Package org.dcm4che3.conf.prefs

Examples of org.dcm4che3.conf.prefs.PreferencesDicomConfiguration

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            sq.add(ref);
    }

    private void addFunctionGroups(Attributes dest, Attributes fgs) {
        dest.addSelected(fgs, Tag.ReferencedImageSequence);
        Attributes fg;
        for (int sqTag : fgs.tags())
            if (sqTag != Tag.ReferencedImageSequence
                    && (fg = fgs.getNestedDataset(sqTag)) != null)
                dest.addAll(fg);
    }
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                + "{\"BulkDataURI\":\"file:/PixelData\"}"
            + "]}}";

    @Test
    public void test() {
        Attributes dataset = new Attributes();
        dataset.setString(Tag.SpecificCharacterSet, VR.CS, null, "ISO 2022 IR 87");
        dataset.setString(Tag.ImageType, VR.CS, "DERIVED", "PRIMARY");
        Attributes item = new Attributes(2);
        dataset.newSequence(Tag.SourceImageSequence, 1).add(item);
        item.setString(Tag.ReferencedSOPClassUID, VR.UI, UID.CTImageStorage);
        item.setString(Tag.ReferencedSOPInstanceUID, VR.UI, "1.2.3.4");
        dataset.setString(Tag.PatientName, VR.PN, "af^ag=if^ig=pf^pg");
        dataset.setBytes("PRIVATE", 0x00090002, VR.OB, BYTE01);
        dataset.setDouble(Tag.FrameTime, VR.DS, 33.0);
        dataset.setInt(Tag.SamplesPerPixel, VR.US, 1);
        dataset.setInt(Tag.NumberOfFrames, VR.IS, 1);
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        }
        return new BufferedImage(cm, raster , false, null);
    }

    private byte[] extractOverlay(int gg0000, WritableRaster raster) {
        Attributes attrs = metadata.getAttributes();

        if (attrs.getInt(Tag.OverlayBitsAllocated | gg0000, 1) == 1)
            return null;

        int ovlyRows = attrs.getInt(Tag.OverlayRows | gg0000, 0);
        int ovlyColumns = attrs.getInt(Tag.OverlayColumns | gg0000, 0);
        int bitPosition = attrs.getInt(Tag.OverlayBitPosition | gg0000, 0);

        int mask = 1<<bitPosition;
        int length = ovlyRows * ovlyColumns;

        byte[] ovlyData = new byte[(((length+7)>>>3)+1)&(~1)] ;
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                : siis;
    }

    private void applyOverlay(int gg0000, WritableRaster raster,
            int frameIndex, ImageReadParam param, int outBits, byte[] ovlyData) {
        Attributes ovlyAttrs = metadata.getAttributes();
        int grayscaleValue = 0xffff;
        if (param instanceof DicomImageReadParam) {
            DicomImageReadParam dParam = (DicomImageReadParam) param;
            Attributes psAttrs = dParam.getPresentationState();
            if (psAttrs != null) {
                if (psAttrs.containsValue(Tag.OverlayData | gg0000))
                    ovlyAttrs = psAttrs;
                grayscaleValue = Overlays.getRecommendedDisplayGrayscaleValue(
                        psAttrs, gg0000);
            } else
                grayscaleValue = dParam.getOverlayGrayscaleValue();
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    }

