package jalview.ws.jws1;

import java.io.BufferedInputStream;
import java.io.BufferedReader;
import java.io.BufferedWriter;
import java.io.DataInputStream;
import java.io.File;
import java.io.FileOutputStream;
import java.io.FileReader;
import java.io.FileWriter;
import java.io.IOException;
import java.io.InputStream;
import java.io.InputStreamReader;
import java.io.OutputStream;
import java.io.OutputStreamWriter;
import java.io.Reader;
import java.io.StringWriter;
import java.net.HttpURLConnection;
import java.net.MalformedURLException;
import java.net.URL;
import java.net.URLConnection;

import java.net.URLEncoder;



public class Annotate3D {
	//protected BufferedReader in;
	//protected BufferedWriter out;
	
	public Annotate3D()
	{
		System.out.println("Annotate3D");
		//try {
		     // Create a URL for the desired page
		     //String id = "1HR2";
		     //URL url = new URL("http://paradise-ibmc.u-strasbg.fr/webservices/annotate3d?pdbid="+id);
		     //in = new BufferedReader(new InputStreamReader(url.openStream()));
		     //String str;
		     //OutputStream out1 = null;
		     //out = new BufferedWriter(new OutputStreamWriter(out1, "temp.rnaml"));
		     //while ((str = in.readLine()) != null) {
		     //System.out.println(str);
		     //out.write(str);
		     //}
		     //in.close();
		     //out.close();
		     //} catch (MalformedURLException e) {
		     //} catch (IOException e) {
		     //}
	}
	
	public Annotate3D(String path) throws InterruptedException{
		System.out.println("Annotate3D");
		try {
//		    //URL url = new URL("http://paradise-ibmc.u-strasbg.fr/webservices/annotate3d?data="+inFile);
//			System.out.println("Step1");
//		    FileReader r = new FileReader(inFile);
//		    BufferedReader in = new BufferedReader(r);
//		    StringBuffer content = new StringBuffer();
//		    System.out.println("Step2");
//			while(in.readLine()!=null){
//				content.append(in.readLine());
//				//System.out.println("Step3"+in.readLine());
//			}
//			
//			String data = URLEncoder.encode("data", "UTF-8") + "=" + URLEncoder.encode(content.toString(), "UTF-8");
//			for (int i=0;i<data.length();i++)
//			{
//				System.out.print(data.charAt(i));
//			}
			
			//String data = "width=50&height=100";
	       
	            
//	            // Send the request
//				FileReader r = new FileReader(path);
//				BufferedReader in = new BufferedReader(r);
//				StringBuffer content = new StringBuffer();
//				System.out.println("Step1");
//				while(in.readLine()!=null){
//					content.append(in.readLine());
//					
//				}
//				System.out.println("Step2");
//				String data = URLEncoder.encode("data", "UTF-8") + "=" + URLEncoder.encode(content.toString(), "UTF-8");
//				System.out.println("Step2");
//				URL url = new URL("http://paradise-ibmc.u-strasbg.fr/webservices/annotate3d?data="+data);
//				DataInputStream is = new DataInputStream(url.openStream());
//				String str;
//				while ((str = is.readLine()) != null) {
//				     System.out.println(str);
//				     //out.write(str);
//				     }
			FileReader r = new FileReader(path);
			BufferedReader in = new BufferedReader(r);
			String content ="";
			String str;
			
			while((str=in.readLine())!=null){
				//System.out.println(str);
				
				content=content+str;
			}
			System.out.println("pdbfile="+content.toString());
			System.out.println("capacité="+content.length());
			String paramfile = URLEncoder.encode(content.toString(), "UTF-8");
			System.out.println("param="+paramfile);
			    URL url = new URL("http://paradise-ibmc.u-strasbg.fr/webservices/annotate3d?data="+content);
			    BufferedReader is = new BufferedReader(new InputStreamReader(url.openStream()));
				String str4;
				while ((str4 = is.readLine()) != null) {
				     System.out.println(str4);
				     //out.write(str);
				     }
			    in.close();
			    is.close();
			    
//			    HttpURLConnection connection = (HttpURLConnection)url.openConnection();
//			    connection.setRequestMethod("POST" );
//			    connection.setRequestProperty("data", path );
//			    //connection.setRequestProperty("nomDuChamp2", "valeurDuChamp2" );
//			    BufferedReader input = new BufferedReader(new InputStreamReader(connection.getInputStream()));
//			    //DataInputStream input = new DataInputStream(connection.getInputStream());
//			    String c;
//			    while((c=input.readLine())!=null){
//			     System.out.print(c);
//			    }
//			    input.close();
				//BufferedReader in1 = new BufferedReader(is);
				
//			     OutputStream out1 = null;
//			     System.out.println("Step3");
//			     BufferedWriter out = new BufferedWriter(new OutputStreamWriter(out1, "temp.rnaml"));
//			     
//			     in.close();
//			     out.close();
				
				
				//return;
				
				//System.out.println(data.length());
				//System.out.println("step2");
	            //URL url = new URL("http://paradise-ibmc.u-strasbg.fr/webservices/annotate3d?data="+data);
	            //System.out.println("step3");
	            //URLConnection conn = url.openConnection();
	            //conn.setDoOutput(true);
	            //OutputStreamWriter writer = new OutputStreamWriter(conn.getOutputStream());
	            
	            //write parameters
	            //writer.write(data);
	           // writer.flush();
	            
	            // Get the response
//	            StringBuffer answer = new StringBuffer();
//	            //BufferedReader reader = new BufferedReader(new InputStreamReader(conn.getInputStream()));
//	            //String line;
//	            while ((line = reader.readLine()) != null) {
//	                answer.append(line);
//	                System.out.println(line);
//	            }
//	            writer.close();
//	            reader.close();
	            
	            //Output the response
	            
	            
	        } catch (MalformedURLException ex) {
	            ex.printStackTrace();
	        } catch (IOException ex) {
	            ex.printStackTrace();
	        }
	}
			
			//in = new BufferedReader(new InputStreamReader(url.openStream()));
			
		     //String str;
		     
		     
		     //out = new FileOutputStream("temp.rnaml");
		     //out = new BufferedWriter(new FileWriter("temp.rnaml"));
		     
		     //while ((str = in.readLine()) != null) {
		     //System.out.println(str);
		     //out.write(str);
		     //System.out.println(str);
//			in.close();
		     
		     
		     //out.close();
//		     } catch (MalformedURLException e) {
//		     } catch (IOException e) {
//		     }
//		
//	}
	
	//public BufferedWriter getReader()
	//{
			//System.out.println("The buffer");
			
			//return out;
			
		
	//}

}