public void Decode(DcmDataset dataset, DcmPixelData oldPixelData, DcmPixelData newPixelData, DcmCodecParameters parameters) { DcmRleCodecParameters rleParams = parameters as DcmRleCodecParameters; if (rleParams == null) { rleParams = GetDefaultParameters() as DcmRleCodecParameters; } int pixelCount = oldPixelData.ImageWidth * oldPixelData.ImageHeight; int numberOfSegments = oldPixelData.BytesAllocated * oldPixelData.SamplesPerPixel; byte[] frameData = new byte[newPixelData.UncompressedFrameSize]; for (int i = 0; i < oldPixelData.NumberOfFrames; i++) { IList <ByteBuffer> rleData = oldPixelData.GetFrameFragments(i); RLEDecoder decoder = new RLEDecoder(rleData); if (decoder.NumberOfSegments != numberOfSegments) { throw new DicomCodecException("Unexpected number of RLE segments!"); } for (int s = 0; s < numberOfSegments; s++) { int sample = s / newPixelData.BytesAllocated; int sabyte = s % newPixelData.BytesAllocated; int pos, offset; if (newPixelData.PlanarConfiguration == 0) { pos = sample * newPixelData.BytesAllocated; offset = newPixelData.SamplesPerPixel * newPixelData.BytesAllocated; } else { pos = sample * newPixelData.BytesAllocated * pixelCount; offset = newPixelData.BytesAllocated; } if (rleParams.ReverseByteOrder) { pos += sabyte; } else { pos += newPixelData.BytesAllocated - sabyte - 1; } decoder.DecodeSegment(s, frameData, pos, offset); } newPixelData.AddFrame(frameData); } }
public void Decode(DcmDataset dataset, DcmPixelData oldPixelData, DcmPixelData newPixelData, DcmCodecParameters parameters) { if (oldPixelData.NumberOfFrames == 0) { return; } // Determine JPEG image precision and assert that the implemented codec supports this precision int precision; try { precision = JpegHelper.ScanHeaderForBitDepth(oldPixelData); } catch (DicomCodecException) { precision = oldPixelData.BitsStored; } AssertImagePrecision(precision); // Ensure consistency in the new pixel data header if (precision > 8) { newPixelData.BitsAllocated = 16; } else if (newPixelData.BitsStored <= 8) { newPixelData.BitsAllocated = 8; } // Set up new pixel data specifics newPixelData.PhotometricInterpretation = newPixelData.PhotometricInterpretation.Equals("YBR_FULL_422") || newPixelData.PhotometricInterpretation.Equals("YBR_PARTIAL_422") ? "YBR_FULL" : oldPixelData.PhotometricInterpretation; if (newPixelData.PhotometricInterpretation.Equals("YBR_FULL")) { newPixelData.PlanarConfiguration = 1; } try { for (int j = 0; j < oldPixelData.NumberOfFrames; ++j) { var frameData = new byte[newPixelData.UncompressedFrameSize]; var jpegStream = new MemoryStream(oldPixelData.GetFrameDataU8(j)); // Decode JPEG from stream var decoder = new JpegDecoder(jpegStream); var jpegDecoded = decoder.Decode(); var img = jpegDecoded.Image; // Init Buffer int w = img.Width; int h = img.Height; var pixelsFromJpeg = img.Raster; // Copy FluxJpeg buffer into frame data array /* * int comps = pixelsFromJpeg.GetLength(0); * int preIncr = newPixelData.BytesAllocated - comps; * * if (preIncr < 0) * throw new InvalidOperationException( * String.Format("Number of JPEG components: {0} exceeds number of bytes allocated: {1}", * comps, newPixelData.BytesAllocated)); */ int i = 0; for (int y = 0; y < h; ++y) { for (int x = 0; x < w; ++x) { var pixel = pixelsFromJpeg[0][x, y]; frameData[i++] = (byte)((pixel >> 8) & 0xff); frameData[i++] = (byte)(pixel & 0xff); // for (int k = 0; k < preIncr; ++k) frameData[i++] = 0xff; // for (int k = 0; k < comps; ++k) frameData[i++] = pixelsFromJpeg[k][x, y]; } } oldPixelData.Unload(); if (newPixelData.IsPlanar) { DcmCodecHelper.ChangePlanarConfiguration(frameData, frameData.Length / newPixelData.BytesAllocated, newPixelData.BitsAllocated, newPixelData.SamplesPerPixel, 0); } newPixelData.AddFrame(frameData); } } catch (Exception e) { Debug.Log.Error("Failed to decode JPEG image: {0}, reason: {1}", e.StackTrace, e.Message); } }
