Examples with BytesWithImageDescriptor org.dcm4che3.img.stream.BytesWithImageDescriptor used on opensource projects

Example 1 with BytesWithImageDescriptor

use of org.dcm4che3.img.stream.BytesWithImageDescriptor in project karnak by OsiriX-Foundation.

the class ForwardService method transferOther.

public void transferOther(ForwardDicomNode fwdNode, WebForwardDestination destination, Attributes copy, Params p) throws IOException {
    Attributes attributesToSend = new Attributes();
    Attributes attributesOriginal = new Attributes();
    try {
        List<AttributeEditor> editors = destination.getDicomEditors();
        DicomStowRS stow = destination.getStowrsSingleFile();
        var syntax = new AdaptTransferSyntax(p.getTsuid(), destination.getOutputTransferSyntax(p.getTsuid()));
        if (syntax.getRequested().equals(p.getTsuid()) && editors.isEmpty()) {
            attributesToSend = copy;
            attributesOriginal.addAll(copy);
            stow.uploadDicom(copy, syntax.getRequested());
        } else {
            AttributeEditorContext context = new AttributeEditorContext(p.getTsuid(), fwdNode, null);
            Attributes attributes = new Attributes(copy);
            attributesToSend = attributes;
            attributesOriginal.addAll(attributes);
            editors.forEach(e -> e.apply(attributes, context));
            if (context.getAbort() == Abort.FILE_EXCEPTION) {
                throw new AbortException(context.getAbort(), context.getAbortMessage());
            } else if (context.getAbort() == Abort.CONNECTION_EXCEPTION) {
                throw new AbortException(context.getAbort(), "DICOM associtation abort. " + context.getAbortMessage());
            }
            BytesWithImageDescriptor desc = ImageAdapter.imageTranscode(attributes, syntax, context);
            if (desc == null) {
                stow.uploadDicom(attributes, syntax.getOriginal());
            } else {
                Editable<PlanarImage> editable = transformImage(attributes, context);
                stow.uploadPayload(ImageAdapter.preparePlayload(attributes, syntax, desc, editable));
            }
            progressNotify(destination, p.getIuid(), p.getCuid(), false, 0);
            monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, true, null);
        }
    } catch (HttpException httpException) {
        if (httpException.getStatusCode() != 409) {
            progressNotify(destination, p.getIuid(), p.getCuid(), true, 0);
            monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, httpException.getMessage());
            throw new AbortException(Abort.FILE_EXCEPTION, "DICOMWeb forward", httpException);
        } else {
            progressNotify(destination, p.getIuid(), p.getCuid(), false, 0);
            monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, true, null);
            LOGGER.debug("File already present in destination");
        }
    } catch (AbortException e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, 0);
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        if (e.getAbort() == Abort.CONNECTION_EXCEPTION) {
            throw e;
        }
    } catch (IOException e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, 0);
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        throw e;
    } catch (Exception e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, 0);
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        LOGGER.error(ERROR_WHEN_FORWARDING, e);
    }
}

Example 2 with BytesWithImageDescriptor

use of org.dcm4che3.img.stream.BytesWithImageDescriptor in project karnak by OsiriX-Foundation.

the class ForwardService method transfer.

