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[bioontology-support] Visualization tab

Madani,Sina AHMadani at mdanderson.org
Thu Feb 7 12:58:08 PST 2013


Using Firebug in FireFox:

First screenshot shows what error I am getting while still in Details view
Second screenshot shows what happens when I click on Visualization.

Does this help or would you like me to look into someplace else?

Thanks!
Sina
[cid:image002.png at 01CE0543.89AEE010]


[cid:image003.png at 01CE0543.89AEE010]


From: Paul R Alexander [mailto:palexander at stanford.edu]
Sent: Thursday, February 07, 2013 2:33 PM
To: Madani,Sina
Cc: Eric Verbeek; Ray Fergerson; Riben,Michael Warren; support at bioontology.org
Subject: Re: [bioontology-support] Visualization tab

That should work, we just tested the fix this week. You would have to use some kind of debug panel to look at the call the browser is making to your REST service to see why it's failing.

Paul


On Feb 7, 2013, at 12:26 PM, "Madani,Sina" <AHMadani at mdanderson.org<mailto:AHMadani at mdanderson.org>> wrote:



I am getting this error now after reverting it back to the previous build.
We can wait for the new version of Appliance if it's been fixed in the coming one....

Thanks!
Sina


<image001.png>

From: Paul R Alexander [mailto:palexander at stanford.edu<http://stanford.edu>]
Sent: Thursday, February 07, 2013 1:35 PM
To: Madani,Sina
Cc: Eric Verbeek; Ray Fergerson; Riben,Michael Warren; support at bioontology.org<mailto:support at bioontology.org>
Subject: Re: [bioontology-support] Visualization tab

Sorry, deployui is the correct one.

Paul


On Feb 7, 2013, at 11:23 AM, "Madani,Sina" <AHMadani at mdanderson.org<mailto:AHMadani at mdanderson.org>> wrote:



Thank you Paul & Eric
Bpdeploy offers me these options though....

<image001.png>

From: Paul R Alexander [mailto:palexander at stanford.edu<http://stanford.edu>]
Sent: Thursday, February 07, 2013 12:58 PM
To: Eric Verbeek
Cc: Ray Fergerson; Madani,Sina; Riben,Michael Warren; support at bioontology.org<mailto:support at bioontology.org>
Subject: Re: [bioontology-support] Visualization tab

The new visualization code was accidentally included in the last Appliance release. The code won't work because it will be connecting to the main BioPortal REST services, not the REST services on the local machine.

If you log in to the Appliance as root and run `bpdeploy buildui` it will fix the problem by reverting to the older Flex visualization widgets.

Paul


On Feb 7, 2013, at 10:49 AM, Eric Verbeek <eric.l.verbeek at gmail.com<mailto:eric.l.verbeek at gmail.com>> wrote:




Hi Sina and Ray,

The visualization is in JavaScript, and makes calls to the REST services from there to the public BioPortal servers. I haven't worked with the VM yet. Does the VM have internet access? Does the configuration for BioPortal in the VM have different connectivity paths or requirements to the REST servers than the visualization uses?

Sina, could you check a JavaScript error log or developer console for errors? If you are using Chrome, you can access it with Ctrl-Shift-J, or through Chrome's menu (the one with three stacked horizontal lines, on all OSes). There might be some hints for me in the JS errors.

~Eric
On 07/02/2013 10:32 AM, Ray Fergerson wrote:
Sina,

Copying Eric (the visualization guy). I don't understand this at all. I can confirm that difference between what you see in your VM and what we see. I believe that we are all pointing that the same instance of the visualization software though.

Eric, any idea why this is happening? What would cause this visualization configuration item to not show up?

Ray

From: bioontology-support-bounces at lists.stanford.edu<mailto:bioontology-support-bounces at lists.stanford.edu> [mailto:bioontology-support-bounces at lists.stanford.edu] On Behalf Of Madani,Sina
Sent: Thursday, February 07, 2013 5:56 AM
To: support at bioontology.org<mailto:support at bioontology.org>
Cc: Riben,Michael Warren
Subject: [bioontology-support] Visualization tab

Hi,
We noticed that the visualization widget of our local instance is not working properly. Comparing to your environment, apparently the "Show SNOMED Clinical term" from the drop down configuration menu is missing in our instance's UI.
Is there a configuration file that I can set this in order to operationalize the Visualization tab?

Thanks!
Sina



Our local instance
<Mail Attachment.jpeg>



Stanford instance

<Mail Attachment.png>

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