[MOBY-dev] Moby objects in Taverna. Where do they come from?

[Pieter Neerincx]

Hi Eddie,

I've got it up and running. I have now idea what went wrong exactly,  
but I suspect some misconfiguration in Tomcat. I also switched from  
IBM's Java implemntation to Sun's. Had apparently both installed by  
default, but my Tomcat was out of the box using IBM's Java stuff. Now  
with Sun's Java I do have to type 'java -jar install.jar' for the  
servlets installer, just like you documented. Furthermore I have  
Apache configured as frontend for Tomcat now, so I can use port 443  
for https making the whole work again through our firewall. I have  
only one issue left:

When I append my local central to my mygrid.properties file for  
Taverna, I have the old behaviour: hence services from my local  
central, but objects from  the central central. When I remove my  
local central and add it again using right-click -> add biomoby  
scavanger, I get the desired behaviour with both services and objects  
from my local central. It's a bit inconvenient to have to load your  
mobycentral manually all the time :(, but apart from that  
inconvenience it works :). Very nice to see this code in action,  
thanks for the help!

I will document my experience and propose this as an update for the  
page at: http://www.biomoby.org/InstallingMOBYCentral.html if this is  
Ok with you.

Cheers,

Pieter



On 19-Sep-2005, at 5:20 PM, Edward Kawas wrote:

> Hi,
>
> I can't connect to those URLS or endpoints (I timeout).
>
> I will try to find the bug by eyeballing it. If you can
> think of another way that I can access your endpoint, please
> let me know.
>
> Eddie
>
>
>> -----Original Message-----
>> From: moby-dev-bounces at portal.open-bio.org [mailto:moby-
>> dev-bounces at portal.open-bio.org] On Behalf Of Pieter
>> Neerincx
>> Sent: Monday, September 19, 2005 8:06 AM
>> To: Core developer announcements
>> Subject: Re: [MOBY-dev] Moby objects in Taverna. Where do
>> they come from?
>>
>>
>> On 19-Sep-2005, at 4:51 PM, Edward Kawas wrote:
>>
>>
>>>> Could not retrieve and or process RDF document for
>>>>
>> BioMoby
>>
>>>> Objects
>>>>
>>>>
>>> Can I have your Moby endpoint so that I can test this?
>>>
>>
>> Sure!
>>
>> This is what I use on my development box:
>>
>>      https://bioinfw05/phenolink/biomoby/central/cgi-
>> bin/MOBY-Central.pl
>>
>> But it doesn't have a DNS entry, so you might try this:
>>
>>      https://137.224.52.237/phenolink/biomoby/central/cgi-
>> bin/MOBY-
>> Central.pl
>>
>> My RDF for the objects is at (not sure whether this one
>> will work
>> from outside our firewall...):
>>
>>      https://137.224.52.237:8443/RESOURCES/MOBY-S/Objects
>>
>> Hope this helps.
>>
>> Pieter
>>
>>
>>
>>> I am
>>> not sure why the carriage returns are present.
>>>
>>> Eddie
>>>
>>> _______________________________________________
>>> MOBY-dev mailing list
>>> MOBY-dev at biomoby.org
>>> http://www.biomoby.org/mailman/listinfo/moby-dev
>>>
>>>
>>
>>
>> Wageningen University and Research centre (WUR)
>> Laboratory of Bioinformatics
>> Transitorium (building 312) room 1034
>> Dreijenlaan 3
>> 6703 HA Wageningen
>> The Netherlands
>> phone: 0317-483 060
>> fax: 0317-483 584
>> mobile: 06-143 66 783
>> pieter.neerincx at wur.nl
>>
>>
>>
>> _______________________________________________
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>>
>
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>


Wageningen University and Research centre (WUR)
Laboratory of Bioinformatics
Transitorium (building 312) room 1034
Dreijenlaan 3
6703 HA Wageningen
The Netherlands
phone: 0317-483 060
fax: 0317-483 584
mobile: 06-143 66 783
pieter.neerincx at wur.nl