+++ /dev/null
-/* $RCSfile$
- * $Author: egonw $
- * $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.DataInputStream;
-import java.io.BufferedInputStream;
-
-
-import java.util.Map;
-
-import javajs.api.GenericZipTools;
-
-
-
-/* a simple compound document reader.
- *
- * DIRECTORY STRUCTURE IS NOT REGENERATED
- *
- * See http://sc.openoffice.org/compdocfileformat.pdf
- *
- * random access file info:
- * http://java.sun.com/docs/books/tutorial/essential/io/rafs.html
- *
- * SHOOT! random access is only for applications, not applets!
- *
- * With a bit more work, this could be set up to deliver binary files, but
- * right now I've only implemented it for string-based data.
- *
- */
-
-public class CompoundDocument extends BinaryDocument{
-
-// RandomAccessFile file;
- CompoundDocHeader header = new CompoundDocHeader(this);
- Lst<CompoundDocDirEntry> directory = new Lst<CompoundDocDirEntry>();
- CompoundDocDirEntry rootEntry;
-
- protected GenericZipTools jzt;
-
- int[] SAT;
- int[] SSAT;
- int sectorSize;
- int shortSectorSize;
- int nShortSectorsPerStandardSector;
- int nIntPerSector;
- int nDirEntriesperSector;
-
- // called by reflection
-
- public CompoundDocument(){
- super();
- this.isBigEndian = true;
- }
-
- public void setDocStream(GenericZipTools jzt, BufferedInputStream bis) {
- this.jzt = jzt;
- if (!isRandom) {
- stream = new DataInputStream(bis);
- }
- stream.mark(Integer.MAX_VALUE);
- if (!readHeader())
- return;
- getSectorAllocationTable();
- getShortSectorAllocationTable();
- getDirectoryTable();
- }
-
- public Lst<CompoundDocDirEntry> getDirectory() {
- return directory;
- }
-
- public String getDirectoryListing(String separator) {
- SB sb = new SB();
- for (int i = 0; i < directory.size(); i++) {
- CompoundDocDirEntry thisEntry = directory.get(i);
- if (!thisEntry.isEmpty)
- sb.append(separator).append(thisEntry.entryName)
- .append("\tlen=").appendI(thisEntry.lenStream)
- .append("\tSID=").appendI(thisEntry.SIDfirstSector)
- .append(thisEntry.isStandard ? "\tfileOffset="
- + getOffset(thisEntry.SIDfirstSector) : "");
- }
- return sb.toString();
- }
-
- public SB getAllData() {
- return getAllDataFiles(null, null);
- }
-
- /**
- * reads a compound document directory and saves all data in a Hashtable
- * so that the files may be organized later in a different order. Also adds
- * a #Directory_Listing entry.
- *
- * Files are bracketed by BEGIN Directory Entry and END Directory Entry lines,
- * similar to ZipUtil.getAllData.
- *
- * @param prefix
- * @param binaryFileList |-separated list of files that should be saved
- * as xx xx xx hex byte strings. The directory listing
- * is appended with ":asBinaryString"
- * @param fileData
- */
- @Override
- public void getAllDataMapped(String prefix,
- String binaryFileList, Map<String, String> fileData) {
- fileData.put("#Directory_Listing", getDirectoryListing("|"));
- binaryFileList = "|" + binaryFileList + "|";
- for (int i = 0; i < directory.size(); i++) {
- CompoundDocDirEntry thisEntry = directory.get(i);
- if (!thisEntry.isEmpty && thisEntry.entryType != 5) {
- String name = thisEntry.entryName;
- System.out.println("CompoundDocument file " + name);
- boolean isBinary = (binaryFileList.indexOf("|" + name + "|") >= 0);
- if (isBinary)
- name += ":asBinaryString";
- fileData.put(prefix + "/" + name, appendData(new SB(), name, thisEntry, isBinary).toString());
- }
- }
- close();
- }
-
- @Override
- public SB getAllDataFiles(String binaryFileList, String firstFile) {
-// firstFile is now ignored
-// if (firstFile != null) {
-// for (int i = 0; i < directory.size(); i++) {
-// CompoundDocDirEntry thisEntry = directory.get(i);
-// if (thisEntry.entryName.equals(firstFile)) {