public List<File> transfer(ForwardDicomNode sourceNode, DicomForwardDestination destination, Attributes copy, Params p) throws IOException {
    StoreFromStreamSCU streamSCU = destination.getStreamSCU();
    DicomInputStream in = null;
    List<File> files;
    Attributes attributesOriginal = new Attributes();
    Attributes attributesToSend = new Attributes();
    try {
        if (!streamSCU.isReadyForDataTransfer()) {
            throw new IllegalStateException("Association not ready for transfer.");
        }
        DataWriter dataWriter;
        String cuid = p.getCuid();
        String iuid = p.getIuid();
        String tsuid = p.getTsuid();
        var syntax = new AdaptTransferSyntax(tsuid, streamSCU.selectTransferSyntax(cuid, destination.getOutputTransferSyntax(tsuid)));
        List<AttributeEditor> editors = destination.getDicomEditors();
        if (copy == null && editors.isEmpty() && syntax.getRequested().equals(tsuid)) {
            dataWriter = new InputStreamDataWriter(p.getData());
            attributesToSend = new DicomInputStream(p.getData()).readDataset();
            attributesOriginal.addAll(attributesToSend);
        } else {
            AttributeEditorContext context = new AttributeEditorContext(tsuid, sourceNode, streamSCU.getRemoteDicomNode());
            in = new DicomInputStream(p.getData(), tsuid);
            in.setIncludeBulkData(IncludeBulkData.URI);
            Attributes attributes = in.readDataset();
            attributesOriginal.addAll(attributes);
            attributesToSend = attributes;
            if (copy != null) {
                copy.addAll(attributes);
            }
            if (!editors.isEmpty()) {
                editors.forEach(e -> e.apply(attributes, context));
                iuid = attributes.getString(Tag.SOPInstanceUID);
                cuid = attributes.getString(Tag.SOPClassUID);
            }
            if (context.getAbort() == Abort.FILE_EXCEPTION) {
                if (p.getData() instanceof PDVInputStream) {
                    ((PDVInputStream) p.getData()).skipAll();
                }
                throw new AbortException(context.getAbort(), context.getAbortMessage());
            } else if (context.getAbort() == Abort.CONNECTION_EXCEPTION) {
                if (p.getAs() != null) {
                    p.getAs().abort();
                }
                throw new AbortException(context.getAbort(), "DICOM association abort: " + context.getAbortMessage());
            }
            BytesWithImageDescriptor desc = ImageAdapter.imageTranscode(attributes, syntax, context);
            Editable<PlanarImage> editable = transformImage(attributes, context);
            dataWriter = ImageAdapter.buildDataWriter(attributes, syntax, editable, desc);
        }
        streamSCU.cstore(cuid, iuid, p.getPriority(), dataWriter, syntax.getSuitable());
        progressNotify(destination, p.getIuid(), p.getCuid(), false, streamSCU.getNumberOfSuboperations());
        monitor(sourceNode.getId(), destination.getId(), attributesOriginal, attributesToSend, true, null);
    } catch (AbortException e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, streamSCU.getNumberOfSuboperations());
        monitor(sourceNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        if (e.getAbort() == Abort.CONNECTION_EXCEPTION) {
            throw e;
        }
    } catch (IOException e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, streamSCU.getNumberOfSuboperations());
        monitor(sourceNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        throw e;
    } catch (Exception e) {
        if (e instanceof InterruptedException) {
            Thread.currentThread().interrupt();
        }
        progressNotify(destination, p.getIuid(), p.getCuid(), true, streamSCU.getNumberOfSuboperations());
        monitor(sourceNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        LOGGER.error(ERROR_WHEN_FORWARDING, e);
    } finally {
        streamSCU.triggerCloseExecutor();
        files = cleanOrGetBulkDataFiles(in, copy == null);
    }
    return files;
}

Example 3 with BytesWithImageDescriptor

use of org.dcm4che3.img.stream.BytesWithImageDescriptor in project karnak by OsiriX-Foundation.

the class ForwardService method transfer.

