caties-users Mailing List for TIES

Hello

While running the windows installer batch file, I am
Getting the error 'could not reach the  TCRN Hub server. The installer cannot continue.'
Can anyone please help on this.

Thanks in advance.
Nitin Kanaskar
IT Research, UAMS.

----------------------------------------------------------------------
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Dear TIES Node Administrators,

A new version of TIES Node software(v5.3) is now available for download from the TIES website (http://ties.dbmi.pitt.edu/download )
Learn more about this release on our Version History page.( http://ties.dbmi.pitt.edu/version-history )

This new version is not compatible with your existing version of the node software. Please proceed and upgrade your node using the installer.  You can find upgrade instructions here: http://ties.dbmi.pitt.edu/upgrading-ties

The upgrade should not take more than 30 minutes. We will be available via the user forums and scheduled online office hours to help with any issues you may run into.

The default client software at (http://ties-spirit.dbmi.pitt.edu/ties/ ) will remain at v5.2 until June 7th after which it will be upgraded to v5.3. That should give you a week to upgrade your node software.  However, even if you have not updated your node software in time,  don't worry, we will keep the old client available for you to use at a different URL. You should update your bookmarks and any local TIES web pages to point to the correct version for your server.

The older version of the client will be available at:
http://ties-spirit.dbmi.pitt.edu/5.2/index.html

If you update your node earlier than June 8th, you can test drive the new v5.3 client from here:
http://ties-spirit.dbmi.pitt.edu/5.3/index.html

-The TIES Team

Dear TIES Node Administrators,

We will be releasing a new version of TIES Node software(v5.3) on June 1st.  Key features include:


*       Support for storing structured data.

*       Support for virtual slides.

*       Account Locking after several incorrect login attempts.

*       New Regulatory Administrator role.

*       Several bug fixes and usability improvements.

Unfortunately, all those new features make this version incompatible with your current node server version (v5.1 or v5.2). So as soon as we release the new version of the software on June 1st, please proceed and upgrade your node using the installer.  The upgrade should not take more than 30 minutes. We will be available via the user forums and scheduled online office hours to help with any issues you may run into.

The default client software at (http://ties-spiritdbmi.pitt.edu/ties/) will remain at v5.2 until June 8th after which it will be upgraded to v5.3. That should give you a week to upgrade your node software.  However, even if you have not updated your node software in time,  don't worry, we will keep the old client available for you to use at a different URL. You should update your bookmarks and any local TIES web pages to point to the correct version for your server.

The older version of the client will be available at:
http://ties-spirit.dbmi.pitt.edu/5_2/index.html

If you update your node earlier than June 8th, you can test drive the new v5.3 client from here:
http://ties-spirit.dbmi.pitt.edu/5_3/index.html

-The TIES Team

Is there any update on the release date of TIES 5.0?

Thanks in advance,
John

-----
John Reber
Jefferson University
Kimmel Cancer Center
Room 812 BLSB
233 S. 10th St.
Philadelphia, PA  19107





On 2/6/14, 7:30 AM, "Chavan, Girish" <ch...@up...> wrote:

>Maybe try running it under Admin privileges. You can do that by right
>clicking on the setup.exe and changing its security properties.
>
>We have a new version (5.0) coming out in the next month. It will be
>initially released as a VM image, which will make it very easy for you to
>get started with TIES. I would suggest waiting for it.
>
>-Girish
>________________________________
>From: Baligh, Joseph [AJB...@ua...]
>Sent: Wednesday, February 05, 2014 3:50 PM
>To: 'cat...@li...'
>Subject: [Caties-users] istalling on server 2008 or 2012
>
>I¹m having problem installing caties4.2 on either Windows server 2008 or
>2012. The installer doesn¹t start when I double click setup.exe. Any ides
>please? It starts on 2003 and windows 7.
>
>Thanks
>Joseph
>________________________________
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>copies of the original message.
>
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Maybe try running it under Admin privileges. You can do that by right clicking on the setup.exe and changing its security properties.

We have a new version (5.0) coming out in the next month. It will be initially released as a VM image, which will make it very easy for you to get started with TIES. I would suggest waiting for it.

-Girish
________________________________
From: Baligh, Joseph [AJB...@ua...]
Sent: Wednesday, February 05, 2014 3:50 PM
To: 'cat...@li...'
Subject: [Caties-users] istalling on server 2008 or 2012

I’m having problem installing caties4.2 on either Windows server 2008 or 2012. The installer doesn’t start when I double click setup.exe. Any ides please? It starts on 2003 and windows 7.

Thanks
Joseph
________________________________
Confidentiality Notice: This e-mail message, including any attachments, is for the sole use of the intended recipient(s) and may contain confidential and privileged information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply e-mail and destroy all copies of the original message.

I'm having problem installing caties4.2 on either Windows server 2008 or 2012. The installer doesn't start when I double click setup.exe. Any ides please? It starts on 2003 and windows 7.

Thanks
Joseph

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Any word on TIES 5 Release date?
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Good afternoon!

