private Attributes readFrom(ArchiveInstanceLocator inst) throws IOException {
try (DicomInputStream din = new DicomInputStream(service.getFile(inst).toFile())) {
IncludeBulkData includeBulkData = IncludeBulkData.URI;
int stopTag = -1;
if (withoutBulkData) {
if (((ArchiveInstanceLocator) inst).isWithoutBulkdata()) {
includeBulkData = IncludeBulkData.YES;
} else {
includeBulkData = IncludeBulkData.NO;
stopTag = Tag.PixelData;
}
}
din.setIncludeBulkData(includeBulkData);
return din.readDataset(-1, stopTag);
}
}
private void readMetadata() throws IOException {
if (metadata != null) return;
if (iis == null) throw new IllegalStateException("Input not set");
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 {
String tsuid = dis.getTransferSyntax();
ImageReaderParam param = ImageReaderFactory.getImageReaderParam(tsuid);
if (param == null) throw new IOException("Unsupported Transfer Syntax: " + tsuid);
this.decompressor = ImageReaderFactory.getImageReader(param);
this.patchJpegLS = param.patchJPEGLS;
this.pixeldataFragments = (Fragments) pixeldata;
}
}
}
private DatasetWithFMI readFrom(ArchiveInstanceLocator inst) throws IOException {
try (DicomInputStream din = new DicomInputStream(storescuService.getFile(inst).toFile())) {
din.setIncludeBulkData(IncludeBulkData.URI);
return din.readDatasetWithFMI();
}
}