/*
* Copyright (c) 2016, Metron, Inc.
* All rights reserved.
*
* Redistribution and use in source and binary forms, with or without
* modification, are permitted provided that the following conditions are met:
* * Redistributions of source code must retain the above copyright
* notice, this list of conditions and the following disclaimer.
* * Redistributions in binary form must reproduce the above copyright
* notice, this list of conditions and the following disclaimer in the
* documentation and/or other materials provided with the distribution.
* * Neither the name of Metron, Inc. nor the
* names of its contributors may be used to endorse or promote products
* derived from this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
* ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
* WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
* DISCLAIMED. IN NO EVENT SHALL METRON, INC. BE LIABLE FOR ANY
* DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
* (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
* LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
* ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
* (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
* SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*/
package com.metsci.glimpse.dnc.convert;
import static com.google.common.base.Charsets.US_ASCII;
import static com.metsci.glimpse.dnc.convert.Render.readRenderCoveragesFile;
import static com.metsci.glimpse.dnc.convert.Render.readRenderLibrariesFile;
import java.io.File;
import java.io.IOException;
import java.nio.LongBuffer;
import java.nio.charset.Charset;
import java.util.ArrayList;
import java.util.List;
import com.google.common.io.Files;
import com.metsci.glimpse.dnc.DncCoverage;
import com.metsci.glimpse.dnc.DncLibrary;
import com.metsci.glimpse.dnc.DncChunks.DncChunkKey;
public class Query
{
public static final String queryFormatVersion = "1";
public static final String queryCharsetFilename = "charset";
public static final String queryConfigFilename = "config";
public static final String queryLibrariesFilename = "libraries";
public static final String queryCoveragesFilename = "coverages";
public static final String queryMutexFilename = "mutex";
public static final String queryCursorFilename = "cursor";
public static final String queryChunksFilename = "chunks";
public static final String queryTreesFilename = "trees";
public static final int longsPerQueryChunk = 8;
public static final int intsPerQueryInteriorNode = 6;
public static final int intsPerQueryLeafNode = 10;
public static final int intsPerQueryPointItem = 3;
public static final int intsPerQueryLineItem = 5;
public static final int intsPerQueryTriangleItem = 7;
public static Charset readQueryCharset( File queryDir ) throws IOException
{
File charsetFile = new File( queryDir, queryCharsetFilename );
return Charset.forName( Files.toString( charsetFile, US_ASCII ).trim( ) );
}
public static void writeQueryCharset( File queryDir, Charset charset ) throws IOException
{
File charsetFile = new File( queryDir, queryCharsetFilename );
Files.write( charset.name( ), charsetFile, US_ASCII );
}
public static String readQueryConfig( File queryDir, Charset charset ) throws IOException
{
File configFile = new File( queryDir, queryConfigFilename );
return Files.toString( configFile, charset );
}
public static void writeQueryConfig( File queryDir, String configString, Charset charset ) throws IOException
{
File configFile = new File( queryDir, queryConfigFilename );
Files.write( configString, configFile, charset );
}
public static List<DncLibrary> readQueryLibrariesFile( File file, Charset charset ) throws IOException
{
return readRenderLibrariesFile( file, charset );
}
public static List<DncCoverage> readQueryCoveragesFile( File file, Charset charset ) throws IOException
{
return readRenderCoveragesFile( file, charset );
}
public static class QueryChunk
{
public final DncChunkKey chunkKey;
public final long treeWordFirst;
public final int treeWordCount;
public final int interiorNodeCount;
public final int leafNodeCount;
public final int pointItemCount;
public final int lineItemCount;
public final int triangleItemCount;
public QueryChunk( DncChunkKey chunkKey,
long treeWordFirst,
int interiorNodeCount,
int leafNodeCount,
int pointItemCount,
int lineItemCount,
int triangleItemCount )
{
this.chunkKey = chunkKey;
this.treeWordFirst = treeWordFirst;
this.treeWordCount = ( interiorNodeCount * intsPerQueryInteriorNode )
+ ( leafNodeCount * intsPerQueryLeafNode )
+ ( pointItemCount * intsPerQueryPointItem )
+ ( lineItemCount * intsPerQueryLineItem )
+ ( triangleItemCount * intsPerQueryTriangleItem );
this.interiorNodeCount = interiorNodeCount;
this.leafNodeCount = leafNodeCount;
this.pointItemCount = pointItemCount;
this.lineItemCount = lineItemCount;
this.triangleItemCount = triangleItemCount;
}
}
public static List<QueryChunk> readQueryChunks( LongBuffer chunksBuf, List<DncLibrary> libraries, List<DncCoverage> coverages )
{
List<QueryChunk> chunks = new ArrayList<>( );
while ( chunksBuf.hasRemaining( ) )
{
int libraryNum = ( int ) chunksBuf.get( );
int coverageNum = ( int ) chunksBuf.get( );
long treeWordFirst = chunksBuf.get( );
int interiorNodeCount = ( int ) chunksBuf.get( );
int leafNodeCount = ( int ) chunksBuf.get( );
int pointItemCount = ( int ) chunksBuf.get( );
int lineItemCount = ( int ) chunksBuf.get( );
int triangleItemCount = ( int ) chunksBuf.get( );
DncLibrary library = libraries.get( libraryNum );
DncCoverage coverage = coverages.get( coverageNum );
DncChunkKey chunkKey = new DncChunkKey( library, coverage );
chunks.add( new QueryChunk( chunkKey, treeWordFirst, interiorNodeCount, leafNodeCount, pointItemCount, lineItemCount, triangleItemCount ) );
}
return chunks;
}
}