Thank you, Paul ... we'll try to look into that. (01)
Btw, the two (SOCoP-OOR and OOR-Sandbox) instances are hosted as two
separate self-contained VMs. (02)
Regards. =ppy
-- (03)
On Mon, Oct 28, 2013 at 10:35 AM, Paul R Alexander
<palexander@xxxxxxxxxxxx> wrote:
> If they are pointed at different REST back-ends (or hosted as two separate
>self-contained VMs) then one back-end service may be up while the other is
>down. If they are pointing to the same back-end REST instance and the UI is
>not on the same machine, there could be connectivity problems between the UI
>machine and the REST machine.
>
> Paul
>
>
> On Oct 28, 2013, at 10:33 AM, Peter Yim <peter.yim@xxxxxxxx> wrote:
>
>> Thank you, Paul.
>>
>> Since the SOCoP-OOR instance (at: http://socop.oor.net/ontologies )
>> and the OOR-sandbox (at: http://sandbox.oor.net/ ) instance are not
>> appreciably different (and are only cosmetically different from the
>> ncbo-appliance vm code-wise) ... could you suggest some plausible
>> cause why the former is returning the error, while the latter seems to
>> be functioning ok? [attn: Paul & Ken]
>>
>> Thanks & regards. =ppy
>> --
>>
>>
>>
>>
>> On Mon, Oct 28, 2013 at 10:21 AM, Paul R Alexander
>> <palexander@xxxxxxxxxxxx> wrote:
>>> It appears as though the UI cannot talk to the REST services based on the
>`Errno::ECONNREFUSED:
>>> Connection refused` error.
>>>
>>> Paul
>>>
>>>
>>> On Oct 26, 2013, at 6:38 AM, Peter Yim <peter.yim@xxxxxxxx> wrote:
>>>
>>>> Thank you, Shinya, Nancy & Gary.
>>>>
>>>>
>>>> Does anyone on this list - folks from the BioPortal development team,
>>>> in particular - has a clue on how we can get out of this?
>>>> (... Note that we are still running an old version of the ncbo-appliance
>vm.)
>>>>
>>>>
>>>> Thanks & regards. =ppy
>>>> --
>>>>
>>>>
>>>>
>>>> On Friday, October 25, 2013 8:19 PM, YAMADA Shinya
>>>> <shinya.yamada@xxxxxxxxx> wrote:
>>>>
>>>> Peter,
>>>>
>>>> You need to ask someone who know BioPortal. I saw errors like
>>>> following in the log file(/var/log/rails/BioPortal/production.log).
>>>> BioPortal failed to connect to some service
>>>> but I don't know what it is.
>>>>
>>>>
>>>> processing OntologiesController#show (for 5.10.83.81 at 2013-10-25
>>>> 20:16:43) [GET]
>>>> Parameters: {"id"=>"10041", "p"=>"terms",
>"conceptid"=>"resource:SIO_000000"}
>>>>
>>>> NoMethodError (undefined method `io' for #<Errno::ECONNREFUSED:
>>>> Connection refused - connect(2)>):
>>>> lib/BioPortalRestfulCore.rb:1167:in `get_xml'
>>>> lib/BioPortalRestfulCore.rb:564:in `getOntology'
>>>> app/models/data_access.rb:564:in `send'
>>>> app/models/data_access.rb:564:in `cache_pull'
>>>> app/models/data_access.rb:186:in `getOntology'
>>>> app/controllers/ontologies_controller.rb:178:in `terms'
>>>> app/controllers/ontologies_controller.rb:35:in `show'
>>>>
>>>> Thanks,
>>>>
>>>> ___
>>>> Shinya
>>>>
>>>>
>>>>
>>>> ---------- original message ----------
>>>> From: Peter Yim <peter.yim@xxxxxxxx>
>>>> Date: Fri, Oct 25, 2013 at 5:28 PM
>>>> Subject: Re: socop.oor.net
>>>> To: Nancy Wiegand <wiegand@xxxxxxxxxxx>
>>>> Cc: Gary Berg-Cross <gbergcross@xxxxxxxxx>
>>>>
>>>>
>>>> Thank you, Nancy ... that's what I needed to find out.
>>>>
>>>> This will help a lot when we try to diagnose what caused the "error"
>condition.