    private int[] getActiveOverlayGroupOffsets(ImageReadParam param) {
        if (param instanceof DicomImageReadParam) {
            DicomImageReadParam dParam = (DicomImageReadParam) param;
            Attributes psAttrs = dParam.getPresentationState();
            if (psAttrs != null)
                return Overlays.getActiveOverlayGroupOffsets(psAttrs);
            else
                return Overlays.getActiveOverlayGroupOffsets(
                        metadata.getAttributes(),
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            int frameIndex, ImageReadParam param, SampleModel sm, int outBits) {
         WritableRaster destRaster =
                sm.getDataType() == raster.getSampleModel().getDataType()
                        ? raster
                        : Raster.createWritableRaster(sm, null);
        Attributes imgAttrs = metadata.getAttributes();
        StoredValue sv = StoredValue.valueOf(imgAttrs);
        LookupTableFactory lutParam = new LookupTableFactory(sv);
        DicomImageReadParam dParam = param instanceof DicomImageReadParam
                ? (DicomImageReadParam) param
                : new DicomImageReadParam();
        Attributes psAttrs = dParam.getPresentationState();
        if (psAttrs != null) {
            lutParam.setModalityLUT(psAttrs);
            lutParam.setVOI(
                    selectVOILUT(psAttrs,
                            imgAttrs.getString(Tag.SOPInstanceUID),
                            frameIndex+1),
                    0, 0, false);
            lutParam.setPresentationLUT(psAttrs);
        } else {
            Attributes sharedFctGroups = imgAttrs.getNestedDataset(
                    Tag.SharedFunctionalGroupsSequence);
            Attributes frameFctGroups = imgAttrs.getNestedDataset(
                    Tag.PerFrameFunctionalGroupsSequence, frameIndex);
            lutParam.setModalityLUT(
                    selectFctGroup(imgAttrs, sharedFctGroups, frameFctGroups,
                            Tag.PixelValueTransformationSequence));
            if (dParam.getWindowWidth() != 0) {
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            Attributes frameFctGroups,
            int tag) {
        if (frameFctGroups == null) {
            return imgAttrs;
        }
        Attributes group = frameFctGroups.getNestedDataset(tag);
        if (group == null && sharedFctGroups != null) {
            group = sharedFctGroups.getNestedDataset(tag);
        }
        return group != null ? group : imgAttrs;
    }
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        dis = new DicomInputStream(new ImageInputStreamAdapter(iis));
        dis.setIncludeBulkData(IncludeBulkData.URI);
        dis.setBulkDataDescriptor(BulkDataDescriptor.PIXELDATA);
        dis.setURI("java:iis"); // avoid copy of pixeldata to temporary file
        Attributes fmi = dis.readFileMetaInformation();
        Attributes ds = dis.readDataset(-1, -1);
        metadata = new DicomMetaData(fmi, ds);
        Object pixeldata = ds.getValue(Tag.PixelData, pixeldataVR );
        if (pixeldata != null) {
            frames = ds.getInt(Tag.NumberOfFrames, 1);
            width = ds.getInt(Tag.Columns, 0);
            height = ds.getInt(Tag.Rows, 0);
            samples = ds.getInt(Tag.SamplesPerPixel, 1);
            banded = samples > 1 && ds.getInt(Tag.PlanarConfiguration, 0) != 0;
            bitsAllocated = ds.getInt(Tag.BitsAllocated, 8);
            bitsStored = ds.getInt(Tag.BitsStored, bitsAllocated);
            dataType = bitsAllocated <= 8 ? DataBuffer.TYPE_BYTE
                                          : DataBuffer.TYPE_USHORT;
            pmi = PhotometricInterpretation.fromString(
                    ds.getString(Tag.PhotometricInterpretation, "MONOCHROME2"));
            if (pixeldata instanceof BulkData) {
                iis.setByteOrder(ds.bigEndian()
                        ? ByteOrder.BIG_ENDIAN
                        : ByteOrder.LITTLE_ENDIAN);
                this.frameLength = pmi.frameLength(width, height, samples, bitsAllocated);
                this.pixeldata = (BulkData) pixeldata;
            } else {
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        }
    }

    private BulkData extractPixelData(BulkData src, int frame,
            int length) {
        return new BulkData(src.uriWithoutOffsetAndLength(),
                src.offset + frame * length, length,
                src.bigEndian);
    }
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        dataset.setBytes("PRIVATE", 0x00090002, VR.OB, BYTE01);
        dataset.setDouble(Tag.FrameTime, VR.DS, 33.0);
        dataset.setInt(Tag.SamplesPerPixel, VR.US, 1);
        dataset.setInt(Tag.NumberOfFrames, VR.IS, 1);
        dataset.setInt(Tag.FrameIncrementPointer, VR.AT, Tag.FrameTime);
        dataset.setValue(Tag.OverlayData, VR.OW, new BulkData(null, "file:/OverlayData", false));
        Fragments frags = dataset.newFragments(Tag.PixelData, VR.OB, 2);
        frags.add(null);
        frags.add(new BulkData(null, "file:/PixelData", false));
        StringWriter writer = new StringWriter();
        JsonGenerator gen = Json.createGenerator(writer);
        new JSONWriter(gen).write(dataset);
        gen.flush();
        assertEquals(RESULT, writer.toString());
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