[Soaplab2-dev] making and running services

[Iwe M. <e.c...@gm...>]

Hello Soaplab team,

I have a few issues with soaplab2. Whenever I make small changes to an ACD
file (I am trying to implement a bunch of our group's scripts in soaplab to
make them available for wide use) I have to rebuild the war file, and
restart the tomcat server. I do this with a shell script. The problem is
this takes about a minute. So every change I make takes at least a minute to
test. Is there maybe a better, faster solution?
Soaplab restart script:

sudo ant gensowa
sudo ant jaxdeploy
./tomcat_restart.sh

Another problem I seem to have is an inconsistency in the list of services
after a restart. The spinet application and Taverna recognize the new or
changed services but the list (/services) is not properly refreshed. Taverna
also does not load the new services correctly because it can't find them,
even though they are in the list. The error is shown below:

Caused by:
net.sf.taverna.t2.workflowmodel.processor.activity.ActivityConfigurationException:
: Unable to call the get spec method for
   endpoint :
http://localhost:8080/soaplab2-axis/services/benchmark_vis.pyramid
   Remote exception message The AXIS engine could not find a target service
to invoke!  targetService is benchmark_vis.pyramid

The last problem is that after conversion of some of the ACD files there
apparently is a problem with the generated XML. Taverna's log file indicates
that with the following error:

Caused by: java.lang.IllegalArgumentException: The char '0x1f' after '' is
not a valid XML character.

I hope this was enough information to help me out a little.

Thanks in advance!

Greetings,

Iwe Muiser

-- 
Iwe EC Muiser
Master student
NTNU - Department of Cancer Research and Molecular Medicine
Bioinformatics & Gene Regulation Group
Laboratory Centre, 5th floor. Erling Skjalgssons gt. 1
Trondheim
+4594157082