//
// MDBServiceImpl.java
//
/*
OME Bio-Formats package for reading and converting biological file formats.
Copyright (C) 2005-@year@ UW-Madison LOCI and Glencoe Software, Inc.
This program is free software; you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation; either version 2 of the License, or
(at your option) any later version.
This program 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 General Public License for more details.
You should have received a copy of the GNU General Public License
along with this program; if not, write to the Free Software
Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
*/
package loci.formats.services;
import java.io.IOException;
import java.util.List;
import java.util.Vector;
import loci.common.services.AbstractService;
import mdbtools.jdbc2.File;
import mdbtools.libmdb.Catalog;
import mdbtools.libmdb.Constants;
import mdbtools.libmdb.Data;
import mdbtools.libmdb.Holder;
import mdbtools.libmdb.MdbCatalogEntry;
import mdbtools.libmdb.MdbColumn;
import mdbtools.libmdb.MdbHandle;
import mdbtools.libmdb.MdbTableDef;
import mdbtools.libmdb.Table;
import mdbtools.libmdb.file;
import mdbtools.libmdb.mem;
/**
* Implementation of {@link MDBService} for parsing MDB database files.
*
* <dl><dt><b>Source code:</b></dt>
* <dd><a href="http://trac.openmicroscopy.org.uk/ome/browser/bioformats.git/components/bio-formats/src/loci/formats/services/MDBServiceImpl.java">Trac</a>,
* <a href="http://git.openmicroscopy.org/?p=bioformats.git;a=blob;f=components/bio-formats/src/loci/formats/services/MDBServiceImpl.java;hb=HEAD">Gitweb</a></dd></dl>
*/
public class MDBServiceImpl extends AbstractService implements MDBService {
// -- Fields --
private MdbHandle mdb;
private Vector<Holder> boundValues;
// -- MDBService API methods --
/**
* Default constructor.
*/
public MDBServiceImpl() {
// One check from each package
checkClassDependency(mdbtools.jdbc2.File.class);
checkClassDependency(mdbtools.libmdb.Catalog.class);
}
/* @see MDBService#initialize(String) */
public void initialize(String filename) throws IOException {
boundValues = new Vector<Holder>();
mem.mdb_init();
File dbfile = new File(filename);
mdb = file.mdb_open(dbfile);
Catalog.mdb_read_catalog(mdb, Constants.MDB_TABLE);
}
/* @see MDBService#parseDatabase() */
public Vector<Vector<String[]>> parseDatabase() throws IOException {
List catalog = mdb.catalog;
Vector<Vector<String[]>> rtn = new Vector<Vector<String[]>>();
int previousColumnCount = 0;
for (Object entry : catalog) {
int type = ((MdbCatalogEntry) entry).object_type;
String name = ((MdbCatalogEntry) entry).object_name;
if (type == Constants.MDB_TABLE && !name.startsWith("MSys")) {
Vector<String[]> tableData = new Vector<String[]>();
MdbTableDef table = Table.mdb_read_table((MdbCatalogEntry) entry);
Table.mdb_read_columns(table);
int numCols = table.num_cols;
for (int i=0; i<numCols; i++) {
Holder h = new Holder();
Data.mdb_bind_column(table, i + 1, h);
boundValues.add(h);
}
String[] columnNames = new String[numCols + 1];
columnNames[0] = name;
for (int i=0; i<numCols; i++) {
columnNames[i + 1] = ((MdbColumn) table.columns.get(i)).name;
}
tableData.add(columnNames);
while (fetchRow(table)) {
String[] row = new String[numCols];
for (int i=0; i<numCols; i++) {
Holder h = boundValues.get(i + previousColumnCount);
row[i] = h.s;
}
tableData.add(row);
}
previousColumnCount += numCols;
rtn.add(tableData);
}
}
return rtn;
}
/* @see MDBService#close() */
public void close() {
mdb = null;
boundValues = null;
}
/**
* Fetches the next row from the table, ignoring potential parsing exceptions.
* @param table Table to fetch the next available row from.
* @return <code>true</code> if there are further rows to fetch.
* <code>false</code> if there are no further rows to fetch or an exception
* is thrown while parsing the row.
*/
private boolean fetchRow(MdbTableDef table) {
try {
return Data.mdb_fetch_row(table);
} catch (Exception e) {
return false;
}
}
}