--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/CSP2/CSP2_env/env-d9b9114564458d9d-741b3de822f2aaca6c6caa4325c4afce/opt/bbmap-39.01-1/current/kmer/KmerNode1D.java	Tue Mar 18 16:23:26 2025 -0400
@@ -0,0 +1,175 @@
+package kmer;
+
+import java.util.concurrent.atomic.AtomicLong;
+
+import fileIO.ByteStreamWriter;
+import structures.ByteBuilder;
+
+/**
+ * @author Brian Bushnell
+ * @date Oct 22, 2013
+ *
+ */
+public class KmerNode1D extends KmerNode {
+	
+	/*--------------------------------------------------------------*/
+	/*----------------        Initialization        ----------------*/
+	/*--------------------------------------------------------------*/
+	
+	public KmerNode1D(long pivot_){
+		super(pivot_);
+	}
+	
+	public KmerNode1D(long pivot_, int value_){
+		super(pivot_);
+		value=value_;
+	}
+	
+	@Override
+	public final KmerNode makeNode(long pivot_, int value_){
+		return new KmerNode1D(pivot_, value_);
+	}
+	
+	@Override
+	public final KmerNode makeNode(long pivot_, int[] values_, int vlen){
+		throw new RuntimeException("Unimplemented");
+	}
+	
+	/*--------------------------------------------------------------*/
+	/*----------------        Public Methods        ----------------*/
+	/*--------------------------------------------------------------*/
+	
+	@Override
+	public final int set(long kmer, int[] vals, int vlen) {
+		throw new RuntimeException("Unimplemented.");
+	}
+	
+	/*--------------------------------------------------------------*/
+	/*----------------      Nonpublic Methods       ----------------*/
+	/*--------------------------------------------------------------*/
+	
+	@Override
+	public int value(){return value;}
+	
+	@Override
+	protected int[] values(int[] singleton){
+		assert(singleton.length==1);
+		singleton[0]=value;
+		return singleton;
+	}
+	
+	@Override
+	public int set(int value_){return value=value_;}
+	
+	@Override
+	protected int set(int[] values_, int vlen){
+		throw new RuntimeException("Unimplemented");
+	}
+	
+	@Override
+	int numValues(){return value<1 ? 0 : 1;}
+	
+	/*--------------------------------------------------------------*/
+	/*----------------       Private Methods        ----------------*/
+	/*--------------------------------------------------------------*/
+	
+	/*--------------------------------------------------------------*/
+	/*----------------   Resizing and Rebalancing   ----------------*/
+	/*--------------------------------------------------------------*/
+	
+	@Override
+	boolean canResize() {
+		return false;
+	}
+	
+	@Override
+	public boolean canRebalance() {
+		return true;
+	}
+	
+	@Deprecated
+	@Override
+	public int arrayLength() {
+		throw new RuntimeException("Unsupported.");
+	}
+	
+	@Deprecated
+	@Override
+	void resize() {
+		throw new RuntimeException("Unsupported.");
+	}
+	
+	@Deprecated
+	@Override
+	public void rebalance() {
+		throw new RuntimeException("Please call rebalance(ArrayList<KmerNode>) instead, with an empty list.");
+	}
+	
+	/*--------------------------------------------------------------*/
+	/*----------------         Info Dumping         ----------------*/
+	/*--------------------------------------------------------------*/
+	
+	@Override
+	public final boolean dumpKmersAsBytes(ByteStreamWriter bsw, int k, int mincount, int maxcount, AtomicLong remaining){
+		if(value<1){return true;}
+		if(value>=mincount){
+			if(remaining!=null && remaining.decrementAndGet()<0){return true;}
+			bsw.printlnKmer(pivot, value, k);
+		}
+		if(left!=null){left.dumpKmersAsBytes(bsw, k, mincount, maxcount, remaining);}
+		if(right!=null){right.dumpKmersAsBytes(bsw, k, mincount, maxcount, remaining);}
+		return true;
+	}
+	
+	@Override
+	public final boolean dumpKmersAsBytes_MT(final ByteStreamWriter bsw, final ByteBuilder bb, final int k, final int mincount, int maxcount, AtomicLong remaining){
+		if(value<1){return true;}
+		if(value>=mincount){
+			if(remaining!=null && remaining.decrementAndGet()<0){return true;}
+			toBytes(pivot, value, k, bb);
+			bb.nl();
+			if(bb.length()>=16000){
+				ByteBuilder bb2=new ByteBuilder(bb);
+				synchronized(bsw){bsw.addJob(bb2);}
+				bb.clear();
+			}
+		}
+		if(left!=null){left.dumpKmersAsBytes_MT(bsw, bb, k, mincount, maxcount, remaining);}
+		if(right!=null){right.dumpKmersAsBytes_MT(bsw, bb, k, mincount, maxcount, remaining);}
+		return true;
+	}
+	
+	@Override
+	protected final StringBuilder dumpKmersAsText(StringBuilder sb, int k, int mincount, int maxcount){
+		if(value<1){return sb;}
+		if(sb==null){sb=new StringBuilder(32);}
+		if(value>=mincount){sb.append(AbstractKmerTable.toText(pivot, value, k)).append('\n');}
+		if(left!=null){left.dumpKmersAsText(sb, k, mincount, maxcount);}
+		if(right!=null){right.dumpKmersAsText(sb, k, mincount, maxcount);}
+		return sb;
+	}
+	
+	@Override
+	protected final ByteBuilder dumpKmersAsText(ByteBuilder bb, int k, int mincount, int maxcount){
+		if(value<1){return bb;}
+		if(bb==null){bb=new ByteBuilder(32);}
+		if(value>=mincount){bb.append(AbstractKmerTable.toBytes(pivot, value, k)).append('\n');}
+		if(left!=null){left.dumpKmersAsText(bb, k, mincount, maxcount);}
+		if(right!=null){right.dumpKmersAsText(bb, k, mincount, maxcount);}
+		return bb;
+	}
+	
+	@Override
+	final boolean TWOD(){return false;}
+	
+	/*--------------------------------------------------------------*/
+	/*----------------       Invalid Methods        ----------------*/
+	/*--------------------------------------------------------------*/
+	
+	/*--------------------------------------------------------------*/
+	/*----------------            Fields            ----------------*/
+	/*--------------------------------------------------------------*/
+	
+	int value;
+	
+}