DicomSeriesProgressMonitor.java

/*******************************************************************************
 * Copyright (c) 2016 Weasis Team and others.
 * All rights reserved. This program and the accompanying materials
 * are made available under the terms of the Eclipse Public License v1.0
 * which accompanies this distribution, and is available at
 * http://www.eclipse.org/legal/epl-v10.html
 *
 * Contributors:
 *     Nicolas Roduit - initial API and implementation
 *******************************************************************************/
package org.weasis.dicom.explorer.wado;

import java.io.IOException;
import java.io.InputStream;
import java.io.InterruptedIOException;

import org.weasis.core.api.gui.task.SeriesProgressMonitor;
import org.weasis.core.api.media.data.Series;

public class DicomSeriesProgressMonitor extends SeriesProgressMonitor {

    private volatile boolean wadoRequest;
    private volatile byte[] header;

    public DicomSeriesProgressMonitor(final Series series, InputStream in, boolean wadoRequest) {
        super(series, in);
        this.wadoRequest = wadoRequest;
        if (wadoRequest) {
            header = new byte[512];
        }
    }

    @Override
    public int read(byte[] b) throws IOException {
        int nr = super.read(b);
        if (wadoRequest) {
            /*
             * header.length (512) is an empirical value: 132 is the magic number position + something to be sure to get
             * Transfer Syntax UID (0x0002, 0x0010)
             */
            if (nread < header.length) {
                System.arraycopy(b, 0, header, nread - nr, nr);
            } else {
                wadoRequest = false;
                int length = header.length - (nread - nr);
                System.arraycopy(b, 0, header, nread - nr, length);
                readMetaInfo(this, header);
                header = null;
            }
        }
        return nr;
    }

    @Override
    public int read(byte[] b, int off, int len) throws IOException {
        int nr = super.read(b, off, len);
        if (wadoRequest) {
            if (nread < header.length) {
                System.arraycopy(b, off, header, nread - nr, nr);
            } else {
                wadoRequest = false;
                int length = header.length - (nread - nr);
                System.arraycopy(b, off, header, nread - nr, length);
                readMetaInfo(this, header);
                header = null;
            }
        }
        return nr;
    }

    public static void readMetaInfo(DicomSeriesProgressMonitor progress, byte[] b) throws IOException {
        if (b == null) {
            return;
        }
        int byteOffset;
        if (b.length > 132 && "DICM".equals(new String(b, 128, 4))) { //$NON-NLS-1$
            byteOffset = 132;
        } else {
            InterruptedIOException exc = new InterruptedIOException("Not a DICOM file"); //$NON-NLS-1$
            exc.bytesTransferred = progress.nread;
            progress.series.setFileSize(progress.series.getFileSize() - progress.nread);
            progress.nread = 0;
            throw exc;
        }

        int endByteOffset = b.length - 1;
        while (byteOffset < endByteOffset) {
            int group = extractUnsigned16(b, byteOffset);
            int element = extractUnsigned16(b, byteOffset + 2);
            byteOffset += 4;
            if ((group == 0x0002 && element > 0x0010) || group > 0x0002) {
                break;
            }
            byte[] vr = { b[byteOffset], b[byteOffset + 1] };
            byteOffset += 2;

            int vl;
            if (isShortValueLengthVR(vr)) {
                vl = extractUnsigned16(b, byteOffset);
                byteOffset += 2;
            } else {
                // 2 reserved bytes
                // cast to int (should not be a big number in meta information)
                vl = (int) extractUnsigned32(b, byteOffset + 2);
                byteOffset += 6;
            }
            // (0x0002, 0x0010) Transfer Syntax UID
            if (element == 0x0010 && vl != 0 && byteOffset + vl < b.length) {
                String tsuid = new String(b, byteOffset, vl);
                if (!DicomManager.getInstance().containsImageioCodec(tsuid)) {
                    InterruptedIOException exc =
                        new InterruptedIOException("No image decoder found for the syntax " + tsuid); //$NON-NLS-1$
                    exc.bytesTransferred = Integer.MIN_VALUE;
                    progress.series.setFileSize(progress.series.getFileSize() - progress.nread);
                    progress.nread = 0;
                    throw exc;
                }
                break;
            }
            byteOffset += vl;
        }
    }

    static int extractUnsigned16(byte[] b, int offset) {
        if (offset + 1 >= b.length) {
            return 0;
        }
        int v1 = b[offset] & 0xff;
        int v2 = b[offset + 1] & 0xff;
        return (v2 << 8) | v1;
    }

    static long extractUnsigned32(byte[] b, int offset) {
        if (offset + 4 >= b.length) {
            return 0;
        }
        long v1 = ((long) b[offset]) & 0xff;
        long v2 = ((long) b[offset + 1]) & 0xff;
        long v3 = ((long) b[offset + 2]) & 0xff;
        long v4 = ((long) b[offset + 3]) & 0xff;
        return (((((v4 << 8) | v3) << 8) | v2) << 8) | v1;
    }

    static final boolean isShortValueLengthVR(byte[] vr) {
        return vr[0] == 'A' && (vr[1] == 'E' || vr[1] == 'S' || vr[1] == 'T') || vr[0] == 'C' && vr[1] == 'S'
            || vr[0] == 'D' && (vr[1] == 'A' || vr[1] == 'S' || vr[1] == 'T')
            || vr[0] == 'F' && (vr[1] == 'D' || vr[1] == 'L') || vr[0] == 'I' && vr[1] == 'S'
            || vr[0] == 'L' && (vr[1] == 'O' || vr[1] == 'T') || vr[0] == 'P' && vr[1] == 'N'
            || vr[0] == 'S' && (vr[1] == 'H' || vr[1] == 'L' || vr[1] == 'S' || vr[1] == 'T')
            || vr[0] == 'T' && vr[1] == 'M' || vr[0] == 'U' && (vr[1] == 'I' || vr[1] == 'L' || vr[1] == 'S');
    }
}