-// directory.remove(i);
-// directory.add(1, thisEntry); // after ROOT_ENTRY
-// break;
-// }
-// }
-// }
- SB data = new SB();
- data.append("Compound Document File Directory: ");
- data.append(getDirectoryListing("|"));
- data.append("\n");
- CompoundDocDirEntry thisEntry;
- binaryFileList = "|" + binaryFileList + "|";
- for (int i = 0, n = directory.size(); i < n; i++) {
- thisEntry = directory.get(i);
- //System.out.println("CompoundDocument reading " + thisEntry.entryName);
- String name = thisEntry.entryName;
- switch (thisEntry.entryType) {
- case 5: // root
- break;
- case 1: // user storage (dir)
- data.append("NEW Directory ").append(name).append("\n");
- break;
- case 2: // user stream (file)
- if (name.endsWith(".gz"))
- name = name.substring(0, name.length() - 3);
- appendData(data, name, thisEntry, binaryFileList.indexOf("|" + thisEntry.entryName + "|") >= 0);
- break;
- }
- }
- close();
- return data;
- }
-
- private SB appendData(SB data, String name, CompoundDocDirEntry thisEntry,
- boolean isBinary) {
- data.append("BEGIN Directory Entry ").append(name).append("\n");
- data.appendSB(getEntryAsString(thisEntry, isBinary));
- data.append("\nEND Directory Entry ").append(name).append("\n");
- return data;
- }
-
- public SB getFileAsString(String entryName) {
- for (int i = 0; i < directory.size(); i++) {
- CompoundDocDirEntry thisEntry = directory.get(i);
- if (thisEntry.entryName.equals(entryName))
- return getEntryAsString(thisEntry, false);
- }
- return new SB();
- }
-
- private long getOffset(int SID) {
- return (SID + 1) * sectorSize;
- }
-
- private void gotoSector(int SID) {
- seek(getOffset(SID));
- }
-
- private boolean readHeader() {
- if (!header.readData())
- return false;
- sectorSize = 1 << header.sectorPower;
- shortSectorSize = 1 << header.shortSectorPower;
- nShortSectorsPerStandardSector = sectorSize / shortSectorSize; // e.g. 512 / 64 = 8
- nIntPerSector = sectorSize / 4; // e.g. 512 / 4 = 128
- nDirEntriesperSector = sectorSize / 128; // e.g. 512 / 128 = 4
-// System.out.println(
-// "compound document: revNum=" + header.revNumber +
-// " verNum=" + header.verNumber + " isBigEndian=" + isBigEndian +
-// " bytes per standard/short sector=" + sectorSize + "/" + shortSectorSize);
- return true;
- }
-
- private void getSectorAllocationTable() {
- int nSID = 0;
- int thisSID;
- SAT = new int[header.nSATsectors * nIntPerSector + 109];
-
- try {
- for (int i = 0; i < 109; i++) {
- thisSID = header.MSAT0[i];
- if (thisSID < 0)
- break;
- gotoSector(thisSID);
- for (int j = 0; j < nIntPerSector; j++) {
- SAT[nSID++] = readInt();
- //Logger.debug(thisSID+"."+j + "/" + (nSID - 1) + " : " + SAT[nSID - 1]);
- }
- }
- int nMaster = header.nAdditionalMATsectors;
- thisSID = header.SID_MSAT_next;
- int[] MSAT = new int[nIntPerSector];
- out: while (nMaster-- > 0 && thisSID >= 0) {
- // read a page of sector identifiers pointing to SAT sectors
- gotoSector(thisSID);
- for (int i = 0; i < nIntPerSector; i++)
- MSAT[i] = readInt();
- // read each page of SAT sector identifiers
- // last entry is pointer to next master sector allocation table page
- for (int i = 0; i < nIntPerSector - 1; i++) {
- thisSID = MSAT[i];
- if (thisSID < 0)
- break out;
- gotoSector(thisSID);
- for (int j = nIntPerSector; --j >= 0;)
- SAT[nSID++] = readInt();
- }
- thisSID = MSAT[nIntPerSector - 1];
- }
- } catch (Exception e) {
- System.out.println(e.toString());
- }
- }
-
- private void getShortSectorAllocationTable() {
- int nSSID = 0;
- int thisSID = header.SID_SSAT_start;
- int nMax = header.nSSATsectors * nIntPerSector;
- SSAT = new int[nMax];
- try {
- while (thisSID > 0 && nSSID < nMax) {
- gotoSector(thisSID);