We are very excited to inform you about the upcoming release of the latest version of TIES (formerly caTIES), TIES v5.0.

This release has been a year in the making, incorporating many new features and a complete redesign of the back-end infrastructure to speed up processing, increase scale, and make searching more accurate.

TIES v5.0 will be available in the fall of 2013.

Additional information about the new version is available on our website:
http://caties.cabig.upmc.edu/Wiki.jsp?page=WhatsNewInTIES5

Please post any questions about or suggestions for the release on the Open Discussion forum:
https://sourceforge.net/p/caties/discussion/626700

For any questions regarding the existing version, please post on the Help/Support forum:
https://sourceforge.net/p/caties/discussion/626701

If you would like further updates, please register to our SourceForge mailing list:
https://lists.sourceforge.net/lists/listinfo/caties-users

Please let us know if you have any questions.

Thanks!

TIES Development Team


Girish Chavan
chavang at upmc.edu

Elizabeth Legowski
legowskie at upmc.edu

Kevin Mitchell
mitchellkj at upmc.edu

Eugene Tseytlin
tseytline at upmc.edu

Rebecca Crowley
crowleyrs at upmc.edu

Good afternoon!

We are very excited to announce the upcoming release of the latest version of TIES (formerly caTIES), TIES v5.0. This release has been a year in the making, incorporating many new features and a complete redesign of the back-end infrastructure to speed up processing, increase scale, and make searching more accurate.

Additional information about the new version is available on our website: http://caties.cabig.upmc.edu/Wiki.jsp?page=WhatsNewInTIES5

If you would like further updates, please register to our SourceForge mailing list at https://lists.sourceforge.net/lists/listinfo/caties-users

Please let me know if you have any questions or if I can be of any assistance.

Thanks!

Liz


Elizabeth Legowski
Senior Informatics Research Specialist
University of Pittsburgh
Department of Biomedical Informatics
The Offices at Baum, Room 436G
5607 Baum Blvd
Pittsburgh, PA 15206-3701
Phone: 412-624-9075
Email: legowskie at upmc.edu

Hi All,

This is a Linux MySQL 2 system install, version 4.01, using HIDE for DeID.

HL7 imports data into private MySQL database.  I can see records in the  CATIES_PRIVATE.ident_path_report table

When trying to start the De-Identification service, I'm receiving the following in caTIES/services/DeidPipeController/logs/wrapper.log:

STATUS | wrapper  | 2011/03/21 10:00:52 | --> Wrapper Started as Daemon
STATUS | wrapper  | 2011/03/21 10:00:52 | Java Service Wrapper Community Edition 32-bit 3.3.9
STATUS | wrapper  | 2011/03/21 10:00:52 |   Copyright (C) 1999-2009 Tanuki Software, Ltd.  All Rights Reserved.
STATUS | wrapper  | 2011/03/21 10:00:52 |     http://wrapper.tanukisoftware.org
STATUS | wrapper  | 2011/03/21 10:00:52 | 
STATUS | wrapper  | 2011/03/21 10:00:52 | Launching a JVM...
INFO   | jvm 1    | 2011/03/21 10:00:52 | WrapperManager: Initializing...
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp: 
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp: Encountered an error running main:
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp: java.lang.NullPointerException
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at edu.upmc.opi.caBIG.caTIES.server.deid.EmoryHide.HIDEDeIdentifier.initializeDeIdentification(HIDEDeIdentifier.java:67)
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at edu.upmc.opi.caBIG.caTIES.server.deid.CaTIES_DeidPipeline.initializeDeID(CaTIES_DeidPipeline.java:371)
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at edu.upmc.opi.caBIG.caTIES.server.deid.CaTIES_DeidPipeline.<init>(CaTIES_DeidPipeline.java:338)
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at edu.upmc.opi.caBIG.caTIES.server.deid.CaTIES_DeidPipeline.main(CaTIES_DeidPipeline.java:1158)
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at java.lang.reflect.Method.invoke(Method.java:597)
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at org.tanukisoftware.wrapper.WrapperSimpleApp.run(WrapperSimpleApp.java:244)
INFO   | jvm 1    | 2011/03/21 10:00:53 | WrapperSimpleApp:     at java.lang.Thread.run(Thread.java:662)
STATUS | wrapper  | 2011/03/21 10:00:57 | <-- Wrapper Stopped



Thanks in advance,

-----
John Reber
Joh...@Ki...
Jefferson University
Philadelphia, PA 19107

Dear Qiang,
Did you set the APPLICATION_STATUS for all the IDENTIFIED_PATHOLOGY_REPORT rows to DEIDENTIFYING ?
The DeidPipecontroller uses that to determine which rows need to be deidentified
-Girish


From: Wang, Qiang [mailto:QW...@ua...] 
Sent: Thursday, January 06, 2011 10:30 AM
To: cat...@li...
Subject: [Caties-users] (no subject)

Hi guys,

Sorry for scam.