>>>>
>>>> Regards. =ppy
>>>> --
>>>>
>>>>
>>>> On Fri, Oct 25, 2013 at 4:54 PM, Nancy Wiegand <wiegand@xxxxxxxxxxx> wrote:
>>>>> Peter/Gary-
>>>>> All I did was type socop.oor.net. I get:
>>>>> 'We're sorry but something has gone wrong. We have been notified of this
>>>>> error.'
>>>>> Am I accessing it incorrectly? I used a new Web browser and hit refresh.
>>>>>
>>>>> Nancy
>>>>
>>>>
>>>>
>>>> On Fri, Oct 25, 2013 at 3:41 PM, Gary Berg-Cross <gbergcross@xxxxxxxxx>
>wrote:
>>>>> Peter,
>>>>> I get this message when I land on the page.
>>>>>
>>>>> e're sorry but something has gone wrong. We have been notified of this
>>>>> error.
>>>>>
>>>>>
>>>>> Perhaps Nancy did not when she first tried....
>>>>>
>>>>> Gary Berg-Cross, Ph.D.
>>>>> gbergcross@xxxxxxxxx
>>>>> http://ontolog.cim3.net/cgi-bin/wiki.pl?GaryBergCross
>>>>> NSF INTEROP Project
>>>>> http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=0955816
>>>>> SOCoP Executive Secretary
>>>>> Knowledge Strategies
>>>>> Potomac, MD
>>>>> 240-426-0770
>>>>>
>>>>>
>>>>> On Fri, Oct 25, 2013 at 6:38 PM, Peter Yim <peter.yim@xxxxxxxx> wrote:
>>>>>>
>>>>>> Thank you for the message, Nancy ...
>>>>>>
>>>>>> I assume when you first land on the site, the error wasn't there, was
>>>>>> it? (because that was how I left it when I write my email to you. ...
>>>>>> I actually even browsed the listing of the ontologies in the
>>>>>> repository, did a search, and went into one of two ontology's page,
>>>>>> too.)
>>>>>>
>>>>>> If that "error condition" (like what is showing now) wasn't the way
>>>>>> you found the site, can you tell what happened in between, please?
>>>>>>
>>>>>> ... glad you can move forward with your presentation without the
>>>>>> SOCoP-OOR fully functional again.
>>>>>>
>>>>>> Regards. =ppy
>>>>>> --
>>>>>>
>>>>>>
>>>>>>
>>>>>> On Fri, Oct 25, 2013 at 3:18 PM, Nancy Wiegand <wiegand@xxxxxxxxxxx>
>>>>>> wrote:
>>>>>>> I just tried it, and it's the same error. It doesn't have to be fixed
>>>>>>> for
>>>>>>> me. I have prior screen shots I can use for a talk.
>>>>>>> Nancy
>>>>>>>
>>>>>>>
>>>>>>> On 10/25/2013 5:16 AM, Peter Yim wrote:
>>>>>>>
>>>>>>> Thanks to support from Shinya ...
>>>>>>>
>>>>>>> The SOCoP-OOR is restored now. It dis looklike everything is working ...
>>>>>>> but
>>>>>>> please double check to make sure.
>>>>>>>
>>>>>>> Thanks & regards. =ppy
>>>>>>>
>>>>>>> p.s. noting that it was an oor/bioportal software error that did not
>>>>>>> seem to
>>>>>>> be recoverable ... and the vm was actually still running (before we had
>>>>>>> to
>>>>>>> shut it down.)
>>>>>>> --
>>>>>>>
>>>>>>> On Oct 22, 2013 2:18 PM, "Peter Yim" <peter.yim@xxxxxxxx> wrote:
>>>>>>>>
>>>>>>>> Thank you for the notification ... Let us look into it. I'll let you
>>>>>>>> know
>>>>>>>> if I have further news.
>>>>>>>>
>>>>>>>> Regards. =ppy
>>>>>>>> --
>>>>>>>>
>>>>>>>> On Oct 22, 2013 1:48 PM, "Nancy Wiegand" <wiegand@xxxxxxxxxxx> wrote:
>>>>>>>>>
>>>>>>>>> is down.
>>>>>>>
>>>>>>>
>>>>>
>>>>>
>>>
> (04)
_________________________________________________________________
Message Archives: http://ontolog.cim3.net/forum/oor-dev/
Config/Unsubscribe: http://ontolog.cim3.net/mailman/listinfo/oor-dev/
Shared Files: http://ontolog.cim3.net/file/work/OOR/dev/
Wiki: http://ontolog.cim3.net/cgi-bin/wiki.pl?OpenOntologyRepository (05)
|