public void Encode(DcmDataset dataset, DcmPixelData oldPixelData, DcmPixelData newPixelData, DcmCodecParameters parameters) { DcmRleCodecParameters rleParams = parameters as DcmRleCodecParameters; if (rleParams == null) { rleParams = GetDefaultParameters() as DcmRleCodecParameters; } int pixelCount = oldPixelData.ImageWidth * oldPixelData.ImageHeight; int numberOfSegments = oldPixelData.BytesAllocated * oldPixelData.SamplesPerPixel; for (int i = 0; i < oldPixelData.NumberOfFrames; i++) { RLEEncoder encoder = new RLEEncoder(); byte[] frameData = oldPixelData.GetFrameDataU8(i); for (int s = 0; s < numberOfSegments; s++) { encoder.NextSegment(); int sample = s / oldPixelData.BytesAllocated; int sabyte = s % oldPixelData.BytesAllocated; int pos; int offset; if (newPixelData.PlanarConfiguration == 0) { pos = sample * oldPixelData.BytesAllocated; offset = numberOfSegments; } else { pos = sample * oldPixelData.BytesAllocated * pixelCount; offset = oldPixelData.BytesAllocated; } if (rleParams.ReverseByteOrder) { pos += sabyte; } else { pos += oldPixelData.BytesAllocated - sabyte - 1; } for (int p = 0; p < pixelCount; p++) { if (pos >= frameData.Length) { throw new DicomCodecException(""); } encoder.Encode(frameData[pos]); pos += offset; } encoder.Flush(); } encoder.MakeEvenLength(); newPixelData.AddFrame(encoder.GetBuffer()); } }
public string MakeGreyDicom(byte[] greybytes, ushort imgwidth, ushort imgheight) { DcmUID studyUid = DcmUID.Generate(); DcmUID seriesUid = DcmUID.Generate(studyUid, 1); DcmUID instUid = DcmUID.Generate(seriesUid, 1); DcmDataset data = new DcmDataset(DcmTS.ExplicitVRBigEndian); //.ImplicitVRLittleEndian ok data.AddElementWithValue(DcmTags.SOPClassUID, DcmUIDs.CTImageStorage); //ComputedRadiographyImageStorage ok //data.AddElementWithValue(DcmTags.SOPClassUID, DcmUIDs .SecondaryCapture); data.AddElementWithValue(DcmTags.StudyInstanceUID, studyUid); data.AddElementWithValue(DcmTags.SeriesInstanceUID, seriesUid); data.AddElementWithValue(DcmTags.SOPInstanceUID, instUid);//"1.3.6.1.4.1.30071.6.635719267134010719.1.1" //data.AddElementWithValue(DcmTags.MediaStorageSOPClassUID, DcmUIDs.ImplicitVRLittleEndian); //data.AddElementWithValueString(DcmTags.MediaStorageSOPClassUID, DcmUIDs.ComputedRadiographyImageStorage.ToString()); //type 2 attributes ////data.AddElement(DcmTags.PrinterStatus); if (tags.ContainsKey("0010,0020")) { data.AddElementWithValueString(DcmTags.PatientID, tags["0010,0020"].Substring(5)); } if (tags.ContainsKey("0010,0010")) { data.AddElementWithValueString(DcmTags.PatientsName, tags["0010,0010"].Substring(5)); } if (tags.ContainsKey("0010,0030")) { data.AddElementWithValueString(DcmTags.PatientsBirthDate, tags["0010,0030"].Substring(5)); } if (tags.ContainsKey("0010,0040")) { data.AddElementWithValueString(DcmTags.PatientsSex, tags["0010,0040"].Substring(5)); } if (tags.ContainsKey("0010,1010")) { data.AddElementWithValueString(DcmTags.PatientsAge, tags["0010,1010"].Substring(5)); } if (tags.ContainsKey("0008,0005")) { data.AddElementWithValueString(DcmTags.SpecificCharacterSet, tags["0008,0005"].Substring(5)); } if (tags.ContainsKey("0008,0008")) { data.AddElementWithValueString(DcmTags.ImageType, tags["0008,0008"].Substring(5)); } //if (tags.ContainsKey("0008,0016")) // data.AddElementWithValueString(DcmTags.ContentTime, DateTime.Now.ToString()); //if (tags.ContainsKey("0008,0018")) // data.AddElementWithValueString(DcmTags.ContentTime, DateTime.Now.ToString()); if (tags.ContainsKey("0008,0020")) { data.AddElementWithValueString(DcmTags.StudyDate, tags["0008,0020"].Substring(5)); } if (tags.ContainsKey("0008,0021")) { data.AddElementWithValueString(DcmTags.SeriesDate, tags["0008,0021"].Substring(5)); } if (tags.ContainsKey("0008,0022")) { data.AddElementWithValueString(DcmTags.AcquisitionDate, tags["0008,0022"].Substring(5)); } if (tags.ContainsKey("0008,0023")) { data.AddElementWithValueString(DcmTags.ContentDate, tags["0008,0023"].Substring(5)); } if (tags.ContainsKey("0008,002a")) { data.AddElementWithValueString(DcmTags.AcquisitionDateTime, tags["0008,002a"].Substring(5)); } if (tags.ContainsKey("0008,0030")) { data.AddElementWithValueString(DcmTags.StudyTime, tags["0008,0030"].Substring(5)); } if (tags.ContainsKey("0008,0031")) { data.AddElementWithValueString(DcmTags.SeriesTime, tags["0008,0031"].Substring(5)); } if (tags.ContainsKey("0008,0032")) { data.AddElementWithValueString(DcmTags.AcquisitionTime, tags["0008,0032"].Substring(5)); } if (tags.ContainsKey("0008,0033")) { data.AddElementWithValueString(DcmTags.ContentTime, tags["0008,0033"].Substring(5)); } if (tags.ContainsKey("0008,0050")) { data.AddElementWithValueString(DcmTags.AcquisitionNumber, tags["0008,0050"].Substring(5)); } if (tags.ContainsKey("0008,0060")) { data.AddElementWithValueString(DcmTags.Modality, tags["0008,0060"].Substring(5)); } if (tags.ContainsKey("0008,0070")) { data.AddElementWithValueString(DcmTags.Manufacturer, tags["0008,0070"].Substring(5)); } if (tags.ContainsKey("0008,0080")) { data.AddElementWithValueString(DcmTags.InstitutionName, tags["0008,0080"].Substring(5)); } if (tags.ContainsKey("0008,0081")) { data.AddElementWithValueString(DcmTags.InstitutionAddress, tags["0008,0081"].Substring(5)); } if (tags.ContainsKey("0008,0090")) { data.AddElementWithValueString(DcmTags.ReferringPhysiciansName, tags["0008,0090"].Substring(5)); } if (tags.ContainsKey("0008,1010")) { data.AddElementWithValueString(DcmTags.StationName, tags["0008,1010"].Substring(5)); } if (tags.ContainsKey("0008,1030")) { data.AddElementWithValueString(DcmTags.StudyDescription, tags["0008,1030"].Substring(5)); } if (tags.ContainsKey("0008,103e")) { data.AddElementWithValueString(DcmTags.SeriesDescription, tags["0008,103e"].Substring(5)); } if (tags.ContainsKey("0008,1090")) { data.AddElementWithValueString(DcmTags.ManufacturersModelName, tags["0008,1090"].Substring(5)); } if (tags.ContainsKey("0018,0010")) { data.AddElementWithValueString(DcmTags.ContrastBolusAgent, tags["0018,0010"].Substring(5)); } if (tags.ContainsKey("0018,0015")) { data.AddElementWithValueString(DcmTags.BodyPartExamined, tags["0018,0015"].Substring(5)); } if (tags.ContainsKey("0018,0050")) { data.AddElementWithValueString(DcmTags.SliceThickness, tags["0018,0050"].Substring(5)); } if (tags.ContainsKey("0018,0060")) { data.AddElementWithValueString(DcmTags.KVP, tags["0018,0060"].Substring(5)); } if (tags.ContainsKey("0018,0090")) { data.AddElementWithValueString(DcmTags.DataCollectionDiameter, tags["0018,0090"].Substring(5)); } if (tags.ContainsKey("0018,1000")) { data.AddElementWithValueString(DcmTags.DeviceSerialNumber, tags["0018,1000"].Substring(5)); } if (tags.ContainsKey("0018,1020")) { data.AddElementWithValueString(DcmTags.SoftwareVersions, tags["0018,1020"].Substring(5)); } if (tags.ContainsKey("0018,1030")) { data.AddElementWithValueString(DcmTags.ProtocolName, tags["0018,1030"].Substring(5)); } if (tags.ContainsKey("0018,1041")) { data.AddElementWithValueString(DcmTags.ContrastBolusVolume, tags["0018,1041"].Substring(5)); } if (tags.ContainsKey("0018,1042")) { data.AddElementWithValueString(DcmTags.ContrastBolusStartTime, tags["0018,1042"].Substring(5)); } if (tags.ContainsKey("0018,1043")) { data.AddElementWithValueString(DcmTags.ContrastBolusStopTime, tags["0018,1043"].Substring(5)); } if (tags.ContainsKey("0018,1044")) { data.AddElementWithValueString(DcmTags.ContrastBolusTotalDose, tags["0018,1044"].Substring(5)); } if (tags.ContainsKey("0018,1046")) { data.AddElementWithValueString(DcmTags.ContrastFlowRate, tags["0018,1046"].Substring(5)); } if (tags.ContainsKey("0018,1047")) { data.AddElementWithValueString(DcmTags.ContrastFlowDuration, tags["0018,1047"].Substring(5)); } if (tags.ContainsKey("0018,1049")) { data.AddElementWithValueString(DcmTags.ContrastBolusIngredientConcentration, tags["0018,1049"].Substring(5)); } if (tags.ContainsKey("0018,1100")) { data.AddElementWithValueString(DcmTags.ReconstructionDiameter, tags["0018,1100"].Substring(5)); } if (tags.ContainsKey("0018,1110")) { data.AddElementWithValueString(DcmTags.DistanceSourceToDetector, tags["0018,1110"].Substring(5)); } if (tags.ContainsKey("0018,1111")) { data.AddElementWithValueString(DcmTags.DistanceSourceToPatient, tags["0018,1111"].Substring(5)); } if (tags.ContainsKey("0018,1120")) { data.AddElementWithValueString(DcmTags.GantryDetectorTilt, tags["0018,1120"].Substring(5)); } if (tags.ContainsKey("0018,1130")) { data.AddElementWithValueString(DcmTags.TableHeight, tags["0018,1130"].Substring(5)); } if (tags.ContainsKey("0018,1140")) { data.AddElementWithValueString(DcmTags.RotationDirection, tags["0018,1140"].Substring(5)); } if (tags.ContainsKey("0018,1150")) { data.AddElementWithValueString(DcmTags.ExposureTime, tags["0018,1150"].Substring(5)); } if (tags.ContainsKey("0018,1151")) { data.AddElementWithValueString(DcmTags.XRayTubeCurrent, tags["0018,1151"].Substring(5)); } if (tags.ContainsKey("0018,1152")) { data.AddElementWithValueString(DcmTags.Exposure, tags["0018,1152"].Substring(5)); } if (tags.ContainsKey("0018,1160")) { data.AddElementWithValueString(DcmTags.FilterType, tags["0018,1160"].Substring(5)); } if (tags.ContainsKey("0018,1170")) { data.AddElementWithValueString(DcmTags.GeneratorPower, tags["0018,1170"].Substring(5)); } if (tags.ContainsKey("0018,1190")) { data.AddElementWithValueString(DcmTags.FocalSpots, tags["0018,1190"].Substring(5)); } if (tags.ContainsKey("0018,1200")) { data.AddElementWithValueString(DcmTags.DateOfLastCalibration, tags["0018,1200"].Substring(5)); } if (tags.ContainsKey("0018,1201")) { data.AddElementWithValueString(DcmTags.TimeOfLastCalibration, tags["0018,1201"].Substring(5)); } if (tags.ContainsKey("0018,1210")) { data.AddElementWithValueString(DcmTags.ConvolutionKernel, tags["0018,1210"].Substring(5)); } if (tags.ContainsKey("0018,5100")) { data.AddElementWithValueString(DcmTags.PatientPosition, tags["0018,5100"].Substring(5)); } //if (tags.ContainsKey("0020,000D")) // data.AddElementWithValueString(DcmTags.ContrastBolusStopTime, DateTime.Now.ToString()); //if (tags.ContainsKey("0020,000E")) // data.AddElementWithValueString(DcmTags.ContrastBolusStopTime, DateTime.Now.ToString()); if (tags.ContainsKey("0020,0010")) { data.AddElementWithValueString(DcmTags.StudyID, tags["0020,0010"].Substring(5)); } if (tags.ContainsKey("0020,0011")) { data.AddElementWithValueString(DcmTags.SeriesNumber, tags["0020,0011"].Substring(5)); } if (tags.ContainsKey("0020,0012")) { data.AddElementWithValueString(DcmTags.AccessionNumber, tags["0020,0012"].Substring(5)); } if (tags.ContainsKey("0020,0013")) { data.AddElementWithValueString(DcmTags.InstanceNumber, tags["0020,0013"].Substring(5)); } if (tags.ContainsKey("0020,0032")) { data.AddElementWithValueString(DcmTags.ImagePositionPatient, tags["0020,0032"].Substring(5)); } if (tags.ContainsKey("0020,0037")) { data.AddElementWithValueString(DcmTags.ImageOrientationPatient, tags["0020,0037"].Substring(5)); } if (tags.ContainsKey("0020,0052")) { data.AddElementWithValueString(DcmTags.FrameOfReferenceUID, tags["0020,0052"].Substring(5)); } if (tags.ContainsKey("0020,1040")) { data.AddElementWithValueString(DcmTags.PositionReferenceIndicator, tags["0020,1040"].Substring(5)); } if (tags.ContainsKey("0020,1041")) { data.AddElementWithValueString(DcmTags.SliceLocation, tags["0020,1041"].Substring(5)); } if (tags.ContainsKey("0020,4000")) { data.AddElementWithValueString(DcmTags.ImageComments, tags["0020,4000"].Substring(5)); } //data.AddElementWithValueString(DcmTags.StudyTime, DateTime.Now.ToString()); //data.AddElementWithValueString(DcmTags.AccessionNumber, ""); //data.AddElementWithValueString(DcmTags.ReferringPhysiciansName, ""); //data.AddElementWithValueString(DcmTags.StudyID, "1"); //data.AddElementWithValueString(DcmTags.SeriesNumber, "1"); //data.AddElementWithValueString(DcmTags.ModalitiesInStudy, "CT");//CR //data.AddElementWithValueString(DcmTags.Modality, "CT");//CR //data.AddElementWithValueString(DcmTags.NumberOfStudyRelatedInstances, "1"); //data.AddElementWithValueString(DcmTags.NumberOfStudyRelatedSeries, "1"); //data.AddElementWithValueString(DcmTags.NumberOfSeriesRelatedInstances, "1"); //data.AddElementWithValueString(DcmTags.PatientOrientation, "HFS");//F/A //data.AddElementWithValueString(DcmTags.ImageLaterality, "U"); if (tags.ContainsKey("0028,1050")) { data.AddElementWithValueString(DcmTags.WindowCenter, "1113"); } if (tags.ContainsKey("0028,1051")) { data.AddElementWithValueString(DcmTags.WindowWidth, "749"); } //data.AddElementWithValueString(DcmTags.WindowCenterWidthExplanation, "WINDOW1\\WINDOW2"); data.AddElementWithValueString(DcmTags.PixelRepresentation, "0"); data.AddElementWithValueString(DcmTags.RescaleIntercept, "0");//0 data.AddElementWithValueString(DcmTags.RescaleSlope, "1"); //data.AddElementWithValueString(DcmTags.RotationDirection, "CW"); //ushort bitdepth = 2;未使用过 DcmPixelData pixelData = new DcmPixelData(DcmTS.ImplicitVRLittleEndian); pixelData.PixelRepresentation = 0;//ok pixelData.ImageWidth = imgwidth; pixelData.ImageHeight = imgheight; pixelData.SamplesPerPixel = 1; //ok pixelData.HighBit = 15; //ok pixelData.BitsStored = 16; //ok pixelData.BitsAllocated = 16; //ok //pixelData.SamplesPerPixel = 1; //pixelData.HighBit = 7; //pixelData.BitsStored = 8; //pixelData.BitsAllocated = 8; pixelData.ImageType = "ORIGINAL\\PRIMARY\\AXIAL"; pixelData.PhotometricInterpretation = "MONOCHROME2";//2 byte gray? //ok //pixelData.FragmentSize //pixelData.IsLossy = true; //pixelData.LossyCompressionMethod = "01"; pixelData.PixelDataElement = DcmElement.Create(DcmTags.PixelData, DcmVR.OW); //OB: Other Byte, OW: Other Word //pixelData.AddFrame(bmpBytes); pixelData.AddFrame(greybytes); pixelData.UpdateDataset(data); DicomFileFormat ff = new DicomFileFormat(data); //string fileout = System.IO.Path.Combine(Directory.GetCurrentDirectory(), "greyimg_test.dcm"); ff.Save(fileout, Dicom.DicomWriteOptions.Default);//Default ff = null; return(fileout); }