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

[Pieter Neerincx]

Hi Eddie,

On 27-Sep-2005, at 3:40 AM, Edward Kawas wrote:

> Hi Pieter,
>
> I have been toying around with your endpoint. I noticed that
> the URL you gave earlier for the Object RDF was inconsistent
> with what was retrieved from the API call
> getResourceLocation(or something like that ...).
>
> I think that this occurred when you opened up your endpoint
> and perhaps forgot to modify it in your mobycentral.conf
> file (does https://bioinfw05:somePort/... resolve on your
> machine?).

Ooops, you are right I forgot to change the hostname into an IP  
address in that conf file. It does resolve in our LAN because the  
hostname is added to the hosts file on all the machines, but it  
doesn't resolve outside our LAN. I've fixed it now.

>
> The plugin utilizes the API call and hence wouldn't be able
> to create a personalized Mobycentral processor (Moby
> services and data types) list in Taverna without it.
>
> Once I utilized the URLs that you specified in this message,
> everything went as it should. I was able to use your
> processors, etc.

The behaviour I described is still the same for me. It works fine as  
long as I manually add my local central, but simply specifying my  
local central in the taverna/conf/mygrid.properties file doesn't  
work. There must be a difference in the way the BioMOBY scavanger is  
constructed during startup of Taverna and when you manually add a  
BioMOBY scavanger...

>
> I am uploading another version (I tweaked some of the logic)
> of the plugin in about 5 minutes. Word on the street is that
> Taverna 1.3 is going to be available later on this week
> (Friday?) and so that version most likely would be the one
> you would want to use.

Nice! I'll get myself a cup of coffee and try the new version ...

Cheers,

Pieter

> In addition, if you notice anything out of the ordinary,
> please let me know ASAP so that I can correct it in time for
> the much anticipated release.
>
> Thanks,
>
> 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 26, 2005 4:28 PM
>> To: Core developer announcements
>> Subject: Re: [MOBY-dev] Moby objects in Taverna. Where do
>> they come from?
>>
>>
>> On  26Sep2005, at 16:56, Edward Kawas wrote:
>>
>>
>>> Hi Pieter,
>>>
>>>
>>>
>>>> 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.
>
>>>>
>>>>
>>>
>>> Where did you get this version of Taverna? Is it the one
>>> from their homepage?
>>>
>>
>> No, I've been testing with the version you put up at the
>> URL
>> mentioned below.
>>
>>
>>> If so, have you tried downloading the
>>> one that I put up at
>>> http://bioinfo.icapture.ubc.ca/ekawas/taverna-workbench-
>>>
>> 1.2.zip?
>>
>>> Also, is it possible to post your Mobycentral endpoint
>>>
>> so
>>
>>> that I could see how things work?
>>>
>>
>> Yes, sure. I have now temporarily disabled the SSL
>> requirement, so
>> everything should work nicely over our firewall using port
>> 80 :). as
>> long as I'm testing I don't need the HTTPS, but some of
>> the people
>> that are using my services on a production server do.
>>
>> My test MOBY Central endpoint is at:
>> http://137.224.52.237/phenolink/
>> biomoby/central/cgi-bin/MOBY-Central.pl
>> My test RESOURCES script is at:
>> http://137.224.52.237/RESOURCES/MOBY-S/
>>
>> Hope this helps,
>>
>> Pieter
>>
>>
>>>
>>> Thanks,
>>>
>>> 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 1038
>> Dreijenlaan 3
>> 6703 HA Wageningen
>> phone: 0317-484 706
>> 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