package ukmer;

import java.util.ArrayList;
import java.util.Arrays;

import kmer.Primes;

import align2.Tools;

/**
 * Stores kmers in a long[] and values in an int[][], with a victim cache.
 * @author Brian Bushnell
 * @date Nov 7, 2014
 *
 */
public final class HashArrayU2D extends HashArrayU {
	
	/*--------------------------------------------------------------*/
	/*----------------        Initialization        ----------------*/
	/*--------------------------------------------------------------*/
	
	public HashArrayU2D(int initialSize, int mult_, boolean autoResize_){
		super(initialSize, mult_, autoResize_, true);
		values=allocInt2D(prime+extra);
	}
	
	/*--------------------------------------------------------------*/
	/*----------------        Public Methods        ----------------*/
	/*--------------------------------------------------------------*/
	
	@Deprecated
	@Override
	public int increment(final Kmer kmer){
		throw new RuntimeException("Unsupported.");
	}
	
	@Deprecated
	@Override
	public int incrementAndReturnNumCreated(final Kmer kmer){
		throw new RuntimeException("Unsupported.");
	}
	
	/*--------------------------------------------------------------*/
	/*----------------      Nonpublic Methods       ----------------*/
	/*--------------------------------------------------------------*/
	
	@Override
	protected final int readCellValue(int cell) {
		int[] set=values[cell];
		return set==null ? 0 : set[0];
	}
	
	@Override
	protected final int[] readCellValues(int cell, int[] singleton) {
		return values[cell];
	}
	
	/** Returns number of values added */
	protected final void insertValue(final long[] kmer, final int v, final int cell){
		assert(matches(kmer, cell));
		if(values[cell]==null){
			values[cell]=new int[] {v, NOT_PRESENT};
			return;
		}
		int[] set=values[cell];
		assert(set!=null);
		
		for(int i=0; i<set.length; i++){
			if(set[i]==v){return;}
			else if(set[i]<0){set[i]=v;return;}
		}
		final int oldSize=set.length;
		final int newSize=(int)Tools.min(Integer.MAX_VALUE, oldSize*2L);
		assert(newSize>set.length) : "Overflow.";
		set=Arrays.copyOf(set, newSize);
		set[oldSize]=v;
		Arrays.fill(set, oldSize+1, newSize, NOT_PRESENT);
		values[cell]=set;
	}
	
	/** Returns number of values added */
	protected final void insertValue(final long[] kmer, final int[] vals, final int cell){
		assert(matches(kmer, cell));
		if(values[cell]==null){
			values[cell]=vals;
		}else{
			for(int v : vals){
				if(v<0){break;}
				insertValue(kmer, v, cell);
			}
		}
	}
	
	/*--------------------------------------------------------------*/
	/*----------------   Resizing and Rebalancing   ----------------*/
	/*--------------------------------------------------------------*/
	
	@Override
	public final boolean canRebalance() {return false;}
	
	@Override
	protected synchronized void resize(){
//		assert(false);
//		System.err.println("Resizing from "+prime+"; load="+(size*1f/prime));
		if(prime>=maxPrime){
			sizeLimit=0xFFFFFFFFFFFFL;
			return;
		}
		
		final long oldSize=size, oldVSize=victims.size;
		final long totalSize=oldSize+oldVSize;
		
		final long maxAllowedByLoadFactor=(long)(totalSize*minLoadMult);
		final long minAllowedByLoadFactor=(long)(totalSize*maxLoadMult);

//		sizeLimit=Tools.min((long)(maxLoadFactor*prime), maxPrime);
		
		assert(maxAllowedByLoadFactor>=minAllowedByLoadFactor);
		if(maxAllowedByLoadFactor<prime){
			sizeLimit=(long)(maxLoadFactor*prime);
			return;
		}
		
		long x=10+(long)(prime*resizeMult);
		x=Tools.max(x, minAllowedByLoadFactor);
		x=Tools.min(x, maxAllowedByLoadFactor);
		
		int prime2=(int)Tools.min(maxPrime, Primes.primeAtLeast(x));
		
		if(prime2<=prime){
			sizeLimit=(long)(maxLoadFactor*prime);
			assert(prime2==prime) : "Resizing to smaller array? "+totalSize+", "+prime+", "+x;
			return;
		}
//		System.err.println("Resizing from "+prime+" to "+prime2+"; size="+size);
		
		prime=prime2;
//		System.err.println("Resized to "+prime+"; load="+(size*1f/prime));
		long[][] oldk=arrays;
		int[][] oldc=values;
		arrays=allocLong2D(mult, prime2+extra);
		for(int i=0; i<mult; i++){
			Arrays.fill(arrays[i], NOT_PRESENT);
		}
		values=allocInt2D(prime2+extra);
		ArrayList<KmerNodeU> list=victims.toList();
		victims.clear();
		size=0;
		sizeLimit=Long.MAX_VALUE;
		
		final int[] singleton=new int[] {NOT_PRESENT};
		final Kmer kmer=new Kmer(kbig);
		{
			for(int i=0; i<oldk.length; i++){
				if(oldk[0][i]>NOT_PRESENT){
					set(fillKmer(i, kmer, oldk), oldc[i]);
				}
			}
		}
		
		for(KmerNodeU n : list){
			if(n.pivot[0]>NOT_PRESENT){
				kmer.setFrom(n.pivot());
				set(kmer, n.values(singleton));
			}
			else{assert(false);}
		}
		
		assert(oldSize+oldVSize==size+victims.size) : oldSize+", "+oldVSize+" -> "+size+", "+victims.size;
		
		sizeLimit=(long)(maxLoadFactor*prime);
	}
	
	@Deprecated
	@Override
	public void rebalance(){
		throw new RuntimeException("Unimplemented.");
	}
	
	@Deprecated
	@Override
	public long regenerate(){
		assert(false) : "This is not tested or intended for use.";
		long sum=0;
		assert(owners==null) : "Clear ownership before regeneration.";
		final Kmer kmer=new Kmer(kbig);
		for(int pos=0; pos<values.length; pos++){
			Kmer key=fillKmer(pos, kmer);
			if(key!=null){
				final int[] value=values[pos];
				values[pos]=null;
				arrays[0][pos]=NOT_PRESENT;
				size--;
				if(value!=null){
					assert(value[0]>0);
					set(key, value);
				}else{
					sum++;
				}
			}
		}
		
		ArrayList<KmerNodeU> nodes=victims.toList();
		victims.clear();
		for(KmerNodeU node : nodes){
			int value=node.value();
			if(value<1){
				sum++;
			}else{
				kmer.setFrom(node.pivot());
				set(kmer, node.values(null));//TODO: Probably unsafe or unwise.  Should test for singletons, etc.
			}
		}
		
		return sum;
	}
	
	/*--------------------------------------------------------------*/
	/*----------------            Fields            ----------------*/
	/*--------------------------------------------------------------*/
	
	private int[][] values;
	

	
}
