CTSC:ARRA.100510 - Revision history

RandyGollub at 15:35, 5 October 2010

2010-10-05T15:35:13Z

RandyGollub at 15:24, 5 October 2010

2010-10-05T15:24:19Z

RandyGollub: Created page with 'Back to CTSC:ARRA supplement
'''Agenda''' * Update on Phase 2/3 mi2b2 software * ACRIN presentation * XNAT -- mi2b2 integration * BIDMC mi2b2 proposal is approved * TI…'

2010-10-05T15:04:49Z

Created page with 'Back to CTSC:ARRA supplement <br> '''Agenda''' * Update on Phase 2/3 mi2b2 software * ACRIN presentation * XNAT -- mi2b2 integration * BIDMC mi2b2 proposal is approved * TI…'

New page

Back to [[CTSC:ARRA supplement]]
<br>

'''Agenda'''
* Update on Phase 2/3 mi2b2 software
* ACRIN presentation
* XNAT -- mi2b2 integration
* BIDMC mi2b2 proposal is approved
* TIMC requirements

<br>
== Harvard Catalyst Medical Informatics group Meeting Minutes October 6, 2010 ==

In attendance:
* Bill Wang
* Chris Herrick
* Shawn Murphy
* Vincent Roch
* Randy Gollub
* Steve Pieper
* Yong Gao
* Valerie Humblet (phone)
* Bill Tellier
* Mark Anderson (phone)
* Alex Zeitsev
* Bill Hanlon
* Ron Kikinis
* Wendy Plesniak (phone)
* Tim Brown (phone)
* Kathy Andriole (phone)
* Charles McGow
* Dan Marcus (phone)
* Jesse Wei (phone)

* Darren Sack
* Jon Bickel

<br>

== Meeting Minutes ==

=== mi2b2 software update ===

* Working out the integration between the GUI and the underlying mi2b2 software. Working out the issues as the workflow progresses from "tab 3" to "tab 4". Left from Phase 2 is performance issues at MGH - some problems due to lack of static IP address. Reviewed the hardware specs used for the BWH site, and agreed that it would be fine with the addition of more disk space using the configuration/equipment that is "native" to the MGH site.

Bill Wang was able to get the Phase 3 middle tier programming mostly completed. New programing includes the following functitonality. Requests that are generated go to a queue on the STAR-D server, a separate DAEMON process fulfills the request and updates the status for the user, and copies the image to local cache. The UI programming is moving along, needs another week or two to move into testing mode. The next deployment of the mi2b2 software (Phase 3) to sites will include the above described core functionality accessed via the new UI.

=== ACRIN presentation ===

The presentation went smoothly as did whole session. Most interesting to Chris was the connection he made with Dan Rubin of Stanford who is interested in collaborating on the annotation requirements for our project. Also had a useful conversation with guy from Wake Forest (have i2b2 and XNAT up and running)

=== BIDMC mi2b2 proposal is approved ===

* Jesse reported that the BIDMC Radiology Department gave it's approval for the project. The project was passed to the IT group for implementation in cooperation with Jesse. He will explore the options of a virtual machine versus a new separate physical machine.

=== XNAT -- mi2b2 integration ===

* Chris is working with the XNAT team to develop the bridges to link XNAT and mi2b2.

=== TIMC requirements ===

* Bill Hanlon described his Program's workflow for obtaining medical imaging data from the various sites. Key issue is that image data requests are made in small numbers (< 30 data sets/day distributed across 4 sites) and need to be executed as close to immediately as possible. Currently they have a direct network connection for MGH, BWH and DFCC so this happens relatively easily. At BIDMC the situation is somewhat slower, requiring a paper transaction for documentation often requiring up to 1 hour at times (~ 10% TIMC study volume). Very little volume with CHB. Discussed if and how mi2b2 software might be useful.

