forester/java/src/org/forester/ws/hmmer/Test.java

   1
   2 package org.forester.ws.hmmer;
   3
   4 import java.io.BufferedReader;
   5 import java.io.DataOutputStream;
   6 import java.io.InputStreamReader;
   7 import java.net.HttpURLConnection;
   8 import java.net.URL;
   9 import java.net.URLEncoder;
  10
  11 public class Test {
  12
  13     public static void main( final String[] args ) {
  14         try {
  15             final URL url = new URL( "http://hmmer.janelia.org/search/hmmscan" );
  16             final HttpURLConnection connection = ( HttpURLConnection ) url.openConnection();
  17             connection.setDoOutput( true );
  18             connection.setDoInput( true );
  19             connection.setInstanceFollowRedirects( false );
  20             connection.setRequestMethod( "POST" );
  21             connection.setRequestProperty( "Content-Type", "application/x-www-form-urlencoded" );
  22             connection.setRequestProperty( "Accept", "application/json" );
  23             //Add the database and the sequence. Add more options as you wish!
  24             final String urlParameters = "hmmdb=" + URLEncoder.encode( "pfam", "UTF-8" ) + "&seq="
  25                     + ">seq\nEMGPSENDPNLFVALYDFVASGDNTLSITKGEKLRVLGYNHNGEWCEAQTKNGQGWVPSNYITPV"
  26                     + "NSLEKHSWYHGPVSRNAAEYLLSSGINGSFLVRESESSPGQRSISLRYEG"
  27                     + "RVYHYRINTASDGKLYVSSESRFNTLAELVHHHSTVADGLITTLHYPAP";
  28             connection.setRequestProperty( "Content-Length", "" + Integer.toString( urlParameters.getBytes().length ) );
  29             //Send request
  30             final DataOutputStream wr = new DataOutputStream( connection.getOutputStream() );
  31             wr.writeBytes( urlParameters );
  32             wr.flush();
  33             wr.close();
  34             //Now get the redirect URL
  35             final URL respUrl = new URL( connection.getHeaderField( "Location" ) );
  36             final HttpURLConnection connection2 = ( HttpURLConnection ) respUrl.openConnection();
  37             connection2.setRequestMethod( "GET" );
  38             connection2.setRequestProperty( "Accept", "text/x-yaml" );
  39             //Get the response and print it to the screen
  40             final BufferedReader in = new BufferedReader( new InputStreamReader( connection2.getInputStream() ) );
  41             String inputLine;
  42             while ( ( inputLine = in.readLine() ) != null ) {
  43                 System.out.println( inputLine );
  44             }
  45             in.close();
  46         }
  47         catch ( final Exception e ) {
  48             throw new RuntimeException( e );
  49         }
  50     }
  51 }