MSDJapi.java

//-----------------------------------------------------
// MSDJapi.java
//
// Project: PDBe API Framework, EBI  
// Module:  Implementation of User Layer Master input and final class 
// needed for Java Native Interface methods to input into the javah.
// This will crate MSDJapi.h automatically.
// 
//
// 
// User Layer
// Last updated: 25 February 2004 10:17
// (C) Siamak Sobhany
//------------------------------------------------------
// Instructions:
// set the LD_LIBRARY_PATH for java to find native-method MSDJapi shared libraries

//
//gcc -E /ebi/msd/work/siamak/msd_api/include/msd_user.h > user_e.h 
//crate file: jclass.cfg (to determine which structs should be converted)
//javac -d . -classpath . *.java 
//java structConverter.structConverter -C user_e.h

import java.lang.*;
// Declare a class like any other
public class MSDJapi
{
         public native int initMSDJapi();
         public native int rloginMSDJapi( java.lang.String loginstring );
         public native int attachMSDJapi( java.lang.String host );
         public native int beginMSDJapi( java.lang.String user, java.lang.String pass );
         public native int sqlinitMSDJapi( java.lang.String sql  );
         public native int setcriteriaMSDJapi( java.lang.String fmt, java.lang.String[] arglist );
         public native int getrownumMSDJapi();
         public native int getnextMSDJapi();
         public native float getfloatMSDJapi(int col);
         public native int getintMSDJapi(int col);
         public native double getdoubletMSDJapi(int col);
         public native java.lang.String getstrMSDJapi(int col);
     public native int endMSDJapi();
         public native int detachMSDJapi();
         public native int logoffMSDJapi();
         public native int freeMSDJapi();
         public native int managerMSDJapi();
     public native java.lang.String getAccessionCodeMSDJapi(int eID);
         public native int getEntryIDMSDJapi(java.lang.String acc_code);
         public native int getObjectEntryMSDJapi(int eID);
         public native int getNumOfAtomsMSDJapi();
         public native int printfMSDJapi( java.lang.String text );
         
         // the main method allows us to run this class as an application
         public static void main( String args[] )
         {
                  MSDJapi msdjapiObject = new MSDJapi();
                
                   java.lang.String statement="SELECT " +
          "a.chem_comp_code, a.Orig_x, a.Orig_y, a.Orig_z, " +
          "a.residue_id, a.residue_pdb_seq, a.residue_pdb_insert_code, a.chain_id, " +
          "a.chain_code, a.Non_Assembly_Valid " +
          "FROM atom_data a " +
          "WHERE a.assembly_id = 43472 " +
          "AND a.entry_id = :f<int> ";
          java.lang.String arg1 = new java.lang.String("38175");
                  java.lang.String[] criteriaArgs = {arg1};
          int recnum, jj=0;
                
                  if( args.length < 3 ){
                                msdjapiObject.printfMSDJapi( "Enter Oracle Host, Login name and Password." );}
                  else {
                        
                                msdjapiObject.initMSDJapi();
                                
                                msdjapiObject.attachMSDJapi( args[0] );
                                
                                
                                msdjapiObject.beginMSDJapi(  args[1] , args[2] );
               
                                
                                
                                
                                msdjapiObject.sqlinitMSDJapi(  statement );
                msdjapiObject.setcriteriaMSDJapi(  "i", criteriaArgs );
                                
                recnum = msdjapiObject.getrownumMSDJapi();
                while (recnum < 26612 )  // 26612
                { recnum  = msdjapiObject.getrownumMSDJapi();
                                  msdjapiObject.getnextMSDJapi();
                                  if (recnum % 1000 == 0)
                                        {System.out.println("\nRecord number = " + recnum + "\nFloat Value = " + msdjapiObject.getfloatMSDJapi(1) +
                                          "\nString value = " + msdjapiObject.getstrMSDJapi(0)
                                          );
                                         
                                        }
                                
                                }
                                
                
                                }

                         System.out.println("\nACCESSION CODE for: " + msdjapiObject.getAccessionCodeMSDJapi(38175));
                 System.out.println("\nEntry ID for: " + msdjapiObject.getEntryIDMSDJapi("1gw5"));
             
                     msdjapiObject.endMSDJapi();
             msdjapiObject.detachMSDJapi();
                         msdjapiObject.logoffMSDJapi();
                         msdjapiObject.freeMSDJapi();
         
        
         }
         
         // the static initialization section must load the shared library
         static 
         {
                 
          String library = "MSDJapi";
                  try
                  {
                                
                                System.loadLibrary( library );
                                
                  }
                  catch( Exception e )
                  {
                                System.out.println( "\nERROR: Unable to load " + library + "\nException: " + e + "\n" );
                  }
         } // end static
} //end class MSDJapi

class MSDEnv
{

    private int ConID;

    public void setConID(int lcl_arg0)
    {
        ConID = lcl_arg0;
    }
    public int getConID()
    {
        return ConID;
    }

    private int SqlID;

    public void setSqlID(int lcl_arg0)
    {
        SqlID = lcl_arg0;
    }
    public int getSqlID()
    {
        return SqlID;
    }
    private native static void initFIDs();

    static {
        initFIDs();
    }

}
 

                  

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