@@ Line 6: / Line 6: @@
 * ACRIN presentation
 * XNAT -- mi2b2 integration
-* BIDMC mi2b2 proposal is approved
+* BIDMC mi2b2 proposal is approved!  A cheer is heard around the world.
 <br>
@@ Line 39: / Line 38: @@
 === mi2b2 software update ===
-* Working out the integration between the GUI and the underlying mi2b2 software.  Working out the issues as the workflow progresses from "tab 3" to "tab 4".  Left from Phase 2 is performance issues at MGH - some problems due to lack of static IP address.  Reviewed the hardware specs used for the BWH site, and agreed that it would be fine with the addition of more disk space using the configuration/equipment that is "native" to the MGH site.  By the end of this grant funding all our participating sites should be equipped with the following hardware/software and support: <br>
+* Working out the integration between the GUI and the underlying mi2b2 software.  Working out the issues as the workflow progresses from "Tab 3" to "Tab 4" (image download from START-D cache to workbench).  Left to be worked out from Phase 2 software release is performance issues at MGH - some problems are due to lack of static IP address others due to laptop maybe others too.  First step is to upgrade hardware/software at MGH site.  Should be done ASAP when Darren is able.  Reviewed the hardware specs used for the BWH site, and we agreed that it would be fine with the addition of more disk space.  Darren to review whether it will integrate with the MGH site.
 # Two machines, a development/test machine and a production machine, that are as close to identical in terms of CPUs, network connections/speeds, RAM
-# Minimum of 2TB mirrored disk space
+# Minimum of 1TB mirrored disk space
-# Raid 5 storage for data to the maximum our funds will allow with back up and maintanence contract
+# Additional Raid 5 storage for data to the maximum our funds will allow with back up and maintenance contract on the production machine
-# Maintanence plan
+# Maintenance plan
 # 8 by 5 service agreement (next business day)
 # Integrated STAR-D and XNAT software (use same versions of JBoss, Apache, etc and manage ports in a harmonious way)
+* We will take further steps to delineate our plans for the maintenance operations next week
 === ACRIN presentation ===
 The presentation went smoothly as did whole session.  Most interesting to Chris was the connection he made with Dan Rubin of Stanford who is interested in collaborating on the annotation requirements for our project.  Also had a useful conversation with Yurong Gee from Wake Forest (have i2b2 and XNAT up and running) who is interested in being a test site for the first non-BIRN beta test site of the mi2b2 software.
 === BIDMC mi2b2 proposal is approved ===
@@ Line 60: / Line 58: @@
 === XNAT -- mi2b2 integration ===
-* Chris is working with the XNAT team to develop the bridges to link XNAT and mi2b2.
+* Chris will pass to Tim Java classes for the i2b2 authentication.  Wash U was standing up their own sandbox for this project.

@@ Line 32: / Line 32: @@
 * Dan Marcus (phone)
 * Jesse Wei (phone)
 <br>
@@ Line 43: / Line 39: @@
 === mi2b2 software update ===
-* Working out the integration between the GUI and the underlying mi2b2 software.  Working out the issues as the workflow progresses from "tab 3" to "tab 4".  Left from Phase 2 is performance issues at MGH - some problems due to lack of static IP address.  Reviewed the hardware specs used for the BWH site, and agreed that it would be fine with the addition of more disk space using the configuration/equipment that is "native" to the MGH site.
+* Working out the integration between the GUI and the underlying mi2b2 software.  Working out the issues as the workflow progresses from "tab 3" to "tab 4".  Left from Phase 2 is performance issues at MGH - some problems due to lack of static IP address.  Reviewed the hardware specs used for the BWH site, and agreed that it would be fine with the addition of more disk space using the configuration/equipment that is "native" to the MGH site.  By the end of this grant funding all our participating sites should be equipped with the following hardware/software and support: <br>
-Bill Wang was able to get the Phase 3 middle tier programming mostly completed.  New programing includes the following functitonality.  Requests that are generated go to a queue on the STAR-D server, a separate DAEMON process fulfills the request and updates the status for the user, and copies the image to local cache.  The UI programming is moving along, needs another week or two to move into testing mode.  The next deployment of the mi2b2 software (Phase 3) to sites will include the above described core functionality accessed via the new UI.
+Bill Wang was able to get the Phase 3 middle tier programming mostly completed.  New programing includes the following functionality.  Requests that are generated go to a queue on the STAR-D server, a separate DAEMON process fulfills the request and updates the status for the user, and copies the image to local cache.  The UI programming is moving along, needs another week or two to move into testing mode.  The next deployment of the mi2b2 software (Phase 3) to sites will include the above described core functionality accessed via the new UI.
 === ACRIN presentation ===
-The presentation went smoothly as did whole session.  Most interesting to Chris was the connection he made with Dan Rubin of Stanford who is interested in collaborating on the annotation requirements for our project.  Also had a useful conversation with guy from Wake Forest (have i2b2 and XNAT up and running)
+The presentation went smoothly as did whole session.  Most interesting to Chris was the connection he made with Dan Rubin of Stanford who is interested in collaborating on the annotation requirements for our project.  Also had a useful conversation with Yurong Gee from Wake Forest (have i2b2 and XNAT up and running) who is interested in being a test site for the first non-BIRN beta test site of the mi2b2 software.
 === BIDMC mi2b2 proposal is approved ===
 * Jesse reported that the BIDMC Radiology Department gave it's approval for the project.  The project was passed to the IT group for implementation in cooperation with Jesse.  He will explore the options of a virtual machine versus a new separate physical machine.
 === XNAT -- mi2b2 integration ===

CTSC:ARRA.100510 - Revision history

RandyGollub at 15:35, 5 October 2010

RandyGollub at 15:24, 5 October 2010

RandyGollub: Created page with 'Back to CTSC:ARRA supplement '''Agenda''' * Update on Phase 2/3 mi2b2 software * ACRIN presentation * XNAT -- mi2b2 integration * BIDMC mi2b2 proposal is approved * TI…'

RandyGollub: Created page with 'Back to CTSC:ARRA supplement
'''Agenda''' * Update on Phase 2/3 mi2b2 software * ACRIN presentation * XNAT -- mi2b2 integration * BIDMC mi2b2 proposal is approved * TI…'