+++ /dev/null
-/* $RCSfile$
- * $Date: 2006-03-18 15:59:33 -0600 (Sat, 18 Mar 2006) $
- * $Revision: 4652 $
- *
- * Some portions of this file have been modified by Robert Hanson hansonr.at.stolaf.edu 2012-2017
- * for use in SwingJS via transpilation into JavaScript using Java2Script.
- *
- * Copyright (C) 2003-2005 Miguel, Jmol Development, www.jmol.org
- *
- * Contact: hansonr@stolaf.edu
- *
- * This library is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public
- * License as published by the Free Software Foundation; either
- * version 2.1 of the License, or (at your option) any later version.
- *
- * This library is distributed in the hope that it will be useful,
- * but WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this library; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA.
- */
-package javajs.util;
-
-
-import java.io.BufferedInputStream;
-import java.io.DataInputStream;
-import java.io.IOException;
-import java.util.Map;
-
-import javajs.api.GenericBinaryDocument;
-import javajs.api.GenericOutputChannel;
-
-/* a basic binary file reader (extended by CompoundDocument).
- *
- * Note that YOU are responsible for determining whether a file
- * is bigEndian or littleEndian; the default is bigEndian.
- *
- * JavaScript note: readShort() malfunctioned because (short) (xx << 8)
- * isn't the same as (int) (xx << 8); same problem in java.io.DataStream
- *
- *
- */
-
-public class BinaryDocument extends BC implements GenericBinaryDocument {
-
- public BinaryDocument() {
- }
-
-
- // called by reflection
-
- protected DataInputStream stream;
- protected boolean isRandom = false;
- protected boolean isBigEndian = true;
- protected BufferedInputStream bis;
- protected long nBytes;
- protected GenericOutputChannel out;
-
-
- @Override
- public void close() {
- if (stream != null)
- try {
- stream.close();
- } catch (IOException e) {
- // ignore
- }
- if (out != null)
- out.closeChannel();
- }
-
- @Override
- public BinaryDocument setStream(BufferedInputStream bis, boolean isBigEndian) {
- this.bis = bis;
- if (bis != null) {
- stream = new DataInputStream(bis);
- }
- this.isBigEndian = isBigEndian;
- return this;
- }
-
- @Override
- public BufferedInputStream getInputStream() {
- return bis;
- }
-
- @Override
- public void setStreamData(DataInputStream stream, boolean isBigEndian) {
- if (stream != null)
- this.stream = stream;
- this.isBigEndian = isBigEndian;
- }
-
- @Override
- public void setOutputChannel(GenericOutputChannel out) {
- this.out = out;
- }
-
- public void setRandom(boolean TF) {
- isRandom = TF;
- //CANNOT be random for web
- }
-
- @Override
- public byte readByte() throws IOException {
- nBytes++;
- return ioReadByte();
- }
-
- @Override
- public int readUInt8() throws IOException {
- nBytes++;
- int b = stream.readUnsignedByte();
- if (out != null)
- out.writeByteAsInt(b);
- return b;
- }
-
- private byte ioReadByte() throws IOException {
- byte b = stream.readByte();
- if (out != null)
- out.writeByteAsInt(b);
- return b;
- }
-
- @Override
- public byte[] readBytes(int n) throws IOException {
- byte[] b = new byte[n];
- readByteArray(b, 0, n);
- return b;
- }
-
- @Override
- public int readByteArray(byte[] b, int off, int len) throws IOException {
- int n = ioRead(b, off, len);
- nBytes += n;
- return n;
- }
-
- private int ioRead(byte[] b, int off, int len) throws IOException {
- int m = 0;
- while (len > 0) {
- int n = stream.read(b, off, len);
- m += n;
- if (n > 0 && out != null)
- out.write(b, off, n);
- if (n >= len)
- break;
- off += n;
- len -= n;
- }
- return m;
- }
-
- @Override
- public String readString(int nChar) throws IOException {
- byte[] temp = new byte[nChar];
- int n = readByteArray(temp, 0, nChar);
- return new String(temp, 0, n, "UTF-8");
- }
-
- @Override
- public short readShort() throws IOException {
- nBytes += 2;
- short n = (isBigEndian ? ioReadShort()
- : (short) ((ioReadByte() & 0xff)
