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[bioontology-support] ODIE Support

maziz at tgen.org maziz at tgen.org
Tue Apr 7 10:38:14 PDT 2009


The video at this link doesn't work:

http://bioontology.org/videos/ODIE_05.html


-----Original Message-----
From: Chavan, Girish [mailto:chavang at upmc.edu] 
Sent: Tuesday, April 07, 2009 6:37 AM
To: Meraj Aziz; support at bioontology.org
Subject: RE: ODIE Support

Meraj,

Are you having this issue when running a new analysis or when you try to
import new ontologies? 
Importing of ontologies other than NCIT, Radlex and FMA is not yet
enabled in the demo version of ODIE. So you wont be able to load any
other ontology into ODIE for now.

-Girish

-----Original Message-----
From: maziz at tgen.org [mailto:maziz at tgen.org] 
Sent: Tuesday, April 07, 2009 2:18 AM
To: Chavan, Girish; support at bioontology.org
Subject: RE: ODIE Support


Hi 

I downloaded the ODIE demo version from 
http://bioontology.org/tools/ODIE.html website and ran it.
The issue is the next buttons donot work and i cannot load any
ontologies.

Can you please look into this issue.

Thanks
Meraj Aziz



-----Original Message-----
From: Chavan, Girish [mailto:chavang at upmc.edu]
Sent: Mon 3/2/2009 10:25 AM
To: Meraj Aziz
Subject: RE: ODIE Support
 
Im sorry, looks like the change did not get saved in the installer. 

I would suggest doing the following on your end. 

 

Edit the file <odieinstallation>/sql/odiedb.sql

 

Replace the following line:

KEY `FK_odie_annotation_2` (`analysis_document_id`) USING BTREE,

 

With this:

KEY `FK_odie_annotation_2` USING BTREE (`analysis_document_id`),

 

Then run the batch files found in <odieinstallation>/scripts directory
in this order:

 

Initdb.bat

Ncit.bat

Radlex.bat

Fma.bat

 

-Girish

 

 

From: maziz at tgen.org [mailto:maziz at tgen.org] 
Sent: Monday, March 02, 2009 12:20 PM
To: Chavan, Girish
Subject: RE: ODIE Support

 

Hi Girish

 

I get the same error shown below:

 

------------------------------------------------------------------------
------------------------------------------------------------------------
--------------------------------------

Creating ODIE database...

Creating ODIE tables...

ERROR 1064 (42000) at line 367: You have an error in your SQL syntax;
check the manual that corresponds to your MySQL server version for the
right syntax to use near 'USING BTREE,

  CONSTRAINT `FK_odie_annotation_1` FOREIGN KEY (`analysis_document' at
line 9

 

 

meraj

 

From: Chavan, Girish [mailto:chavang at upmc.edu] 
Sent: Monday, March 02, 2009 9:34 AM
To: Meraj Aziz
Subject: RE: ODIE Support

 

Meraj,

 

It was a bug in MySQL that was the problem. I have updated the
installer. Please download and try again

 

http://caties.cabig.upmc.edu/ODIE/odieinstaller.exe

 

 

thanks

-Girish

 

From: maziz at tgen.org [mailto:maziz at tgen.org] 
Sent: Thursday, February 26, 2009 5:06 PM
To: Chavan, Girish
Subject: RE: ODIE Support

 

Hi,

 

MySQL v5.0.45-community-nt

And Mysql Client version 5.1.11

 

Thanks for responding.

 

meraj

 

 

From: Chavan, Girish [mailto:chavang at upmc.edu] 
Sent: Thursday, February 26, 2009 2:00 PM
To: Meraj Aziz
Subject: ODIE Support

 

Dear Mr. Aziz.

This is regarding your message to bioontology-support that was forwarded
to me.

 

What version of MySQL are you using? ODIE requires MySQL v5.x+

 

Thanks,

-Girish Chavan

ODIE Development Team

 

 

From: <maziz at tgen.org>

Date: February 2, 2009 1:01:07 PM PST

To: <support at bioontology.org>

Subject: [bioontology-support] Error while installing

Hi,

 

I am trying to install the ODIE toolkit software but it gives me the
following error.

Can anyone help me regarding the issue.

 

Thanks

Meraj Aziz

 





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