[kepler-dev] Nondeterministic merge in PN domain
Bertram Ludaescher
ludaesch at ucdavis.edu
Sat Jul 15 08:29:55 PDT 2006
Hi everybody -- too bad we don't have Xiaowen listening in; not sure
why she didn't use the BooleanSelect or Case.
Edward:
Since we had recently discussions here about BooleanSelect and SDF,
can you explain (or provide a pointer) why SDF might have problems
with BooleanSelect, but apparently not with Case?
thanks, cheers
Bertram
>>> On Fri, 14 Jul 2006 17:23:31 -0700
>>> "Edward A. Lee" <eal at eecs.berkeley.edu> wrote:
EAL>
EAL> Looking at the model, it looks like there is no need for NondeterministicMerge
EAL> in any form... A simple BoleanSelect actor would work just fine...
EAL> Even cleaner would be to use the Case actor, in which case everything could
EAL> be SDF, I think...
EAL>
EAL> Edward
EAL>
EAL> At 05:03 PM 7/14/2006, Ilkay Altintas wrote:
>> Hi Christopher,
>>
>> I'm aware of the problem with the problem with
>> using NonDeterministic merge in the workflow instead of using the actor.
>>
>> We actually have a newer version of the workflow than the one that
>> doesn't work under Kepler. A potential problem with switching to the
>> non-deterministic merge actor is that we don't know why Xiaowen
>> didn't use the actor and forced using the old version of the
>> director. We might recreate the error if we use the actor.
>>
>> Antoon will be here the next couple of weeks. Maybe we can discuss
>> this further.
>>
>> -ilkay
>>
>>
>> On Jul 14, 2006, at 4:27 PM, Christopher Brooks wrote:
>>
>>> Hi Ilkay,
>>>
>>> Just yesterday, Antoon Goderis, Edward and I were looking over the
>>> Promoter Identification Workflow (PIW) workflow from
>>> <https://www-casc.llnl.gov/sdm/download.php>https://www-casc.llnl.gov/sdm/download.php
>>> that Xiaowen created.
>>>
>>> The PIW workflow is available via Webstart:
>>> <https://www-casc.llnl.gov/sdm/downloads/spa-piw.jnlp>https://www-casc.llnl.gov/sdm/downloads/spa-piw.jnlp
>>>
>>> That workflow is uses PN and basically takes advantage
>>> of a bug in older versions of PN where non-deterministic
>>> merges were easy to make. Now, to make a non-deterministic
>>> merge, one must use the NonDeterministicMerge actor.
>>> Where we saw this was in the Setup composite actor.
>>> The Setup is a little wacky, there is probably a better way.
>>> Edward might have more insight on this.
>>>
>>> The version of the PIW demo from webstart fails with:
>>> ptolemy.kernel.util.IllegalActionException: The length of the
>>> specified array is zero.
>>> at ptolemy.data.ArrayToken._initialize(ArrayToken.java:575)
>>> at ptolemy.data.ArrayToken.<init>(ArrayToken.java:68)
>>> at ptolemy.domains.sdf.lib.SequenceToArray.fire(SequenceToArray.java:139)
>>> at ptolemy.actor.process.ProcessThread.run(ProcessThread.java:181)
>>>
>>> The version of the PIW demo in Kepler
>>> (Start Kepler, Help -> Documentation -> Programmer Documentation
-> Promotor Identification Workflow)
>>> fails with
>>> java.lang.OutOfMemoryError: unable to create new native thread
>>> at java.lang.Thread.start(Native Method)
>>> at org.apache.axis.wsdl.gen.Parser.run(Parser.java:306)
>>> at org.sdm.spa.WebService.fire(WebService.java:727)
>>> at ptolemy.actor.process.ProcessThread.run(ProcessThread.java:186)
>>>
>>>
>>> BTW - We are working on a short paper that discusses embedding domains
>>> and Antoon proposed working with the PIW example. If
>>> you can get it working under PN, then I'd like to see about converting
>>> it to DDF or ideally SDF.