- | (ioReadByte() & 0xff) << 8));
- /**
- * @j2sNative
- *
- * return (n > 0x7FFF ? n - 0x10000 : n);
- */
- {
- return n;
- }
- }
-
- private short ioReadShort() throws IOException {
- short b = stream.readShort();
- if (out != null)
- out.writeShort(b);
- return b;
- }
-
-
- @Override
- public int readIntLE() throws IOException {
- nBytes += 4;
- return readLEInt();
- }
-
- @Override
- public int readInt() throws IOException {
- nBytes += 4;
- return (isBigEndian ? ioReadInt() : readLEInt());
- }
-
- private int ioReadInt() throws IOException {
- int i = stream.readInt();
- if (out != null)
- out.writeInt(i);
- return i;
- }
-
- @Override
- public int swapBytesI(int n) {
- return (((n >> 24) & 0xff)
- | ((n >> 16) & 0xff) << 8
- | ((n >> 8) & 0xff) << 16
- | (n & 0xff) << 24);
- }
-
- @Override
- public short swapBytesS(short n) {
- return (short) ((((n >> 8) & 0xff)
- | (n & 0xff) << 8));
- }
-
-
- @Override
- public int readUnsignedShort() throws IOException {
- nBytes += 2;
- int a = (ioReadByte() & 0xff);
- int b = (ioReadByte() & 0xff);
- return (isBigEndian ? (a << 8) + b : (b << 8) + a);
- }
-
- @Override
- public long readLong() throws IOException {
- nBytes += 8;
- return (isBigEndian ? ioReadLong()
- : ((((long) ioReadByte()) & 0xff)
- | (((long) ioReadByte()) & 0xff) << 8
- | (((long) ioReadByte()) & 0xff) << 16
- | (((long) ioReadByte()) & 0xff) << 24
- | (((long) ioReadByte()) & 0xff) << 32
- | (((long) ioReadByte()) & 0xff) << 40
- | (((long) ioReadByte()) & 0xff) << 48
- | (((long) ioReadByte()) & 0xff) << 54));
- }
-
- private long ioReadLong() throws IOException {
- long b = stream.readLong();
- if (out != null)
- out.writeLong(b);
- return b;
- }
-
- private int readLEInt() throws IOException {
- ioRead(t8, 0, 4);
- return bytesToInt(t8, 0, false);
- }
-
- byte[] t8 = new byte[8];
-
- @Override
- public float readFloat() throws Exception {
- return intToFloat(readInt());
- }
-
- @SuppressWarnings("unused")
- @Override
- public double readDouble() throws IOException {
- /**
- *
- * reading the float equivalent here in JavaScript
- *
- * @j2sNative
- *
- *
- */
- {
- nBytes += 8;
- if (true)
- return (isBigEndian ? ioReadDouble()
- : Double.longBitsToDouble(readLELong()));
- }
- // this is the JavaScript-only part
- this.readByteArray(this.t8, 0, 8);
- return bytesToDoubleToFloat(this.t8, 0, this.isBigEndian);
- }
-
- private double ioReadDouble() throws IOException {
- double d = stream.readDouble();
- if (out != null)
- out.writeLong(Double.doubleToRawLongBits(d));
- return d;
- }
-
- private long readLELong() throws IOException {
- return ((((long) ioReadByte()) & 0xff)
- | (((long) ioReadByte()) & 0xff) << 8
- | (((long) ioReadByte()) & 0xff) << 16
- | (((long) ioReadByte()) & 0xff) << 24
- | (((long) ioReadByte()) & 0xff) << 32
- | (((long) ioReadByte()) & 0xff) << 40
- | (((long) ioReadByte()) & 0xff) << 48
- | (((long) ioReadByte()) & 0xff) << 56);
- }
-
- @Override
- public void seek(long offset) {
- // slower, but all that is available using the applet
- try {
- if (offset == nBytes)
- return;
- if (offset < nBytes) {
- stream.reset();
- if (out != null && nBytes != 0)
- out.reset();
- nBytes = 0;
- } else {
- offset -= nBytes;
- }
- if (out == null) {
- stream.skipBytes((int)offset);
- } else {
- readByteArray(new byte[(int)offset], 0, (int) offset);
- }
- nBytes += offset;
- } catch (IOException e) {
- System.out.println(e.toString());
- }
- }
-
- @Override
- public long getPosition() {
- return nBytes;
- }
-
- @Override
- public SB getAllDataFiles(String binaryFileList, String firstFile) {
- return null;
- }
-
- @Override
- public void getAllDataMapped(String replace, String string,
- Map<String, String> fileData) {
- }
-
-
-/* random access -- application only:
- *
- void seekFile(long offset) {
- try {
- file.seek(offset);
- } catch (IOException e) {
- System.out.println(e.getMessage());
- }
- }
-*/
-}
git://source.jalview.org / jalview.git / blobdiff