The deidpipecontroller on our system cannot execute at the interval time (we set 15 mins) . The number of data needed to be deidentified is 351. The deidpipecontroller service worked well yesterday, and today after I deleted some data from catiespublic.path_report, it doesn't work any longer. It should execute at once when I start service manually on the "control panel\Administrative Tools\ service", but now it doesn't. 

You can see the service.log stops at "16:10:29,835  INFO SessionFactoryObjectFactory:82 - Not binding factory to JNDI, no JNDI name configured" and not goes next.

Any suggestion? Thank you very much!


Have a good night!

Qiang Wang

Confidentiality Notice: This e-mail message, including any attachments,
is for the sole use of the intended recipient(s) and may contain
confidential and privileged information.  Any unauthorized review,
use, disclosure or distribution is prohibited.  If you are not the 
intended recipient, please contact the sender by reply
e-mail and destroy all copies of the original message..

Hi guys,

Sorry for scam.

The deidpipecontroller on our system cannot execute at the interval time (we set 15 mins) . The number of data needed to be deidentified is 351. The deidpipecontroller service worked well yesterday, and today after I deleted some data from catiespublic.path_report, it doesn't work any longer. It should execute at once when I start service manually on the "control panel\Administrative Tools\ service", but now it doesn't.

You can see the service.log stops at "16:10:29,835  INFO SessionFactoryObjectFactory:82 - Not binding factory to JNDI, no JNDI name configured" and not goes next.

Any suggestion? Thank you very much!


Have a good night!

Qiang Wang

Confidentiality Notice: This e-mail message, including any attachments,
is for the sole use of the intended recipient(s) and may contain
confidential and privileged information.  Any unauthorized review,
use, disclosure or distribution is prohibited.  If you are not the 
intended recipient, please contact the sender by reply
e-mail and destroy all copies of the original message..

caTIES UPDATES





NEW RELEASE

We are pleased to announce the latest release of caTIES (Cancer Text Information Extraction System). caTIES v3.61 addresses some important challenges caTIES users previously encountered installing and utilizing the caTIES program in a variety of custom environments.  We appreciate caTIES User input and will continue to do our best to improve the system to meet your ongoing needs and requirements.



      Download the caTIES installer at: http://caties.cabig.upmc.edu/Wiki.jsp?page=Download

      Find a complete list of features and bug fixes at: http://caties.cabig.upmc.edu/Wiki.jsp?page=VersionHistory





DEBUG WITH THE DEVELOPERS

Beginning Wednesday, March 10, 2010, caTIES will hold Office Hours every second Wednesday of the month from 2:00-3:00 PM EST.  caTIES team members will be available to answer your questions and help problem-solve caTIES issues you may be encountering with your institutional research projects.



      Register today to participate at: http://caties.cabig.upmc.edu/Wiki.jsp?page=Support





ANNUAL MEETING

Over 30 caTIES Users participated in a very successful webinar and in-person Annual Meeting on Wednesday, January 27, 2010, from 9:00 AM to 3:00 PM EST, for five distinctive sessions:



Session One - caTIES Introduction, History and Features with Rebecca Crowley - University of Pittsburgh

Session Two - In-Person caTIES User Presentations with David Carrell - Group Health - Seattle, WA; Umit Topaloglu - University of Arkansas - Little Rock, AR; and, Tara McSherry - University of Pennsylvania - Philadelphia, PA

Session Three - caTIES Installation with Girish Chavan - University of Pittsburgh

Session Four - caTIES Dataloading and Customization with Kevin Mitchell - University of Pittsburgh

Session Five - caTIES Discussions of Future Directions with Rebecca Crowley - University of Pittsburgh



      Download complete User Meeting presentations at: http://caties.cabig.upmc.edu/Wiki.jsp?page=Annual%20Meeting





caTIES PUBLISHED

We are pleased to announce that a comprehensive publication on the caTIES system is currently in press at the Journal of the American Medical Informatics Association (JAMIA).  Authors include six caTIES project members. University of Pittsburgh: Rebecca Crowley, Melissa Castine, Kevin Mitchell and Girish Chavan.  University of Pennsylvania: Tara McSherry and Michael Feldman. The article includes a complete discussion of the caTIES system as well as study results from the first evaluation of the system.  Results demonstrated that caTIES had a .94 precision over a wide range of queries.



      Look for the article to appear in an upcoming 2010 JAMIA edition at: http://jamia.bmj.com/





FUTURE UPDATES

To continue to receive the latest caTIES Updates, please join the caTIES SourceForge mailing list.



       You can join using the following link:  https://lists.sourceforge.net/lists/listinfo/caties-users






If you have any questions, please contact me directly:

Karma Lisa Edwards
University of Pittsburgh
Biomedical Informatics - School of Medicine
UPMC Cancer Pavilion
3rd Floor, Suite 301-309A
5150 Centre Avenue
Pittsburgh, PA 15232
Edw...@up...<mailto:cro...@ms...>
www.dbmi.pitt.edu<http://www.dbmi.pitt.edu>
caties.cabig.upmc.edu
slidetutor.upmc.edu