public List<File> transfer(ForwardDicomNode fwdNode, WebForwardDestination destination, Attributes copy, Params p) throws IOException {
    DicomInputStream in = null;
    List<File> files;
    Attributes attributesToSend = new Attributes();
    Attributes attributesOriginal = new Attributes();
    try {
        List<AttributeEditor> editors = destination.getDicomEditors();
        DicomStowRS stow = destination.getStowrsSingleFile();
        var syntax = new AdaptTransferSyntax(p.getTsuid(), destination.getOutputTransferSyntax(p.getTsuid()));
        if (syntax.getRequested().equals(p.getTsuid()) && copy == null && editors.isEmpty()) {
            Attributes fmi = Attributes.createFileMetaInformation(p.getIuid(), p.getCuid(), syntax.getRequested());
            try (InputStream stream = p.getData()) {
                attributesToSend = new DicomInputStream(p.getData()).readDataset();
                attributesOriginal.addAll(attributesToSend);
                stow.uploadDicom(stream, fmi);
            } catch (HttpException httpException) {
                if (httpException.getStatusCode() != 409) {
                    throw new AbortException(Abort.FILE_EXCEPTION, httpException.getMessage());
                } else {
                    LOGGER.debug("File already present in destination");
                }
            }
        } else {
            AttributeEditorContext context = new AttributeEditorContext(p.getTsuid(), fwdNode, null);
            in = new DicomInputStream(p.getData(), p.getTsuid());
            in.setIncludeBulkData(IncludeBulkData.URI);
            Attributes attributes = in.readDataset();
            attributesToSend = attributes;
            attributesOriginal.addAll(attributes);
            if (copy != null) {
                copy.addAll(attributes);
            }
            if (!editors.isEmpty()) {
                editors.forEach(e -> e.apply(attributes, context));
            }
            if (context.getAbort() == Abort.FILE_EXCEPTION) {
                if (p.getData() instanceof PDVInputStream) {
                    ((PDVInputStream) p.getData()).skipAll();
                }
                throw new AbortException(context.getAbort(), context.getAbortMessage());
            } else if (context.getAbort() == Abort.CONNECTION_EXCEPTION) {
                if (p.getAs() != null) {
                    p.getAs().abort();
                }
                throw new AbortException(context.getAbort(), "STOW-RS abort: " + context.getAbortMessage());
            }
            BytesWithImageDescriptor desc = ImageAdapter.imageTranscode(attributes, syntax, context);
            if (desc == null) {
                stow.uploadDicom(attributes, syntax.getOriginal());
            } else {
                Editable<PlanarImage> editable = transformImage(attributes, context);
                stow.uploadPayload(ImageAdapter.preparePlayload(attributes, syntax, desc, editable));
            }
        }
        progressNotify(destination, p.getIuid(), p.getCuid(), false, 0);
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, true, null);
    } catch (AbortException e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, 0);
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        if (e.getAbort() == Abort.CONNECTION_EXCEPTION) {
            throw e;
        }
    } catch (IOException e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, 0);
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        throw e;
    } catch (Exception e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, 0);
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        LOGGER.error(ERROR_WHEN_FORWARDING, e);
    } finally {
        files = cleanOrGetBulkDataFiles(in, copy == null);
    }
    return files;
}

Example 4 with BytesWithImageDescriptor

use of org.dcm4che3.img.stream.BytesWithImageDescriptor in project karnak by OsiriX-Foundation.

the class ForwardService method transferOther.

