsAllocated == 8)
{
var data = ByteBufferEnumerator <byte> .Create(frame).ToArray();
for (int y = oy; y < oh; y++)
{
int n = (y * pixels.Width) + ox;
int i = (y - oy) * Columns;
for (int x = ox; x < ow; x++)
{
if ((data[n] & mask) != 0)
{
bits[i] = true;
}
n++;
i++;
}
}
}
else if (pixels.BitsAllocated == 16)
{
// we don't really care if the pixel data is signed or not
var data = ByteBufferEnumerator <ushort> .Create(frame).ToArray();
for (int y = oy; y < oh; y++)
{
int n = (y * pixels.Width) + ox;
int i = (y - oy) * Columns;
for (int x = ox; x < ow; x++)
{
if ((data[n] & mask) != 0)
{
bits[i] = true;
}
n++;
i++;
}
}
}
else
{
throw new DicomImagingException("Unable to extract embedded overlay from pixel data with bits stored greater than 16.");
}
return(new MemoryByteBuffer(bits.Array));
}
}
private IByteBuffer Load()
{
var tag = OverlayTag(DicomTag.OverlayData);
if (Dataset.Contains(tag))
{
var elem = Dataset.FirstOrDefault(x => x.Tag == tag) as DicomElement;
return(elem.Buffer);
}
else
{
// overlay embedded in high bits of pixel data
if (Dataset.InternalTransferSyntax.IsEncapsulated)
{
throw new DicomImagingException(
"Attempted to extract embedded overlay from compressed pixel data. Decompress pixel data before attempting this operation.");
}
var pixels = DicomPixelData.Create(Dataset);
// (1,1) indicates top left pixel of image
int ox = Math.Max(0, OriginX - 1);
int oy = Math.Max(0, OriginY - 1);
int ow = Columns;
int oh = Rows;
var frame = pixels.GetFrame(0);
var bits = new BitList();
bits.Capacity = Rows * Columns;
int mask = 1 << BitPosition;
// Sanity check: do not collect overlay data if Overlay Bit Position is within the used pixel range. (#110)
if (this.BitPosition <= pixels.HighBit && this.BitPosition > pixels.HighBit - pixels.BitsStored)
{
// Do nothing
}
else if (pixels.BitsAllocated == 8)
{
var data = IO.ByteConverter.ToArray <byte>(frame);
for (int y = 0; y < oh; y++)
{
int n = (y + oy) * pixels.Width + ox;
int i = y * Columns;
for (int x = 0; x < ow; x++)
{
if ((data[n] & mask) != 0)
{
bits[i] = true;
}
n++;
i++;
}
}
}
else if (pixels.BitsAllocated == 16)
{
// we don't really care if the pixel data is signed or not
var data = IO.ByteConverter.ToArray <ushort>(frame);
for (int y = 0; y < oh; y++)
{
int n = (y + oy) * pixels.Width + ox;
int i = y * Columns;
for (int x = 0; x < ow; x++)
{
if ((data[n] & mask) != 0)
{
bits[i] = true;
}
n++;
i++;
}
}
}
else
{
throw new DicomImagingException(
"Unable to extract embedded overlay from pixel data with bits stored greater than 16.");
}
return(new MemoryByteBuffer(bits.Array));
}
}
async Task ExecuteLoadDataCommand()
{
if (IsBusy)
{
return;
}
IsBusy = true;
try
{
Dataset.Clear();
//var dataset = await SQLDataStore.GetAllAsync_Creature(true);
if (CharactersViewModel.Instance.Dataset.Count == 0)
{
CharactersViewModel.Instance.LoadDataCommand.Execute(null);
}
else if (CharactersViewModel.Instance.NeedsRefresh())
{
CharactersViewModel.Instance.LoadDataCommand.Execute(null);
}
var dataset = CharactersViewModel.Instance.GetAllCreatures();
int teamCount = 0;
foreach (var data in dataset)
{
if ((data.Type == 0) && (teamCount < 6) && data.OnTeam)//the creature is a character, the team is not full, and it is on the current team
{
teamCount++;
Dataset.Add(data);
}
}
if (teamCount < 6)
{
foreach (var data in dataset) //if the team is not full more characters must be added
{
if ((data.Type == 0) && (teamCount < 6) && !Dataset.Contains(data)) //the creature is a character, the team is not full, and the character is not in the team
{
teamCount++;
data.OnTeam = true;
Dataset.Add(data);
}
}
}
if (teamCount < 6)//if you didn't make enough characters you get some sucky ones
{
int numOfSuckyCharacters = 0;
for (int i = teamCount; i < 6; i++)
{
numOfSuckyCharacters++;
Creature character = new Creature();
character.Type = 0;
character.OnTeam = true;
character.Name = "Sucky Character " + numOfSuckyCharacters.ToString();
character.Attack = 1;
character.Defense = 1;
character.Speed = 1;
character.MaxHealth = 1;
character.CurrHealth = character.MaxHealth;
Dataset.Add(character);
await DataStore.AddAsync_Creature(character);
}
}
// ***temp for demo***
foreach (var data in Dataset)
{
data.RHandItemID = "bow";
data.LHandItemID = "bow";
}
}
catch (Exception ex)
{
Debug.WriteLine(ex);
}
finally
{
IsBusy = false;
}
}