>>>
>>> _Christopher
>>>
>>>
>>>
>>> --------
>>>
>>> Hi Christopher,
>>>
>>> The workflows don't use the NondeterministicMerge actor but implement
>>> nondeterministic merge in the workflow.
>>>
>>> Until PTII 5.x, the PN director allowed this, but I'm trying to
>>> figure out why the workflow was implemented that way, and the
>>> workflow developer (Xiaowen--she left the project) insisted on
>>> keeping the old director. It was to avoid a race condition. I'll try
>>> to port the workflow to the current PTII version if I understand what
>>> the problem with using the new version of the PNDirector is.
>>>
>>> Thanks,
>>> -ilkay
>>>
>>> On Jun 22, 2006, at 3:23 PM, Christopher Brooks wrote:
>>>
>>>> Hi Ilkay,
>>>>
>>>> I'm not sure. Edward checked in a working nondeterministic merge
>>>> on 03 Oct 2004.
>>>>
>>>> I'm a little confused though, because the CVS head of Ptolemy has a
>>>> working nondeterministic merge actor (pn.kernel.NondeterministicMerge)
>>>> and a PN demo: pn/demo/NondeterministicMerge/NondeterministicMerge.xml
>>>>
>>>> _Christopher
>>>> --------
>>>>
>>> Hi,
>>>>
>>> Does anyone know what exactly have changed between the version
>>>> of the
>>> PNDirector that accepts nondeterministic merge and the current
>>>> one?
>>>>
>>> There was an email thread on this but we couldn't find it.
>>>>
>>> Nandita and I are trying to port older workflows that use
>>> nondeterministic merge under PN domain to the newer version of PN.
>>>>
>>> Thanks!
>>> -ilkay
>>>>
>>>>
>>>> ----------------------------------------------------------------------
>>>> -----
>>> -
>>> Posted to the ptolemy-hackers mailing list. Please send
>>>> administrative
>>> mail for this list to: ptolemy-hackers-
>>>> <mailto:request at ptolemy.eecs.berkeley.edu>request at ptolemy.eecs.berkeley.edu
>>>> --------
>>>
>>>
>>> --
>>> Ilkay ALTINTAS
>>> Assistant Director, National Laboratory for Advanced Data Research
>>> (NLADR)
>>> Manager, Scientific Workflow Automation Technologies (SWAT) Lab
>>> San Diego Supercomputer Center(SDSC), UCSD
>>> 9500 Gilman Drive, MC: 0505 La Jolla, CA 92093-0505
>>> phone: (858) 822-5453 fax: (858) 822-3693
>>> web:
>>> <http://users.sdsc.edu/~altintas>http://users.sdsc.edu/~altintas
>>>
>>>
>>>
>>>
>>> ---------------------------------------------------------------------------
>>> -
>>> Posted to the ptolemy-hackers mailing list. Please send administrative
>>> mail for this list to:
>>> <mailto:ptolemy-hackers-request at ptolemy.eecs.berkeley.edu>ptolemy-hackers-request at ptolemy.eecs.berkeley.edu
>>> --------
>>
>>
>> --
>> Ilkay ALTINTAS
>> Assistant Director, National Laboratory for Advanced Data Research (NLADR)
>> Manager, Scientific Workflow Automation Technologies (SWAT) Lab
>> San Diego Supercomputer Center(SDSC), UCSD
>> 9500 Gilman Drive, MC: 0505 La Jolla, CA 92093-0505
>> phone: (858) 822-5453 fax: (858) 822-3693
>> web:
>> <http://users.sdsc.edu/~altintas>http://users.sdsc.edu/~altintas
>>
>>
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EAL>
EAL> ------------
EAL> Edward A. Lee
EAL> Professor, Chair of EECS
EAL> 231 Cory Hall, UC Berkeley, Berkeley, CA 94720-1770
EAL> phone: 510-642-0253 or 510-642-0455, fax: 510-642-2845
EAL> eal at eecs.Berkeley.EDU, http://ptolemy.eecs.berkeley.edu/~eal
EAL>
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