remove project files and keep sources only

[jabaws.git] / webservices / compbio / nosql / src / combio / cassandra / DataParsing.java

diff --git a/webservices/compbio/nosql/src/combio/cassandra/DataParsing.java b/webservices/compbio/nosql/src/combio/cassandra/DataParsing.java
deleted file mode 100644 (file)
index 1a03ce4..0000000
--- a/webservices/compbio/nosql/src/combio/cassandra/DataParsing.java
+++ /dev/null
@@ -1,98 +0,0 @@
-package combio.cassandra;
-
-import java.io.BufferedReader;
-import java.io.IOException;
-import java.io.InputStreamReader;
-import java.net.HttpURLConnection;
-import java.net.MalformedURLException;
-import java.net.URL;
-import java.net.URLConnection;
-import java.text.ParseException;
-import java.text.SimpleDateFormat;
-import java.util.Calendar;
-import java.util.Date;
-
-public class DataParsing {
-       private CassandraCreate cc = new CassandraCreate();
-       
-       public void ParsingTest(String input) {
-               System.out.println("Inserting.....");
-               URL url, urltable;
-//             int count = 0;
-//             int countNotM = 0;
-//             int countEr = 0;
-//             int countEmp = 0;
-               Calendar cal = Calendar.getInstance();
-               String date = cal.get(Calendar.YEAR) + "/" + cal.get(Calendar.MONTH) + "/" + cal.get(Calendar.DAY_OF_MONTH);     
-               try {
-                       url = new URL(input);
-                       URLConnection conn = url.openConnection();
-                       BufferedReader br = new BufferedReader(new InputStreamReader(conn.getInputStream()));
-                       String line;    
-                       
-                       while ((line = br.readLine()) != null) {
-                               if (line.matches(date + "(.*)jp_[^\\s]+")) {    
-                                       String[] table;
-                                       table = line.split("\\s+");
-       //                              count++;
-                                               if (!cc.CheckIP(table[table.length - 1])) {             
-       //                                              countNotM++;
-                                                       urltable = new URL("http://www.compbio.dundee.ac.uk/www-jpred/results/" +table[table.length - 1]+"/"+table[table.length - 1]+".concise.fasta");
-                                                       HttpURLConnection httpConnection = (HttpURLConnection) urltable.openConnection();
-                                                       if (httpConnection.getResponseCode() > 200) {
-//                                                             countEr++;
-                                                               continue;                                       
-                                                       }
-                                                       try {
-                                                               BufferedReader br1 = new BufferedReader(new InputStreamReader(httpConnection.getInputStream()));
-                                                               String lineNext;
-                                                               String newProt = "";
-                                                               String jnetpred = "";
-                                                               while ((lineNext = br1.readLine()) != null) {
-                                                                       if (lineNext.equals(">QUERY")) {
-                                                                               while (!(lineNext = br1.readLine()).matches(">[^\\s]+"))
-                                                                                       newProt += lineNext;
-                                                                       } else if (lineNext.equals(">jnetpred")) {
-                                                                               while (!(lineNext = br1.readLine()).matches(">[^\\s]+"))
-                                                                                       jnetpred += lineNext;
-                                                                       }                                                               
-                                                               }
-                                                               br1.close();
-                                                               if (newProt.length() <= 1) {            
-               //                                                      countEmp++;
-                                                                       continue;
-                                                               }
-                                                               
-                                                               SimpleDateFormat formatter = new SimpleDateFormat("yyyy/MM/dd");
-                                               
-                                                               String dateInString1 = table[0].substring(0, table[0].indexOf(":"));
-                                                               
-                                                               long dateWork1 = 0;     
-                                                                       
-                                                               try {
-                                                                       Date dat1 = formatter.parse(dateInString1);
-                                                                       dateWork1 = dat1.getTime();
-                                                                       
-                                                               } catch (ParseException e) {
-                                                                       e.printStackTrace();
-                                                               }
-                                                               cc.InsertData(dateWork1, table[0], table[1], table[2], table[table.length - 1], "OK", "OK", newProt, jnetpred);
-                                                       } catch (IOException e) {
-                                                               //                      e.printStackTrace();
-                                                       }       
-                                       //      }       
-                                       }
-                               } 
-                       }
-                       br.close();     
-//                     System.out.println("Match " + count);
-//                     System.out.println("Not Match " + countNotM);
-//                     System.out.println("Error " + countEr);
-//                     System.out.println("No protein " + countEmp);
-               } catch (MalformedURLException e) {
-                       e.printStackTrace();
-               } catch (IOException e) {
-                       e.printStackTrace();
-               }
-       }
-}