package jalview.io;

import static java.nio.file.Files.readAllBytes;
import static java.nio.file.Paths.get;
import jalview.datamodel.AlignmentI;
import jalview.datamodel.SequenceI;
import jalview.gui.AlignViewport;
import jalview.gui.AlignmentPanel;
import jalview.gui.FeatureRenderer;
import jalview.gui.SequenceRenderer;
import jalview.json.binding.v1.BioJsAlignmentPojo;
import jalview.json.binding.v1.BioJsSeqPojo;
import jalview.util.MessageManager;

import java.io.IOException;
import java.io.PrintWriter;

import org.json.simple.parser.ParseException;

import com.json.JSONException;

public class BioJsHTMLOutput {
	private AlignViewport av;
	private FeatureRenderer fr;

	public BioJsHTMLOutput(AlignmentPanel ap, SequenceRenderer sr, FeatureRenderer fr1) {
		this.av = ap.av;
		this.fr = new FeatureRenderer(ap);
		fr.transferSettings(fr1);
		exportAsBioJsHtml();
	}

	private void exportAsBioJsHtml() {
		try {
			JalviewFileChooser jvFileChooser = getJalviewFileChooserOption();
			int fileChooserOpt = jvFileChooser.showSaveDialog(null);
			if (fileChooserOpt == JalviewFileChooser.APPROVE_OPTION) {
				jalview.bin.Cache.setProperty("LAST_DIRECTORY", jvFileChooser.getSelectedFile().getParent());
				String selectedFile = jvFileChooser.getSelectedFile().getPath();
				String generartedBioJs = generateBioJsAlignmentData(av.getAlignment());
				PrintWriter out = new java.io.PrintWriter(new java.io.FileWriter(selectedFile));
				out.print(generartedBioJs);
				out.close();
				jalview.util.BrowserLauncher.openURL("file:///" + selectedFile);
			}
		} catch (Exception ex) {
			ex.printStackTrace();
		}
	}

	private JalviewFileChooser getJalviewFileChooserOption() {
		JalviewFileChooser chooser = new JalviewFileChooser(jalview.bin.Cache.getProperty("LAST_DIRECTORY"), new String[] { "html" }, new String[] { "HTML files" }, "HTML files");
		chooser.setFileView(new JalviewFileView());

		// TODO uncomment when supported by MassageManager
		chooser.setDialogTitle(MessageManager.getString("label.save_as_biojs_html"));
		chooser.setDialogTitle("save as BioJs HTML");
		chooser.setToolTipText(MessageManager.getString("action.save"));

		return chooser;
	}

	private String generateBioJsAlignmentData(AlignmentI alignment) throws IOException, JSONException {
		BioJsAlignmentPojo bjsAlignment = new BioJsAlignmentPojo();
		int count = 0;
		for (SequenceI seq : alignment.getSequences()) {
			StringBuilder name = new StringBuilder();
			name.append(seq.getName()).append("/").append(seq.getStart()).append("-").append(seq.getEnd());
			bjsAlignment.getSeqs().add(new BioJsSeqPojo(String.valueOf(++count), name.toString(), seq.getSequenceAsString()));
		}

		// Taylor
		// av.getGlobalColourScheme().;
		String seqs = new com.json.JSONObject(bjsAlignment).getString("seqs");
		String bioJSTemplate = new String(readAllBytes(get("resources/templates/BioJSTemplate.txt")));

		// av.get
		// fr.
		return bioJSTemplate.replaceAll("#sequenceData#", seqs).replaceAll("#scheme#", "zappo");
	}

	public static void main(String[] args) throws IOException, ParseException {

	}

}