[kepler-dev] Ecogrid - EML problems

Christopher Brooks cxh at eecs.berkeley.edu
Mon Dec 12 10:06:58 PST 2005


Thanks all, the EML source now works for me from home.

The "Average Count Data by Species" demo fails for me.  I'm fairly
certain Dan knows about this failure.  I've include the stack trace
below.

Other than this problem, the R demos all work for me.  The reason I'm
interested is as I told Dan on Friday:

>We have Professor Arne Huseby from Univ. of Oslo visiting us for the
>academic year. He is in the statistics department there, and develops
>code in Java for risk management research.  We thought it would be
>interesting to look at Kepler's R interface.  In addition, I wanted to
>demo Kepler to the Ptolemy group on Tuesday.  I'm also interested in
>the Kepler search mechanism and the documentation effort.

One other minor issue is that it would be nice if the ImageJ window
would close when I closed the model.  Some people might disagree on
this one though.  The reason I find this is useful is because it makes
it easier to quickly run through all the demos. 

Anyway, here's the stack trace:

ptolemy.kernel.util.IllegalActionException:   in
.gce-mollusc-avg_by_spp_R.manager
Because:
For input string: "T"
    at ptolemy.actor.Manager.execute(Manager.java:382)
    at ptolemy.actor.Manager.run(Manager.java:968)
    at ptolemy.actor.Manager$3.run(Manager.java:1020)
Caused by: java.lang.NumberFormatException: For input string: "T"
       at java.lang.NumberFormatException.forInputString(NumberFormatException.java:48)
       at java.lang.Integer.parseInt(Integer.java:468)
       at java.lang.Integer.<init>(Integer.java:609)
       at org.ecoinformatics.seek.datasource.eml.eml2.Eml200DataSource.transformStringVectorToTokenArray(Eml200DataSource.java:2169)
       at org.ecoinformatics.seek.datasource.eml.eml2.Eml200DataSource.fireAsColumnVector(Eml200DataSource.java:747)
       at org.ecoinformatics.seek.datasource.eml.eml2.Eml200DataSource.fire(Eml200DataSource.java:913)
       at ptolemy.actor.AtomicActor.iterate(AtomicActor.java:309)
       at ptolemy.actor.sched.StaticSchedulingDirector.fire(StaticSchedulingDirector.java:171)
       at ptolemy.actor.CompositeActor.fire(CompositeActor.java:331)
       at ptolemy.actor.Manager.iterate(Manager.java:600)
       at ptolemy.actor.Manager.execute(Manager.java:318)
       ... 2 more

_Christopher


Matthew Brooke <brooke at nceas.ucsb.edu> writes:
--------

    
    works for me now; didn't before.
    
    
    
    Matt Jones wrote:
    > Sorry, I figured out the problem -- the firewall on the new server was 
    > configured to only allow connections from nceas hosts, so home machines 
    > and Chris' machines at Berkeley were failing.  I've opened up the 
    > firewall so try again and let me know if it works.
    > 
    > Matt
    > 
    > Dan Higgins wrote:
    >> Jing,
    >>    I just tried from my campus machine and everything works OK; but this
    
    >> morning I was still having the same problems on my home machine! I must 
    >> have something set wrong there :-(  Sorry for the false alarm
    >>
    >> Dan
    >>
    >> ---
    >>
    >> Jing Tao wrote:
    >>
    >>> H, Dan:
    >>>
    >>> I just started kepler and run the eml simple polt workflow and every 
    >>> thing looked fine. Then I searched "IPCC" and got 335 results. I 
    >>> dragged "Base Layer ..." package to convas and it worked fine.
    >>>
    >>> So it seemed to me Ecogrid is fine. I am not sure if someboday 
    >>> restarted it or not. So wound you mind try again? (by the way, I did 
    >>> the test in campus).
    >>>
    >>> Thanks,
    >>>
    >>> Jing
    >>>
    >>> Jing Tao
    >>> National Center for Ecological
    >>> Analysis and Synthesis (NCEAS)
    >>> 735 State St. Suite 204
    >>> Santa Barbara, CA 93101
    >>>
    >>> On Sun, 11 Dec 2005, Dan Higgins wrote:
    >>>
    >>>> Date: Sun, 11 Dec 2005 13:12:29 -0800
    >>>> From: Dan Higgins <higgins at nceas.ucsb.edu>
    >>>> To: Kepler-Dev <kepler-dev at ecoinformatics.org>, Jing Tao 
    >>>> <tao at nceas.ucsb.edu>
    >>>> Cc: Matt Jones <jones at nceas.ucsb.edu>
    >>>> Subject: Ecogrid - EML problems
    >>>>
    >>>> Hi All,
    >>>>   It looks like the Ecogrid/EML datasource is non-operational!  
    >>>> Apparently, none of the Kepler workflow with EML datasources are 
    >>>> working. (The icon just stays red (busy) forever. Searches return no 
    >>>> results. (But Digir searches and data sources apparently are working!)
    >>>>
    >>>> Dan
    >>>>
    >>>>
    >>
    > 
    
    -- 
    
    ---------------------------------------------
    Matthew Brooke, Ph.D.
    Marine Sciences Research Building, Room #3407
    University of California
    Santa Barbara, CA  93106-6150
    ph: (805) 893-7108   fx: 805-893-8062
    brooke at nceas.ucsb.edu
    ---------------------------------------------
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--------


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