- for (int j = 0; j < nIntPerSector; j++) {
- SSAT[nSSID++] = readInt();
- //System.out.println("short: " + thisSID+"."+j+" SSID=" +(nSSID-1)+" "+SSAT[nSSID-1]);
- }
- thisSID = SAT[thisSID];
- }
- } catch (Exception e) {
- System.out.println(e.toString());
- }
- }
-
- private void getDirectoryTable() {
- int thisSID = header.SID_DIR_start;
- CompoundDocDirEntry thisEntry;
- rootEntry = null;
- try {
- while (thisSID > 0) {
- gotoSector(thisSID);
- for (int j = nDirEntriesperSector; --j >= 0;) {
- thisEntry = new CompoundDocDirEntry(this);
- thisEntry.readData();
- directory.addLast(thisEntry);
- if (thisEntry.entryType == 5)
- rootEntry = thisEntry;
- }
- thisSID = SAT[thisSID];
- }
- } catch (Exception e) {
- System.out.println(e.toString());
- }
-// System.out.println("CompoundDocument directory entry: \n"
-// + getDirectoryListing("\n"));
- }
-
- private SB getEntryAsString(CompoundDocDirEntry thisEntry, boolean asBinaryString) {
- if(thisEntry.isEmpty)
- return new SB();
- //System.out.println(thisEntry.entryName + " " + thisEntry.entryType + " " + thisEntry.lenStream + " " + thisEntry.isStandard + " " + thisEntry.SIDfirstSector);
- return (thisEntry.isStandard ? getStandardStringData(
- thisEntry.SIDfirstSector, thisEntry.lenStream, asBinaryString)
- : getShortStringData(thisEntry.SIDfirstSector, thisEntry.lenStream, asBinaryString));
- }
- private SB getStandardStringData(int thisSID, int nBytes,
- boolean asBinaryString) {
- SB data = new SB();
- byte[] byteBuf = new byte[sectorSize];
- ZipData gzipData = new ZipData(nBytes);
- try {
- while (thisSID > 0 && nBytes > 0) {
- gotoSector(thisSID);
- nBytes = getSectorData(data, byteBuf, sectorSize, nBytes, asBinaryString, gzipData);
- thisSID = SAT[thisSID];
- }
- if (nBytes == -9999)
- return new SB();
- } catch (Exception e) {
- System.out.println(e.toString());
- }
- if (gzipData.isEnabled)
- gzipData.addTo(jzt, data);
- return data;
- }
-
- private int getSectorData(SB data, byte[] byteBuf,
- int nSectorBytes, int nBytes,
- boolean asBinaryString, ZipData gzipData)
- throws Exception {
- readByteArray(byteBuf, 0, byteBuf.length);
- int n = gzipData.addBytes(byteBuf, nSectorBytes, nBytes);
- if (n >= 0)
- return n;
- if (asBinaryString) {
- for (int i = 0; i < nSectorBytes; i++) {
- data.append(Integer.toHexString(byteBuf[i] & 0xFF)).appendC(' ');
- if (--nBytes < 1)
- break;
- }
- } else {
- for (int i = 0; i < nSectorBytes; i++) {
- if (byteBuf[i] == 0)
- return -9999; // don't allow binary data
- data.appendC((char) byteBuf[i]);
- if (--nBytes < 1)
- break;
- }
- }
- return nBytes;
- }
-
- private SB getShortStringData(int shortSID, int nBytes, boolean asBinaryString) {
- SB data = new SB();
- if (rootEntry == null)
- return data;
- int thisSID = rootEntry.SIDfirstSector;
- int ptShort = 0;
- byte[] byteBuf = new byte[shortSectorSize];
- ZipData gzipData = new ZipData(nBytes);
- try {
- //System.out.println("CD shortSID=" + shortSID);
- // point to correct short data sector, 512/64 = 4 per page
- while (thisSID >= 0 && shortSID >= 0 && nBytes > 0) {
- while (shortSID - ptShort >= nShortSectorsPerStandardSector) {
- ptShort += nShortSectorsPerStandardSector;
- thisSID = SAT[thisSID];
- }
- seek(getOffset(thisSID) + (shortSID - ptShort) * shortSectorSize);
- nBytes = getSectorData(data, byteBuf, shortSectorSize, nBytes, asBinaryString, gzipData);
- shortSID = SSAT[shortSID];
- //System.out.println("CD shortSID=" + shortSID);
- }
- } catch (Exception e) {
- System.out.println(data.toString());
- System.out.println("reader error in CompoundDocument " + e.toString());
- }
- if (gzipData.isEnabled)
- gzipData.addTo(jzt, data);
- return data;
- }
-}
git://source.jalview.org / jalview.git / blobdiff