Package org.dcm4che3.io

Examples of org.dcm4che3.io.DicomInputStream

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     }

     public void transcode(File src, File dest) throws IOException {
        Attributes fmi;
        Attributes dataset;
        DicomInputStream dis = new DicomInputStream(src);
        try {
            dis.setIncludeBulkData(IncludeBulkData.URI);
            fmi = dis.readFileMetaInformation();
            dataset = dis.readDataset(-1, -1);
        } finally {
            dis.close();
        }
        Object pixeldata = dataset.getValue(Tag.PixelData);
        Compressor compressor = null;
        DicomOutputStream dos = null;
        try {
            String tsuid = this.tsuid;
            if (pixeldata != null) {
                if (tstype.isPixeldataEncapsulated()) {
                    tsuid = adjustTransferSyntax(tsuid,
                            dataset.getInt(Tag.BitsStored, 8));
                    compressor = new Compressor(dataset, dis.getTransferSyntax());
                    compressor.compress(tsuid,
                            params.toArray(new Property[params.size()]));
                } else if (pixeldata instanceof Fragments)
                    Decompressor.decompress(dataset, dis.getTransferSyntax());
            }
            if (nofmi)
                fmi = null;
            else if (retainfmi && fmi != null)
                fmi.setString(Tag.TransferSyntaxUID, VR.UI, tsuid);
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                            rb.getString("illegal-width"), s));
                }
            }
            String fname = fname(cl.getArgList());
            if (fname.equals("-")) {
                main.parse(new DicomInputStream(System.in));
            } else {
                DicomInputStream dis =
                        new DicomInputStream(new File(fname));
                try {
                    main.parse(dis);
                } finally {
                    dis.close();
                }
            }
        } catch (ParseException e) {
            System.err.println("dcmdump: " + e.getMessage());
            System.err.println(rb.getString("try"));
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            main.setIncludeNamespaceDeclaration(cl.hasOption("xmlns")); if (cl.hasOption("xml11"))
                main.setXMLVersion(XML_1_1);
            configureBulkdata(main, cl);
            String fname = fname(cl.getArgList());
            if (fname.equals("-")) {
                main.parse(new DicomInputStream(System.in));
            } else {
                DicomInputStream dis =
                        new DicomInputStream(new File(fname));
                try {
                    main.parse(dis);
                } finally {
                    dis.close();
                }
            }
        } catch (ParseException e) {
            System.err.println("dcm2xml: " + e.getMessage());
            System.err.println(rb.getString("try"));
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        }
    }

    public void retrieve(File f) throws IOException, InterruptedException {
        Attributes attrs = new Attributes();
        DicomInputStream dis = null;
        try {
            attrs.addSelected(new DicomInputStream(f).readDataset(-1, -1), inFilter);
        } finally {
            SafeClose.close(dis);
        }
        attrs.addAll(keys);
        retrieve(attrs);
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        return String.format(srcFile.getName() + "-%04d", frame);
    }

    public int extract(File file) throws IOException {
        Attributes src;
        DicomInputStream dis = new DicomInputStream(file);
        try {
            dis.setIncludeBulkData(IncludeBulkData.URI);
            src = dis.readDataset(-1, -1);
        } finally {
            SafeClose.close(dis);
        }
        Attributes fmi = dis.getFileMetaInformation();
        if (frames == null) {
            int n = src.getInt(Tag.NumberOfFrames, 1);
            for (int frame = 0; frame < n; ++frame)
                extract(file, fmi, src, frame);
            return n;
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            main.setEncodingOptions(CLIUtils.encodingOptionsOf(cl));
            try {
                if (cl.hasOption("i")) {
                    String fname = cl.getOptionValue("i");
                    if (fname.equals("-")) {
                        main.parse(new DicomInputStream(System.in));
                    } else {
                        DicomInputStream dis =
                                new DicomInputStream(new File(fname));
                        try {
                            main.parse(dis);
                        } finally {
                            dis.close();
                        }
                    }
                }

                if (cl.hasOption("x"))
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        }
    }

    public void retrieve(File f) throws IOException, InterruptedException {
        Attributes attrs = new Attributes();
        DicomInputStream dis = null;
        try {
            attrs.addSelected(new DicomInputStream(f).readDataset(-1, -1), inFilter);
        } finally {
            SafeClose.close(dis);
        }
        attrs.addAll(keys);
        retrieve(attrs);
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                System.out.println();
                System.out.println("Failed to parse file " + f + ": " + e.getMessage());
                e.printStackTrace(System.out);
            }
        } else {
            DicomInputStream in = null;
            try {
                in = new DicomInputStream(f);
                in.setIncludeBulkData(IncludeBulkData.NO);
                Attributes fmi = in.readFileMetaInformation();
                long dsPos = in.getPosition();
                Attributes ds = in.readDataset(-1, Tag.PixelData);
                if (fmi == null || !fmi.containsValue(Tag.TransferSyntaxUID)
                        || !fmi.containsValue(Tag.MediaStorageSOPClassUID)
                        || !fmi.containsValue(Tag.MediaStorageSOPInstanceUID))
                    fmi = ds.createFileMetaInformation(in.getTransferSyntax());
                boolean b = scb.dicomFile(f, fmi, dsPos, ds);
                if (printout)System.out.print(b ? '.' : 'I');
            } catch (Exception e) {
                System.out.println();
                System.out.println("Failed to scan file " + f + ": " + e.getMessage());
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            Dcm2Json main = new Dcm2Json();
            main.setIndent(cl.hasOption("I"));
            configureBulkdata(main, cl);
            String fname = fname(cl.getArgList());
            if (fname.equals("-")) {
                main.parse(new DicomInputStream(System.in));
            } else {
                DicomInputStream dis =
                        new DicomInputStream(new File(fname));
                try {
                    main.parse(dis);
                } finally {
                    dis.close();
                }
            }
        } catch (ParseException e) {
            System.err.println("dcm2xml: " + e.getMessage());
            System.err.println(rb.getString("try"));
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                            rspHandlerFactory.createDimseRSPHandler(f));
                } finally {
                    SafeClose.close(in);
                }
            } else {
                DicomInputStream in = new DicomInputStream(f);
                try {
                    in.setIncludeBulkData(IncludeBulkData.URI);
                    Attributes data = in.readDataset(-1, -1);
                    if (CLIUtils.updateAttributes(data, attrs, uidSuffix))
                        iuid = data.getString(Tag.SOPInstanceUID);
                    if (!ts.equals(filets)) {
                        Decompressor.decompress(data, filets);
                    }
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Related Classes of org.dcm4che3.io.DicomInputStream

  • org.apache.camel.Exchange
  • org.apache.commons.cli.CommandLine
  • org.apache.commons.cli.OptionGroup
  • org.apache.commons.cli.Options
  • org.dcm4che3.audit.ActiveParticipant
  • org.dcm4che3.audit.AuditMessage
  • org.dcm4che3.audit.AuditMessages
  • org.dcm4che3.audit.AuditMessageTest
  • org.dcm4che3.audit.AuditSourceIdentification
  • org.dcm4che3.camel.DicomConsumer$EndpointDimseRQHandlerAsyncCallback
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