public void transferOther(ForwardDicomNode fwdNode, DicomForwardDestination destination, Attributes copy, Params p) throws IOException {
    StoreFromStreamSCU streamSCU = destination.getStreamSCU();
    Attributes attributesToSend = new Attributes();
    Attributes attributesOriginal = new Attributes();
    try {
        if (!streamSCU.isReadyForDataTransfer()) {
            throw new IllegalStateException("Association not ready for transfer.");
        }
        DataWriter dataWriter;
        String tsuid = p.getTsuid();
        String iuid = p.getIuid();
        String cuid = p.getCuid();
        var syntax = new AdaptTransferSyntax(tsuid, streamSCU.selectTransferSyntax(cuid, destination.getOutputTransferSyntax(tsuid)));
        List<AttributeEditor> editors = destination.getDicomEditors();
        if (editors.isEmpty() && syntax.getRequested().equals(tsuid)) {
            dataWriter = new DataWriterAdapter(copy);
            attributesOriginal.addAll(copy);
            attributesToSend = copy;
        } else {
            AttributeEditorContext context = new AttributeEditorContext(tsuid, fwdNode, streamSCU.getRemoteDicomNode());
            Attributes attributes = new Attributes(copy);
            attributesOriginal.addAll(attributes);
            attributesToSend = attributes;
            if (!editors.isEmpty()) {
                editors.forEach(e -> e.apply(attributes, context));
                iuid = attributes.getString(Tag.SOPInstanceUID);
                cuid = attributes.getString(Tag.SOPClassUID);
            }
            if (context.getAbort() == Abort.FILE_EXCEPTION) {
                throw new AbortException(context.getAbort(), context.getAbortMessage());
            } else if (context.getAbort() == Abort.CONNECTION_EXCEPTION) {
                throw new AbortException(context.getAbort(), "DICOM association abort. " + context.getAbortMessage());
            }
            BytesWithImageDescriptor desc = ImageAdapter.imageTranscode(attributes, syntax, context);
            Editable<PlanarImage> editable = transformImage(attributes, context);
            dataWriter = ImageAdapter.buildDataWriter(attributes, syntax, editable, desc);
        }
        streamSCU.cstore(cuid, iuid, p.getPriority(), dataWriter, syntax.getSuitable());
        progressNotify(destination, p.getIuid(), p.getCuid(), false, streamSCU.getNumberOfSuboperations());
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, true, null);
    } catch (AbortException e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, streamSCU.getNumberOfSuboperations());
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        if (e.getAbort() == Abort.CONNECTION_EXCEPTION) {
            throw e;
        }
    } catch (IOException e) {
        progressNotify(destination, p.getIuid(), p.getCuid(), true, streamSCU.getNumberOfSuboperations());
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        throw e;
    } catch (Exception e) {
        if (e instanceof InterruptedException) {
            Thread.currentThread().interrupt();
        }
        progressNotify(destination, p.getIuid(), p.getCuid(), true, streamSCU.getNumberOfSuboperations());
        monitor(fwdNode.getId(), destination.getId(), attributesOriginal, attributesToSend, false, e.getMessage());
        LOGGER.error(ERROR_WHEN_FORWARDING, e);
    } finally {
        streamSCU.triggerCloseExecutor();
    }
}

Example 5 with BytesWithImageDescriptor

use of org.dcm4che3.img.stream.BytesWithImageDescriptor in project Weasis by nroduit.

the class DicomImageElement method saveToFile.

@Override
public Attributes saveToFile(File output, DicomExportParameters params) {
    boolean hasTransformation = params.dicomEditors() != null && !params.dicomEditors().isEmpty();
    if (!hasTransformation && params.syntax() == null) {
        super.saveToFile(output);
        return new Attributes();
    }
    DicomMetaData metaData = getMediaReader().getDicomMetaData();
    String outputTsuid = params.syntax() == null ? metaData.getTransferSyntaxUID() : params.syntax().getTransferSyntaxUID();
    outputTsuid = getOutputTransferSyntax(true, metaData.getTransferSyntaxUID(), outputTsuid);
    var adaptTransferSyntax = new AdaptTransferSyntax(metaData.getTransferSyntaxUID(), outputTsuid);
    adaptTransferSyntax.setJpegQuality(params.compressionQuality());
    adaptTransferSyntax.setCompressionRatioFactor(params.compressionRatioFactor());
    Attributes attributes = new Attributes(metaData.getDicomObject());
    AttributeEditorContext context = new AttributeEditorContext(adaptTransferSyntax.getOriginal(), null, null);
    if (hasTransformation) {
        params.dicomEditors().forEach(e -> e.apply(attributes, context));
    }
    BytesWithImageDescriptor desc = ImageAdapter.imageTranscode(attributes, adaptTransferSyntax, context);
    if (ImageAdapter.writeDicomFile(attributes, adaptTransferSyntax, context.getEditable(), desc, output)) {
        return attributes;
    } else {
        LOGGER.error("Cannot export DICOM file: {}", getFileCache().getOriginalFile().orElse(null));
        return null;
    }
}