[kepler-dev] GARP actor issues

Chad Berkley berkley at nceas.ucsb.edu
Tue Jul 28 19:22:13 PDT 2009 

I can debug this when I get back from vacation next week. The garp  
actors should be working.  I just ran them a couple weeks ago.

Chad



On Jul 28, 2009, at 19:19, Dan Higgins <higgins at nceas.ucsb.edu> wrote:

> Tim,
>   I originally did much of the GARP work in Kepler (but I haven't  
> been involved noin Kepler at all  for 18 months or so). The C++ code  
> was based on the PC  GARP code developed at University of Kansas. I  
> think Chad Berkley worked on converting it to run under JNI (a long  
> time ago). My memory is that the code was always a bit fragile and  
> dependencies on different platforms were always a problem.
>
> Dan Higgins
>
>
> Timothy McPhillips wrote:
>> All,
>>
>> Is anyone else using the GARP actors, or in a position to help  
>> debug the problem with the GARPPresampleLayers actor described  
>> below?  I have reproduced the problem at the trunk, and stepped  
>> through the Java portion of the code in a debugger, but it appears  
>> that the issue may be in the C++ code the actor employs via JNI.   
>> Is anyone already set up to build this code and its dependencies on  
>> our various supported platforms?
>>
>> Thanks very much!
>>
>> Tim
>>
>> On Jul 27, 2009, at 11:24 AM, Timothy McPhillips wrote:
>>
>>> Hi Russell,
>>>
>>> Ok, I think I've reproduced your problem with the  
>>> GARPPresampleLayers actor in Windows XP SP3, Vista SP1 (32-bit),   
>>> and MacOS 10.5.7.  In each case specifying a file for  
>>> layersetFilenameParameter that is not in lib/testdata/garp causes  
>>> Kepler to crash when the workflow containing the actor is run.   
>>> Specifying a file that does not exist at all gives the same error.  
>>> Specifying files renamed within the lib/testdata/garp directory  
>>> seems to be fine, as you say.
>>>
>>> On Ubuntu 9.0.4, things do not get this far.  It looks like the  
>>> system cannot find a required shared library. (libexpat.so ?)
>>>
>>> I'm going to see if I can reproduce this in my development  
>>> environments so I can track down the problem.
>>>
>>> Cheers,
>>>
>>> Tim
>>>
>>> On Jul 26, 2009, at 1:58 PM, R.P.Mciver at cs.cardiff.ac.uk wrote:
>>>
>>>> Hi Tim,
>>>>
>>>> Thanks for the response. Hopefully the following should be enough  
>>>> information to recreate the situation:
>>>>
>>>> The OS is Windows XP (SP3 if we're being picky!)
>>>>
>>>> Kepler is installed at C:\Program Files\Kepler-1.0.0 (what I  
>>>> believe to be the default for the installer)
>>>>
>>>> Workflow created consists of simply an SDF Director set to 1  
>>>> iteration and the actor causing the issue, GARPPresampleLayers,  
>>>> with the following Parameters:
>>>>
>>>> * layerSetFilenameParameter: "C:\Program Files\Kepler-1.0.0\lib 
>>>> \testdata\garp\IPCC.dxl"
>>>>
>>>> (this is the one that seems to cause the error, functions fine  
>>>> when set to this file, or to one of the similar files in the same  
>>>> location, or if set to the same file renamed in that location.  
>>>> Seem to fail if set to anything in another location - even if  
>>>> it's the same file. Also fails if set to the same file in a  
>>>> subdirectory of this location)
>>>>
>>>> * dataPointFileNameParameter: "C:\Program Files\Kepler-1.0.0\lib 
>>>> \testdata\garp\digir_data_mephitis"
>>>>
>>>> * cellSetFileNameParameter: C:\Program Files 
>>>> \Kepler-1.0.0\CellSet.xml
>>>>
>>>>
>>>> These input data files were just taken from examining the setup  
>>>> of the same actor in the "$Kepler\lib\demos\ENM" directory. Also  
>>>> checked if the problem was limited to the actors paramater, but  
>>>> the same result occurs if trying to provide the input file using  
>>>> the corresponding input port as well.
>>>>
>>>> Hope this is enough information. Thanks again for the help  
>>>> working this one out!
>>>>
>>>> Russell
>>>>
>>>>
>>>> Quoting Timothy McPhillips <tmcphillips at mac.com>:
>>>>
>>>>> Hi Russell,
>>>>>
>>>>> I've never used the GARP actors or workflows, but I'd be happy  
>>>>> to try to reproduce the problem you're seeing and help track  
>>>>> down the problem (assuming no one else knows the answer to your  
>>>>> question already).
>>>>>
>>>>> Can you send me enough information to reproduce your environment  
>>>>> (OS, location of Kepler installation, etc), along with the input  
>>>>> data file?
>>>>>
>>>>> Thanks!
>>>>>
>>>>> Tim
>>>>>
>>>>> On Jul 26, 2009, at 10:56 AM, R.P.Mciver at cs.cardiff.ac.uk wrote:
>>>>>
>>>>>> Hi all,
>>>>>>
>>>>>> Hopefully someone can help me out here, I've playing about with  
>>>>>> the kepler UI (mainly just looking at how things work etc.) and  
>>>>>> thought I'd try using my slightly modified GUI to compose some  
>>>>>> workflows utilisng the GARP set of actors, similar to the niche  
>>>>>> modelling examples that come with kepler.
>>>>>>
>>>>>> Unfortunately I've been getting some errors (well, stack  
>>>>>> overflows to be precise). After spending a long time thinking  
>>>>>> it was as a result of something I'd changed in the UI, I went  
>>>>>> back and tried the same on a clean install of the 1.0.0  
>>>>>> release, only to find there were still some problems.
>>>>>>
>>>>>> It seems that whenever I provide the GARPPresampleLayers actor  
>>>>>> with a "layerset" input file which is located anywhere other  
>>>>>> than the "$Kepler/lib/testdata/garp" folder then kepler crashes  
>>>>>> out with a stack overflow.
>>>>>>
>>>>>> The only difference in the error between using "vanilla" kepler  
>>>>>> 1.0.0 and my modified version is that when attempting to  
>>>>>> execute the actor in my code I get the stack overflow  
>>>>>> regardless of where the layerset file is located.
>>>>>>
>>>>>> Any ideas what is going on here - is the location for where the  
>>>>>> file has to be defined somewhere? I've tried just executing the  
>>>>>> GARPPresampleLayers actor in isolation so I'm fairly certain  
>>>>>> it's not a problem with some other part of a workflow.
>>>>>>
>>>>>> Any help would be appreciated!
>>>>>>
>>>>>> Cheers,
>>>>>>
>>>>>> Russell
>>>>>>
>>>>>> =======================================================
>>>>>> Russell McIver
>>>>>> Research Student
>>>>>> Room C/2.14
>>>>>> Cardiff School of Computer Science, Cardiff University,
>>>>>> 5 The Parade, Roath, Cardiff, CF24 3AA, UK.
>>>>>> =======================================================
>>
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