[Eagle-i-admins] Failed to load ontology question

[Cheng, Sophia]

Hi Todd,

Regarding the configuration files, we are attempting to simplify examples and have moved them to this location:

https://open.med.harvard.edu/svn/eagle-i-dev/apps/trunk/configuration/src/main/resources/examples/

Where we have example configuration files for various set ups, instead of having one giant file with all the options listed.

As to where your institution home page went .. I'm not sure.  That page is served from your repository, so you could check if this file exists:

/usr/share/tomcat7/webapps/ROOT/index.jsp

This is the file that produces that home page. If you see that page, I would check the repository log to see if there is some error occurring while trying to substitute values in.

One thing that comes to mind is that you said you created an external hostname.  Did you update this in the repository's configuration? This may be the problem.

Let me know if that helps or not.

Sincerely,
Sophia

From: Todd Hall <halltodd at msu.edu<mailto:halltodd at msu.edu>>
Date: Tuesday, November 26, 2013 5:28 PM
To: Sophia <sophia_cheng at hms.harvard.edu<mailto:sophia_cheng at hms.harvard.edu>>
Cc: eagle-i-admins <eagle-i-admins at open.med.harvard.edu<mailto:eagle-i-admins at open.med.harvard.edu>>, Jonathan Babbage <Jonathan.Babbage at hc.msu.edu<mailto:Jonathan.Babbage at hc.msu.edu>>
Subject: RE: Failed to load ontology question

Hello Sophia,

Thank you for responding.  I’m running the Repository, Sweet and Institutional search applications.  I figured out the login situation with the Sweet App.  I was using an internal only hostname.domain.  I’ve since created an external hostname and can get in via Sweet.  However, I’m having issues with the “Institution Home” link on the Sweet page.  It points to the root, like it should, but I get an error about redirecting:  example:  “Firefox has detected that the server is redirecting the request for this address in a way that will never complete”.   The odd thing about the Institution Home link, is that before I loaded the sweet.war and help.war files into tomcat, that link worked as it does on your training site,  training.eagle-i.net:8443


I noticed that the example configuration file links are broken:  https://open.med.harvard.edu/svn/eagle-i-dev/apps/trunk/examples/config-files




If you like to see what I’ve done, here are the two accessible links:  http://eagle-i.ctsi.msu.edu/sweet  and http://eagle-i.ctsi.msu.edu/institution



The footer for both sites:

Copyright © 2013 by the President and Fellows of Harvard College
Application Version: 2.0-MS2.20 15870 2013-10-28 15:48:10
/
Ontology Version: 1.8.3.1 15260 2013-07-02 14:38:44

Best Regards,


Todd E. Hall     [cid:image001.png at 01CEEACC.68BE8F30]
Systems Administrator
-----------------------------------------------------
Biomedical Research Informatics Core (BRIC)
Clinical and Translational Sciences Institute (CTSI)
Michigan State University - West Fee Hall
909 Fee Road, Room B510 – W1
East Lansing, Michigan 48824-1317
Phone: (517) 884-2906
BRIC Helpline: (517) 643-2075





From: Cheng, Sophia [mailto:Sophia_Cheng at hms.harvard.edu]
Sent: Tuesday, November 26, 2013 4:59 PM
To: halltodd at msu.edu<mailto:halltodd at msu.edu>
Cc: eagle-i-admins
Subject: Failed to load ontology question

Dear Todd,

I am copying our sys-admin mailing list in this response so that others might benefit from your question or might have run into a similar scenario.  The initial question is:

~~~
I'm having trouble setting up the Eagle-i application.  I can get the repository app installed; add users but when I click on "Show Data Model Ontology Model"  via the admin page, I get:
More Detail
loaded   availableJar          availableModel
"1.8.3.1 15260 2013-07-02 14:38:44"          "1.8.3.1"               "(failed or not in ontology)"
It's stating that its loaded and the version of the jar file but it failed.  The installation never gave an error.  It's a Centos 6.4 OS, VM running Tomcat 7.0.47 and Jdk1.7.0_45.
I'm almost certain this is the reason that I can't login via Sweet.  It comes back to tell me that the repository isn't available.
~~~

To address your question, I need some more information:
-> Which applications are you running? SWEET? Institution Search? Repository?
+--> If you are running also Institution Search, does that come up? If yes, what is the information in the footer?
-> Are there any errors reported in the logs? The logs for the repository live separately than tomcat/logs.  You can find the logs for the repository in the same directory as your repository home directory, i.e. ../eaglei/repo/logs

Also, you can subscribe to the list here: https://open.med.harvard.edu/mailman/listinfo/eagle-i-admins.

Thanks!

Sincerely,
Sophia

--
Sophia K. Cheng
Software Technical Lead
eagle-i @ Harvard University
Vanderbilt Hall, 019
107 Avenue Louis Pasteur
Boston MA 02115
Skype: sophia.k.cheng
Web: www.eagle-i.net<http://www.eagle-i.net/>
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