package bin;

import java.io.File;
import java.util.ArrayList;

import json.JsonObject;
import shared.PreParser;
import sketch.DisplayParams;
import sketch.SendSketch;
import sketch.Sketch;
import sketch.SketchIdComparator;
import sketch.SketchObject;
import sketch.SketchTool;

/** Renames files with top sketch hit taxid */
public class FileRenamer {

	public static void main(String[] args) {
		PreParser pp=new PreParser(args, null, false);
		args=pp.args;
		DisplayParams params=new DisplayParams();
		params.format=DisplayParams.FORMAT_JSON;
		SketchObject.postParse();
		SketchTool tool=new SketchTool(10000, params);
		ArrayList<Sketch> inSketches=tool.loadSketches_MT(params, args);
		assert(inSketches.size()==args.length) : inSketches.size()+" != "+args.length;
		final int numLoaded=(inSketches.size());
		if(numLoaded>1 && params.mode==Sketch.PER_FILE){
			inSketches.sort(SketchIdComparator.comparator);//Otherwise they come out disordered
		}
		
		ArrayList<JsonObject> results=SendSketch.sendSketches(inSketches, "refseq", params);
		assert(results.size()==inSketches.size()) : inSketches.size()+" != "+results.size();
		for(int i=0; i<args.length; i++) {
			String fname=args[i];
			JsonObject result=results.get(i);
			
			JsonObject top=null;
			if(result!=null && result.jmapSize()>0) {
				for(String key : result.jmap.keySet()){
					top=result.jmap.get(key);
					break;
				}
			}
			SketchRecord topHit=(top==null ? null : new SketchRecord(top));
			int taxid=(topHit==null ? -1 : topHit.taxid);
			
			File f=new File(fname);
			String fname2="tid_"+taxid+"_"+fname;
			File f2=new File(fname2);
			assert(f.exists());
			assert(!f2.exists());
			f.renameTo(f2);
		}
	}
	
}