#!/usr/opt/cs
# Description: Client script in C# (mono) running the RNAmmer Web Service
# Author: Karunakar Bayyapu
# Email: karun@cbs.dtu.dk
# Version: 1.2 ws1
# Date: 2012-04-23

//### for installation and usage notes please see below

//### client code starts here

using System;
using System.Xml;

public class clientCSharp
{
  public static void Main(string[] args)
  {
  try
  {
 //runService --You need to change the sequences and ids as per your requirement. 
	       //organism and method are optional as per wsdl document
 
	runServiceResponseQueueentry obj2;
	sequence[] ss=new sequence[6];	
	
	sequence obj3=new sequence();
	obj3.id="IPI:IPI00000006.1";
 	obj3.seq=""MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAG
		   QEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL
		   AARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKLNPPDESGPG
		   CMSCKCVLS"";
	ss[0]=obj3;
	
	sequence obj4=new sequence();
	obj4.id="IPI:IPI00000005.1";
 	obj4.seq=""MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAG
		   QEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDL
		   PTRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKKLNSSDDGTQG
		   CMGLPCVVM"";
        ss[1]=obj4;
        
	
  	runServiceParameters obj1 = new runServiceParameters();
 	obj1.sequencedata = ss;
		
  	WSRNAmmer_1_2_ws1 obj=new WSRNAmmer_1_2_ws1();
  	obj2 =obj.runService(obj1);
	Console.Write(obj2);

//pollQueue --jobid needs to be changed as which you got from runService 	
	pollQueueResponse pollObj;
	pollQueueJob job = new pollQueueJob();
	string id="D81A87A0-4030-11E1-AF58-C0FF935B49F0";
	job.jobid = id;
	WSRNAmmer_1_2_ws1 obj = new WSRNAmmer_1_2_ws1();
	pollQueue job1 = new pollQueue();
	job1.job=job;
	pollObj=obj.pollQueue(job1);
	Console.Write(pollObj);	

//fetchResults  --jobid needs to be changed as which you got from runService
	anndata ann;
	fetchResultJob job = new fetchResultJob();
	string id="4EBA8F9A-727C-11E1-A913-B5DEB25BD92E";
	job.jobid = id;
	WSRNAmmer_1_2_ws1 obj = new WSRNAmmer_1_2_ws1();
	ann=obj.fetchResult(job);
	Console.Write(ann);
  }
  catch(Exception ex)
  {
  	 Console.WriteLine("{0} Exception caught.", ex);
  }
  }
}
//### client code ends here


//#########################################################################################
//#############################				    #############################
//#############################          DOCUMENTATION        #############################
//#############################          			    #############################
//#########################################################################################

//	Introduction:

//		C# is the primary programming language of the .NET framework. In this documentation
//		we look at how to use the CBS Webservices with C# in the Mono development environment.

//	Installation:

//		Required/Tested Version: Monodevelop v2.8 and JIT compiler v 2.0.1

//		Select your platform and download Monodevelop environment from 
//			 http://www.go-mono.com/mono-downloads/download.html  and install it.

//	Create Service Stubs--Mono:

//		From the service WSDL (e.g. http://www.cbs.dtu.dk/ws/RNAmmer/RNAmmer_1_2_ws1.wsdl ) 
//		generate stub classes using the wsdl tool:

//			 >wsdl http://www.cbs.dtu.dk/ws/RNAmmer/RNAmmer_1_2_ws1.wsdl

//	Use Service:

//		Then in the program create an instance of the service object:

//			  WSRNAmmer_1_2_ws1 obj = new WSRNAmmer_1_2_ws1();
  
//		This object provides methods corresponding to those defined in the WSDL so to call 
//		the runService method of the WSRNAmmer_1_2_ws1 service we can use:
 
//			  Obj2 = obj.runService(obj1);
  
//		The runService method returns a SOAP envelop as string containing the requested entry, 
//		which can be output with:

//			 Console.Write(obj2);
 
//	Access Web sevices:

//		Ths RNAmmer service code access to see one method results at once. If you would like to 
//		see runService method results then you would need to comment the rest of the methods code 
//		and for rest also same. In the runService you need to submit required fileds like one id 
//		and corresponding sequence or more ids and their corresponding sequences as a input(STDIN) 
//		data to convert FASTA format to get the results.
//		For input data/FASTA format see example: 
//			http://www.cbs.dtu.dk/ws/RNAmmer/examples/example)

//		After getting jobid from runService then you would need to submit jobid in the pollQueue 
//		to know the status of the job. After knowing the status of the job from pollQueue then 
//		you need to submit jobid in the fetchResult to see complete final results. 
//		It means you can only see final results in the fetchResult since RNAmmer is implemented 
//		in asynchronous way


//	Compile Program:

//		Once the program is writing or copying/pasting/saving completed into your local editor, it needs 
//		to be compiled. This is slightly different depending on the chosen environment. Assuming 
//		the program is in a file called client.cs: 

//		Microsoft .NET SDK

//			 csc client.cs WSRNAmmer_1_2_ws1.cs

//		Mono-Linux

//  			 gmcs client.cs WSRNAmmer_1_2_ws1.cs -r:System.Web.Services


//	Run the Program:

//		The resulting .exe file can be run as follows: MS Windows, assuming the 
//		.NET runtime is installed:

//			 client.exe

//		Non-Windows Mono environments:
 
//			 mono client.exe

//		Note: some non-Windows environments (e.g. Linux) can be configured to support direct 
//		execution of .NET programs, allowing the use of the Windows style method. .cs file with input data

//	Results: 
 
//		In the results you can see individual method output.