[MOBY-dev] BUG in MobyRequest

[Andreas Groscurth]

Hi,

I guess I found a bug in the MobyRequest system....

I want to call the service ID2Taxonomy from our institute more than once 
with several inputs. Therefore i wrote the following program, which 
works fine.
But if I change e.g. the second identifier (NP_080073.1) to 
AC144389_35.2, which does not return a result for the webservice, then 
NO result is returned at all.
So, if apparently an input does not return a result, none (or some) also 
do not return a result, although they should.

Basically there are different results depending at which position the 
identifier with no result appears.

1. AC144389_35.2 is at first position - the other return a result... (so 
thats ok)
2. AC144389_35.2 is at second position - no input returns any result :-(
3. AC144389_35.2 is at third position - only the second returns a result :-(

and its getting even more confusing... if i use the same string for the 
job identifier as for the mobyobject identifier (e.g. in both cases 
NP_510335.2), then no result is returned. As soon as i changed the job 
identifier to anything different than NP_510335.2 - it works again and I 
get back a result.

Did i do anything wrong or is this a bug ?

Thanks and cheers
Andreas

    public static void main( String[] args ) throws Exception {
	Central central = new CentralDigestCachedImpl();
        MobyRequest mobyRequest = new MobyRequest( central );
        MobyDataObject dataObject1 = new MobyDataObject( "", "NP_510335.2" );
        MobyDataObject dataObject2 = new MobyDataObject( "", "NP_080073.1" );
        MobyDataObject dataObject3 = new MobyDataObject( "", "NP_491931.1" );

        MobyContentInstance instance = new MobyContentInstance();
        MobyDataJob job = new MobyDataJob();
        job.put( "obj1", dataObject1 );
        instance.put( "obj1", job );

        job = new MobyDataJob();
        job.put( "obj2", dataObject2 );  
        instance.put( "obj2", job );

        job = new MobyDataJob();
	job.put( "obj3", dataObject3 );
	instance.put( "obj3", job );

        mobyRequest.setInput( instance );

        MobyService mobyservice = new MobyService();
        mobyservice.setName( "ID2Taxonomy" );
        mobyservice = central.findService( mobyservice )[ 0 ];
        mobyRequest.setService( mobyservice );

        instance = mobyRequest.invokeService();        

        for ( String string : instance.keySet() ) {
            System.out.println( "key " + string );
            MobyDataJob dataJob = instance.get( string );
            MobyDataInstance[] instances = dataJob.getPrimaryData();
            for ( MobyDataInstance mobyDataInstance : instances ) {
                MobyDataComposite composite = ( MobyDataComposite ) mobyDataInstance;
                System.out.println( "DATA " + composite.getId() + " - " + composite.get( "Name" ) );
            }
        }
    }


-- 
/***************************************************
  Dipl. Bioinf. Andreas Groscurth
  Software developer
  Plant Computational Biology group
  Max-Planck Institute for plant breeding research
  Carl-von-Linne Weg 10
  50829 Cologne
  Germany
  +49(0) 221 5062449
***************************************************/